sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021685,"{'12F': 96.7, '44': 93.4, '12B': 92.7, '12A': 80.4, '46': 77.3}",1,96.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221995,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326295,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312665,"{'10A': 98.9, '10B': 67.1, '10C': 27.5, '10F': 18.1, '22F': 15.4}",1,98.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298555,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001174305,"{'03': 95.1, '01': 15.7, '20': 15.1, '09N': 14.9, '09L': 14.8}",1,95.1,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236915,"{'17F': 99.8, '06B': 44.5, '06D': 43.7, '06A-I': 43.7, '06B-I': 43.4}",1,99.8,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283895,"{'31': 99.7, '41A': 57.3, '41F': 49.0, '06A-II': 36.6, '06A-VI': 36.6}",1,99.7,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243085,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300815,"{'23F': 96.5, '23A': 63.8, '23B': 47.9, '28A': 47.6, '06B-II': 46.1}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001194405,"{'01': 5.0, '22F': 4.9, '25F': 4.5, '25A': 4.4, '38': 3.6}",1,5.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057655,"{'33F': 99.6, '33A': 97.1, '33F2': 70.7, '35C': 42.4, '42': 41.4}",1,99.6,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281815,"{'23B': 81.2, '23B1': 66.1, '06A-IV': 36.3, '06B-II': 34.6, '06A-V': 34.4}",1,81.2,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313305,"{'21': 100.0, '22F': 36.0, '06A-IV': 32.5, '06A-II': 31.8, '06A-VI': 31.7}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057835,"{'07A': 99.6, '07F': 99.4, '19F-II': 36.3, '19F-IV': 35.7, '19F': 34.8}",1,99.6,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231315,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.5, '06A-IV': 46.3}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310175,"{'04': 99.7, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322815,"{'18C': 99.5, '18B': 99.4, '18F': 76.0, '18A': 62.9, '16F': 39.5}",1,99.5,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270655,"{'19A-I': 99.0, '19A-II': 97.3, '19A': 87.6, '19A-III': 87.4, '19AF': 61.8}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226505,"{'15A': 98.5, '15F': 73.1, '15C': 61.8, '15B': 61.7, '23F': 32.2}",1,98.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327085,"{'15C': 87.1, '15B': 87.0, '15A': 64.2, '15F': 49.6, '23A': 29.8}",1,87.1,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001103105,"{'06C': 85.2, '06C-I': 85.2, '06D': 84.2, '06A': 76.9, '06A-IV': 73.3}",1,85.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291085,"{'23F': 95.2, '23A': 62.7, '28A': 48.3, '23B': 46.3, '06A-IV': 45.7}",1,95.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285935,"{'18C': 88.5, '18B': 88.4, '18F': 77.8, '18A': 61.5, '16F': 37.6}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302075,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900692735,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237735,"{'14': 92.1, '36': 28.7, '09L': 25.6, '09N': 24.5, '15B': 24.0}",1,92.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900034425,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.7, '36': 22.7}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027375,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001108665,"{'07A': 98.2, '07F': 98.0, '19F-II': 36.7, '19F': 35.0, '19F-I': 34.9}",1,98.2,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063725,"{'10B': 91.1, '10A': 69.8, '10F': 18.9, '10C': 18.6, '22F': 13.3}",1,91.1,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328915,"{'04': 99.2, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170465,"{'14': 92.6, '36': 28.5, '09L': 24.9, '15B': 24.2, '15C': 24.1}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312155,"{'06A-II': 85.8, '06A-VI': 85.8, '06A-III': 85.7, '06A-V': 84.9, '06B-I': 84.3}",1,85.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900038145,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001104725,"{'23F': 96.6, '23A': 63.4, '23B': 47.2, '28A': 47.2, '06A-IV': 46.9}",1,96.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259915,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310895,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900061265,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900044815,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001143425,"{'04': 98.2, '45': 34.5, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001102785,"{'14': 93.7, '36': 25.8, '09L': 24.5, '15B': 23.9, '15C': 23.8}",1,93.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228015,"{'06A-I': 99.2, '06B': 94.9, '06A': 87.7, '06A-V': 86.7, '06A-III': 82.9}",1,99.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192615,"{'15C': 93.8, '15B': 93.7, '15A': 62.0, '15F': 48.4, '14': 33.0}",1,93.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249935,"{'03': 97.0, '01': 17.8, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.0,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022775,"{'17F': 99.6, '06B': 44.3, '06B-I': 44.1, '06A-III': 44.0, '06D': 43.7}",1,99.6,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320325,"{'06A': 86.6, '06A-V': 86.1, '06A-IV': 86.0, '06B-II': 86.0, '06B-I': 83.8}",1,86.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 83.83']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001156705,"{'36': 11.5, '20': 7.9, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",1,11.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262625,"{'15A': 99.5, '15F': 73.9, '15C': 61.5, '15B': 61.4, '23F': 31.3}",1,99.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028985,"{'07A': 99.4, '07F': 99.2, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.4,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251775,"{'06A-V': 92.8, '06A-III': 89.5, '06A-II': 89.4, '06A-VI': 89.4, '06A': 89.1}",1,92.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323135,"{'19A-I': 95.8, '19A-II': 93.9, '19A': 91.3, '19A-III': 91.1, '19AF': 59.0}",1,95.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192915,"{'03': 94.6, '36': 16.9, '01': 16.0, '20': 15.3, '09L': 15.1}",1,94.6,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900036515,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240865,"{'35F': 78.4, '47F': 56.1, '29': 18.0, '35B': 17.8, '34': 16.6}",1,78.4,,35F,,,{},{},35F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256845,"{'14': 93.0, '36': 27.3, '09L': 25.9, '09N': 25.5, '15B': 24.3}",1,93.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900039635,"{'09A': 99.7, '09V': 99.5, '09N': 38.6, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266215,"{'06C-I': 92.4, '06C': 92.3, '06D': 84.5, '06B-I': 77.3, '06A-III': 76.7}",1,92.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328845,"{'14': 93.4, '36': 27.3, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300885,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315425,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001910155,"{'03': 95.2, '36': 17.2, '20': 15.6, '09N': 15.5, '09L': 15.4}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000170055,"{'09A': 99.7, '09V': 99.5, '09N': 37.9, '09L': 36.5, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229695,"{'11B': 99.6, '11C': 89.2, '11A': 31.8, '11D': 31.5, '11F': 25.9}",1,99.6,,11B/11C,,,{},{},11B/11C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270885,"{'19A': 92.4, '19A-III': 92.2, '19A-II': 83.1, '19A-I': 81.1, '19AF': 56.1}",1,92.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273515,"{'23F': 92.0, '23A': 59.0, '28F': 46.3, '06B-II': 45.9, '06A-IV': 45.8}",1,92.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344515,"{'15C': 87.8, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026465,"{'23B': 99.3, '23B1': 64.4, '23F': 45.6, '23A': 39.8, '06A-IV': 36.7}",1,99.3,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023385,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001123165,"{'36': 11.7, '20': 8.1, '06A-IV': 7.6, '01': 7.2, '45': 6.3}",1,11.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000411755,"{'36': 7.0, '01': 6.9, '45': 6.9, '20': 5.9, '23B1': 5.1}",1,7.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001135345,"{'23A': 97.5, '23F': 68.8, '23B': 40.1, '19F-II': 39.2, '15B': 38.8}",1,97.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_011694695,"{'12F': 96.3, '44': 93.2, '12B': 92.9, '12A': 85.1, '46': 82.0}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291935,"{'23F': 96.4, '23A': 63.2, '06A-IV': 48.7, '23B': 48.4, '28A': 47.2}",1,96.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900042825,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 85.5, '19A-II': 83.0, '19AF': 56.8}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001107005,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315745,"{'20': 78.8, '47F': 28.0, '09L': 25.8, '13': 25.2, '09N': 25.1}",1,78.8,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001128485,"{'23F': 93.9, '23A': 63.4, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,93.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001165925,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318125,"{'13': 98.8, '09N': 29.1, '09L': 28.7, '20': 28.4, '36': 28.0}",1,98.8,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305395,"{'18C': 98.6, '18B': 98.5, '18F': 75.9, '18A': 63.2, '16F': 39.3}",1,98.6,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192435,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.5, '36': 22.6}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233995,"{'19F-I': 95.9, '19F': 95.6, '19F-III': 94.0, '19F-II': 92.8, '19F-IV': 88.8}",1,95.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585745,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167985,"{'14': 91.4, '36': 26.5, '09L': 25.4, '09N': 24.5, '15B': 23.4}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001160205,"{'22F': 98.7, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-I': 41.8}",1,98.7,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323915,"{'21': 99.7, '22F': 36.2, '06A-II': 33.2, '06A-VI': 33.1, '06A-III': 32.7}",1,99.7,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585485,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274655,"{'14': 94.2, '36': 26.3, '09L': 25.5, '09N': 24.6, '15B': 24.3}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267855,"{'19F-I': 91.5, '19F': 90.8, '19F-III': 90.5, '19F-IV': 89.7, '19F-II': 88.4}",1,91.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244295,"{'18C': 88.3, '18B': 88.2, '18F': 77.8, '18A': 61.6, '16F': 37.6}",1,88.3,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277235,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001139625,"{'15B': 99.7, '15C': 99.4, '15A': 62.7, '15F': 48.3, '23A': 32.9}",1,99.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292885,"{'24F2': 99.4, '24B': 88.2, '24F': 86.7, '24A': 71.0, '07B': 55.0}",1,99.4,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900064055,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339075,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001404255,"{'10B': 91.4, '10A': 73.4, '10F': 20.1, '10C': 18.8, '22F': 12.8}",1,91.4,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248605,"{'14': 89.3, '15B': 24.3, '15C': 24.2, '36': 24.0, '09L': 22.8}",1,89.3,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347335,"{'19F': 94.7, '19F-I': 94.2, '19F-III': 93.1, '19F-II': 91.8, '19F-IV': 88.1}",1,94.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312495,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289835,"{'01': 92.2, '19F': 33.3, '19F-I': 32.6, '19F-III': 32.5, '19F-II': 32.4}",1,92.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043675,"{'19A': 99.2, '19A-III': 99.0, '19A-I': 86.1, '19A-II': 84.3, '19AF': 57.7}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315345,"{'06E': 100.0, '06B-III': 97.8, '06B-I': 45.5, '06A-III': 45.0, '06B-II': 44.3}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900195105,"{'15C': 93.9, '15B': 93.8, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019457315,"{'09A': 99.7, '09V': 99.5, '09N': 37.6, '09L': 36.4, '35B': 26.7}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315615,"{'38': 99.5, '25F': 84.5, '25A': 83.5, '36': 11.8, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282565,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 32.9}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001108045,"{'06E': 99.5, '06B-III': 98.8, '06B-I': 46.6, '06A-III': 46.1, '06A-II': 45.1}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296795,"{'06A-III': 99.9, '06B-I': 98.3, '06B-II': 91.3, '06A': 90.9, '06A-V': 90.4}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276935,"{'13': 83.4, '36': 28.8, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.4,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287145,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047845,"{'23F': 97.7, '23A': 63.2, '23B': 48.2, '28A': 48.2, '06A-IV': 46.7}",1,97.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001165505,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280945,"{'15C': 96.0, '15B': 95.9, '15A': 62.1, '15F': 48.2, '23A': 34.8}",1,96.0,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049535,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251395,"{'13': 83.2, '36': 28.8, '09N': 25.9, '09L': 25.7, '14': 25.7}",1,83.2,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225445,"{'14': 93.4, '36': 27.3, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223255,"{'15C': 87.6, '15B': 87.5, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337055,"{'22A': 94.2, '22F': 75.9, '06A-IV': 45.8, '06A-II': 44.1, '06B-I': 44.1}",1,94.2,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001343155,"{'36': 10.5, '01': 7.0, '06A-IV': 7.0, '20': 6.2, '45': 5.8}",1,10.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238915,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.6}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340775,"{'31': 99.8, '41A': 57.3, '41F': 49.0, '06A-II': 36.8, '06A-VI': 36.8}",1,99.8,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245015,"{'14': 91.4, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278475,"{'25F': 99.9, '25A': 98.9, '38': 80.9, '36': 9.0, '01': 7.7}",1,99.9,25F_25A_38,25F_25A_38,,"[[8], [18]]","{'wcyD': ['a', 100.0], 'wcyV': 0.12}","{'wcyD': 'a', 'wcyV': 'not_detected'}",25F/25A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235345,"{'01': 99.8, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.3}",1,99.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022195,"{'23F': 97.7, '23A': 63.2, '23B': 48.4, '28A': 48.2, '06A-IV': 47.1}",1,97.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276815,"{'10A': 99.4, '10B': 67.1, '10C': 27.7, '10F': 18.1, '22F': 15.5}",1,99.4,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021255,"{'12F': 96.7, '44': 93.4, '12B': 92.7, '12A': 80.4, '46': 77.3}",1,96.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001090085,"{'45': 5.9, '20': 5.4, '36': 5.4, '25F': 4.6, '25A': 4.4}",2,5.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320895,"{'23F': 96.8, '23A': 63.9, '06A-IV': 48.1, '23B': 48.0, '28A': 47.7}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043835,"{'19A': 99.9, '19A-III': 99.7, '19A-I': 86.1, '19A-II': 83.6, '19AF': 57.1}",1,99.9,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320125,"{'04': 99.3, '45': 33.7, '12F': 23.4, '44': 23.2, '12A': 22.3}",1,99.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023305,"{'23F': 99.0, '23A': 64.8, '28A': 47.5, '23B': 47.4, '06A-V': 45.6}",1,99.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332335,"{'18C': 88.2, '18B': 88.1, '18F': 77.8, '18A': 61.3, '16F': 37.6}",1,88.2,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191635,"{'06C-I': 99.6, '06C': 99.4, '06D': 84.6, '06A-II': 79.3, '06A-VI': 79.3}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272845,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001146345,"{'14': 99.8, '09L': 26.7, '36': 25.8, '09N': 24.4, '15B': 24.1}",1,99.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319905,"{'22A': 94.0, '22F': 77.4, '06A-IV': 45.6, '06A-II': 43.9, '06B-I': 43.9}",1,94.0,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001123005,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217565,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315195,"{'06A-V': 95.5, '06A': 94.1, '06A-IV': 92.5, '06B-II': 91.0, '06A-III': 88.2}",1,95.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315285,"{'19F-I': 99.7, '19F': 96.7, '19F-III': 96.7, '19F-II': 93.9, '19F-IV': 89.5}",1,99.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169615,"{'14': 91.8, '36': 27.9, '09L': 25.6, '09N': 24.5, '15B': 23.7}",1,91.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337585,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303015,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346055,"{'23F': 94.5, '23A': 63.7, '28A': 47.6, '23B': 47.0, '06A': 46.3}",1,94.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338195,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A': 46.2}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026485,"{'09N': 99.5, '09L': 89.1, '09A': 32.7, '09V': 32.7, '36': 32.0}",1,99.5,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236675,"{'19F': 97.4, '19F-I': 96.4, '19F-III': 95.6, '19F-II': 95.5, '19F-IV': 91.0}",1,97.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047935,"{'09N': 100.0, '09L': 88.9, '09A': 32.7, '09V': 32.7, '36': 29.2}",1,100.0,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322045,"{'03': 97.4, '01': 17.7, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002287575,"{'14': 92.9, '36': 27.3, '09L': 25.7, '09N': 24.8, '15B': 24.3}",1,92.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225185,"{'08': 99.5, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.5,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340865,"{'19F': 97.3, '19F-I': 96.3, '19F-III': 95.5, '19F-II': 95.4, '19F-IV': 90.9}",1,97.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001167885,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047805,"{'04': 99.7, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245995,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001126945,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266825,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320105,"{'20': 81.7, '47F': 25.9, '35A': 24.6, '09L': 24.5, '36': 24.0}",1,81.7,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051235,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340165,"{'19A': 99.5, '19A-III': 99.3, '19A-I': 85.7, '19A-II': 83.2, '19AF': 57.0}",1,99.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192505,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029655,"{'24F2': 99.7, '24B': 88.5, '24F': 87.0, '24A': 71.3, '07B': 55.2}",1,99.7,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221175,"{'14': 93.8, '36': 25.7, '09L': 25.0, '09N': 24.1, '15B': 23.9}",1,93.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310165,"{'07A': 98.1, '07F': 97.9, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,98.1,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283785,"{'04': 99.2, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253855,"{'23F': 96.4, '23A': 63.1, '06A-IV': 48.8, '23B': 48.5, '06A-V': 47.2}",1,96.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031245,"{'23F': 97.8, '23A': 63.3, '23B': 48.4, '28A': 48.3, '06A-IV': 47.0}",1,97.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030015,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021022115,"{'02': 57.6, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_012911705,"{'12F': 95.1, '12B': 92.6, '44': 92.1, '12A': 84.3, '46': 81.2}",1,95.1,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028175,"{'23F': 99.2, '23A': 65.4, '23B': 49.0, '28A': 48.1, '06A-IV': 47.3}",1,99.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001139405,"{'11F': 61.5, '11D': 38.2, '11A': 36.6, '09V': 25.1, '09A': 25.0}",1,61.5,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282075,"{'19F': 93.9, '19F-I': 93.7, '19F-III': 92.5, '19F-IV': 91.4, '19F-II': 91.3}",1,93.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_909594725,"{'14': 92.7, '36': 28.9, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329595,"{'03': 75.1, '20': 7.9, '01': 7.2, '36': 7.1, '22F': 6.8}",1,75.1,,3,,,{},{},3,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279145,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272125,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001113505,"{'15C': 87.8, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292455,"{'23A': 97.5, '23F': 69.1, '23B': 42.4, '19F-II': 40.0, '19F': 38.7}",1,97.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222745,"{'06A-II': 95.4, '06A-VI': 95.4, '06B-II': 89.3, '06A-V': 88.9, '06A-III': 88.3}",1,95.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254055,"{'21': 92.6, '22F': 36.2, '06A-IV': 34.3, '06A-III': 33.5, '06A-II': 33.3}",1,92.6,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001141365,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169145,"{'14': 92.5, '36': 27.0, '09L': 24.8, '09N': 24.2, '15B': 24.2}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240755,"{'05': 95.3, '45': 22.5, '36': 21.6, '20': 20.2, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001158765,"{'19F-I': 95.9, '19F': 95.6, '19F-III': 94.0, '19F-II': 92.8, '19F-IV': 88.8}",1,95.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001334935,"{'33B': 89.8, '33D': 89.7, '35B': 34.4, '33F2': 30.0, '22F': 26.5}",1,89.8,,"Mixed serotypes- {'33B', '33D'}",,,{},{},"Mixed serotypes- {'33B', '33D'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261325,"{'05': 95.3, '45': 22.5, '36': 21.4, '20': 20.2, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267975,"{'06E': 100.0, '06B-III': 99.0, '06B-I': 46.5, '06A-III': 46.0, '06A-II': 45.0}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281435,"{'17F': 82.3, '06A-I': 42.2, '06B': 41.8, '06A': 41.2, '22F': 40.5}",1,82.3,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239225,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_016878875,"{'15A': 93.3, '15F': 71.6, '15C': 58.5, '15B': 58.4, '23F': 28.4}",1,93.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001200135,"{'23F': 94.6, '23A': 63.7, '28A': 47.8, '23B': 47.1, '06A': 46.5}",1,94.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001162765,"{'34': 97.9, '33F2': 35.2, '35B': 33.3, '33F': 29.7, '33C': 28.4}",1,97.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001098605,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225475,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286405,"{'17F': 98.5, '06B': 43.9, '06A-III': 43.8, '06D': 43.4, '06B-I': 43.4}",1,98.5,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283195,"{'31': 99.4, '41A': 57.1, '41F': 49.0, '22F': 36.3, '06A-II': 36.2}",1,99.4,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248265,"{'15A': 98.3, '15F': 72.9, '15C': 61.6, '15B': 61.5, '23F': 31.9}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217495,"{'14': 92.8, '36': 29.9, '09L': 25.6, '09N': 24.8, '15B': 24.3}",1,92.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277995,"{'14': 91.1, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304825,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031125,"{'23F': 97.8, '23A': 63.3, '28A': 48.3, '23B': 48.2, '06A-IV': 46.8}",1,97.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001209645,"{'23F': 96.8, '23A': 66.4, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248645,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270875,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001098385,"{'16F': 98.0, '28F': 42.8, '19F-IV': 41.2, '18F': 41.0, '19F-II': 40.8}",1,98.0,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237185,"{'22F': 96.4, '22A': 73.4, '06A': 42.6, '06A-II': 42.3, '06A-VI': 42.2}",1,96.4,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213955,"{'06A-II': 95.4, '06A-VI': 95.4, '06B-II': 89.2, '06A-V': 88.9, '06A-III': 88.3}",1,95.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900059715,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312985,"{'14': 91.4, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279125,"{'09A': 93.0, '09V': 92.8, '09N': 39.6, '09L': 38.3, '08': 24.4}",1,93.0,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001113905,"{'35F': 99.3, '47F': 74.7, '34': 26.7, '35B': 25.5, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317525,"{'14': 90.2, '36': 27.7, '09L': 24.2, '09N': 22.9, '19F-II': 22.1}",1,90.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325755,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227625,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213465,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054185,"{'15B': 99.8, '15C': 99.6, '15A': 62.7, '15F': 48.3, '23A': 32.9}",1,99.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333685,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192005,"{'11D': 99.8, '11A': 97.0, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,99.8,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030735,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 85.5, '19A-II': 83.0, '19AF': 56.8}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284975,"{'19A-I': 97.9, '19A-II': 97.0, '19A': 86.4, '19A-III': 86.2, '19AF': 61.8}",1,97.9,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333315,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001100045,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 94.0, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220765,"{'13': 83.3, '36': 27.5, '14': 27.3, '15B': 26.7, '15C': 26.3}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001139645,"{'23B': 99.3, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.6}",1,99.3,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025405,"{'10A': 99.9, '10B': 66.8, '10C': 27.4, '10F': 17.9, '22F': 15.5}",1,99.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241685,"{'04': 98.3, '45': 34.7, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001157785,"{'06A-II': 87.3, '06A-VI': 87.3, '06A': 86.0, '06A-IV': 85.2, '06A-V': 85.0}",1,87.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344455,"{'06D': 93.4, '06C': 85.7, '06C-I': 85.7, '06B-I': 73.7, '06A-III': 73.3}",1,93.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 89.0']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227075,"{'06A-II': 95.2, '06A-VI': 95.2, '06B-II': 89.1, '06A-V': 88.7, '06A-III': 88.1}",1,95.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238335,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308105,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.5, '06A-IV': 46.3}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220045,"{'11D': 99.8, '11A': 97.0, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,99.8,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191265,"{'06A': 99.8, '06A-IV': 99.4, '06B-II': 95.2, '06A-V': 93.5, '06A-III': 91.4}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266465,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307795,"{'15B': 99.8, '15C': 99.6, '15A': 62.7, '15F': 48.3, '23A': 32.9}",1,99.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272185,"{'23F': 93.9, '23A': 63.4, '28A': 48.4, '23B': 46.9, '06A-III': 46.4}",1,93.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263205,"{'23F': 97.0, '23A': 63.9, '23B': 48.0, '28A': 47.7, '06B-II': 46.1}",1,97.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237515,"{'01': 98.8, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,98.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900036435,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293585,"{'03': 75.1, '20': 7.9, '01': 7.2, '36': 7.1, '22F': 6.8}",1,75.1,,3,,,{},{},3,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233465,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025105,"{'24F2': 99.8, '24B': 88.6, '24F': 87.1, '24A': 71.3, '07B': 55.3}",1,99.8,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001097265,"{'35C': 100.0, '42': 99.0, '35A': 86.0, '33A': 45.7, '33F': 45.2}",1,100.0,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167045,"{'14': 91.4, '36': 26.6, '09L': 25.6, '09N': 24.8, '15B': 23.4}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249355,"{'07C': 94.0, '07B': 77.1, '40': 76.7, '24B': 48.6, '24F': 47.6}",1,94.0,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255845,"{'06A': 93.5, '06A-III': 91.5, '06B-I': 91.4, '06B-II': 91.2, '06A-V': 90.7}",1,93.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229085,"{'40': 99.6, '07B': 93.9, '07C': 75.4, '24F2': 48.2, '24F': 47.9}",1,99.6,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306705,"{'14': 95.1, '36': 26.0, '09L': 25.5, '09N': 24.4, '15B': 24.3}",1,95.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280275,"{'19A-II': 98.1, '19A-I': 95.6, '19A': 84.1, '19A-III': 83.9, '19AF': 61.7}",1,98.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295645,"{'03': 95.2, '36': 17.4, '01': 17.0, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303105,"{'08': 99.5, '06A-II': 24.4, '06A-VI': 24.3, '02': 24.2, '06B-II': 23.8}",1,99.5,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243495,"{'14': 92.7, '36': 28.7, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224435,"{'14': 96.2, '36': 25.9, '09L': 25.1, '09N': 24.3, '15B': 23.7}",1,96.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264685,"{'22F': 98.8, '22A': 73.1, '06A': 42.5, '06B': 42.0, '06A-II': 41.8}",1,98.8,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339855,"{'06E': 100.0, '06B-III': 99.2, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216665,"{'18A': 90.5, '18B': 54.1, '18C': 54.1, '18F': 53.5, '16F': 35.5}",1,90.5,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168825,"{'14': 91.3, '36': 26.7, '09L': 25.9, '09N': 24.9, '15B': 23.4}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001164425,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289905,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001155285,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294905,"{'19A-II': 99.0, '19A-I': 97.1, '19A': 85.7, '19A-III': 85.5, '19AF': 62.0}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283805,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023755,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227565,"{'23A': 97.3, '23F': 68.9, '23B': 40.1, '19F-II': 39.3, '15B': 38.7}",1,97.3,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227145,"{'17F': 82.3, '06A-I': 42.1, '06B': 41.7, '06A': 41.2, '06A-III': 40.5}",1,82.3,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023565,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335165,"{'04': 99.8, '45': 33.9, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277035,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001207615,"{'06C': 85.2, '06C-I': 85.2, '06D': 84.2, '06A': 76.9, '06A-IV': 73.3}",1,85.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065525,"{'19A': 99.4, '19A-III': 99.2, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001100405,"{'36': 11.4, '23B1': 7.2, '01': 6.8, '06A-IV': 6.7, '20': 6.4}",1,11.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222605,"{'01': 99.2, '19F': 32.1, '19F-I': 31.8, '19F-III': 31.4, '19F-II': 31.3}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243725,"{'09N': 97.7, '09L': 87.5, '09A': 32.7, '09V': 32.7, '36': 31.3}",1,97.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900058215,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001604795,"{'22F': 94.0, '22A': 70.2, '06A-II': 45.3, '06A-VI': 45.2, '06B-I': 45.2}",1,94.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001108065,"{'18C': 88.6, '18B': 88.5, '18F': 78.1, '18A': 60.9, '16F': 37.9}",1,88.6,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001102645,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022915,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335615,"{'36': 12.3, '20': 8.1, '06A-IV': 7.6, '01': 6.3, '06C': 6.2}",1,12.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001198835,"{'34': 92.9, '33F2': 34.7, '35B': 30.0, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256085,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298715,"{'33F2': 99.8, '33F': 74.7, '33A': 70.3, '34': 41.7, '35B': 32.5}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340075,"{'19A': 99.4, '19A-III': 99.2, '19A-I': 86.1, '19A-II': 83.6, '19AF': 57.1}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316625,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223745,"{'23A': 97.6, '23F': 68.9, '23B': 40.1, '19F-II': 39.3, '15B': 38.7}",1,97.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304555,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268415,"{'03': 95.3, '01': 17.1, '36': 17.1, '20': 15.9, '09N': 15.7}",1,95.3,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002888975,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031825,"{'18C': 99.8, '18B': 99.7, '18F': 75.7, '18A': 62.4, '16F': 39.3}",1,99.8,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001092845,"{'23B1': 98.1, '23B': 55.9, '19A-II': 36.0, '19A-I': 35.7, '19AF': 31.5}",1,98.1,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295065,"{'11A': 99.8, '11D': 96.7, '11F': 40.0, '11C': 36.0, '11B': 34.5}",1,99.8,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052605,"{'23F': 94.6, '23A': 63.5, '28A': 48.0, '23B': 47.1, '06A': 45.6}",1,94.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338645,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.7, '19A-III': 87.5, '19AF': 61.8}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318685,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585385,"{'12F': 96.9, '44': 93.6, '12B': 92.9, '12A': 80.6, '46': 77.5}",1,96.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246875,"{'03': 98.2, '01': 17.5, '20': 16.4, '09N': 15.7, '09L': 15.5}",1,98.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246235,"{'14': 95.0, '36': 26.2, '09L': 25.3, '09N': 24.7, '15B': 24.3}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255175,"{'35F': 99.2, '47F': 74.5, '34': 26.7, '35B': 26.5, '29': 22.2}",1,99.2,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270365,"{'13': 83.3, '36': 29.0, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001333955,"{'25F': 6.7, '25A': 6.5, '45': 5.6, '22F': 4.8, '38': 4.6}",1,6.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266365,"{'23F': 99.3, '23A': 65.5, '23B': 49.1, '28A': 48.2, '06A-IV': 47.3}",1,99.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021825,"{'09A': 99.7, '09V': 99.5, '09N': 38.2, '09L': 36.8, '06A-IV': 27.4}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231345,"{'35B': 92.1, '34': 33.5, '33F': 32.9, '35C': 31.9, '35A': 31.6}",1,92.1,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248215,"{'20': 98.2, '13': 25.8, '09L': 24.5, '47F': 23.5, '09N': 23.4}",1,98.2,,20,,,{},{},20,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049845,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335625,"{'33D': 80.6, '33B': 76.6, '06A-I': 36.6, '06B': 36.0, '35B': 36.0}",1,80.6,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001128985,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213115,"{'21': 99.9, '22F': 36.0, '06A-IV': 32.4, '06A-II': 31.7, '06A-VI': 31.6}",1,99.9,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001139285,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001162365,"{'15C': 95.2, '15B': 95.1, '15A': 60.9, '15F': 47.3, '23A': 34.5}",1,95.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298295,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274845,"{'15C': 87.2, '15B': 87.1, '15A': 63.8, '15F': 49.3, '23A': 30.2}",1,87.2,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346475,"{'25F': 6.8, '45': 6.7, '25A': 6.4, '38': 4.8, '35B': 4.3}",2,6.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245935,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018895,"{'08': 99.5, '06A-II': 24.8, '06A-VI': 24.7, '02': 24.3, '06B-II': 24.2}",1,99.5,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056135,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190835,"{'22F': 99.0, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301435,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214045,"{'14': 94.3, '36': 25.8, '09L': 25.3, '09N': 24.6, '15B': 24.3}",1,94.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328575,"{'23A': 96.5, '23F': 67.6, '23B': 45.8, '19F-II': 39.4, '15B': 38.5}",1,96.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333855,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244355,"{'13': 98.9, '09N': 29.1, '20': 28.9, '09L': 28.7, '36': 28.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300445,"{'29': 59.4, '35B': 37.3, '35F': 26.6, '22F': 23.0, '33B': 23.0}",1,59.4,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243445,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.9, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065545,"{'22F': 99.1, '22A': 73.4, '06A-IV': 43.5, '06A': 42.6, '06B': 42.1}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294875,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322545,"{'05': 95.0, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001124445,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289215,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237015,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254215,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282105,"{'01': 99.0, '19F': 32.5, '19F-I': 32.1, '19F-III': 31.8, '19F-II': 31.5}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326805,"{'18C': 99.8, '18B': 99.7, '18F': 75.7, '18A': 62.5, '16F': 39.2}",1,99.8,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001155325,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001169105,"{'10A': 99.4, '10B': 67.1, '10C': 27.7, '10F': 18.1, '06B-I': 13.5}",1,99.4,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001148285,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290755,"{'06C-I': 93.4, '06C': 93.2, '06D': 87.1, '06B-I': 78.0, '06A-III': 77.4}",1,93.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 88.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279525,"{'08': 99.8, '06A-II': 24.5, '02': 24.4, '06A-VI': 24.4, '06B-II': 23.9}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245765,"{'29': 59.6, '35B': 37.5, '35F': 26.8, '33B': 23.1, '33D': 22.9}",1,59.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900092075,"{'15C': 94.0, '15B': 93.8, '15A': 62.1, '15F': 48.6, '23A': 32.9}",1,94.0,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325425,"{'16F': 71.9, '28F': 43.8, '28A': 41.0, '18F': 34.1, '18A': 33.8}",1,71.9,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311695,"{'15A': 98.4, '15F': 73.1, '15C': 61.7, '15B': 61.6, '23F': 32.2}",1,98.4,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001093765,"{'06E': 100.0, '06B-III': 98.5, '06B-I': 46.2, '06A-III': 45.6, '06A-II': 44.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307715,"{'06A-V': 93.0, '06A-III': 90.0, '06A-II': 89.6, '06A-VI': 89.6, '06B-I': 89.2}",1,93.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300215,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279555,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227415,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294245,"{'05': 95.3, '36': 22.5, '45': 22.5, '20': 20.9, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272825,"{'01': 99.7, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.3}",1,99.7,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001098145,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021022575,"{'02': 57.6, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234415,"{'14': 95.1, '36': 26.0, '09L': 25.5, '09N': 24.5, '15B': 24.3}",1,95.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001173405,"{'06A-III': 88.4, '06B-I': 86.1, '06A': 83.0, '06B-II': 83.0, '06A-V': 82.9}",1,88.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001145645,"{'34': 92.9, '33F2': 34.7, '35B': 31.8, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248395,"{'14': 91.2, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295365,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305945,"{'03': 95.2, '01': 18.2, '36': 17.4, '20': 16.1, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221345,"{'03': 97.2, '01': 17.7, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313385,"{'14': 91.4, '19F-IV': 25.9, '09L': 24.8, '09N': 24.7, '36': 24.4}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050955,"{'12B': 97.2, '12F': 91.3, '12A': 89.3, '44': 88.8, '46': 86.9}",1,97.2,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[4]],"{'wciI': [1, 99.3]}",{'wciI': 1},12A/12B/44/46,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224205,"{'04': 99.6, '45': 33.8, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.6,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053005,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321985,"{'23B': 88.1, '23B1': 61.3, '23F': 38.5, '28A': 33.3, '23A': 33.0}",1,88.1,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235405,"{'34': 98.6, '33F2': 35.1, '35B': 33.7, '33F': 29.8, '33C': 28.4}",1,98.6,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314705,"{'14': 93.4, '09L': 27.5, '36': 27.3, '09N': 25.4, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222045,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278855,"{'23B1': 96.7, '23B': 58.7, '19A-II': 36.7, '19A-I': 35.5, '19AF': 32.1}",1,96.7,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268685,"{'05': 95.2, '45': 22.2, '36': 21.9, '20': 20.3, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305495,"{'14': 95.0, '36': 27.8, '09L': 25.5, '09N': 24.5, '15B': 24.2}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055555,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001166945,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001199555,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001166805,"{'25F': 5.8, '25A': 5.6, '45': 5.0, '36': 3.7, '38': 3.4}",1,5.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339595,"{'06C': 85.6, '06C-I': 85.6, '06D': 84.7, '06A': 77.0, '06A-IV': 73.3}",1,85.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_909594505,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266495,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252935,"{'14': 93.4, '36': 27.3, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265345,"{'18C': 88.3, '18B': 88.2, '18F': 77.8, '18A': 61.5, '16F': 37.6}",1,88.3,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001091305,"{'23F': 94.6, '23A': 63.7, '28A': 47.7, '23B': 47.0, '06A': 46.4}",1,94.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326845,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288175,"{'15C': 89.6, '15B': 89.5, '15A': 62.5, '15F': 49.3, '23A': 31.0}",1,89.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167765,"{'09A': 99.7, '09V': 99.5, '09N': 36.4, '09L': 35.1, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294955,"{'19A-I': 99.2, '19A-II': 97.5, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247875,"{'36': 12.0, '06A-IV': 7.8, '20': 7.6, '01': 6.8, '06B-I': 6.5}",1,12.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001197615,"{'14': 94.6, '36': 26.1, '09L': 24.7, '15B': 24.2, '15C': 24.1}",1,94.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295545,"{'06C-I': 89.1, '06C': 89.0, '06D': 86.8, '06A-I': 77.9, '06B': 77.6}",1,89.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 94.1]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299815,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338335,"{'36': 11.4, '23B1': 7.7, '06A-IV': 7.4, '20': 7.3, '45': 6.5}",1,11.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001173305,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900016905,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193905,"{'15C': 93.9, '15B': 93.8, '15A': 62.1, '15F': 48.6, '23A': 32.9}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001146485,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283285,"{'11D': 80.2, '11A': 78.9, '11F': 45.3, '11B': 34.7, '11C': 31.0}",1,80.2,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261495,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.7, '19A-III': 87.5, '19AF': 61.8}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272835,"{'10A': 99.1, '10B': 66.8, '10C': 27.7, '10F': 18.1, '22F': 15.5}",1,99.1,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341075,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244935,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900035045,"{'33F': 100.0, '33A': 97.5, '33F2': 70.9, '35C': 42.8, '42': 41.8}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224555,"{'21': 99.9, '22F': 35.9, '06A-IV': 32.7, '06A-II': 32.0, '06A-VI': 31.9}",1,99.9,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298805,"{'09N': 99.9, '09L': 89.0, '09A': 32.7, '09V': 32.7, '36': 32.3}",1,99.9,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339215,"{'36': 10.5, '20': 6.8, '06A-IV': 6.7, '23B1': 5.6, '06B-I': 5.5}",1,10.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255705,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.1}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900058795,"{'06E': 79.3, '06B-III': 78.7, '06B-I': 50.8, '06A-III': 49.3, '06A-II': 48.8}",1,79.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 96.61]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231565,"{'06A': 100.0, '06A-IV': 98.5, '06B-II': 94.3, '06A-V': 92.6, '06A-III': 90.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218585,"{'13': 83.6, '36': 31.3, '14': 27.1, '15B': 26.6, '15C': 26.2}",1,83.6,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001172785,"{'25F': 7.3, '25A': 7.1, '45': 6.8, '12A': 4.6, '46': 4.6}",2,7.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300415,"{'09A': 99.7, '09V': 99.5, '09N': 37.4, '09L': 36.0, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236395,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314115,"{'03': 95.2, '01': 17.7, '36': 17.4, '20': 16.1, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300095,"{'10A': 94.0, '10B': 64.8, '10C': 29.3, '10F': 19.7, '47A': 16.8}",1,94.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001173145,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214555,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 45.8, '28F': 45.8}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288745,"{'19A-I': 97.8, '19A-II': 96.9, '19A': 86.3, '19A-III': 86.1, '19AF': 61.7}",1,97.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314305,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222945,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227245,"{'34': 98.7, '33F2': 35.2, '35B': 33.5, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900059035,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001163045,"{'06A-III': 99.8, '06B-I': 98.2, '06B-II': 91.1, '06A': 90.7, '06A-V': 90.2}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240695,"{'19F-I': 96.4, '19F': 95.7, '19F-III': 95.4, '19F-II': 93.9, '19F-IV': 90.2}",1,96.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324315,"{'23F': 96.7, '23A': 63.8, '06A-IV': 50.8, '23B': 50.3, '06B-II': 48.5}",1,96.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240175,"{'01': 7.0, '45': 5.9, '25F': 5.7, '20': 5.5, '25A': 5.5}",3,7.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295585,"{'22F': 93.9, '22A': 70.1, '06A-II': 45.2, '06A-VI': 45.1, '06B-I': 45.1}",1,93.9,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232285,"{'06E': 99.5, '06B-III': 99.2, '06B-I': 46.7, '06A-III': 46.0, '06A-II': 45.1}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001345895,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303555,"{'15C': 87.7, '15B': 87.6, '15A': 64.6, '15F': 50.0, '23A': 30.1}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024135,"{'33F': 100.0, '33A': 97.5, '33F2': 70.9, '35C': 42.8, '42': 41.8}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332055,"{'14': 93.0, '36': 27.3, '09L': 25.8, '09N': 25.5, '15B': 24.3}",1,93.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320815,"{'34': 98.7, '33F2': 35.2, '35B': 33.5, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245725,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029965,"{'03': 95.2, '01': 17.2, '36': 17.1, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900064905,"{'22F': 99.0, '22A': 73.3, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294945,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267195,"{'06A': 90.1, '06A-III': 89.5, '06B-II': 89.5, '06A-II': 89.4, '06A-VI': 89.4}",1,90.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252425,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267625,"{'19F-I': 91.5, '19F': 90.8, '19F-III': 90.5, '19F-IV': 89.7, '19F-II': 88.4}",1,91.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278995,"{'23F': 97.2, '23A': 62.9, '28A': 47.6, '23B': 46.2, '06A-IV': 46.2}",1,97.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330645,"{'19A': 99.8, '19A-III': 99.6, '19A-I': 86.0, '19A-II': 83.5, '19AF': 57.1}",1,99.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285215,"{'15C': 93.6, '15B': 93.5, '15A': 61.8, '15F': 48.3, '14': 33.0}",1,93.6,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317935,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053845,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001114685,"{'06E': 100.0, '06B-III': 99.2, '06B-I': 46.4, '06A-III': 46.2, '06A-IV': 45.3}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246495,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214615,"{'13': 83.7, '36': 31.5, '14': 27.3, '15B': 26.7, '15C': 26.3}",1,83.7,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001340895,"{'36': 10.7, '06A-IV': 6.7, '20': 5.9, '45': 5.5, '06B-I': 5.5}",1,10.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224695,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309265,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 14.5, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235995,"{'15A': 98.5, '15F': 73.1, '15C': 61.8, '15B': 61.7, '23F': 32.2}",1,98.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290025,"{'01': 99.9, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.3}",1,99.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001096685,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335455,"{'07C': 93.7, '07B': 77.1, '40': 76.6, '24B': 48.5, '24F': 47.5}",1,93.7,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900037005,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231665,"{'19AF': 100.0, '19A-II': 62.3, '19A-I': 61.6, '19A': 53.2, '19A-III': 53.0}",1,100.0,19A_19AF,19A_19AF,,[[7]],"{'wzy': [2, 100.0]}",{'wzy': 2},19A_19AF,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263535,"{'18C': 88.5, '18B': 88.4, '18F': 77.8, '18A': 61.5, '16F': 37.6}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242475,"{'06A-II': 95.5, '06A-VI': 95.5, '06B-II': 89.4, '06A-V': 89.0, '06A-III': 88.4}",1,95.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262115,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274605,"{'34': 98.5, '33F2': 35.1, '35B': 33.5, '33F': 29.6, '33C': 28.3}",1,98.5,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001141265,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019446455,"{'20': 5.3, '45': 5.3, '25F': 5.2, '25A': 5.1, '01': 4.3}",1,5.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314485,"{'09A': 93.0, '09V': 92.8, '09N': 39.6, '09L': 38.3, '08': 24.4}",1,93.0,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020925,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051865,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900034175,"{'33F': 100.0, '33A': 97.5, '33F2': 70.9, '35C': 42.8, '42': 41.8}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342815,"{'29': 59.6, '35B': 36.8, '35F': 26.8, '33B': 23.1, '33D': 22.9}",1,59.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001084025,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001125985,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 94.0, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254255,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021285,"{'22F': 92.5, '22A': 74.2, '06A-IV': 44.7, '06A-II': 44.2, '06A-VI': 44.1}",1,92.5,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337305,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001094945,"{'06E': 100.0, '06B-III': 97.5, '06B-I': 44.8, '06A-III': 44.3, '06B-II': 43.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218185,"{'16F': 71.2, '28F': 42.9, '28A': 40.4, '18F': 33.3, '18A': 32.9}",1,71.2,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217695,"{'06A-II': 95.0, '06A-VI': 95.0, '06B-II': 89.3, '06A-V': 88.8, '06A-III': 88.2}",1,95.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342795,"{'16F': 95.7, '19F-II': 42.6, '19F-IV': 42.6, '28F': 42.4, '19F': 41.6}",1,95.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001158725,"{'36': 11.9, '20': 7.9, '06A-IV': 7.6, '06C': 6.2, '06C-I': 6.2}",2,11.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241195,"{'18C': 99.7, '18B': 99.6, '18F': 75.7, '18A': 62.4, '16F': 39.3}",1,99.7,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324895,"{'14': 94.6, '36': 26.1, '09L': 25.3, '09N': 24.5, '15B': 24.3}",1,94.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900092055,"{'15C': 94.0, '15B': 93.8, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,94.0,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001193815,"{'03': 95.2, '36': 16.9, '01': 15.6, '20': 15.6, '09N': 15.3}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276235,"{'23F': 96.8, '23A': 63.9, '06A-IV': 48.1, '23B': 48.0, '28A': 47.7}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017905,"{'34': 99.3, '33F2': 35.4, '35B': 33.4, '33F': 30.0, '33C': 28.7}",1,99.3,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342315,"{'19B': 92.9, '19C': 71.8, '19F-IV': 51.1, '19F-II': 51.0, '19F-I': 50.1}",1,92.9,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235745,"{'23A': 95.1, '23F': 68.0, '23B': 43.2, '19F-II': 40.0, '15B': 39.1}",1,95.1,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256725,"{'14': 92.6, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001199635,"{'25F': 5.7, '45': 5.7, '25A': 5.5, '20': 5.1, '22F': 4.8}",1,5.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311965,"{'25F': 99.9, '25A': 98.9, '38': 80.9, '36': 9.0, '01': 7.4}",1,99.9,25F_25A_38,25F_25A_38,,"[[8], [18]]","{'wcyD': ['a', 100.0], 'wcyV': 0.12}","{'wcyD': 'a', 'wcyV': 'not_detected'}",25F/25A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001130965,"{'23F': 92.4, '23A': 61.1, '28A': 47.7, '23B': 46.8, '06A-IV': 46.6}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189565,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245875,"{'35B': 99.3, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.3,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192545,"{'06C-I': 99.5, '06C': 99.3, '06D': 84.6, '06A-II': 79.1, '06A-VI': 79.1}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900088885,"{'19A-II': 100.0, '19A-I': 96.6, '19A': 85.0, '19A-III': 84.8, '19AF': 62.1}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268965,"{'23F': 91.9, '23A': 58.9, '28F': 46.2, '06B-II': 45.8, '06A-IV': 45.7}",1,91.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328195,"{'09A': 95.9, '09V': 95.7, '09N': 38.8, '09L': 37.4, '11F': 26.6}",1,95.9,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301985,"{'06A-I': 98.4, '06B': 96.3, '06A-V': 89.9, '06A': 87.8, '06B-II': 86.7}",1,98.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024735,"{'01': 99.6, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.6,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305015,"{'13': 83.4, '36': 27.3, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.4,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275895,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335335,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.3}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900459605,"{'09L': 99.4, '09N': 89.6, '36': 31.6, '09A': 31.4, '09V': 31.4}",1,99.4,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276535,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001086245,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288805,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254855,"{'35F': 99.5, '47F': 74.8, '34': 26.7, '35B': 26.4, '29': 22.5}",1,99.5,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001156685,"{'35B': 99.5, '33F': 33.5, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297845,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001164985,"{'06A-II': 87.2, '06A-VI': 87.2, '06A': 85.9, '06A-IV': 85.1, '06A-V': 84.9}",1,87.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227355,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280145,"{'18A': 89.9, '18B': 53.8, '18C': 53.8, '18F': 52.9, '19F-II': 37.6}",1,89.9,,18A,,,{},{},18A,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032195,"{'15C': 93.9, '15B': 93.8, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301275,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901875515,"{'06E': 83.6, '06B-III': 83.6, '06B-I': 56.7, '06A-III': 55.2, '06A-II': 54.6}",1,83.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335205,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002093335,"{'03': 95.2, '19A': 64.0, '19A-III': 63.9, '19A-II': 56.9, '19A-I': 56.2}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223855,"{'15A': 98.5, '15F': 73.1, '15C': 61.8, '15B': 61.7, '23F': 32.2}",1,98.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225895,"{'20': 86.3, '36': 27.1, '13': 26.4, '09L': 25.9, '47F': 24.6}",1,86.3,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251185,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247285,"{'12F': 96.3, '44': 93.3, '12B': 93.2, '12A': 84.7, '46': 81.6}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273105,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238245,"{'15A': 98.3, '15F': 73.0, '15C': 61.8, '15B': 61.7, '23F': 32.3}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001584915,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337435,"{'03': 75.1, '20': 7.9, '01': 7.1, '36': 7.1, '22F': 6.8}",1,75.1,,3,,,{},{},3,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213475,"{'09A': 99.4, '09V': 99.2, '09N': 37.6, '09L': 36.9, '06A-IV': 27.3}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243475,"{'23F': 92.4, '23A': 61.1, '28A': 48.1, '23B': 46.6, '06A-IV': 46.6}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001151625,"{'13': 95.3, '36': 32.1, '09L': 27.6, '09N': 26.4, '14': 26.1}",1,95.3,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001118845,"{'10A': 99.3, '10B': 67.0, '10C': 27.7, '10F': 18.1, '06B-I': 15.2}",1,99.3,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900034015,"{'19A': 98.9, '19A-III': 98.7, '19A-I': 85.6, '19A-II': 83.4, '19AF': 57.0}",1,98.9,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246575,"{'33D': 80.3, '33B': 75.4, '06A-I': 36.8, '06B': 35.4, '06A-IV': 35.3}",1,80.3,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900188925,"{'31': 99.3, '41A': 57.0, '41F': 48.7, '06A-II': 36.4, '06A-VI': 36.4}",1,99.3,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288035,"{'33F': 99.8, '33A': 99.7, '33F2': 70.8, '35C': 43.0, '42': 42.0}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_015839775,"{'24F2': 99.6, '24B': 88.5, '24F': 87.0, '24A': 70.9, '07B': 56.7}",1,99.6,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311875,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301085,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320655,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245075,"{'05': 95.0, '45': 22.4, '36': 21.7, '20': 20.3, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311525,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281455,"{'01': 99.5, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252365,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267765,"{'01': 98.6, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.6,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279985,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243955,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294555,"{'23F': 92.7, '23A': 60.9, '28A': 48.7, '28F': 46.0, '23B': 43.9}",1,92.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265735,"{'06A-II': 94.3, '06A-VI': 94.3, '06B-II': 88.2, '06A-V': 87.8, '06A': 87.5}",1,94.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327485,"{'36': 10.9, '06A-IV': 7.5, '20': 6.9, '45': 6.6, '23B1': 6.6}",1,10.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262605,"{'15C': 87.8, '15B': 87.7, '15A': 64.6, '15F': 50.0, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224075,"{'01': 99.5, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168515,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001720085,"{'14': 93.9, '09L': 25.6, '36': 25.1, '09N': 24.5, '15B': 24.3}",1,93.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291775,"{'19AF': 97.4, '19A-II': 61.3, '19A-I': 60.6, '19A': 51.9, '19A-III': 51.7}",1,97.4,19A_19AF,19A_19AF,,[[7]],"{'wzy': [2, 92.87]}",{'wzy': 2},19A_19AF,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001129445,"{'14': 94.1, '36': 26.3, '09L': 25.2, '09N': 24.5, '15B': 24.2}",1,94.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171445,"{'14': 92.1, '36': 28.6, '09L': 25.0, '09N': 24.2, '15B': 23.9}",1,92.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294785,"{'31': 99.8, '41A': 57.3, '41F': 49.0, '06A-II': 36.5, '06A-VI': 36.5}",1,99.8,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287165,"{'10B': 99.3, '10A': 65.2, '10F': 20.1, '10C': 18.8, '22F': 14.0}",1,99.3,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265505,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213145,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297715,"{'18C': 88.3, '18B': 88.2, '18F': 77.8, '18A': 61.4, '16F': 37.6}",1,88.3,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001144265,"{'22F': 98.7, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,98.7,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225275,"{'23F': 92.1, '23A': 61.1, '28A': 47.8, '23B': 46.6, '06A-IV': 46.4}",1,92.1,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030215,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900046655,"{'14': 92.4, '36': 28.9, '09L': 25.6, '09N': 24.5, '15B': 24.0}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259195,"{'45': 93.9, '04': 38.8, '06A-II': 29.6, '06A-VI': 29.5, '06C': 29.1}",1,93.9,,45,,,{},{},45,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001086065,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214585,"{'05': 95.0, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001193535,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020139755,"{'35B': 99.8, '33F': 33.5, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309605,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001116545,"{'35B': 99.9, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.9,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237355,"{'06A-II': 85.5, '06A-VI': 85.5, '06A-III': 85.3, '06A-V': 84.9, '06B-I': 83.9}",1,85.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222635,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306055,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.6, '19A-III': 87.4, '19AF': 61.9}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 92.87]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023535,"{'11D': 99.9, '11A': 97.1, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,99.9,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001171685,"{'19F-I': 95.4, '19F': 95.1, '19F-III': 93.6, '19F-II': 92.3, '19F-IV': 88.3}",1,95.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169445,"{'14': 92.1, '36': 28.4, '09L': 25.3, '09N': 24.2, '15B': 23.7}",1,92.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001104605,"{'31': 99.6, '41A': 57.1, '41F': 49.0, '06A-II': 36.2, '06A-VI': 36.2}",1,99.6,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217505,"{'07A': 91.2, '07F': 91.0, '19F-II': 39.3, '19F': 37.8, '19F-IV': 37.8}",1,91.2,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251325,"{'12F': 96.4, '44': 93.4, '12B': 93.3, '12A': 84.8, '46': 81.7}",1,96.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260745,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025985,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.7, '22F': 26.9}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219775,"{'11D': 80.2, '11A': 78.9, '11F': 45.3, '11B': 34.7, '11C': 31.0}",1,80.2,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001165825,"{'06A-II': 97.9, '06A-VI': 97.9, '06B-II': 90.4, '06A-V': 89.6, '06A-III': 89.2}",1,97.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900042375,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217765,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050355,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332765,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254755,"{'23F': 92.5, '23A': 61.3, '28A': 48.0, '23B': 46.8, '06A-IV': 46.5}",1,92.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052595,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.3}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233765,"{'38': 98.8, '25F': 84.4, '25A': 83.4, '36': 11.1, '01': 7.7}",1,98.8,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250145,"{'10A': 99.8, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,99.8,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224195,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221815,"{'05': 95.0, '45': 22.5, '36': 21.7, '20': 20.4, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240905,"{'14': 91.3, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001143325,"{'35B': 98.3, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,98.3,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282725,"{'01': 99.0, '19F': 32.0, '19F-I': 31.5, '19F-III': 31.3, '19F-II': 31.0}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300465,"{'13': 83.3, '36': 28.8, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220695,"{'17F': 99.6, '06B': 44.3, '06B-I': 44.1, '06A-III': 44.0, '06D': 43.7}",1,99.6,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249425,"{'19A': 92.4, '19A-III': 92.2, '19A-II': 83.1, '19A-I': 81.1, '19AF': 56.1}",1,92.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282995,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-I': 41.8}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001116945,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312785,"{'14': 92.5, '36': 28.9, '09L': 25.7, '09N': 24.6, '15B': 24.1}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229355,"{'15A': 98.4, '15F': 73.7, '15C': 62.1, '15B': 62.0, '23F': 31.7}",1,98.4,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169225,"{'09A': 99.4, '09V': 99.2, '09N': 36.7, '09L': 35.1, '11F': 26.6}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308055,"{'15C': 95.6, '15B': 95.4, '15A': 60.9, '15F': 47.3, '23A': 34.4}",1,95.6,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259175,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341605,"{'06A-V': 93.2, '06A-III': 90.2, '06A-II': 89.8, '06A-VI': 89.8, '06B-I': 89.4}",1,93.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342375,"{'16F': 71.5, '28F': 43.1, '28A': 40.6, '18F': 33.6, '18A': 32.9}",1,71.5,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194535,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001105425,"{'06A': 90.4, '06A-III': 89.3, '06A-II': 89.2, '06A-VI': 89.2, '06B-II': 89.2}",1,90.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319545,"{'23F': 91.7, '23A': 60.3, '28A': 48.3, '06A-IV': 46.6, '23B': 46.5}",1,91.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167845,"{'09A': 99.7, '09V': 99.5, '09N': 37.3, '09L': 36.0, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265965,"{'33D': 80.3, '33B': 75.4, '06A-I': 36.8, '06B': 35.4, '06A-IV': 35.3}",1,80.3,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190795,"{'15C': 93.5, '15B': 93.4, '15A': 61.7, '15F': 48.3, '23A': 32.9}",1,93.5,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901212995,"{'35B': 91.2, '33F': 32.1, '34': 31.4, '33B': 30.8, '33A': 30.4}",1,91.2,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001122845,"{'06E': 100.0, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336855,"{'10B': 99.3, '10A': 65.2, '10F': 20.1, '10C': 18.8, '22F': 14.0}",1,99.3,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285625,"{'04': 98.3, '45': 34.1, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285235,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001174605,"{'06A-I': 98.8, '06B': 94.6, '06A-V': 89.4, '06A': 87.7, '06A-III': 85.9}",1,98.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001159765,"{'09A': 95.3, '09V': 95.1, '09N': 37.1, '09L': 36.3, '11F': 26.6}",1,95.3,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001116365,"{'06E': 99.9, '06B-III': 99.2, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056895,"{'01': 94.4, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,94.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221975,"{'06C-I': 92.4, '06C': 92.3, '06D': 84.6, '06B-I': 77.3, '06A-III': 76.8}",1,92.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020605,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252675,"{'14': 91.4, '19F-IV': 25.9, '09L': 24.8, '09N': 24.7, '36': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169945,"{'14': 91.5, '36': 27.1, '09L': 25.0, '09N': 24.1, '15B': 23.7}",1,91.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310835,"{'15C': 96.2, '15B': 96.1, '15A': 61.5, '15F': 47.8, '23A': 34.7}",1,96.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001140685,"{'19F-II': 98.9, '19F': 95.1, '19F-III': 93.8, '19F-I': 93.4, '19F-IV': 92.6}",1,98.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900476445,"{'09A': 99.5, '09V': 99.3, '09N': 38.4, '09L': 36.5, '11F': 26.6}",1,99.5,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224515,"{'31': 99.7, '41A': 57.2, '41F': 49.0, '06A-II': 36.4, '06A-VI': 36.4}",1,99.7,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288165,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312305,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291635,"{'19A': 98.8, '19A-III': 98.6, '19A-I': 85.7, '19A-II': 83.4, '19AF': 56.9}",1,98.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289265,"{'15A': 99.9, '15F': 74.3, '15C': 61.9, '15B': 61.8, '23F': 31.7}",1,99.9,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262945,"{'15C': 87.8, '15B': 87.7, '15A': 64.6, '15F': 50.0, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050125,"{'13': 83.3, '36': 28.7, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296205,"{'34': 98.7, '33F2': 35.2, '35B': 33.5, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235305,"{'09A': 99.7, '09V': 99.5, '09N': 38.4, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229145,"{'09A': 99.1, '09V': 98.9, '09N': 38.5, '09L': 36.7, '11F': 27.0}",1,99.1,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043865,"{'21': 100.0, '22F': 36.1, '06A-IV': 34.1, '06A-II': 33.4, '06A-VI': 33.3}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277785,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258875,"{'19F-I': 97.8, '19F': 97.1, '19F-III': 96.6, '19F-II': 95.1, '19F-IV': 90.2}",1,97.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280835,"{'23F': 97.3, '23A': 63.0, '06A-IV': 47.8, '23B': 47.7, '28A': 47.7}",1,97.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001157325,"{'16F': 95.7, '19F-II': 42.6, '19F-IV': 42.6, '28F': 42.4, '19F': 41.6}",1,95.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287135,"{'15C': 95.8, '15B': 95.6, '15A': 61.1, '15F': 47.5, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217525,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054905,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310985,"{'22F': 96.3, '22A': 73.3, '06A': 42.4, '06A-II': 42.1, '06A-VI': 42.0}",1,96.3,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290915,"{'15C': 96.1, '15B': 95.9, '15A': 61.4, '15F': 47.7, '23A': 34.8}",1,96.1,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001146805,"{'33B': 89.8, '33D': 89.7, '35B': 33.4, '33F2': 30.0, '22F': 26.4}",1,89.8,,"Mixed serotypes- {'33B', '33D'}",,,{},{},"Mixed serotypes- {'33B', '33D'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222185,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292275,"{'10B': 99.4, '10A': 65.2, '10F': 19.8, '10C': 18.7, '22F': 14.1}",1,99.4,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001107165,"{'06E': 100.0, '06B-III': 99.2, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311305,"{'06A-II': 85.6, '06A-VI': 85.6, '06A-III': 85.5, '06A-V': 85.0, '06B-I': 84.1}",1,85.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249465,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.2, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286415,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001129125,"{'03': 97.4, '20': 15.2, '09N': 14.2, '09L': 14.0, '01': 13.9}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029705,"{'03': 95.2, '01': 17.3, '36': 17.0, '20': 15.8, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226155,"{'14': 92.6, '36': 28.5, '09L': 25.6, '09N': 24.6, '15B': 24.1}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001151645,"{'06A': 90.4, '06A-III': 89.3, '06A-II': 89.2, '06A-VI': 89.2, '06B-II': 89.2}",1,90.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900060555,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237235,"{'36': 8.2, '20': 6.6, '01': 6.4, '45': 6.4, '06A-IV': 6.1}",1,8.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001198795,"{'23F': 94.5, '23A': 63.5, '06A-IV': 53.2, '06B-II': 51.6, '23B': 50.8}",1,94.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228265,"{'07A': 99.5, '07F': 99.3, '19F-II': 36.7, '19F-IV': 36.1, '19F': 35.2}",1,99.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020139895,"{'35B': 99.8, '33F': 33.6, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398305,"{'18C': 88.6, '18B': 88.5, '18F': 78.0, '18A': 61.9, '16F': 37.9}",1,88.6,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001159625,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253545,"{'19F': 97.4, '19F-I': 96.4, '19F-III': 95.6, '19F-II': 95.5, '19F-IV': 91.0}",1,97.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169195,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231775,"{'06E': 99.5, '06B-III': 99.2, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218195,"{'05': 95.2, '45': 22.1, '36': 21.9, '20': 20.3, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001262235,"{'19F-I': 95.4, '19F': 95.1, '19F-III': 93.6, '19F-II': 92.3, '19F-IV': 88.3}",1,95.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294325,"{'05': 95.2, '45': 22.2, '36': 21.1, '12A': 19.7, '46': 19.6}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319595,"{'21': 99.8, '22F': 36.0, '06A-IV': 32.9, '06A-II': 32.2, '06A-VI': 32.1}",1,99.8,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171055,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285505,"{'18C': 99.8, '18B': 99.7, '18F': 75.7, '18A': 62.5, '16F': 39.2}",1,99.8,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315565,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047555,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305445,"{'23F': 96.4, '23A': 64.0, '23B': 47.9, '28A': 47.2, '06A-V': 46.7}",1,96.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049605,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001092965,"{'34': 92.9, '33F2': 34.7, '35B': 32.0, '33F': 28.9, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305065,"{'16F': 99.0, '28F': 43.1, '19F-IV': 41.7, '18A': 41.4, '18F': 41.3}",1,99.0,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251785,"{'23F': 91.3, '23A': 59.9, '06A-IV': 46.9, '28A': 46.8, '23B': 46.2}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001301975,"{'17F': 93.5, '06A-III': 45.6, '06B-I': 45.4, '06A-IV': 45.3, '06A': 44.5}",1,93.5,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332225,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213975,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328725,"{'23A': 96.6, '23F': 67.7, '23B': 45.9, '19F-II': 39.4, '15B': 38.5}",1,96.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320835,"{'23F': 92.0, '23A': 60.7, '28A': 48.0, '23B': 46.5, '06A-IV': 46.5}",1,92.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001140865,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267715,"{'06A': 98.1, '06A-IV': 95.7, '06B-II': 93.9, '06A-V': 92.2, '06A-II': 92.0}",1,98.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029735,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340915,"{'19F': 94.8, '19F-I': 94.3, '19F-III': 93.2, '19F-II': 91.9, '19F-IV': 88.1}",1,94.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308345,"{'18C': 88.4, '18B': 88.3, '18F': 77.7, '18A': 61.9, '16F': 37.8}",1,88.4,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245975,"{'23F': 78.4, '23A': 58.1, '23B': 52.1, '28A': 39.2, '28F': 36.6}",1,78.4,,23F,,,{},{},23F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001301215,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170225,"{'14': 92.3, '36': 28.0, '09L': 25.1, '09N': 24.0, '15B': 24.0}",1,92.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000230335,"{'02': 57.6, '06C': 23.4, '06B-I': 23.4, '06C-I': 23.4, '06A-II': 23.1}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001145505,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 89.6, '06A': 87.7, '06A-III': 86.1}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023445,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264725,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269735,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193225,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257775,"{'19F': 97.1, '19F-I': 96.1, '19F-III': 95.3, '19F-II': 95.2, '19F-IV': 90.7}",1,97.1,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229755,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242615,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023115,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336875,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264815,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001328935,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_017313305,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347495,"{'10A': 99.1, '10B': 67.0, '10C': 27.7, '10F': 18.1, '06B-I': 15.2}",1,99.1,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312725,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001123665,"{'35F': 99.3, '47F': 74.7, '34': 26.7, '35B': 24.8, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319625,"{'01': 99.3, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319825,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236575,"{'14': 92.7, '36': 29.0, '09L': 25.7, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021398285,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310845,"{'14': 96.7, '36': 26.1, '09L': 25.5, '09N': 24.5, '15B': 24.3}",1,96.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295925,"{'14': 93.4, '36': 27.3, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317185,"{'03': 95.2, '01': 18.2, '36': 17.4, '20': 16.1, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043695,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310205,"{'06A': 99.8, '06A-IV': 99.4, '06B-II': 95.2, '06A-V': 93.5, '06A-III': 91.5}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215775,"{'09A': 99.1, '09V': 98.9, '09N': 37.4, '09L': 36.7, '06A-IV': 27.0}",1,99.1,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339355,"{'23F': 91.3, '23A': 59.9, '06A-IV': 46.9, '28A': 46.8, '23B': 46.2}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246555,"{'04': 99.6, '45': 32.9, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.6,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001159105,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214975,"{'19F-I': 95.5, '19F': 95.2, '19F-III': 93.6, '19F-II': 92.4, '19F-IV': 88.4}",1,95.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290125,"{'15A': 98.3, '15F': 73.5, '15C': 61.8, '15B': 61.7, '23F': 31.6}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001091865,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001204555,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217355,"{'19F-I': 99.7, '19F': 96.7, '19F-III': 96.7, '19F-II': 93.9, '19F-IV': 89.3}",1,99.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268445,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310075,"{'19A': 99.1, '19A-III': 98.9, '19A-I': 86.0, '19A-II': 83.7, '19AF': 57.0}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308275,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280875,"{'15C': 95.7, '15B': 95.6, '15A': 61.1, '15F': 47.5, '23A': 34.6}",1,95.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225825,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.5, '46': 81.4}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293335,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315225,"{'21': 99.8, '22F': 36.0, '06A-IV': 32.9, '06A-II': 32.2, '06A-VI': 32.1}",1,99.8,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263885,"{'03': 95.2, '01': 17.5, '36': 17.4, '20': 16.1, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_909594855,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288435,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900037445,"{'35F': 99.1, '47F': 74.6, '34': 27.1, '35B': 26.7, '36': 22.7}",1,99.1,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001162105,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268975,"{'06D': 87.8, '06C-I': 85.5, '06C': 85.3, '06A': 78.8, '06B-II': 78.5}",1,87.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 86.1']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192315,"{'19A-II': 100.0, '19A-I': 96.6, '19A': 85.0, '19A-III': 84.8, '19AF': 62.1}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266955,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232245,"{'19A': 93.2, '19A-III': 93.0, '19A-II': 81.6, '19A-I': 79.8, '19AF': 55.6}",1,93.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278585,"{'28A': 99.5, '28F': 92.4, '23F': 49.6, '16F': 43.7, '06B-I': 39.2}",1,99.5,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301955,"{'06A-II': 90.8, '06A-VI': 90.8, '06A': 89.3, '06A-V': 89.2, '06A-III': 89.0}",1,90.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323195,"{'06C-I': 87.4, '06C': 87.3, '06D': 84.7, '06A': 77.0, '06A-IV': 74.9}",1,87.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001165565,"{'10F': 98.2, '10C': 80.9, '10B': 22.4, '10A': 19.2, '22F': 15.4}",1,98.2,,10F,,,{},{},10F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324685,"{'45': 97.0, '04': 38.8, '06A-II': 32.7, '06A-VI': 32.6, '06B-I': 32.5}",1,97.0,,45,,,{},{},45,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264265,"{'16F': 95.6, '19F-II': 42.6, '19F-IV': 42.6, '28F': 42.3, '19F': 41.6}",1,95.6,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223395,"{'01': 7.5, '45': 6.4, '25F': 5.8, '25A': 5.6, '22F': 5.3}",5,7.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001299835,"{'06A-I': 98.5, '06B': 94.5, '06A-V': 89.5, '06A': 87.5, '06A-III': 86.0}",1,98.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228765,"{'19F-I': 91.3, '19F-III': 88.9, '19F': 88.3, '19F-II': 85.9, '19F-IV': 85.8}",1,91.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236025,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335715,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242985,"{'24F': 97.1, '24B': 89.8, '24F2': 86.5, '24A': 63.0, '07C': 52.1}",1,97.1,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001334955,"{'36': 13.1, '20': 8.6, '06A-IV': 7.9, '06B-I': 6.7, '06C': 6.6}",1,13.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029975,"{'08': 99.5, '06A-II': 25.8, '06A-VI': 25.7, '06B-II': 25.1, '06A-V': 24.7}",1,99.5,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253525,"{'35B': 99.4, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_015839575,"{'24F2': 99.7, '24B': 88.5, '24F': 87.0, '24A': 71.0, '07B': 56.8}",1,99.7,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001117865,"{'06E': 100.0, '06B-III': 95.4, '06A-I': 42.6, '06B-I': 42.6, '06B': 42.2}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252205,"{'19A': 92.4, '19A-III': 92.2, '19A-II': 83.1, '19A-I': 81.1, '19AF': 56.1}",1,92.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277245,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227685,"{'31': 99.8, '41A': 57.3, '41F': 49.0, '06A-II': 36.4, '06A-VI': 36.4}",1,99.8,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342835,"{'34': 98.7, '33F2': 35.2, '35B': 33.6, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278645,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317885,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 32.6}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223315,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_909594575,"{'14': 92.5, '36': 27.9, '09L': 25.4, '09N': 24.5, '15B': 24.0}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322885,"{'13': 83.3, '36': 28.8, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001106685,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167345,"{'09A': 99.3, '09V': 99.1, '09N': 36.6, '09L': 35.3, '06A-IV': 26.9}",1,99.3,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270505,"{'15C': 93.9, '15B': 93.8, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302865,"{'22A': 94.2, '22F': 77.5, '06A-IV': 45.7, '06A-II': 44.0, '06B-I': 44.0}",1,94.2,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288645,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213595,"{'12F': 96.9, '44': 93.6, '12B': 92.9, '12A': 80.6, '46': 77.5}",1,96.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221495,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219505,"{'06A': 91.2, '06A-IV': 90.2, '06B-II': 89.1, '06A-III': 87.6, '06A-V': 87.6}",1,91.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317595,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.5}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261105,"{'19A-II': 99.0, '19A-I': 97.1, '19A': 85.7, '19A-III': 85.5, '19AF': 62.0}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214925,"{'14': 93.4, '36': 25.8, '09L': 24.9, '09N': 24.4, '15B': 23.8}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232775,"{'18C': 88.5, '18B': 88.4, '18F': 77.8, '18A': 61.5, '16F': 37.6}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289295,"{'19A-I': 99.2, '19A-II': 97.5, '19A': 87.8, '19A-III': 87.6, '19AF': 61.8}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273465,"{'35B': 98.7, '33F': 33.0, '35C': 33.0, '35A': 32.6, '34': 32.5}",1,98.7,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233575,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.0, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269015,"{'19A-II': 99.0, '19A-I': 97.1, '19A': 85.7, '19A-III': 85.5, '19AF': 62.0}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251885,"{'10A': 99.4, '10B': 67.1, '10C': 27.7, '10F': 18.1, '22F': 15.5}",1,99.4,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001132965,"{'23A': 97.2, '23F': 68.5, '23B': 39.8, '19F-II': 38.9, '15B': 38.8}",1,97.2,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001116325,"{'36': 13.0, '20': 8.1, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",2,13.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231425,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024505,"{'19A': 99.4, '19A-III': 99.2, '19A-I': 86.1, '19A-II': 83.9, '19AF': 57.2}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001107465,"{'19F': 94.6, '19F-I': 94.1, '19F-III': 93.0, '19F-II': 91.8, '19F-IV': 88.1}",1,94.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270905,"{'10F': 99.0, '10C': 81.8, '10B': 21.7, '10A': 18.7, '22F': 14.2}",1,99.0,,10F,,,{},{},10F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023245,"{'04': 99.7, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001206315,"{'11F': 61.7, '11D': 38.4, '11A': 36.8, '09V': 25.4, '09A': 25.3}",1,61.7,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330475,"{'23F': 93.9, '23A': 63.4, '28A': 48.4, '23B': 46.9, '06A-III': 46.4}",1,93.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324765,"{'06B-III': 95.4, '06E': 95.2, '06A-III': 49.9, '06B-I': 49.5, '06A-II': 48.9}",1,95.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218335,"{'19F-I': 99.7, '19F': 96.7, '19F-III': 96.7, '19F-II': 93.9, '19F-IV': 89.3}",1,99.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281105,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907172015,"{'14': 92.7, '36': 29.0, '09L': 25.7, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242225,"{'19A-I': 99.2, '19A-II': 97.7, '19A': 87.8, '19A-III': 87.6, '19AF': 62.0}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043665,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.8, '19F-IV': 36.3, '19F': 35.3}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001204315,"{'03': 95.2, '36': 16.9, '20': 15.9, '01': 14.1, '14': 13.9}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000211875,"{'06E': 99.9, '06B-III': 98.7, '06B-I': 46.4, '06A-III': 45.9, '06A-II': 44.9}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257755,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900048995,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001199335,"{'36': 10.4, '20': 5.7, '06B-I': 5.5, '06C': 5.4, '06C-I': 5.4}",1,10.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237865,"{'06D': 87.8, '06C-I': 85.6, '06C': 85.4, '06A': 79.0, '06B-II': 78.5}",1,87.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 86.1']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277275,"{'06A-II': 95.3, '06A-VI': 95.3, '06B-II': 89.2, '06A-V': 88.8, '06A-III': 88.0}",1,95.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339635,"{'10A': 98.9, '10B': 66.0, '10C': 27.5, '10F': 17.8, '22F': 15.3}",1,98.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293125,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344715,"{'06C': 85.2, '06C-I': 85.2, '06D': 84.2, '06A': 76.9, '06A-IV': 73.3}",1,85.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324155,"{'03': 97.4, '01': 17.5, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217175,"{'23A': 97.5, '23F': 68.8, '23B': 40.1, '19F-II': 39.2, '15B': 38.8}",1,97.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169665,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001159845,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296755,"{'01': 99.1, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052415,"{'07A': 99.5, '07F': 99.3, '19F-II': 36.7, '19F-IV': 36.1, '19F': 35.2}",1,99.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242515,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261115,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.0, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900692605,"{'38': 89.5, '25F': 85.8, '25A': 84.8, '36': 11.9, '20': 8.1}",1,89.5,25F_25A_38,25F_25A_38,,"[[0], [18]]","{'wcyD': ['b: 22.59'], 'wcyV': 4.69}","{'wcyD': 0, 'wcyV': 'not_detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019635,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051145,"{'07A': 99.5, '07F': 99.3, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245425,"{'14': 94.7, '36': 27.0, '09L': 25.3, '09N': 24.5, '15B': 24.2}",1,94.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341735,"{'06A': 89.7, '06A-III': 89.3, '06B-I': 88.0, '06B-II': 87.8, '06A-II': 87.3}",1,89.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240235,"{'23B1': 99.6, '23B': 56.3, '19A-II': 36.1, '19A-I': 35.9, '19AF': 31.7}",1,99.6,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218425,"{'03': 95.2, '01': 17.4, '36': 16.4, '09N': 15.8, '20': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230045,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218815,"{'01': 7.0, '45': 5.9, '25F': 5.7, '20': 5.5, '25A': 5.5}",3,7.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291455,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220775,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_003966485,"{'19F-II': 99.0, '19F': 95.2, '19F-III': 93.8, '19F-I': 93.5, '19F-IV': 93.1}",1,99.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000762805,"{'45': 5.9, '25F': 5.7, '25A': 5.5, '01': 5.4, '20': 4.9}",2,5.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270525,"{'01': 7.5, '45': 6.3, '25F': 5.8, '25A': 5.6, '22F': 5.1}",3,7.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000762665,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241375,"{'35A': 94.4, '35C': 89.7, '42': 89.1, '33A': 46.3, '33F': 45.9}",1,94.4,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265315,"{'18F': 99.9, '18B': 71.4, '18C': 71.4, '18A': 60.1, '16F': 41.4}",1,99.9,,18F,,,{},{},18F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229485,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.7}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001128165,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193045,"{'16F': 95.5, '19F-IV': 44.5, '19F-II': 43.7, '19F': 42.7, '19F-I': 42.1}",1,95.5,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318585,"{'03': 95.2, '01': 17.7, '36': 17.4, '20': 16.1, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171265,"{'14': 92.4, '36': 28.4, '09L': 25.1, '15B': 24.2, '09N': 24.1}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307385,"{'12F': 96.9, '44': 93.6, '12B': 92.9, '12A': 80.6, '46': 77.5}",1,96.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229425,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342355,"{'19F': 94.7, '19F-I': 94.2, '19F-III': 93.1, '19F-II': 91.8, '19F-IV': 88.1}",1,94.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002081115,"{'23F': 94.6, '23A': 63.7, '28A': 47.7, '23B': 47.0, '06A': 46.4}",1,94.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192595,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223945,"{'19A': 88.7, '19A-III': 88.5, '19A-II': 78.8, '19A-I': 78.0, '19AF': 59.6}",1,88.7,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217795,"{'23F': 94.0, '23A': 63.5, '28A': 48.3, '23B': 47.0, '06A-III': 46.2}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252065,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.7, '19A-III': 87.5, '19AF': 61.8}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398395,"{'34': 92.9, '33F2': 34.6, '35B': 32.2, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001102805,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221885,"{'23F': 96.2, '23A': 66.2, '28A': 47.3, '06A': 46.0, '28F': 45.0}",1,96.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264855,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337515,"{'21': 99.7, '22F': 36.3, '06A-IV': 33.8, '06A-II': 33.2, '06A-VI': 33.1}",1,99.7,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001120885,"{'23A': 97.4, '23F': 68.8, '23B': 40.1, '19F-II': 39.2, '15B': 38.8}",1,97.4,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280585,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274255,"{'08': 99.7, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.7,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292995,"{'14': 91.4, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341075,"{'06E': 100.0, '06B-III': 97.6, '06B-I': 44.9, '06A-III': 44.4, '06B-II': 43.8}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237295,"{'06A': 86.6, '06A-V': 86.1, '06A-IV': 86.0, '06B-II': 86.0, '06B-I': 83.8}",1,86.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 83.83']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019446875,"{'21': 95.8, '22F': 36.2, '06A-II': 33.6, '06A-VI': 33.5, '06A-III': 32.8}",1,95.8,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900034065,"{'15C': 86.7, '15B': 86.6, '15A': 66.3, '15F': 51.3, '23A': 28.3}",1,86.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020139555,"{'35B': 99.6, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.6,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261685,"{'01': 99.3, '19F': 32.5, '19F-I': 32.1, '19F-III': 31.8, '19F-II': 31.5}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_909594745,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239195,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168375,"{'09A': 99.7, '09V': 99.5, '09N': 38.1, '09L': 36.7, '35B': 26.7}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324455,"{'35B': 99.4, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051645,"{'05': 95.0, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001330215,"{'06E': 100.0, '06B-III': 98.8, '06B-I': 46.0, '06A-III': 45.5, '06A-II': 44.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239965,"{'18C': 85.4, '18B': 85.3, '18F': 74.6, '18A': 60.4, '16F': 37.6}",1,85.4,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900088925,"{'15C': 93.7, '15B': 93.6, '15A': 62.1, '15F': 48.6, '23A': 32.9}",1,93.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310765,"{'18C': 88.4, '18B': 88.3, '18F': 77.7, '18A': 61.9, '16F': 37.8}",1,88.4,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250895,"{'13': 98.8, '09L': 29.5, '20': 29.0, '09N': 28.8, '14': 27.0}",1,98.8,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258055,"{'01': 99.1, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338305,"{'05': 95.1, '45': 22.5, '36': 21.5, '20': 19.9, '12A': 19.8}",1,95.1,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001097665,"{'35F': 91.1, '47F': 67.7, '35B': 25.9, '29': 25.7, '34': 25.3}",1,91.1,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398065,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223455,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314365,"{'23F': 99.1, '23A': 65.3, '23B': 48.9, '28A': 48.2, '06A-IV': 47.3}",1,99.1,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243675,"{'01': 98.9, '19F': 31.9, '19F-I': 31.4, '19F-III': 31.2, '19F-II': 30.9}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272785,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321835,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001154245,"{'20': 86.4, '36': 27.7, '13': 25.6, '09L': 24.6, '47F': 24.6}",1,86.4,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303035,"{'03': 94.4, '01': 17.9, '36': 17.2, '09N': 15.9, '20': 15.8}",1,94.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_012911285,"{'35B': 99.9, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.9,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001197575,"{'35C': 98.6, '42': 98.0, '35A': 86.0, '33A': 45.4, '33F': 45.3}",1,98.6,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342915,"{'36': 12.2, '20': 8.0, '06A-IV': 7.5, '06C': 6.1, '06B-I': 6.1}",2,12.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294485,"{'06A-III': 99.9, '06B-I': 98.3, '06B-II': 91.3, '06A': 90.9, '06A-V': 90.4}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329025,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001173705,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.5, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262815,"{'18C': 88.5, '18B': 88.4, '18F': 77.8, '18A': 61.5, '16F': 37.6}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319155,"{'35A': 94.4, '35C': 89.7, '42': 89.1, '33A': 46.3, '33F': 45.9}",1,94.4,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219405,"{'36': 10.8, '45': 6.7, '06A-IV': 6.7, '20': 6.0, '01': 5.6}",1,10.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276345,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306595,"{'19F-I': 91.3, '19F-III': 88.9, '19F': 88.3, '19F-II': 85.9, '19F-IV': 85.8}",1,91.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234625,"{'01': 99.1, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237755,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258235,"{'22A': 94.2, '22F': 77.5, '06A-IV': 45.8, '06A-II': 44.1, '06B-I': 44.1}",1,94.2,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328885,"{'16F': 71.7, '28F': 43.6, '28A': 40.8, '18F': 33.9, '18A': 33.7}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001119385,"{'01': 6.9, '45': 5.9, '25F': 5.5, '25A': 5.3, '20': 5.1}",2,6.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337385,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227985,"{'34': 98.7, '33F2': 35.2, '35B': 33.6, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017275,"{'23F': 97.8, '23A': 63.3, '28A': 48.3, '23B': 47.9, '06A-IV': 46.4}",1,97.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292625,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.9, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316815,"{'23A': 99.6, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001113545,"{'07A': 98.3, '07F': 98.1, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,98.3,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192035,"{'23B': 99.3, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.6}",1,99.3,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057195,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001204015,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001910445,"{'03': 94.4, '36': 17.4, '01': 16.6, '20': 16.1, '09N': 15.0}",1,94.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001143505,"{'35F': 91.1, '47F': 67.7, '29': 25.7, '35B': 25.6, '34': 25.3}",1,91.1,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313495,"{'15A': 98.0, '15F': 73.3, '15C': 61.9, '15B': 61.8, '23F': 31.8}",1,98.0,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001204215,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.3}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264595,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274305,"{'10A': 99.2, '10B': 66.9, '10C': 27.7, '10F': 18.1, '22F': 15.4}",1,99.2,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225935,"{'23F': 94.1, '23A': 63.4, '28A': 47.7, '23B': 47.1, '06A': 46.9}",1,94.1,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001085645,"{'06E': 99.9, '06B-III': 99.3, '06B-I': 46.7, '06A-III': 46.2, '06A-II': 45.2}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001110285,"{'06E': 100.0, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309775,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043755,"{'23B': 99.5, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.6}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252795,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.8, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190995,"{'35B': 99.3, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.3,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226965,"{'03': 96.9, '01': 17.7, '20': 15.5, '09N': 15.3, '09L': 15.0}",1,96.9,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220215,"{'04': 99.8, '45': 33.9, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002889995,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287765,"{'05': 95.3, '45': 22.5, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341835,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247445,"{'19A': 92.4, '19A-III': 92.2, '19A-II': 83.1, '19A-I': 81.1, '19AF': 56.1}",1,92.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049025,"{'35B': 98.9, '33F': 33.0, '35C': 33.0, '35A': 32.6, '34': 32.5}",1,98.9,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284945,"{'14': 91.6, '36': 26.9, '09L': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236355,"{'15C': 87.5, '15B': 87.4, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.5,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001101245,"{'06E': 100.0, '06B-III': 96.0, '06B-I': 43.4, '06A-III': 42.9, '06A-I': 42.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293765,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275245,"{'23F': 92.5, '23A': 61.2, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249265,"{'14': 93.0, '36': 27.3, '09L': 25.8, '09N': 25.5, '15B': 24.3}",1,93.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269685,"{'23F': 92.0, '23A': 59.0, '28F': 46.3, '06B-II': 45.9, '06A-IV': 45.8}",1,92.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053655,"{'23F': 94.6, '23A': 63.5, '28A': 48.0, '23B': 47.1, '06A': 45.6}",1,94.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236715,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001095865,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001083485,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240375,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274265,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273315,"{'10A': 93.9, '10B': 64.7, '10C': 29.0, '10F': 19.4, '47A': 16.3}",1,93.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189895,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253845,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167305,"{'14': 91.1, '36': 25.3, '09L': 24.9, '09N': 24.1, '15B': 23.3}",1,91.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298415,"{'16F': 98.7, '28F': 42.8, '18A': 41.4, '19F-IV': 41.2, '18F': 40.8}",1,98.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331725,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299435,"{'13': 98.8, '09N': 29.1, '09L': 28.7, '20': 28.4, '36': 28.0}",1,98.8,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262795,"{'23F': 96.2, '23A': 66.1, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001140285,"{'09N': 98.6, '09L': 87.6, '09A': 32.7, '09V': 32.7, '36': 30.5}",1,98.6,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234095,"{'01': 98.9, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347975,"{'06A-III': 88.8, '06B-I': 86.5, '06A-II': 83.2, '06A-VI': 83.2, '06B-II': 83.2}",1,88.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021565,"{'10A': 99.9, '10B': 66.7, '10C': 27.5, '10F': 17.9, '22F': 15.3}",1,99.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251865,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283015,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032355,"{'03': 95.2, '36': 17.1, '01': 16.0, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263345,"{'12B': 97.2, '12F': 91.3, '12A': 89.3, '44': 88.6, '46': 86.9}",1,97.2,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[4]],"{'wciI': [1, 99.3]}",{'wciI': 1},12A/12B/44/46,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223155,"{'06A': 90.1, '06A-III': 89.5, '06B-II': 89.5, '06A-II': 89.4, '06A-VI': 89.4}",1,90.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900188875,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274455,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.7, '06B-II': 35.1, '06A-V': 34.9}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189445,"{'06B-I': 99.0, '06A-III': 96.9, '06B-II': 89.6, '06A': 89.5, '06A-V': 87.7}",1,99.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228195,"{'18F': 99.8, '18B': 71.4, '18C': 71.4, '18A': 60.2, '16F': 41.4}",1,99.8,,18F,,,{},{},18F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001160165,"{'45': 97.1, '04': 38.8, '06A-II': 32.9, '06A-VI': 32.8, '06B-I': 32.7}",1,97.1,,45,,,{},{},45,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020140375,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193955,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024165,"{'15C': 93.8, '15B': 93.7, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,93.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027815,"{'03': 95.2, '01': 17.7, '36': 17.4, '20': 16.1, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253435,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269195,"{'14': 95.0, '36': 27.5, '09L': 25.4, '09N': 24.4, '15B': 24.2}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283395,"{'22F': 99.0, '22A': 73.3, '06A': 42.5, '06B': 42.0, '06A-I': 41.7}",1,99.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287665,"{'10B': 98.8, '10A': 65.0, '10F': 20.0, '10C': 18.7, '22F': 14.0}",1,98.8,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901212635,"{'13': 83.3, '36': 28.8, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294415,"{'14': 89.9, '36': 28.6, '09L': 26.6, '09N': 26.3, '15B': 26.3}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222375,"{'21': 92.0, '22F': 36.6, '06A-IV': 31.6, '06A-II': 31.2, '06A-VI': 31.2}",1,92.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279055,"{'18C': 99.8, '18B': 99.7, '18F': 75.7, '18A': 62.9, '16F': 39.1}",1,99.8,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021315,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019446515,"{'15C': 95.8, '15B': 95.6, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245645,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229685,"{'16F': 99.8, '28F': 42.4, '19F-IV': 41.0, '18A': 40.9, '18F': 40.7}",1,99.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170745,"{'14': 92.7, '36': 28.7, '09L': 25.2, '15B': 24.2, '15C': 24.1}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001193555,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167255,"{'14': 91.3, '36': 26.3, '09L': 25.0, '09N': 24.3, '15B': 23.4}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193845,"{'06A-IV': 99.8, '06A': 99.6, '06B-II': 95.0, '06A-V': 93.4, '06A-III': 91.3}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228915,"{'14': 92.7, '36': 28.7, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307285,"{'18A': 100.0, '18B': 54.0, '18C': 54.0, '18F': 53.7, '19F-IV': 37.3}",1,100.0,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001165125,"{'06E': 100.0, '06B-III': 99.1, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001111985,"{'09A': 95.9, '09V': 95.7, '09N': 37.1, '09L': 36.2, '11F': 26.7}",1,95.9,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293815,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001155825,"{'35B': 98.1, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,98.1,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267815,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342075,"{'33D': 80.3, '33B': 75.4, '06A-I': 36.8, '06B': 35.4, '35B': 35.2}",1,80.3,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256365,"{'13': 83.6, '36': 32.5, '14': 27.2, '15B': 26.6, '15C': 26.2}",1,83.6,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346035,"{'11F': 61.8, '11D': 38.4, '11A': 36.8, '09V': 25.4, '09A': 25.3}",1,61.8,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259185,"{'35F': 99.2, '47F': 74.5, '34': 26.7, '35B': 26.3, '29': 22.5}",1,99.2,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252375,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296075,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020139745,"{'35B': 99.5, '33F': 33.2, '35C': 33.1, '34': 32.7, '35A': 32.7}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263015,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193605,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900064925,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234195,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001111285,"{'28F': 98.6, '28A': 92.2, '23F': 47.6, '16F': 46.0, '06B-I': 42.6}",1,98.6,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246055,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001131745,"{'13': 98.9, '09L': 28.5, '09N': 28.1, '20': 28.0, '14': 26.7}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001109265,"{'06A': 100.0, '06A-IV': 99.6, '06B-II': 95.4, '06A-V': 93.7, '06A-III': 91.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307295,"{'19F': 97.3, '19F-I': 96.3, '19F-III': 95.5, '19F-II': 95.4, '19F-IV': 90.9}",1,97.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256905,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259775,"{'06A-II': 88.7, '06A-VI': 88.7, '06A-III': 88.6, '06B-II': 87.8, '06A': 87.5}",1,88.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000252305,"{'06C-I': 88.6, '06C': 88.5, '06D': 86.1, '06A-I': 77.6, '06B': 77.3}",1,88.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 88.4']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265875,"{'06C-I': 89.1, '06C': 89.0, '06D': 86.9, '06A-I': 77.7, '06B': 77.4}",1,89.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234665,"{'10A': 94.2, '10B': 64.8, '10C': 29.3, '10F': 19.7, '47A': 16.8}",1,94.2,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283885,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047645,"{'19F-II': 99.5, '19F': 95.3, '19F-III': 94.3, '19F-I': 94.0, '19F-IV': 93.2}",1,99.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030315,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240475,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193235,"{'19A': 98.6, '19A-III': 98.4, '19A-I': 85.6, '19A-II': 83.4, '19AF': 57.1}",1,98.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191735,"{'11D': 99.8, '11A': 97.0, '11F': 42.0, '11C': 35.7, '11B': 34.4}",1,99.8,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022965,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193835,"{'23B': 99.5, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.8}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338695,"{'06A-II': 95.4, '06A-VI': 95.4, '06B-II': 89.3, '06A-V': 88.9, '06A-III': 88.3}",1,95.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277385,"{'06A-V': 92.3, '06A-I': 92.0, '06A-III': 89.9, '06B': 88.8, '06B-I': 88.5}",1,92.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332125,"{'06A-V': 97.2, '06A-IV': 94.6, '06A': 94.1, '06B-II': 92.7, '06A-II': 89.9}",1,97.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267685,"{'06B-III': 76.8, '06E': 76.5, '06A-II': 65.5, '06A-VI': 65.5, '06B-II': 61.5}",1,76.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585595,"{'12F': 96.9, '44': 93.6, '12B': 92.9, '12A': 80.6, '46': 77.5}",1,96.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264365,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280315,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001156785,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001208305,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.3}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347855,"{'15C': 87.7, '15B': 87.6, '15A': 64.6, '15F': 50.0, '23A': 30.1}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213255,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900692875,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301775,"{'19F-I': 95.9, '19F': 95.6, '19F-III': 94.1, '19F-II': 92.8, '19F-IV': 88.9}",1,95.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001403855,"{'19F-I': 95.3, '19F': 95.0, '19F-III': 93.5, '19F-II': 92.2, '19F-IV': 88.2}",1,95.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318355,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339565,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001138065,"{'03': 94.2, '36': 17.2, '01': 16.3, '20': 15.7, '09N': 14.6}",1,94.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307265,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001329095,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288795,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275375,"{'13': 83.1, '36': 28.4, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.1,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001163785,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311395,"{'15A': 97.2, '15F': 75.0, '15C': 61.6, '15B': 61.5, '23F': 31.7}",1,97.2,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303255,"{'15C': 87.7, '15B': 87.6, '15A': 60.9, '15F': 48.0, '23A': 31.3}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257285,"{'04': 99.7, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248705,"{'08': 99.8, '06A-II': 26.3, '06A-VI': 26.2, '06B-II': 25.6, '06A-V': 25.2}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065835,"{'01': 99.0, '19F': 32.1, '19F-I': 31.7, '19F-III': 31.4, '19F-II': 31.1}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314475,"{'14': 85.4, '36': 23.0, '09N': 21.8, '09L': 21.5, '15B': 18.9}",1,85.4,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001157225,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270465,"{'35F': 99.2, '47F': 74.5, '34': 26.7, '35B': 26.7, '29': 22.2}",1,99.2,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258405,"{'19F-III': 98.4, '19F': 98.0, '19F-I': 98.0, '19F-II': 93.8, '19F-IV': 89.2}",1,98.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900060255,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.3}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001116985,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316935,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333095,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001109705,"{'10A': 99.3, '10B': 67.0, '10C': 27.7, '10F': 18.1, '22F': 15.4}",1,99.3,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254715,"{'06A-II': 95.4, '06A-VI': 95.4, '06B-II': 89.4, '06A-V': 89.0, '06A-III': 88.3}",1,95.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341965,"{'06A-II': 94.8, '06A-VI': 94.8, '06B-II': 89.1, '06A-V': 88.6, '06A-III': 87.7}",1,94.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282855,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.7, '19A-III': 87.5, '19AF': 61.8}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298025,"{'10F': 99.7, '10C': 82.1, '10B': 21.7, '10A': 18.7, '22F': 14.2}",1,99.7,,10F,,,{},{},10F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341475,"{'23A': 99.4, '23F': 67.1, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.4,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321925,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255295,"{'14': 90.9, '19F-IV': 25.6, '09L': 24.5, '09N': 24.4, '36': 24.1}",1,90.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308145,"{'19A': 99.6, '19A-III': 99.4, '19A-I': 85.8, '19A-II': 83.3, '19AF': 56.8}",1,99.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214745,"{'05': 95.3, '45': 22.6, '36': 21.6, '20': 20.2, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318575,"{'15C': 85.6, '15B': 85.5, '15A': 61.1, '15F': 47.9, '23A': 31.4}",1,85.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260315,"{'23A': 99.4, '23F': 67.1, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.4,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311275,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285055,"{'14': 92.6, '36': 28.9, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218355,"{'06E': 85.1, '06B-III': 84.4, '06B-I': 50.9, '06A-III': 50.3, '06A-V': 49.8}",1,85.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001113985,"{'06E': 100.0, '06B-III': 97.5, '06B-I': 44.8, '06A-III': 44.3, '06B-II': 43.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261985,"{'06A-V': 92.3, '06A-I': 92.0, '06A-III': 89.9, '06B': 88.8, '06B-I': 88.5}",1,92.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216585,"{'03': 97.4, '01': 17.6, '20': 15.5, '09N': 15.3, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900059725,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000468195,"{'06E': 99.6, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277585,"{'08': 38.1, '36': 7.8, '22F': 6.7, '45': 6.3, '20': 6.2}",1,38.1,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052775,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001202915,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253115,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001142145,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282025,"{'14': 91.2, '19F-IV': 25.9, '36': 25.3, '09L': 24.7, '09N': 24.6}",1,91.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054755,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001157365,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339785,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314835,"{'23F': 92.1, '23A': 60.7, '28A': 47.4, '06A-IV': 46.4, '23B': 46.2}",1,92.1,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001173165,"{'11F': 61.7, '11D': 38.3, '11A': 36.8, '09A': 25.3, '09V': 25.3}",1,61.7,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262905,"{'14': 91.8, '36': 27.9, '09L': 25.5, '09N': 24.4, '15B': 23.7}",1,91.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269285,"{'14': 92.6, '36': 28.9, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231645,"{'18C': 99.5, '18B': 99.4, '18F': 76.0, '18A': 63.2, '16F': 39.5}",1,99.5,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171965,"{'14': 92.6, '36': 28.0, '09L': 25.6, '09N': 24.7, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246225,"{'04': 88.9, '12A': 34.7, '46': 34.6, '12B': 30.2, '12F': 28.8}",1,88.9,,4,,,{},{},4,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315795,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171175,"{'14': 91.9, '36': 28.7, '09L': 25.4, '09N': 24.2, '15B': 23.7}",1,91.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282815,"{'19F': 97.3, '19F-I': 96.3, '19F-III': 95.5, '19F-II': 95.4, '19F-IV': 90.9}",1,97.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260905,"{'04': 99.7, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312955,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265645,"{'18C': 93.6, '18B': 93.5, '18F': 75.5, '18A': 62.5, '16F': 39.5}",1,93.6,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278265,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.7, '19A-III': 87.5, '19AF': 61.8}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321115,"{'15C': 86.6, '15B': 86.5, '15A': 63.8, '15F': 49.1, '23A': 30.2}",1,86.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298705,"{'05': 95.3, '45': 22.5, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001105305,"{'36': 12.9, '20': 8.1, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",1,12.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907172055,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232855,"{'06A-I': 98.1, '06B': 95.1, '06A': 88.3, '06A-V': 84.9, '06A-III': 83.1}",1,98.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900036135,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325245,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900060855,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.6, '19F-IV': 36.0, '19F': 35.1}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224745,"{'06A-II': 95.5, '06A-VI': 95.5, '06B-II': 89.5, '06A-V': 89.1, '06A-III': 88.4}",1,95.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309645,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233975,"{'07A': 98.1, '07F': 97.9, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,98.1,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300075,"{'23A': 97.6, '23F': 68.9, '23B': 40.1, '19F-II': 39.3, '15B': 38.7}",1,97.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240555,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319945,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329975,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302145,"{'33F': 99.6, '33A': 99.3, '33F2': 70.5, '35C': 42.8, '42': 41.8}",1,99.6,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339415,"{'25F': 5.7, '45': 5.6, '20': 5.5, '25A': 5.5, '22F': 5.1}",2,5.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001131625,"{'25F': 5.8, '01': 5.6, '25A': 5.6, '22F': 4.9, '38': 4.9}",2,5.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319565,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253615,"{'13': 83.3, '36': 28.7, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315245,"{'34': 95.0, '33F2': 35.4, '35B': 32.9, '33F': 29.4, '33C': 28.4}",1,95.0,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311925,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298405,"{'05': 95.0, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025845,"{'05': 95.3, '45': 22.2, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194175,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334275,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001132725,"{'36': 12.3, '20': 8.0, '06A-IV': 7.5, '06C': 6.1, '45': 6.1}",2,12.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001340035,"{'36': 11.2, '06A-IV': 6.7, '20': 6.4, '45': 5.8, '06B-I': 5.5}",1,11.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001301115,"{'06C-I': 89.1, '06C': 89.0, '06D': 86.9, '06A-I': 77.7, '06B': 77.4}",1,89.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318215,"{'23B': 88.1, '23B1': 61.3, '23F': 38.5, '28A': 33.3, '23A': 33.0}",1,88.1,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278455,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 32.9}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001195445,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279905,"{'09A': 98.1, '09V': 97.9, '09N': 39.5, '09L': 37.6, '11F': 26.6}",1,98.1,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272505,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259215,"{'07A': 97.5, '07F': 97.3, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,97.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001098825,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019485,"{'15C': 93.8, '15B': 93.7, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,93.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032285,"{'03': 95.2, '01': 17.1, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019399625,"{'03': 95.6, '36': 17.1, '01': 16.7, '09N': 15.5, '20': 15.5}",1,95.6,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241425,"{'03': 98.2, '01': 17.6, '20': 16.4, '09N': 15.7, '09L': 15.3}",1,98.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296185,"{'01': 6.9, '20': 6.1, '06A-IV': 6.1, '25F': 5.9, '25A': 5.7}",3,6.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001902455,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027585,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.7, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225245,"{'15C': 87.7, '15B': 87.6, '15A': 60.9, '15F': 48.0, '23A': 31.3}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022325,"{'09A': 99.7, '09V': 99.5, '09N': 38.6, '09L': 36.8, '22F': 26.7}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167005,"{'14': 91.1, '36': 26.4, '09L': 25.3, '09N': 24.9, '15B': 23.4}",1,91.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219585,"{'23F': 93.3, '23A': 62.8, '28A': 47.7, '06A-IV': 47.3, '23B': 47.1}",1,93.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255045,"{'06A-II': 95.5, '06A-VI': 95.5, '06B-II': 89.4, '06A-V': 89.0, '06A-III': 88.4}",1,95.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001937965,"{'23F': 96.5, '23A': 64.1, '06A-IV': 48.3, '23B': 48.0, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344415,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191355,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.7, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900044865,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001105385,"{'14': 94.1, '36': 26.3, '09L': 24.7, '15B': 24.3, '09N': 24.2}",1,94.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001139885,"{'36': 12.4, '20': 7.7, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",1,12.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020635,"{'03': 95.2, '01': 17.1, '36': 16.6, '09N': 15.8, '20': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001159085,"{'35B': 94.7, '33F': 33.9, '35C': 33.6, '35A': 33.2, '34': 33.1}",1,94.7,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342405,"{'34': 95.7, '33F2': 35.6, '35B': 34.2, '33F': 30.4, '35C': 29.1}",1,95.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001138005,"{'06B-I': 99.5, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.8, '06A-V': 88.1}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304715,"{'04': 97.7, '45': 33.6, '12F': 23.6, '44': 23.4, '12A': 22.4}",1,97.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298455,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001204375,"{'09L': 97.8, '09N': 87.9, '36': 32.2, '09A': 31.4, '09V': 31.4}",1,97.8,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001127325,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001137265,"{'06C-I': 89.0, '06C': 88.9, '06D': 86.9, '06A-I': 79.8, '06B': 78.6}",1,89.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245505,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001139205,"{'20': 5.4, '22F': 4.8, '45': 4.8, '25F': 4.6, '25A': 4.5}",1,5.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217715,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.9, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230345,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230875,"{'09A': 99.4, '09V': 99.2, '09N': 38.6, '09L': 36.6, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247475,"{'16F': 71.3, '28F': 42.9, '28A': 40.4, '18F': 33.7, '18A': 33.1}",1,71.3,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282635,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286765,"{'09A': 99.6, '09V': 99.4, '09N': 38.6, '09L': 36.8, '11F': 26.6}",1,99.6,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239415,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169605,"{'14': 92.8, '36': 26.6, '09L': 25.7, '09N': 24.6, '15B': 24.3}",1,92.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240215,"{'19F': 97.4, '19F-I': 96.4, '19F-III': 95.6, '19F-II': 95.5, '19F-IV': 91.0}",1,97.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001172985,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303735,"{'23A': 99.4, '23F': 67.1, '23B': 43.0, '19F-II': 37.9, '15B': 37.2}",1,99.4,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273035,"{'13': 98.9, '09N': 29.1, '20': 28.9, '09L': 28.7, '36': 28.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300705,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171365,"{'14': 91.9, '36': 27.4, '09L': 24.6, '15B': 23.7, '09N': 23.6}",1,91.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339435,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001101085,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255505,"{'06A-II': 85.5, '06A-VI': 85.5, '06A-III': 85.4, '06A-V': 84.8, '06A': 84.0}",1,85.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025255,"{'06B-I': 99.7, '06A-III': 97.6, '06B-II': 90.3, '06A': 89.8, '06A-V': 88.4}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248325,"{'14': 91.3, '19F-IV': 25.9, '09L': 24.8, '09N': 24.7, '36': 24.7}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260365,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224665,"{'14': 94.3, '36': 25.9, '09L': 25.2, '09N': 24.7, '15B': 24.3}",1,94.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335215,"{'34': 92.7, '33F2': 34.5, '35B': 30.3, '33F': 28.8, '33C': 27.8}",1,92.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029485,"{'03': 95.2, '01': 17.7, '36': 17.4, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284765,"{'01': 99.9, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.3}",1,99.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268715,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285065,"{'34': 93.0, '33F2': 34.7, '35B': 32.1, '33F': 29.0, '33C': 28.0}",1,93.0,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339375,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223575,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245535,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001193055,"{'25F': 5.7, '45': 5.7, '25A': 5.5, '01': 5.2, '20': 5.1}",2,5.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325175,"{'15C': 87.5, '15B': 87.3, '15A': 64.2, '15F': 49.6, '23A': 30.2}",1,87.5,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901343135,"{'11B': 99.6, '11C': 89.2, '11A': 31.8, '11D': 31.5, '11F': 25.9}",1,99.6,,11B/11C,,,{},{},11B/11C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309455,"{'09A': 99.5, '09V': 99.3, '09N': 38.1, '09L': 36.8, '06A-IV': 27.3}",1,99.5,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001158405,"{'23F': 93.9, '23A': 63.4, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,93.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169105,"{'09A': 99.7, '09V': 99.5, '09N': 37.4, '09L': 36.0, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025425,"{'24F2': 99.5, '24B': 88.3, '24F': 86.8, '24A': 71.3, '07B': 55.1}",1,99.5,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334915,"{'35B': 99.4, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258285,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001114245,"{'35B': 99.3, '33F': 33.6, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.3,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306945,"{'21': 91.7, '22F': 36.8, '06A-IV': 31.6, '06A-II': 31.2, '06A-VI': 31.2}",1,91.7,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337955,"{'15C': 95.2, '15B': 95.1, '15A': 60.9, '15F': 47.3, '23A': 34.5}",1,95.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000180575,"{'01': 99.9, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.3}",1,99.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021695,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310635,"{'19F-II': 98.1, '19F-I': 95.2, '19F-III': 94.9, '19F': 94.8, '19F-IV': 92.5}",1,98.1,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306655,"{'06B-I': 99.6, '06A-III': 97.5, '06B-II': 90.1, '06A': 89.8, '06A-V': 88.2}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232835,"{'15A': 99.6, '15F': 73.9, '15C': 62.3, '15B': 62.2, '23F': 31.3}",1,99.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286005,"{'06A': 92.5, '06A-V': 90.3, '06B-II': 88.9, '06A-III': 88.7, '06A-IV': 87.4}",1,92.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304835,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191625,"{'24F2': 99.8, '24B': 88.6, '24F': 87.1, '24A': 71.3, '07B': 55.3}",1,99.8,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900693055,"{'14': 92.7, '36': 28.8, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244345,"{'18C': 88.5, '18B': 88.4, '18F': 77.8, '18A': 61.5, '16F': 37.6}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900059015,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313605,"{'03': 95.0, '01': 18.2, '36': 17.4, '20': 16.1, '09N': 15.8}",1,95.0,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193005,"{'23A': 98.5, '23F': 66.5, '23B': 42.6, '19F-II': 37.6, '19F-IV': 36.9}",1,98.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276435,"{'06A-III': 94.1, '06B-I': 92.4, '06A': 90.3, '06A-IV': 89.2, '06B-II': 89.0}",1,94.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315875,"{'16F': 95.5, '28F': 41.8, '18F': 41.7, '28A': 40.1, '18A': 39.9}",1,95.5,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336085,"{'11B': 99.6, '11C': 89.2, '11A': 31.8, '11D': 31.5, '11F': 25.9}",1,99.6,,11B/11C,,,{},{},11B/11C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001860705,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-I': 41.8}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284895,"{'10A': 97.6, '10B': 66.5, '10C': 27.4, '10F': 17.8, '22F': 14.7}",1,97.6,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295965,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260195,"{'11D': 99.6, '11A': 96.8, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,99.6,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900088725,"{'19A': 99.5, '19A-III': 99.3, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,99.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319475,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310295,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027785,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289245,"{'04': 99.8, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312765,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283515,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032205,"{'23B1': 100.0, '23B': 55.8, '19A-II': 36.2, '19A-I': 35.9, '19AF': 31.3}",1,100.0,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298395,"{'23F': 96.6, '23A': 63.7, '06A-IV': 50.8, '23B': 50.3, '06B-II': 48.5}",1,96.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283775,"{'16F': 95.6, '28F': 41.8, '18F': 41.7, '28A': 40.1, '19F-II': 39.9}",1,95.6,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311225,"{'23B1': 99.5, '23B': 55.7, '19A-II': 36.1, '19A-I': 35.9, '19AF': 31.7}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255385,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249865,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001112785,"{'19F-I': 96.9, '19F': 96.4, '19F-III': 96.2, '19F-II': 92.2, '19F-IV': 87.8}",1,96.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315375,"{'06A-I': 99.4, '06B': 95.1, '06A': 87.6, '06A-V': 86.9, '06A-III': 83.3}",1,99.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043705,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251375,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224025,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025335,"{'09N': 99.7, '09L': 89.1, '09A': 32.7, '09V': 32.7, '36': 32.3}",1,99.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254115,"{'14': 94.2, '36': 26.3, '09L': 25.4, '09N': 24.5, '15B': 24.3}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336985,"{'19AF': 97.2, '19A': 56.5, '19A-III': 56.3, '19A-II': 55.7, '19A-I': 54.9}",1,97.2,19A_19AF,19A_19AF,,[[7]],"{'wzy': [2, 92.87]}",{'wzy': 2},19A_19AF,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056745,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019399045,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297435,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302445,"{'06E': 100.0, '06B-III': 97.9, '06B-I': 45.6, '06A-III': 45.1, '06A-II': 44.1}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001096545,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263225,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001163885,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001121345,"{'31': 99.5, '41A': 57.0, '41F': 48.8, '06A-II': 36.3, '06A-VI': 36.3}",1,99.5,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313095,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313615,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233965,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223115,"{'14': 91.3, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242955,"{'11D': 99.4, '11A': 96.8, '11F': 41.7, '11C': 35.8, '11B': 34.3}",1,99.4,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171575,"{'14': 91.5, '36': 28.4, '09L': 24.9, '09N': 24.0, '15B': 23.9}",1,91.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341855,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267105,"{'03': 95.2, '01': 17.7, '36': 17.4, '20': 16.1, '09N': 15.9}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269645,"{'23B1': 99.8, '23B': 55.6, '19A-II': 36.0, '19A-I': 35.7, '19AF': 31.5}",1,99.8,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330705,"{'14': 94.0, '36': 26.3, '09L': 25.5, '09N': 24.6, '15B': 24.3}",1,94.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050305,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299495,"{'14': 92.2, '36': 29.0, '09L': 25.8, '09N': 24.9, '15B': 24.3}",1,92.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001125145,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267395,"{'13': 83.6, '09L': 25.7, '09N': 25.7, '14': 25.6, '36': 25.6}",1,83.6,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236105,"{'06A-II': 95.3, '06A-VI': 95.3, '06B-II': 89.1, '06A-V': 88.7, '06A-III': 88.2}",1,95.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268795,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274155,"{'23F': 96.1, '23A': 66.2, '28A': 47.2, '06A': 45.8, '28F': 44.9}",1,96.1,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276025,"{'05': 95.3, '45': 21.8, '36': 21.7, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336585,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028775,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267785,"{'08': 99.7, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.7,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307965,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249045,"{'14': 92.8, '36': 27.3, '09L': 25.8, '09N': 25.3, '15B': 24.3}",1,92.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324205,"{'25F': 89.9, '25A': 88.9, '38': 82.5, '36': 11.7, '20': 7.8}",1,89.9,25F_25A_38,25F_25A_38,,"[[0], [18]]","{'wcyD': ['b: 22.59'], 'wcyV': 4.69}","{'wcyD': 0, 'wcyV': 'not_detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302985,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171465,"{'14': 92.4, '36': 28.6, '09L': 24.9, '09N': 24.1, '15B': 24.1}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001107765,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285135,"{'10B': 99.1, '10A': 65.2, '10F': 20.1, '10C': 18.8, '22F': 14.0}",1,99.1,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316615,"{'31': 99.6, '41A': 57.2, '41F': 49.3, '06A-II': 36.5, '06A-VI': 36.5}",1,99.6,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317195,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056325,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232625,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.8, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285645,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001100985,"{'06E': 100.0, '06B-III': 98.8, '06B-I': 46.5, '06A-III': 46.0, '06A-II': 45.0}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220175,"{'15C': 90.8, '15B': 90.6, '15A': 63.0, '15F': 48.8, '23A': 31.1}",1,90.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319735,"{'16F': 71.9, '28F': 43.8, '28A': 41.0, '18A': 34.4, '18F': 34.1}",1,71.9,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259395,"{'38': 90.8, '25F': 86.8, '25A': 85.8, '36': 15.7, '01': 7.4}",1,90.8,25F_25A_38,25F_25A_38,,"[[0], [18]]","{'wcyD': ['b: 22.59'], 'wcyV': 4.69}","{'wcyD': 0, 'wcyV': 'not_detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282785,"{'11D': 99.9, '11A': 97.1, '11F': 42.0, '11C': 35.8, '11B': 34.3}",1,99.9,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900040705,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329925,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001094965,"{'09A': 99.7, '09V': 99.5, '09N': 36.7, '09L': 35.5, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031915,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019399505,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030765,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001159445,"{'09A': 99.7, '09V': 99.5, '09N': 36.8, '09L': 35.6, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304565,"{'09A': 99.7, '09V': 99.5, '09N': 37.8, '09L': 36.5, '06A-IV': 27.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001118865,"{'36': 13.0, '20': 8.1, '06A-IV': 7.6, '01': 6.7, '45': 6.3}",2,13.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307805,"{'23F': 99.2, '23A': 65.4, '23B': 49.0, '28A': 48.1, '06A-IV': 47.3}",1,99.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001127205,"{'31': 99.6, '41A': 57.1, '41F': 49.0, '06A-II': 36.3, '06A-VI': 36.3}",1,99.6,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194365,"{'15A': 99.8, '15F': 74.1, '15C': 61.9, '15B': 61.8, '23F': 31.6}",1,99.8,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241365,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230895,"{'12F': 96.4, '44': 93.4, '12B': 93.3, '12A': 84.8, '46': 81.7}",1,96.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264085,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001109925,"{'10F': 98.2, '10C': 80.9, '10B': 22.4, '10A': 19.2, '22F': 14.3}",1,98.2,,10F,,,{},{},10F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900064005,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329875,"{'09A': 99.5, '09V': 99.3, '09N': 38.4, '09L': 36.5, '11F': 26.6}",1,99.5,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021216635,"{'03': 95.2, '36': 17.4, '01': 16.8, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303745,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263925,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.6, '20': 8.0}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336065,"{'06A': 96.6, '06B': 87.6, '06A-IV': 86.8, '06A-I': 86.5, '06B-II': 86.3}",1,96.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320005,"{'19A': 92.2, '19A-III': 92.0, '19A-II': 82.9, '19A-I': 80.9, '19AF': 55.9}",1,92.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303945,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227655,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263385,"{'06A-III': 85.5, '06A-VI': 85.4, '06A-II': 85.3, '06A-V': 85.0, '06A': 84.0}",1,85.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245475,"{'27': 99.7, '06B-I': 41.5, '06A-III': 41.2, '22F': 41.0, '06C': 40.6}",1,99.7,,27,,,{},{},27,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230365,"{'01': 6.9, '45': 6.1, '20': 5.9, '25F': 5.5, '25A': 5.4}",2,6.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258825,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246305,"{'05': 95.2, '45': 22.3, '36': 21.8, '20': 19.8, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001336435,"{'01': 6.9, '45': 6.2, '20': 5.4, '36': 5.4, '22F': 5.1}",2,6.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290815,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295675,"{'35F': 99.1, '47F': 74.4, '34': 26.7, '35B': 26.4, '29': 22.5}",1,99.1,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316025,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031305,"{'11D': 99.9, '11A': 97.1, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,99.9,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305685,"{'12F': 95.9, '12B': 93.3, '44': 92.9, '12A': 84.8, '46': 81.7}",1,95.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318675,"{'14': 93.3, '36': 27.3, '09L': 25.8, '09N': 25.3, '15B': 24.2}",1,93.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001210405,"{'23F': 94.5, '23A': 63.5, '06A-IV': 53.2, '06B-II': 51.6, '23B': 50.8}",1,94.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000233085,"{'06C-I': 88.9, '06C': 88.8, '06D': 86.7, '06A-I': 77.5, '06B': 77.2}",1,88.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022755,"{'14': 92.6, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263755,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223725,"{'01': 99.8, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.3}",1,99.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346695,"{'06A-II': 87.3, '06A-VI': 87.3, '06A': 86.0, '06A-IV': 85.2, '06A-V': 85.0}",1,87.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001340715,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001153565,"{'23F': 94.5, '23A': 63.6, '28A': 47.7, '23B': 46.9, '06A': 46.4}",1,94.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001140545,"{'19F': 94.7, '19F-I': 94.2, '19F-III': 93.1, '19F-II': 91.8, '19F-IV': 88.1}",1,94.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335115,"{'19A-II': 99.0, '19A-I': 97.1, '19A': 85.7, '19A-III': 85.5, '19AF': 62.0}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001119785,"{'25F': 7.0, '25A': 6.8, '45': 6.7, '38': 4.8, '35B': 4.3}",3,7.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001110265,"{'40': 99.6, '07B': 93.9, '07C': 75.4, '24F2': 48.2, '24F': 47.9}",1,99.6,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001135925,"{'25F': 6.5, '25A': 6.3, '01': 5.3, '45': 5.3, '22F': 5.2}",1,6.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296985,"{'18F': 97.4, '18B': 75.2, '18C': 75.2, '18A': 61.0, '16F': 42.6}",1,97.4,,18F,,,{},{},18F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001151525,"{'23F': 94.5, '23A': 63.5, '06A-IV': 53.0, '06B-II': 51.6, '06A-V': 50.8}",1,94.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215875,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286755,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245065,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246375,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274735,"{'17F': 82.3, '06A-I': 42.1, '06B': 41.7, '06A': 41.1, '22F': 40.2}",1,82.3,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337655,"{'10A': 98.9, '10B': 67.1, '10C': 27.5, '10F': 18.1, '22F': 15.4}",1,98.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214165,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001119105,"{'14': 95.1, '36': 26.2, '09L': 24.4, '15B': 24.3, '15C': 24.2}",1,95.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226795,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288595,"{'02': 92.6, '22F': 40.2, '06B-I': 38.9, '06A-III': 38.8, '06A-II': 38.6}",1,92.6,,2,,,{},{},2,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233135,"{'02': 92.1, '22F': 39.8, '06B-I': 38.6, '06A-III': 38.5, '06A-II': 38.4}",1,92.1,,2,,,{},{},2,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001173545,"{'18C': 88.5, '18B': 88.4, '18F': 78.0, '18A': 60.5, '16F': 37.9}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286475,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301695,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.6, '19A-III': 87.4, '19AF': 61.9}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 92.87]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002889275,"{'34': 92.9, '33F2': 34.7, '35B': 31.5, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001094325,"{'18C': 88.6, '18B': 88.5, '18F': 78.1, '18A': 61.8, '16F': 37.9}",1,88.6,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000251365,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168475,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290995,"{'17A': 96.6, '41F': 49.5, '22F': 42.1, '06B': 39.9, '06A': 39.8}",1,96.6,,17A,,,{},{},17A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189065,"{'14': 92.4, '36': 28.0, '09L': 24.6, '15B': 24.2, '15C': 24.1}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213945,"{'15C': 90.6, '15B': 90.5, '15A': 62.9, '15F': 48.7, '23A': 31.0}",1,90.6,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320195,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301495,"{'35B': 99.7, '33F': 33.7, '35C': 33.5, '34': 33.2, '35A': 33.1}",1,99.7,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065465,"{'19A': 99.9, '19A-III': 99.7, '19A-I': 86.1, '19A-II': 83.6, '19AF': 57.2}",1,99.9,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311825,"{'19A-I': 97.8, '19A-II': 96.9, '19A': 86.3, '19A-III': 86.1, '19AF': 61.6}",1,97.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312295,"{'05': 95.3, '45': 22.8, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001083645,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307325,"{'34': 98.6, '33F2': 35.2, '35B': 33.5, '33F': 29.8, '33C': 28.5}",1,98.6,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900046675,"{'06B-I': 99.7, '06A-III': 97.6, '06B-II': 90.3, '06A': 89.8, '06A-V': 88.4}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001164465,"{'36': 11.5, '20': 7.5, '23B1': 5.6, '45': 5.5, '06B-I': 5.5}",1,11.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214675,"{'06A-III': 94.3, '06B-I': 92.9, '06A': 90.7, '06A-IV': 89.9, '06B-II': 89.8}",1,94.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031135,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027235,"{'03': 95.2, '01': 17.3, '36': 17.1, '20': 15.9, '09L': 15.6}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021405,"{'08': 99.5, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.2, '06B-II': 24.1}",1,99.5,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001149785,"{'36': 12.3, '20': 7.8, '06A-IV': 7.5, '23B1': 7.4, '06C': 6.1}",1,12.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326405,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237625,"{'05': 95.2, '45': 22.3, '36': 21.9, '20': 20.4, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266665,"{'15C': 87.8, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242735,"{'13': 98.9, '20': 28.9, '09N': 28.8, '09L': 28.7, '36': 28.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308665,"{'17F': 74.0, '24A': 49.9, '48': 43.5, '23A': 43.4, '19F-II': 42.5}",1,74.0,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276865,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.5, '46': 81.4}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262125,"{'35A': 94.4, '35C': 89.7, '42': 89.1, '33A': 46.3, '33F': 45.9}",1,94.4,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001166225,"{'21': 92.2, '22F': 34.5, '06A-IV': 34.3, '06A-II': 34.0, '06A-VI': 34.0}",1,92.2,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338295,"{'11F': 61.8, '11D': 38.4, '11A': 36.8, '09V': 25.4, '09A': 25.3}",1,61.8,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250365,"{'05': 95.2, '45': 22.2, '36': 21.5, '20': 20.1, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246955,"{'35B': 99.4, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278175,"{'01': 98.6, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.6,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194825,"{'15A': 99.6, '15F': 73.9, '15C': 61.8, '15B': 61.7, '23F': 31.5}",1,99.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268255,"{'09A': 99.4, '09V': 99.2, '09N': 37.6, '09L': 37.1, '06A-IV': 27.4}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235675,"{'31': 99.7, '41A': 57.3, '41F': 49.0, '06A-II': 36.5, '06A-VI': 36.5}",1,99.7,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274275,"{'06B-I': 96.0, '06A-III': 93.9, '06A': 90.0, '06B-II': 88.4, '06A-V': 86.5}",1,96.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288575,"{'13': 83.3, '36': 28.9, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_015839915,"{'24F2': 99.7, '24B': 88.5, '24F': 87.0, '24A': 71.0, '07B': 56.8}",1,99.7,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023575,"{'19A': 99.5, '19A-III': 99.3, '19A-I': 86.2, '19A-II': 84.0, '19AF': 57.2}",1,99.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322125,"{'19F': 94.9, '19F-I': 94.1, '19F-III': 93.3, '19F-II': 91.7, '19F-IV': 88.0}",1,94.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265325,"{'14': 95.0, '36': 28.4, '09L': 25.5, '09N': 24.5, '15B': 24.2}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275985,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240735,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287845,"{'11D': 80.2, '11A': 78.9, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.2,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001094585,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216425,"{'14': 91.3, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001133125,"{'22F': 88.0, '22A': 71.4, '06A': 39.6, '06A-III': 39.5, '06A-I': 39.4}",1,88.0,,22F,,,{},{},22F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019446665,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334605,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021225,"{'04': 99.5, '45': 33.2, '12F': 23.2, '44': 23.0, '12A': 22.1}",1,99.5,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275095,"{'09L': 99.7, '09N': 89.1, '36': 31.9, '09A': 31.2, '09V': 31.2}",1,99.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267525,"{'14': 91.3, '19F-IV': 25.9, '09L': 24.8, '09N': 24.7, '36': 23.9}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_012911805,"{'03': 94.2, '01': 17.5, '09N': 15.7, '20': 15.6, '09L': 15.2}",1,94.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900188775,"{'06C-I': 96.1, '06C': 95.9, '06D': 82.6, '06A-II': 76.4, '06A-VI': 76.4}",1,96.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252865,"{'01': 99.1, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063375,"{'19A': 99.8, '19A-III': 99.6, '19A-I': 86.0, '19A-II': 83.5, '19AF': 57.0}",1,99.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286325,"{'33F2': 100.0, '33F': 74.7, '33A': 70.3, '34': 41.7, '35B': 32.4}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301915,"{'14': 92.8, '36': 27.3, '09L': 25.8, '09N': 25.5, '15B': 24.3}",1,92.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220985,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263545,"{'06D': 87.8, '06C-I': 85.5, '06C': 85.3, '06A': 79.0, '06A-IV': 78.6}",1,87.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 86.1']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001143845,"{'36': 11.4, '20': 8.1, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",2,11.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262535,"{'14': 91.3, '19F-IV': 25.9, '36': 25.4, '09L': 25.2, '09N': 24.7}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001138385,"{'10F': 100.0, '10C': 82.1, '10B': 21.7, '10A': 18.7, '47A': 13.5}",1,100.0,,10F,,,{},{},10F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907166995,"{'09A': 99.3, '09V': 99.1, '09N': 36.4, '09L': 35.1, '11F': 26.6}",1,99.3,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289285,"{'16F': 95.6, '28F': 41.8, '18F': 41.7, '28A': 40.1, '19F-II': 39.9}",1,95.6,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900042465,"{'22F': 99.1, '22A': 73.4, '06A-IV': 43.5, '06A': 42.6, '06B': 42.1}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233685,"{'15A': 98.3, '15F': 72.9, '15C': 61.6, '15B': 61.5, '23F': 32.2}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001121965,"{'22A': 94.0, '22F': 75.7, '06A-IV': 45.8, '06A-II': 44.1, '06B-I': 44.1}",1,94.0,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243285,"{'04': 99.8, '45': 33.9, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900692555,"{'06E': 85.1, '06B-III': 84.4, '06B-I': 50.9, '06A-III': 50.3, '06A-V': 49.8}",1,85.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168465,"{'09A': 99.4, '09V': 99.2, '09N': 38.7, '09L': 36.8, '11F': 26.5}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253335,"{'13': 83.7, '36': 32.6, '14': 27.2, '15B': 26.7, '15C': 26.3}",1,83.7,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250915,"{'35B': 44.2, '33B': 39.2, '33D': 35.7, '34': 31.8, '33F': 30.2}",1,44.2,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303315,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339975,"{'35A': 99.9, '35C': 85.2, '42': 84.6, '33A': 42.9, '33F': 42.6}",1,99.9,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001345995,"{'23F': 96.8, '23A': 66.4, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001206855,"{'35C': 99.6, '42': 98.6, '35A': 85.6, '33A': 45.3, '33F': 44.8}",1,99.6,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281365,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001092985,"{'06E': 100.0, '06B-III': 95.4, '06B-I': 42.7, '06A-I': 42.6, '06B': 42.2}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311015,"{'23A': 97.5, '23F': 68.8, '23B': 40.1, '19F-II': 39.2, '15B': 38.8}",1,97.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330465,"{'06A-I': 98.4, '06B': 94.4, '06A-V': 89.4, '06A': 87.4, '06A-III': 85.9}",1,98.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001122905,"{'15B': 99.8, '15C': 99.6, '15A': 62.7, '15F': 48.3, '23A': 32.9}",1,99.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224895,"{'04': 99.2, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291135,"{'06C-I': 87.8, '06C': 87.7, '06D': 87.1, '06A-I': 77.9, '06B': 77.6}",1,87.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218515,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191695,"{'21': 100.0, '22F': 34.8, '06A-IV': 32.2, '06A-II': 31.6, '06A-VI': 31.5}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001197695,"{'01': 6.4, '25F': 5.7, '45': 5.7, '20': 5.5, '25A': 5.5}",2,6.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261085,"{'22A': 94.2, '22F': 77.5, '06A-IV': 45.7, '06A-II': 44.0, '06B-I': 44.0}",1,94.2,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257505,"{'33D': 80.3, '33B': 75.4, '06A-I': 36.8, '06B': 35.4, '06A-IV': 35.3}",1,80.3,,"Mixed serotypes- {'33B', '33D'}",,,{},{},"Mixed serotypes- {'33B', '33D'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330135,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019446935,"{'45': 5.4, '25F': 5.2, '20': 5.1, '25A': 5.1, '38': 4.1}",1,5.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286645,"{'02': 93.2, '22F': 40.3, '06B-I': 39.0, '06A-III': 38.9, '06A-II': 38.7}",1,93.2,,2,,,{},{},2,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215065,"{'01': 99.3, '19F': 32.5, '19F-I': 32.1, '19F-III': 31.8, '19F-II': 31.5}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029465,"{'10B': 99.3, '10A': 65.2, '10F': 20.1, '10C': 18.8, '22F': 14.0}",1,99.3,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241015,"{'09A': 99.4, '09V': 99.2, '09N': 37.6, '09L': 37.2, '06A-IV': 27.5}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263635,"{'19F-III': 95.9, '19F': 94.6, '19F-I': 93.9, '19F-II': 91.2, '19F-IV': 88.3}",1,95.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225485,"{'13': 83.3, '36': 28.8, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901212685,"{'23F': 93.9, '23A': 63.4, '28A': 48.4, '23B': 46.9, '06A-III': 46.4}",1,93.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023395,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017815,"{'09N': 99.9, '09L': 88.8, '09A': 32.7, '09V': 32.7, '36': 31.9}",1,99.9,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316325,"{'09A': 96.0, '09V': 95.8, '09N': 38.7, '09L': 37.5, '11F': 26.7}",1,96.0,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292485,"{'19A-II': 99.0, '19A-I': 97.1, '19A': 85.7, '19A-III': 85.5, '19AF': 62.0}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025345,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302275,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226975,"{'16F': 95.6, '28F': 41.8, '18F': 41.7, '28A': 40.1, '18A': 39.9}",1,95.6,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341025,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306695,"{'21': 92.6, '22F': 36.2, '06A-IV': 34.2, '06A-III': 33.4, '06A-II': 33.2}",1,92.6,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001329055,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281965,"{'06A-V': 92.3, '06A-I': 92.0, '06A-III': 89.9, '06B': 88.8, '06B-I': 88.5}",1,92.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028655,"{'09A': 99.7, '09V': 99.5, '09N': 38.1, '09L': 36.5, '35B': 26.7}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900034975,"{'18C': 99.3, '18B': 99.2, '18F': 75.5, '18A': 62.2, '16F': 38.6}",1,99.3,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065865,"{'03': 75.1, '20': 6.6, '36': 6.3, '06A-IV': 6.1, '06C': 4.8}",1,75.1,,3,,,{},{},3,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291955,"{'09A': 99.3, '09V': 99.1, '09N': 38.5, '09L': 36.7, '11F': 27.0}",1,99.3,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900795155,"{'22F': 93.9, '22A': 70.2, '06A-II': 45.3, '06A-VI': 45.2, '06B-I': 45.2}",1,93.9,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001117825,"{'03': 97.4, '20': 15.5, '01': 14.8, '09N': 14.7, '09L': 14.4}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001155225,"{'06E': 100.0, '06B-III': 98.5, '06B-I': 46.1, '06A-III': 45.6, '06A-II': 44.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322465,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900046555,"{'09A': 99.7, '09V': 99.5, '09N': 38.1, '09L': 36.8, '35B': 26.7}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001148905,"{'19F-I': 95.4, '19F': 95.2, '19F-III': 93.7, '19F-II': 92.3, '19F-IV': 88.3}",1,95.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272995,"{'09L': 99.4, '09N': 90.2, '36': 32.7, '09A': 31.5, '09V': 31.5}",1,99.4,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336175,"{'13': 98.9, '20': 29.0, '09L': 28.5, '09N': 28.0, '36': 27.9}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237035,"{'34': 98.2, '33F2': 35.1, '35B': 33.6, '33F': 29.8, '33C': 28.5}",1,98.2,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308315,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303545,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252405,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241225,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329285,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303175,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056445,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262515,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256775,"{'01': 7.1, '06A-IV': 6.1, '25F': 5.9, '20': 5.7, '25A': 5.7}",3,7.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001202995,"{'04': 98.3, '45': 30.9, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001135325,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.8, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050705,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021021835,"{'02': 57.6, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220295,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001191835,"{'33B': 89.8, '33D': 89.7, '35B': 32.7, '33F2': 30.3, '22F': 26.3}",1,89.8,,"Mixed serotypes- {'33B', '33D'}",,,{},{},"Mixed serotypes- {'33B', '33D'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273595,"{'01': 99.5, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221415,"{'18A': 90.5, '18B': 54.1, '18C': 54.1, '18F': 53.5, '16F': 35.5}",1,90.5,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251095,"{'24F2': 99.7, '24B': 88.5, '24F': 87.0, '24A': 71.2, '07B': 55.3}",1,99.7,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001107325,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000279635,"{'07C': 99.1, '07B': 72.7, '40': 70.5, '24B': 48.8, '24F': 48.6}",1,99.1,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300745,"{'03': 75.1, '20': 7.9, '01': 7.2, '36': 7.1, '22F': 6.8}",1,75.1,,3,,,{},{},3,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262005,"{'13': 83.3, '36': 28.8, '09N': 25.9, '09L': 25.7, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228505,"{'23A': 97.4, '23F': 68.7, '23B': 40.0, '19F-II': 39.3, '15B': 39.1}",1,97.4,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253965,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241235,"{'09A': 99.7, '09V': 99.5, '09N': 38.2, '09L': 36.7, '06A-IV': 27.4}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307945,"{'14': 99.8, '09L': 27.0, '36': 25.9, '09N': 24.8, '15B': 24.1}",1,99.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001198635,"{'06A-II': 87.1, '06A-VI': 87.1, '06A': 85.9, '06A-IV': 85.0, '06A-V': 84.8}",1,87.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320355,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001201415,"{'33B': 89.8, '33D': 89.7, '35B': 32.8, '33F2': 30.3, '22F': 26.4}",1,89.8,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268155,"{'11D': 96.5, '11A': 95.3, '11F': 43.3, '11C': 36.2, '11B': 34.8}",1,96.5,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342265,"{'03': 75.1, '20': 7.9, '01': 7.1, '36': 7.0, '22F': 6.8}",1,75.1,,3,,,{},{},3,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001205055,"{'18C': 88.6, '18B': 88.5, '18F': 78.1, '18A': 59.7, '16F': 37.9}",1,88.6,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221005,"{'34': 92.2, '33F2': 34.9, '35B': 31.8, '33F': 29.1, '33C': 28.4}",1,92.2,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001209305,"{'46': 98.7, '12A': 96.4, '12B': 84.3, '44': 82.3, '12F': 82.1}",1,98.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[4]],"{'wciI': [1, 100.0]}",{'wciI': 1},12A/12B/44/46,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019715,"{'23B': 99.5, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.8}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286385,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001083045,"{'10A': 94.2, '10B': 64.8, '10C': 29.3, '10F': 19.7, '47A': 16.8}",1,94.2,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315255,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338595,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291705,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001132585,"{'19B': 95.7, '19C': 70.0, '19F-II': 53.9, '19F-I': 53.1, '19F': 53.0}",1,95.7,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001098705,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001142865,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001084665,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337925,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192695,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262545,"{'21': 99.9, '22F': 36.1, '06A-IV': 32.5, '06A-II': 31.8, '06A-VI': 31.7}",1,99.9,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259065,"{'19A': 99.8, '19A-III': 99.6, '19A-I': 86.0, '19A-II': 83.5, '19AF': 57.0}",1,99.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223675,"{'01': 7.1, '20': 6.1, '06A-IV': 6.1, '25F': 5.7, '36': 5.7}",3,7.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341535,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A': 46.2}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025925,"{'14': 100.0, '09L': 26.8, '36': 26.0, '09N': 24.8, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900036175,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900064945,"{'03': 95.2, '01': 17.3, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170915,"{'14': 92.2, '36': 28.9, '09L': 25.6, '09N': 24.4, '15B': 23.9}",1,92.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236545,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300605,"{'23F': 97.4, '23A': 65.7, '28A': 47.1, '23B': 46.4, '06A': 46.1}",1,97.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234475,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300255,"{'09A': 99.5, '09V': 99.3, '09N': 37.1, '09L': 35.7, '11F': 26.6}",1,99.5,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226625,"{'23F': 99.0, '23A': 64.8, '06A-IV': 47.9, '23B': 47.7, '28A': 47.5}",1,99.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001149625,"{'14': 89.7, '36': 29.2, '09L': 23.1, '19F-II': 22.2, '09N': 21.9}",1,89.7,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901212875,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223775,"{'06E': 100.0, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342875,"{'38': 97.6, '25F': 84.3, '25A': 83.3, '36': 13.1, '20': 7.5}",1,97.6,25F_25A_38,25F_25A_38,,"[[0], [19]]","{'wcyD': ['b: 80.0'], 'wcyV': 100.0}","{'wcyD': 0, 'wcyV': 'detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021205,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022905,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001334395,"{'28F': 98.3, '28A': 91.9, '23F': 47.5, '16F': 46.0, '06B-I': 42.5}",1,98.3,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224685,"{'06E': 100.0, '06B-III': 99.2, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001141005,"{'36': 6.8, '45': 6.8, '25F': 6.7, '25A': 6.5, '20': 5.4}",2,6.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024595,"{'04': 99.8, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001860795,"{'22F': 98.9, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-I': 41.8}",1,98.9,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227705,"{'16F': 71.5, '28F': 43.1, '28A': 40.6, '18F': 33.6, '18A': 32.6}",1,71.5,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019457085,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191515,"{'15B': 99.7, '15C': 99.6, '15A': 62.6, '15F': 48.2, '23A': 32.8}",1,99.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900016895,"{'03': 95.2, '01': 17.2, '36': 17.1, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342125,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298185,"{'01': 7.5, '45': 6.3, '25F': 5.8, '25A': 5.6, '22F': 5.0}",4,7.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299065,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017725,"{'06B-I': 99.6, '06A-III': 97.5, '06B-II': 90.1, '06A': 89.8, '06A-V': 88.2}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001135265,"{'01': 6.3, '45': 5.8, '25F': 5.7, '25A': 5.5, '20': 5.4}",3,6.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313765,"{'15C': 86.8, '15B': 86.7, '15A': 63.8, '15F': 49.1, '23A': 30.2}",1,86.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051505,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900034515,"{'15C': 94.0, '15B': 93.8, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,94.0,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000279575,"{'09A': 99.5, '09V': 99.3, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.5,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326965,"{'15C': 90.7, '15B': 90.5, '15A': 63.0, '15F': 48.8, '23A': 31.1}",1,90.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256485,"{'05': 95.0, '45': 22.6, '36': 21.6, '20': 20.4, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331855,"{'09N': 100.0, '09L': 89.2, '09A': 32.7, '09V': 32.7, '36': 32.4}",1,100.0,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190195,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 25.5, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215525,"{'06E': 99.3, '06B-III': 99.1, '06B-I': 46.6, '06A-III': 46.0, '06A-II': 45.1}",1,99.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 96.61]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024905,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001111365,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194715,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263655,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288935,"{'01': 99.9, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.3}",1,99.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309995,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319965,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221705,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318455,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.0, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282065,"{'01': 99.0, '19F': 32.0, '19F-I': 31.5, '19F-III': 31.3, '19F-II': 31.0}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339795,"{'18F': 99.5, '18B': 71.1, '18C': 71.1, '18A': 60.1, '16F': 41.4}",1,99.5,,18F,,,{},{},18F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246135,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001145785,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267545,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001301915,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245335,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245185,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250935,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314105,"{'15A': 99.6, '15F': 73.9, '15C': 62.3, '15B': 62.2, '23F': 31.3}",1,99.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001128465,"{'07B': 100.0, '40': 92.5, '07C': 76.8, '24F2': 47.9, '24F': 47.3}",1,100.0,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217195,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.4}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171295,"{'14': 92.7, '36': 28.3, '09L': 25.2, '15B': 24.2, '15C': 24.1}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275335,"{'03': 95.2, '36': 17.4, '01': 16.7, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168405,"{'09A': 99.7, '09V': 99.5, '09N': 38.2, '09L': 36.8, '35B': 26.7}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001118205,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901343115,"{'11B': 99.6, '11C': 89.2, '11A': 31.8, '11D': 31.5, '11F': 25.9}",1,99.6,,11B/11C,,,{},{},11B/11C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001116005,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283255,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001144205,"{'23F': 97.0, '23A': 63.9, '23B': 48.0, '28A': 47.7, '06B-II': 46.1}",1,97.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900039405,"{'19A-II': 100.0, '19A-I': 96.6, '19A': 85.0, '19A-III': 84.8, '19AF': 62.1}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168035,"{'09A': 99.7, '09V': 99.5, '09N': 37.3, '09L': 35.8, '06A-IV': 26.9}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215475,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222805,"{'05': 95.3, '45': 22.5, '36': 21.7, '20': 19.9, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001126445,"{'34': 93.0, '33F2': 34.7, '35B': 31.9, '33F': 29.0, '33C': 28.0}",1,93.0,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291415,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281065,"{'19F-I': 97.7, '19F': 97.0, '19F-III': 96.5, '19F-II': 95.0, '19F-IV': 90.1}",1,97.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309395,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001604775,"{'22F': 93.9, '22A': 70.2, '06A-II': 45.3, '06A-VI': 45.2, '06B-I': 45.2}",1,93.9,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327115,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299145,"{'01': 98.9, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264655,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.5, '46': 81.4}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026055,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192555,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320735,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001112985,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263595,"{'03': 97.4, '01': 17.7, '20': 15.5, '09N': 15.3, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219085,"{'19F-I': 97.8, '19F': 97.1, '19F-III': 96.6, '19F-II': 95.1, '19F-IV': 90.2}",1,97.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234655,"{'18C': 99.5, '18B': 99.4, '18F': 75.4, '18A': 62.5, '16F': 39.2}",1,99.5,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216235,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233105,"{'03': 97.4, '01': 17.6, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901212805,"{'18A': 90.3, '18B': 54.1, '18C': 54.1, '18F': 53.5, '16F': 35.5}",1,90.3,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316045,"{'14': 93.2, '36': 27.3, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234215,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232865,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",2,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307035,"{'14': 100.0, '09L': 26.9, '36': 26.1, '09N': 24.6, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237585,"{'14': 92.5, '36': 28.9, '09L': 25.7, '09N': 24.6, '15B': 24.1}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029575,"{'06A-I': 100.0, '06B': 94.5, '06A-V': 89.1, '06A': 87.1, '06A-III': 85.8}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253705,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.7, '06B-II': 35.1, '06A-V': 34.9}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313105,"{'22F': 96.3, '22A': 73.4, '06A': 42.6, '06A-II': 42.3, '06A-VI': 42.2}",1,96.3,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001210085,"{'38': 88.4, '25F': 84.6, '25A': 83.8, '36': 11.9, '20': 7.9}",1,88.4,25F_25A_38,25F_25A_38,,"[[0], [18]]","{'wcyD': ['b: 22.59'], 'wcyV': 4.69}","{'wcyD': 0, 'wcyV': 'not_detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314765,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.0, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303695,"{'03': 94.9, '01': 17.9, '36': 17.2, '09N': 15.9, '20': 15.8}",1,94.9,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001084265,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194785,"{'15C': 93.9, '15B': 93.8, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020139365,"{'35B': 99.6, '33F': 33.6, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.6,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238965,"{'23F': 96.7, '23A': 63.8, '23B': 47.9, '28A': 47.6, '06B-II': 46.1}",1,96.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214465,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190415,"{'06A-IV': 99.9, '06A': 99.7, '06B-II': 95.1, '06A-V': 93.5, '06A-III': 91.4}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050115,"{'10B': 93.7, '10A': 69.9, '10F': 20.0, '10C': 18.7, '22F': 13.6}",1,93.7,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018865,"{'18C': 99.7, '18B': 99.6, '18F': 75.6, '18A': 62.1, '16F': 39.3}",1,99.7,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266295,"{'34': 98.7, '33F2': 35.2, '35B': 33.6, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262245,"{'21': 99.3, '22F': 35.7, '06A-IV': 30.9, '06B': 30.2, '06A': 30.1}",1,99.3,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252625,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248115,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215925,"{'06A-II': 87.1, '06A-VI': 87.1, '06A-III': 86.7, '06B-I': 85.6, '06A-V': 85.4}",1,87.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001092645,"{'20': 5.4, '25F': 5.1, '36': 5.1, '25A': 4.9, '45': 4.9}",1,5.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001087665,"{'01': 7.4, '36': 6.4, '06A-IV': 6.3, '20': 6.1, '45': 5.5}",2,7.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328735,"{'19F': 97.3, '19F-I': 96.3, '19F-III': 95.5, '19F-II': 95.4, '19F-IV': 90.9}",1,97.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025355,"{'03': 94.7, '01': 17.2, '36': 16.4, '09L': 15.5, '09N': 15.4}",1,94.7,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001085105,"{'35B': 98.2, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,98.2,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307275,"{'15C': 87.8, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900060925,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338255,"{'33B': 89.8, '33D': 89.7, '35B': 32.7, '33F2': 30.3, '22F': 26.4}",1,89.8,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257355,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001152865,"{'19B': 95.8, '19C': 70.1, '19F-II': 53.9, '19F-I': 53.1, '19F': 53.0}",1,95.8,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264615,"{'06E': 99.9, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001135145,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244135,"{'13': 98.9, '09N': 29.1, '09L': 28.7, '20': 28.2, '36': 27.9}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001348195,"{'35F': 80.2, '47F': 56.8, '35B': 27.0, '34': 21.0, '36': 18.7}",1,80.2,,35F,,,{},{},35F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232905,"{'19A-II': 98.0, '19A-I': 96.2, '19A': 84.9, '19A-III': 84.7, '19AF': 61.4}",1,98.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228925,"{'16F': 71.5, '28F': 43.1, '28A': 40.6, '18F': 33.6, '18A': 32.9}",1,71.5,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337395,"{'23A': 97.5, '23F': 68.8, '23B': 40.1, '19F-II': 39.1, '15B': 38.8}",1,97.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280685,"{'22F': 96.4, '22A': 73.4, '06A': 42.6, '06A-II': 42.3, '06A-VI': 42.2}",1,96.4,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245235,"{'21': 99.7, '22F': 36.1, '06A-II': 33.2, '06A-VI': 33.1, '06A-III': 32.7}",1,99.7,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337065,"{'06E': 84.5, '06B-III': 78.2, '19AF': 31.4, '23B1': 30.3, '19A-II': 29.0}",1,84.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001125705,"{'19F-I': 95.5, '19F': 95.2, '19F-III': 93.7, '19F-II': 92.4, '19F-IV': 88.4}",1,95.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326065,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324245,"{'09N': 99.7, '09L': 88.7, '09A': 32.4, '09V': 32.4, '36': 30.5}",1,99.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001147305,"{'14': 99.7, '09L': 26.7, '36': 25.8, '09N': 24.4, '15B': 24.1}",1,99.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305345,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273565,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336565,"{'01': 7.7, '25F': 6.0, '45': 5.9, '25A': 5.8, '06A-IV': 5.7}",3,7.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269185,"{'35A': 92.4, '35C': 89.8, '42': 89.2, '33A': 45.0, '33F': 44.4}",1,92.4,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276275,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001208105,"{'36': 10.7, '20': 7.9, '23B1': 7.0, '06A-IV': 7.0, '45': 6.0}",1,10.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223275,"{'01': 99.9, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.3}",1,99.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025085,"{'04': 99.8, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001345735,"{'06C': 85.6, '06C-I': 85.6, '06D': 84.7, '06A': 77.0, '06A-IV': 73.3}",1,85.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263475,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020008085,"{'03': 98.2, '01': 17.7, '20': 16.4, '09N': 15.7, '09L': 15.5}",1,98.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001169205,"{'14': 95.1, '36': 26.3, '09L': 24.9, '15B': 24.3, '15C': 24.2}",1,95.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288735,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398125,"{'34': 93.0, '33F2': 34.6, '35B': 32.2, '33F': 29.0, '33C': 28.0}",1,93.0,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322855,"{'05': 94.8, '45': 22.2, '36': 20.8, '12A': 19.7, '46': 19.6}",1,94.8,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001165065,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334665,"{'05': 95.2, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244685,"{'14': 91.4, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232515,"{'14': 91.4, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234515,"{'12F': 95.8, '12B': 93.2, '44': 92.8, '12A': 84.7, '46': 81.6}",1,95.8,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024115,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221465,"{'33F2': 98.3, '33F': 75.0, '33A': 70.6, '34': 42.6, '35B': 32.4}",1,98.3,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318295,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329545,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328235,"{'06A-I': 98.1, '06B': 95.1, '06A': 88.3, '06A-V': 84.9, '06A-III': 83.1}",1,98.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050745,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907172205,"{'14': 92.8, '36': 25.0, '09L': 24.7, '15B': 24.3, '15C': 24.2}",1,92.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214095,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275015,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.7, '06B-II': 35.1, '06A-V': 34.9}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240075,"{'11D': 99.7, '11A': 96.9, '11F': 41.9, '11C': 35.5, '11B': 34.0}",1,99.7,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226875,"{'15B': 99.7, '15C': 99.5, '15A': 62.7, '15F': 48.3, '23A': 33.1}",1,99.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023325,"{'01': 99.5, '19F': 32.0, '19F-I': 31.6, '19F-III': 31.3, '19F-II': 31.1}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259935,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019456615,"{'03': 94.0, '01': 18.3, '36': 16.2, '20': 15.9, '09L': 15.8}",1,94.0,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252475,"{'19F': 97.4, '19F-I': 96.4, '19F-III': 95.6, '19F-II': 95.5, '19F-IV': 91.0}",1,97.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331915,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001143765,"{'14': 89.9, '36': 29.3, '09L': 23.1, '19F-II': 22.2, '09N': 21.9}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313835,"{'14': 92.5, '36': 28.9, '09L': 25.7, '09N': 24.6, '15B': 24.1}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337035,"{'13': 98.8, '20': 29.0, '09L': 28.4, '09N': 28.2, '36': 28.0}",1,98.8,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020140555,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001334115,"{'36': 9.4, '01': 5.9, '23B1': 5.1, '06A-IV': 5.0, '20': 4.5}",1,9.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326265,"{'01': 7.1, '20': 6.1, '06A-IV': 6.1, '25F': 5.7, '36': 5.7}",3,7.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264325,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263425,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.5, '23B': 48.2, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307665,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261215,"{'35B': 99.3, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.3,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246965,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226725,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001134565,"{'25F': 6.6, '45': 6.6, '25A': 6.4, '22F': 4.8, '38': 4.7}",3,6.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001125645,"{'35B': 94.8, '33F': 33.9, '35C': 33.6, '35A': 33.2, '34': 33.1}",1,94.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001210585,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019397685,"{'23A': 97.5, '23F': 68.8, '23B': 40.1, '19F-II': 39.2, '15B': 38.8}",1,97.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900089345,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265055,"{'23B': 80.5, '23B1': 64.6, '06A-IV': 33.1, '06B-II': 33.1, '06A-V': 32.9}",1,80.5,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033905,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339005,"{'17F': 99.8, '06B': 44.5, '06D': 43.7, '06A-I': 43.7, '06B-I': 43.4}",1,99.8,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031975,"{'08': 99.7, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.7,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225565,"{'04': 99.8, '45': 33.4, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900061955,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001197295,"{'21': 93.2, '22F': 37.1, '06A-II': 31.4, '06A-IV': 31.4, '06A-VI': 31.3}",1,93.2,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293275,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053035,"{'15C': 96.2, '15B': 96.1, '15A': 61.5, '15F': 47.8, '23A': 34.7}",1,96.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259585,"{'19B': 92.6, '19C': 72.8, '19F-II': 51.4, '19F-IV': 51.1, '19F-I': 50.8}",1,92.6,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282625,"{'15A': 99.9, '15F': 74.3, '15C': 61.9, '15B': 61.8, '23F': 31.7}",1,99.9,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238095,"{'03': 95.2, '36': 17.1, '01': 16.9, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275455,"{'14': 91.4, '36': 26.7, '09L': 26.6, '09N': 26.3, '15B': 23.4}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171105,"{'14': 92.5, '36': 28.0, '09L': 25.6, '09N': 24.7, '15B': 24.2}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270935,"{'09N': 99.7, '09L': 88.7, '09A': 32.4, '09V': 32.4, '36': 30.5}",1,99.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335555,"{'11F': 61.8, '11D': 38.4, '11A': 36.8, '09V': 25.4, '09A': 25.3}",1,61.8,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900046905,"{'03': 95.2, '01': 17.2, '36': 16.4, '09N': 15.8, '20': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065495,"{'06C-I': 99.9, '06C': 99.7, '06D': 84.6, '06A-II': 79.6, '06A-VI': 79.6}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294055,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001090765,"{'03': 95.2, '36': 17.0, '01': 16.3, '20': 15.7, '09L': 14.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276925,"{'09N': 99.7, '09L': 88.5, '09A': 32.4, '09V': 32.4, '36': 30.5}",1,99.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337415,"{'19F-I': 95.3, '19F': 95.0, '19F-III': 93.5, '19F-II': 92.2, '19F-IV': 88.2}",1,95.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023165,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001340535,"{'40': 99.6, '07B': 93.9, '07C': 75.4, '24F2': 48.2, '24F': 47.9}",1,99.6,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314535,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243395,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311885,"{'33F2': 99.6, '33F': 74.5, '33A': 70.1, '34': 41.6, '35B': 32.3}",1,99.6,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257445,"{'19F-I': 97.8, '19F': 97.1, '19F-III': 96.6, '19F-II': 95.1, '19F-IV': 90.2}",1,97.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336825,"{'10A': 93.8, '10B': 64.6, '10C': 29.0, '10F': 19.4, '47A': 16.2}",1,93.8,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336675,"{'17F': 99.7, '06B': 44.4, '06B-I': 43.7, '06D': 43.6, '06A-III': 43.6}",1,99.7,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217225,"{'11A': 99.3, '11D': 96.9, '11F': 40.1, '11C': 36.2, '11B': 34.8}",1,99.3,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339615,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191415,"{'23F': 99.0, '23A': 64.8, '23B': 47.6, '28A': 47.5, '06A-V': 45.8}",1,99.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242125,"{'06B-II': 100.0, '06A-V': 95.9, '06A': 94.5, '06A-IV': 92.3, '06A-II': 92.1}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047595,"{'19A-II': 100.0, '19A-I': 96.6, '19A': 85.0, '19A-III': 84.8, '19AF': 62.1}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001085825,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001326675,"{'03': 95.2, '36': 16.5, '20': 15.2, '14': 14.1, '01': 13.4}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228985,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-I': 41.8}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274805,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001336095,"{'35F': 92.3, '47F': 68.2, '34': 26.6, '35B': 25.9, '29': 21.2}",1,92.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339365,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301105,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001127765,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278545,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262375,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299445,"{'29': 96.8, '39': 21.1, '22F': 17.3, '35F': 17.3, '35B': 16.8}",1,96.8,,29,,,{},{},29,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190165,"{'06B-I': 99.6, '06A-III': 97.5, '06B-II': 90.1, '06A': 89.8, '06A-V': 88.2}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001167565,"{'06A': 90.4, '06A-III': 89.4, '06A-II': 89.3, '06A-VI': 89.3, '06B-II': 89.3}",1,90.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192605,"{'21': 99.8, '22F': 34.2, '06A-IV': 33.7, '06A-II': 33.0, '06A-VI': 32.9}",1,99.8,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267025,"{'13': 98.9, '09N': 29.1, '20': 28.9, '09L': 28.7, '36': 28.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296035,"{'01': 99.9, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.3}",1,99.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001146885,"{'01': 6.9, '45': 5.8, '25F': 5.6, '20': 5.4, '25A': 5.4}",2,6.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257265,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303145,"{'10A': 94.2, '10B': 64.8, '10C': 29.3, '10F': 19.7, '47A': 16.8}",1,94.2,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192875,"{'23B': 99.4, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.6}",1,99.4,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222875,"{'34': 93.0, '33F2': 34.8, '35B': 32.3, '33F': 29.0, '33C': 28.4}",1,93.0,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336135,"{'14': 94.3, '36': 25.7, '09L': 25.2, '09N': 24.6, '15B': 24.3}",1,94.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217645,"{'06E': 97.0, '06B-III': 94.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.7}",1,97.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001140525,"{'06A-I': 98.3, '06B': 94.3, '06A-V': 89.2, '06A': 87.4, '06A-III': 85.7}",1,98.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233925,"{'40': 99.6, '07B': 93.9, '07C': 75.4, '24F2': 48.2, '24F': 47.9}",1,99.6,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241855,"{'14': 91.3, '19F-IV': 25.9, '09L': 25.2, '36': 25.1, '09N': 24.6}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213015,"{'14': 93.4, '36': 27.3, '09L': 25.9, '09N': 25.2, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900036685,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.4, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051155,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339965,"{'35B': 99.7, '33F': 33.7, '35C': 33.5, '34': 33.2, '35A': 33.1}",1,99.7,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001122585,"{'36': 11.8, '20': 8.1, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",1,11.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285845,"{'06A': 92.5, '06A-V': 90.3, '06B-II': 88.9, '06A-III': 88.7, '06A-IV': 87.4}",1,92.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329775,"{'09L': 99.7, '09N': 89.4, '36': 31.9, '09A': 31.2, '09V': 31.2}",1,99.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267005,"{'34': 92.9, '33F2': 34.5, '35B': 31.8, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057855,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223445,"{'01': 99.2, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296455,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255795,"{'06C-I': 87.9, '06C': 87.8, '06D': 87.2, '06A-I': 78.0, '06B': 77.7}",1,87.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190875,"{'19A-II': 100.0, '19A-I': 96.6, '19A': 85.0, '19A-III': 84.8, '19AF': 62.1}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001130465,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001086905,"{'06E': 100.0, '06B-III': 99.2, '06B-I': 46.6, '06A-III': 46.1, '06A-II': 45.1}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284915,"{'08': 99.9, '06A-II': 26.5, '06A-VI': 26.4, '06B-II': 25.8, '06A-V': 25.4}",1,99.9,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242035,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261155,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.5, '46': 81.4}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021925,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299475,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321235,"{'07C': 97.9, '07B': 76.5, '40': 75.2, '24B': 48.2, '24F': 47.8}",1,97.9,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221545,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292965,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001150545,"{'06E': 100.0, '06B-III': 96.1, '06B-I': 43.5, '06A-III': 43.0, '06A-I': 42.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334985,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342195,"{'23B': 81.1, '23B1': 65.0, '06B-II': 34.6, '06A-V': 34.4, '06A-IV': 34.0}",1,81.1,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339595,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019915285,"{'35B': 99.8, '33F': 33.6, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284325,"{'14': 94.3, '36': 25.8, '09L': 25.2, '09N': 24.6, '15B': 24.3}",1,94.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019446415,"{'19A': 99.5, '19A-III': 99.3, '19A-I': 85.8, '19A-II': 83.4, '19AF': 56.8}",1,99.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000251945,"{'33F': 99.6, '33A': 97.1, '33F2': 70.6, '35C': 42.6, '42': 41.6}",1,99.6,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021085,"{'14': 99.9, '09L': 27.4, '36': 26.1, '09N': 24.7, '15B': 24.3}",1,99.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233065,"{'06A-III': 94.6, '06B-I': 93.2, '06A': 90.1, '06A-IV': 89.4, '06B-II': 89.2}",1,94.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247585,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.5, '16F': 39.2}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313115,"{'14': 93.4, '36': 27.2, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021595,"{'38': 98.8, '25F': 84.4, '25A': 83.4, '36': 11.8, '20': 8.2}",1,98.8,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306425,"{'25F': 99.9, '25A': 98.9, '38': 80.9, '36': 9.0, '01': 7.9}",1,99.9,25F_25A_38,25F_25A_38,,"[[8], [18]]","{'wcyD': ['a', 100.0], 'wcyV': 0.12}","{'wcyD': 'a', 'wcyV': 'not_detected'}",25F/25A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216895,"{'03': 95.2, '01': 17.1, '36': 16.5, '09N': 15.7, '20': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253715,"{'23A': 95.1, '23F': 68.0, '23B': 43.2, '19F-II': 40.0, '15B': 39.1}",1,95.1,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021545,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260015,"{'34': 92.2, '33F2': 34.8, '35B': 31.8, '33F': 29.0, '33C': 28.3}",1,92.2,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214695,"{'05': 95.0, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301675,"{'06E': 99.5, '06B-III': 99.2, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230435,"{'14': 96.8, '36': 26.4, '09L': 25.5, '09N': 24.8, '15B': 24.0}",1,96.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_909594735,"{'14': 92.7, '36': 28.2, '09L': 25.4, '09N': 24.5, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274515,"{'09A': 99.2, '09V': 99.0, '09N': 38.3, '09L': 36.4, '11F': 27.1}",1,99.2,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001172945,"{'34': 92.9, '33F2': 34.7, '35B': 30.9, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900034445,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336815,"{'11A': 97.4, '11D': 95.0, '11F': 39.2, '11C': 36.5, '11B': 35.0}",1,97.4,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292515,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001343095,"{'10A': 99.1, '10B': 67.0, '10C': 27.7, '10F': 18.1, '06B-I': 15.2}",1,99.1,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263495,"{'22F': 99.1, '22A': 73.4, '06A-IV': 43.5, '06A': 42.6, '06B': 42.1}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051425,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301185,"{'01': 99.9, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.3}",1,99.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303185,"{'16F': 71.3, '28F': 42.9, '28A': 40.4, '18F': 33.7, '18A': 33.1}",1,71.3,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001336615,"{'06C': 85.6, '06C-I': 85.6, '06D': 84.7, '06A': 77.0, '06A-IV': 73.3}",1,85.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001105405,"{'06A-III': 99.8, '06B-I': 98.2, '06B-II': 91.1, '06A': 90.8, '06A-V': 90.2}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280955,"{'06A-II': 85.4, '06A-VI': 85.4, '06A-III': 85.3, '06A-V': 84.7, '06A': 84.0}",1,85.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229835,"{'07C': 99.4, '07B': 73.0, '40': 70.8, '24B': 48.8, '24F': 48.6}",1,99.4,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261285,"{'09A': 98.4, '09V': 98.2, '09N': 39.4, '09L': 37.5, '11F': 26.6}",1,98.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001160485,"{'18A': 98.1, '18B': 53.4, '18C': 53.4, '18F': 53.1, '19F-IV': 37.3}",1,98.1,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313935,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329615,"{'23F': 96.4, '23A': 63.2, '06A-IV': 48.7, '23B': 48.3, '28A': 47.2}",1,96.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313195,"{'01': 99.9, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.3}",1,99.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001097805,"{'06E': 100.0, '06B-III': 96.0, '06B-I': 43.4, '06A-III': 42.9, '06A-I': 42.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169305,"{'14': 92.7, '36': 28.8, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281145,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900039555,"{'19F-I': 99.7, '19F': 96.7, '19F-III': 96.7, '19F-II': 93.9, '19F-IV': 89.3}",1,99.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267655,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252745,"{'20': 78.8, '47F': 28.0, '09L': 25.8, '13': 25.2, '09N': 25.1}",1,78.8,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220635,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291585,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001108825,"{'34': 92.9, '33F2': 34.7, '35B': 30.6, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282655,"{'15C': 96.2, '15B': 96.1, '15A': 61.5, '15F': 47.8, '23A': 34.7}",1,96.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302125,"{'07A': 98.0, '07F': 97.8, '19F-II': 36.6, '19F': 34.9, '19F-I': 34.8}",1,98.0,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319305,"{'21': 100.0, '22F': 36.0, '06A-IV': 32.3, '06A-II': 31.6, '06A-VI': 31.5}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328605,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000212555,"{'33F': 99.5, '33A': 97.0, '33F2': 70.5, '35C': 42.6, '42': 41.6}",1,99.5,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239475,"{'22F': 99.0, '22A': 73.3, '06A': 42.5, '06B': 42.0, '06A-II': 41.8}",1,99.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029425,"{'08': 99.8, '06A-II': 24.6, '06A-VI': 24.5, '02': 24.4, '06B-II': 24.0}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317775,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900061965,"{'19A': 93.7, '19A-III': 93.5, '19A-II': 82.1, '19A-I': 80.3, '19AF': 56.3}",1,93.7,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063695,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000018985,"{'14': 92.3, '36': 27.2, '09L': 25.9, '09N': 25.5, '15B': 24.3}",1,92.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321125,"{'34': 98.5, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.5,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328065,"{'19F-I': 95.9, '19F': 95.6, '19F-III': 94.1, '19F-II': 92.8, '19F-IV': 88.9}",1,95.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300855,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900046605,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281545,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027035,"{'01': 99.9, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.3}",1,99.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900064655,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023275,"{'19F-II': 99.7, '19F': 95.2, '19F-III': 94.2, '19F-I': 93.9, '19F-IV': 93.2}",1,99.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001301195,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259705,"{'23F': 93.9, '23A': 63.4, '28A': 48.4, '23B': 46.9, '06A-III': 46.4}",1,93.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001111665,"{'13': 98.9, '20': 28.1, '09L': 28.0, '09N': 27.7, '14': 26.8}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001206535,"{'36': 12.3, '20': 8.1, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",2,12.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031215,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001145085,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001138585,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285655,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.7, '23B': 48.4, '28A': 47.1}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001124625,"{'14': 94.8, '36': 25.7, '09L': 24.4, '15B': 24.3, '15C': 24.2}",1,94.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256105,"{'09A': 93.0, '09V': 92.8, '09N': 39.6, '09L': 38.3, '08': 24.4}",1,93.0,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900034345,"{'23B': 99.5, '23B1': 64.6, '23F': 45.8, '23A': 40.0, '06A-IV': 36.9}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900048985,"{'11D': 99.7, '11A': 96.9, '11F': 41.9, '11C': 35.9, '11B': 34.4}",1,99.7,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274695,"{'09A': 96.0, '09V': 95.8, '09N': 38.5, '09L': 37.4, '11F': 26.7}",1,96.0,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238125,"{'23B': 88.1, '23B1': 60.7, '23F': 38.5, '28A': 33.3, '23A': 33.0}",1,88.1,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190255,"{'06B-I': 99.2, '06A-III': 97.0, '06B-II': 89.8, '06A': 89.7, '06A-V': 87.9}",1,99.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240315,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240965,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.9, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193815,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001343035,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901212915,"{'12F': 96.9, '44': 93.6, '12B': 92.9, '12A': 80.6, '46': 77.5}",1,96.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300405,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268375,"{'09L': 99.4, '09N': 90.1, '36': 32.8, '09A': 31.5, '09V': 31.5}",1,99.4,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326795,"{'06A-III': 94.7, '06B-I': 93.3, '06A': 90.2, '06A-IV': 89.4, '06B-II': 89.3}",1,94.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278365,"{'14': 94.2, '09L': 25.5, '36': 25.1, '15B': 24.3, '09N': 24.2}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284045,"{'18C': 88.3, '18B': 88.2, '18F': 77.6, '18A': 61.5, '16F': 37.6}",1,88.3,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305425,"{'14': 90.5, '36': 27.3, '09L': 25.2, '09N': 24.6, '19F-II': 23.0}",1,90.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251445,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278435,"{'15C': 87.7, '15B': 87.6, '15A': 60.9, '15F': 48.0, '23A': 31.3}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001105905,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025155,"{'14': 99.9, '09L': 27.1, '36': 25.8, '09N': 24.8, '15B': 24.3}",1,99.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193465,"{'33F': 100.0, '33A': 97.5, '33F2': 70.9, '35C': 42.8, '42': 41.8}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336505,"{'07A': 91.1, '07F': 90.9, '19F-II': 39.3, '19F': 37.8, '19F-IV': 37.8}",1,91.1,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220685,"{'13': 98.9, '09N': 29.1, '20': 28.9, '09L': 28.5, '36': 28.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290185,"{'06E': 85.1, '06B-III': 84.5, '06B-I': 51.0, '06A-III': 50.4, '06A-V': 49.9}",1,85.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259825,"{'16F': 71.9, '28F': 43.8, '28A': 41.0, '18F': 34.1, '18A': 33.9}",1,71.9,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001345755,"{'19F-I': 95.4, '19F': 95.2, '19F-III': 93.7, '19F-II': 92.3, '19F-IV': 88.3}",1,95.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295185,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317245,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001118385,"{'37': 56.5, '45': 6.7, '01': 6.4, '25F': 6.1, '25A': 5.9}",1,56.5,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316145,"{'06A-II': 85.0, '06A-VI': 85.0, '06A-III': 84.9, '06A-V': 84.3, '06A': 83.8}",1,85.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262415,"{'38': 90.8, '25F': 86.8, '25A': 85.8, '36': 16.0, '20': 7.5}",1,90.8,25F_25A_38,25F_25A_38,,"[[0], [18]]","{'wcyD': ['b: 22.59'], 'wcyV': 4.69}","{'wcyD': 0, 'wcyV': 'not_detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001155165,"{'36': 5.7, '23B1': 4.8, '20': 4.7, '22F': 4.6, '25A': 4.2}",1,5.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338215,"{'20': 5.4, '36': 5.1, '12A': 4.5, '46': 4.5, '06C-I': 3.9}",1,5.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266715,"{'19A-I': 98.0, '19A-II': 97.1, '19A': 86.5, '19A-III': 86.3, '19AF': 61.8}",1,98.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339185,"{'21': 99.8, '22F': 36.0, '06A-IV': 34.0, '06A-II': 33.3, '06A-VI': 33.2}",1,99.8,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194675,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000279065,"{'04': 99.5, '45': 33.3, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.5,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269495,"{'14': 91.4, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304355,"{'33F': 99.3, '33A': 99.0, '33F2': 70.2, '35C': 42.6, '42': 41.6}",1,99.3,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303965,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276855,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022295,"{'10A': 99.8, '10B': 66.6, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,99.8,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900060065,"{'23B1': 99.9, '23B': 55.8, '19A-II': 36.2, '19A-I': 35.9, '19AF': 31.7}",1,99.9,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269605,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001105585,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247125,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001162005,"{'36': 11.1, '06A-IV': 7.7, '20': 6.8, '06C': 6.4, '06B-I': 6.4}",1,11.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286665,"{'09A': 95.8, '09V': 95.6, '09N': 38.4, '09L': 37.4, '11F': 26.5}",1,95.8,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242165,"{'06A-II': 84.6, '06A-VI': 84.6, '06A-III': 84.5, '06A-V': 83.6, '06B-I': 83.1}",1,84.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258115,"{'03': 98.2, '24A': 15.8, '01': 15.7, '09L': 13.4, '09N': 13.3}",1,98.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316095,"{'15A': 99.9, '15F': 74.2, '15C': 62.0, '15B': 61.9, '23F': 31.7}",1,99.9,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001086145,"{'45': 6.1, '25F': 5.6, '20': 5.5, '36': 5.5, '25A': 5.4}",3,6.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001091285,"{'34': 92.9, '33F2': 34.7, '35B': 30.7, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261335,"{'20': 99.0, '13': 26.1, '09L': 25.0, '36': 24.8, '09N': 24.1}",1,99.0,,20,,,{},{},20,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221075,"{'01': 98.9, '19F': 31.8, '19F-I': 31.3, '19F-III': 31.1, '19F-II': 30.8}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223785,"{'12F': 96.4, '44': 93.4, '12B': 93.3, '12A': 84.8, '46': 81.7}",1,96.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281205,"{'10A': 93.9, '10B': 64.7, '10C': 29.0, '10F': 19.4, '22F': 16.4}",1,93.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291475,"{'01': 99.8, '19F': 32.1, '19F-I': 31.9, '19F-II': 31.4, '19F-III': 31.4}",1,99.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319495,"{'23F': 96.8, '23A': 63.7, '23B': 48.0, '28A': 47.7, '06B-II': 46.1}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326095,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323305,"{'09A': 98.3, '09V': 98.1, '09N': 38.1, '09L': 36.2, '11F': 26.6}",1,98.3,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301155,"{'23B1': 99.7, '23B': 55.5, '19A-II': 36.2, '19A-I': 35.9, '19AF': 31.3}",1,99.7,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024125,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289225,"{'15C': 95.7, '15B': 95.6, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289435,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032775,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001130725,"{'01': 6.8, '36': 6.7, '06A-IV': 6.2, '20': 6.1, '45': 5.2}",2,6.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218695,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288565,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901212765,"{'14': 91.6, '36': 26.7, '09L': 26.6, '09N': 26.2, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310115,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001154325,"{'36': 10.6, '06A-IV': 7.1, '20': 6.1, '06B-I': 5.9, '06C': 5.8}",1,10.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342725,"{'04': 98.3, '45': 34.8, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220715,"{'14': 92.7, '36': 28.8, '09L': 25.7, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272875,"{'09A': 93.0, '09V': 92.8, '09N': 39.6, '09L': 38.3, '08': 24.4}",1,93.0,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280375,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334095,"{'01': 98.8, '19F': 31.9, '19F-I': 31.4, '19F-III': 31.2, '19F-II': 30.9}",1,98.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001101965,"{'35B': 99.5, '33F': 33.4, '35C': 33.4, '34': 33.1, '35A': 33.0}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223405,"{'01': 7.0, '45': 5.9, '25F': 5.7, '20': 5.5, '25A': 5.5}",3,7.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284695,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282875,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.6}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900060115,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900038625,"{'06B-I': 99.7, '06A-III': 97.6, '06B-II': 90.2, '06A': 89.8, '06A-V': 88.3}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001210245,"{'25F': 7.5, '25A': 7.3, '45': 6.1, '38': 4.7, '22F': 4.6}",1,7.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254635,"{'11D': 99.9, '11A': 97.1, '11F': 42.0, '11C': 35.8, '11B': 34.3}",1,99.9,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283445,"{'04': 99.8, '45': 33.7, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901212645,"{'06E': 100.0, '06B-III': 99.3, '06B-I': 46.7, '06A-III': 46.2, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326605,"{'15C': 95.4, '15B': 95.3, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.4,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043855,"{'22F': 99.1, '22A': 73.4, '06A-IV': 43.5, '06A': 42.6, '06B': 42.1}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262325,"{'19F': 97.4, '19F-I': 96.4, '19F-III': 95.6, '19F-II': 95.5, '19F-IV': 91.0}",1,97.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001103965,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219395,"{'09A': 99.4, '09V': 99.2, '09N': 37.6, '09L': 37.2, '06A-IV': 27.5}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001299895,"{'06A-I': 78.4, '06B': 75.0, '06A-V': 71.3, '06A': 68.9, '06E': 68.7}",1,78.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329505,"{'14': 95.0, '36': 26.4, '09L': 25.5, '09N': 24.7, '15B': 24.3}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900062005,"{'10A': 99.2, '10B': 67.1, '10C': 27.7, '10F': 18.1, '22F': 15.5}",1,99.2,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300555,"{'18A': 100.0, '18B': 54.0, '18C': 54.0, '18F': 53.7, '19F-IV': 37.3}",1,100.0,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313075,"{'01': 99.9, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.3}",1,99.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238215,"{'12F': 96.4, '44': 93.4, '12B': 93.3, '12A': 84.8, '46': 81.7}",1,96.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900038105,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311365,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001102445,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.7, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297345,"{'22A': 94.2, '22F': 77.7, '06A-IV': 45.3, '06A-II': 43.6, '06B-I': 43.6}",1,94.2,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001336395,"{'36': 11.6, '20': 7.9, '06A-IV': 7.4, '45': 6.4, '06B-I': 6.3}",1,11.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303285,"{'35B': 99.8, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239535,"{'20': 82.1, '47F': 25.9, '35A': 24.6, '09L': 24.5, '36': 24.2}",1,82.1,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001111485,"{'06C-I': 88.8, '06C': 88.7, '06D': 86.7, '06A-I': 77.8, '06B': 77.5}",1,88.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 94.1]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001153485,"{'10F': 98.2, '10C': 80.9, '10B': 22.4, '10A': 19.2, '22F': 13.9}",1,98.2,,10F,,,{},{},10F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337505,"{'03': 95.2, '01': 18.2, '36': 17.3, '20': 16.1, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001334975,"{'34': 92.9, '33F2': 34.7, '35B': 31.6, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323535,"{'01': 92.2, '19F': 33.3, '19F-I': 32.6, '19F-III': 32.5, '19F-II': 32.4}",1,92.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001163965,"{'03': 95.2, '36': 17.0, '20': 15.6, '09L': 14.2, '01': 14.1}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001150225,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340945,"{'22F': 99.6, '22A': 73.4, '06A-II': 42.8, '06A-VI': 42.7, '06A': 42.6}",1,99.6,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001111165,"{'03': 95.1, '01': 15.2, '20': 15.1, '09N': 14.7, '09L': 14.5}",1,95.1,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284215,"{'35B': 99.7, '33F': 33.5, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.7,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249775,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318475,"{'06A-III': 94.8, '06B-I': 93.4, '06A': 90.3, '06A-IV': 89.5, '06B-II': 89.4}",1,94.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300995,"{'23B1': 99.8, '23B': 55.8, '19A-II': 36.2, '19A-I': 35.9, '19AF': 31.7}",1,99.8,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222195,"{'13': 83.3, '36': 28.8, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001106885,"{'06A-III': 98.6, '06B-I': 97.0, '06A': 90.6, '06B-II': 90.5, '06A-V': 89.6}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303925,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.6, '19A-III': 87.4, '19AF': 61.9}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 92.87]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302205,"{'06E': 84.1, '06B-III': 82.7, '06B-I': 55.7, '06A-III': 54.3, '06A-II': 53.9}",1,84.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 96.61]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171495,"{'14': 92.0, '36': 28.2, '09L': 24.6, '15B': 24.1, '15C': 24.0}",1,92.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279085,"{'23F': 92.5, '23A': 61.3, '28A': 48.0, '23B': 46.6, '06A-IV': 46.4}",1,92.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001168025,"{'22A': 94.2, '22F': 75.8, '06A-IV': 45.8, '06A-II': 44.1, '06B-I': 44.1}",1,94.2,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231525,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322475,"{'03': 97.4, '01': 17.7, '20': 15.5, '09N': 15.3, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021022555,"{'02': 57.6, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001085665,"{'14': 94.9, '36': 26.2, '15B': 24.3, '15C': 24.2, '09L': 23.7}",1,94.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055425,"{'23B1': 76.6, '23B': 66.0, '06B-III': 29.6, '19AF': 27.2, '19A': 26.7}",1,76.6,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022275,"{'03': 95.2, '01': 17.2, '36': 17.1, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001141925,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.0, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053575,"{'15C': 96.2, '15B': 96.1, '15A': 61.5, '15F': 47.8, '23A': 34.7}",1,96.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900042935,"{'06C-I': 100.0, '06C': 99.8, '06D': 84.6, '06A-II': 79.6, '06A-VI': 79.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033025,"{'33F': 100.0, '33A': 97.4, '33F2': 70.9, '35C': 42.8, '42': 41.8}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243945,"{'14': 92.7, '36': 27.2, '09L': 25.8, '09N': 24.8, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289415,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226145,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001117545,"{'13': 98.9, '09L': 28.1, '20': 28.1, '09N': 27.8, '14': 27.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244425,"{'17F': 82.5, '06A-III': 42.6, '06B-I': 42.6, '06A-I': 42.2, '06B': 41.8}",1,82.5,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245205,"{'19A': 99.8, '19A-III': 99.6, '19A-I': 86.0, '19A-II': 83.6, '19AF': 57.0}",1,99.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281215,"{'35B': 99.4, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001173605,"{'35B': 99.4, '33F': 33.5, '35C': 33.4, '34': 33.1, '35A': 33.0}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296965,"{'38': 90.0, '25F': 85.9, '25A': 84.9, '36': 11.9, '20': 8.4}",1,90.0,25F_25A_38,25F_25A_38,,"[[0], [18]]","{'wcyD': ['b: 22.59'], 'wcyV': 4.69}","{'wcyD': 0, 'wcyV': 'not_detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342565,"{'13': 80.2, '36': 29.1, '09N': 26.2, '09L': 26.0, '14': 26.0}",1,80.2,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050925,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221955,"{'23B1': 99.4, '23B': 57.6, '19A-II': 36.2, '19A-I': 35.7, '19AF': 31.5}",1,99.4,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270415,"{'35B': 99.8, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342995,"{'06A-II': 87.3, '06A-VI': 87.3, '06A': 86.0, '06A-IV': 85.2, '06A-V': 85.0}",1,87.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314545,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311715,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320775,"{'23F': 92.2, '23A': 61.1, '28A': 47.9, '23B': 46.6, '06A-IV': 46.4}",1,92.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901905405,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001118705,"{'06C': 85.2, '06C-I': 85.2, '06D': 84.2, '06A': 76.9, '06A-IV': 73.3}",1,85.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247695,"{'14': 95.0, '36': 26.3, '09L': 25.5, '09N': 24.4, '15B': 24.3}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243905,"{'06C-I': 78.6, '06C': 78.5, '06D': 78.3, '06A-I': 69.2, '06B': 68.7}",1,78.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215385,"{'12F': 96.3, '44': 93.3, '12B': 93.2, '12A': 84.7, '46': 81.6}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339035,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285005,"{'34': 93.0, '33F2': 34.7, '35B': 32.4, '33F': 29.0, '33C': 28.0}",1,93.0,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225145,"{'07C': 99.3, '07B': 72.9, '40': 70.7, '24B': 48.9, '24F': 48.7}",1,99.3,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248955,"{'23B1': 99.6, '23B': 56.3, '19A-II': 36.0, '19A-I': 35.8, '19AF': 31.6}",1,99.6,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001102965,"{'05': 95.2, '45': 22.2, '36': 21.0, '12A': 19.7, '46': 19.6}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001100805,"{'01': 98.6, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.6,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307515,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250665,"{'06A-I': 100.0, '06B': 94.5, '06A-V': 89.7, '06A': 87.1, '06A-III': 86.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252295,"{'19F-I': 97.7, '19F': 97.0, '19F-III': 96.5, '19F-II': 95.0, '19F-IV': 90.1}",1,97.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322455,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900061315,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222925,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237975,"{'06A-I': 98.8, '06B': 94.6, '06A-V': 89.0, '06A': 87.7, '06A-III': 85.6}",1,98.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001136065,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277255,"{'10A': 99.4, '10B': 67.1, '10C': 27.7, '10F': 18.1, '22F': 15.5}",1,99.4,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024785,"{'04': 99.7, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342155,"{'09A': 99.1, '09V': 98.9, '09N': 38.5, '09L': 36.7, '11F': 27.0}",1,99.1,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268905,"{'23F': 91.9, '23A': 58.9, '28F': 46.2, '06B-II': 45.8, '06A-IV': 45.7}",1,91.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001099525,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230065,"{'14': 92.2, '09L': 22.4, '09N': 21.0, '15B': 20.8, '15C': 20.7}",1,92.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285835,"{'19A-I': 99.2, '19A-II': 97.5, '19A': 87.8, '19A-III': 87.6, '19AF': 62.0}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002889495,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001121885,"{'36': 11.1, '20': 7.8, '45': 6.2, '23B1': 5.6, '06B-I': 5.1}",1,11.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317075,"{'15C': 86.6, '15B': 86.5, '15A': 63.8, '15F': 49.1, '23A': 30.2}",1,86.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321355,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.7, '19A-III': 87.5, '19AF': 62.0}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027745,"{'06A-V': 95.6, '06B-II': 91.0, '06A-II': 90.7, '06A-VI': 90.7, '06A-I': 90.3}",1,95.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347255,"{'06C': 85.2, '06C-I': 85.2, '06D': 84.2, '06A': 76.9, '06A-IV': 73.3}",1,85.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001109785,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238505,"{'33F': 100.0, '33A': 99.9, '33F2': 70.9, '35C': 43.0, '42': 42.0}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001171085,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.3, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316105,"{'18C': 99.8, '18B': 99.7, '18F': 75.7, '18A': 62.5, '16F': 39.2}",1,99.8,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339555,"{'45': 6.9, '25F': 5.5, '25A': 5.3, '01': 4.9, '35B': 4.7}",2,6.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245715,"{'03': 97.4, '01': 17.8, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339675,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238765,"{'23B': 88.7, '23B1': 62.4, '23F': 38.7, '06A-IV': 33.9, '23A': 33.2}",1,88.7,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900459525,"{'19A': 88.3, '19A-III': 88.1, '19A-I': 82.2, '19A-II': 80.3, '19AF': 53.7}",1,88.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001083525,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.3}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296125,"{'09A': 95.7, '09V': 95.5, '09N': 38.7, '09L': 37.2, '35B': 26.9}",1,95.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247135,"{'06A-II': 91.1, '06A-VI': 91.1, '06A-III': 89.6, '06A-V': 88.9, '06B-II': 88.6}",1,91.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242085,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900064865,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338245,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333245,"{'14': 90.8, '36': 27.3, '19F-II': 26.2, '19F-I': 25.3, '09L': 25.2}",1,90.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341095,"{'28F': 98.6, '28A': 92.2, '23F': 47.6, '16F': 46.0, '06B-I': 42.6}",1,98.6,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317725,"{'09N': 99.7, '09L': 88.8, '09A': 32.6, '09V': 32.6, '36': 30.5}",1,99.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302945,"{'38': 90.1, '25F': 86.0, '25A': 85.0, '36': 11.9, '20': 8.4}",1,90.1,25F_25A_38,25F_25A_38,,"[[0], [18]]","{'wcyD': ['b: 22.59'], 'wcyV': 4.69}","{'wcyD': 0, 'wcyV': 'not_detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276035,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.7, '06B-II': 35.1, '06A-V': 34.9}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170725,"{'19F-III': 98.1, '19F': 97.7, '19F-I': 97.7, '19F-II': 93.5, '19F-IV': 88.9}",1,98.1,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303395,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243635,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273785,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332325,"{'12F': 96.4, '44': 93.4, '12B': 93.3, '12A': 84.8, '46': 81.7}",1,96.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285595,"{'10A': 97.4, '10B': 66.3, '10C': 27.2, '10F': 17.8, '22F': 14.7}",1,97.4,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280825,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346955,"{'13': 98.7, '09L': 27.1, '09N': 26.8, '14': 26.5, '20': 25.9}",1,98.7,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001203455,"{'19B': 95.7, '19C': 70.0, '19F-II': 53.9, '19F-I': 53.1, '19F': 53.0}",1,95.7,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222485,"{'08': 98.0, '02': 24.4, '06A-IV': 23.3, '22F': 23.2, '06A': 22.9}",1,98.0,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290035,"{'14': 91.6, '36': 27.4, '09L': 26.7, '09N': 26.3, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257045,"{'11D': 99.7, '11A': 96.9, '11F': 41.7, '11C': 35.9, '11B': 34.4}",1,99.7,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247105,"{'03': 95.2, '01': 17.3, '36': 16.5, '09N': 15.8, '20': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001151405,"{'11F': 61.8, '11D': 38.4, '11A': 36.8, '09V': 25.4, '09A': 25.3}",1,61.8,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266555,"{'19F-III': 98.4, '19F': 98.0, '19F-I': 98.0, '19F-II': 93.8, '19F-IV': 89.2}",1,98.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000180535,"{'03': 95.2, '01': 17.1, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264455,"{'03': 95.2, '01': 16.9, '36': 16.9, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319415,"{'23A': 97.6, '23F': 68.9, '23B': 40.1, '19F-II': 39.3, '15B': 38.7}",1,97.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001131085,"{'22F': 99.0, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900035355,"{'18C': 99.7, '18B': 99.6, '18F': 75.7, '18A': 62.5, '16F': 39.2}",1,99.7,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001116845,"{'19F': 94.7, '19F-I': 94.2, '19F-III': 93.1, '19F-II': 91.8, '19F-IV': 88.1}",1,94.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328555,"{'14': 94.1, '36': 26.1, '09L': 25.5, '09N': 24.6, '15B': 24.3}",1,94.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170495,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236725,"{'19A': 99.2, '19A-III': 99.0, '19A-I': 85.9, '19A-II': 83.4, '19AF': 57.0}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907172285,"{'14': 92.7, '36': 28.8, '09L': 24.5, '15B': 24.2, '15C': 24.1}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295835,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.1, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000762645,"{'45': 6.5, '01': 6.0, '25F': 5.7, '25A': 5.5, '22F': 5.0}",2,6.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267455,"{'35F': 98.6, '47F': 74.0, '34': 26.7, '35B': 26.6, '29': 22.5}",1,98.6,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331365,"{'09A': 99.4, '09V': 99.2, '09N': 38.6, '09L': 36.6, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235165,"{'03': 95.3, '01': 17.1, '36': 17.1, '20': 15.9, '09N': 15.7}",1,95.3,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030405,"{'19A-II': 100.0, '19A-I': 96.6, '19A': 85.0, '19A-III': 84.8, '19AF': 62.1}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220145,"{'07B': 99.8, '40': 92.8, '07C': 77.2, '24F2': 48.0, '24F': 47.6}",1,99.8,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302535,"{'13': 83.7, '36': 32.4, '14': 27.3, '15B': 26.7, '15C': 26.3}",1,83.7,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001144505,"{'19F-II': 99.4, '19F': 95.2, '19F-III': 94.2, '19F-I': 93.9, '19F-IV': 93.1}",1,99.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284015,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167745,"{'09A': 99.2, '09V': 99.0, '09N': 37.4, '09L': 36.1, '11F': 26.6}",1,99.2,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329305,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 89.6, '06A': 87.7, '06A-III': 86.1}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257495,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001403895,"{'06E': 100.0, '06B-III': 98.1, '06B-I': 45.7, '06A-III': 45.2, '06B-II': 44.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341405,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244495,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_016890195,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313435,"{'19F': 92.6, '19F-I': 92.1, '19F-III': 91.0, '19F-II': 89.7, '19F-IV': 89.3}",1,92.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342755,"{'16F': 71.7, '28F': 43.0, '28A': 40.5, '18F': 33.5, '18A': 33.4}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215335,"{'14': 91.4, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028325,"{'19F-I': 99.6, '19F': 96.6, '19F-III': 96.6, '19F-II': 93.8, '19F-IV': 89.2}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192905,"{'15A': 99.8, '15F': 74.1, '15C': 61.8, '15B': 61.7, '23F': 31.6}",1,99.8,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281285,"{'04': 99.8, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001125925,"{'23F': 99.3, '23A': 65.5, '23B': 49.1, '28A': 48.2, '06A-IV': 47.3}",1,99.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273395,"{'22F': 96.4, '22A': 73.4, '06A': 42.6, '06A-II': 42.3, '06A-VI': 42.2}",1,96.4,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261425,"{'18C': 99.6, '18B': 99.5, '18F': 75.5, '18A': 62.4, '16F': 39.0}",1,99.6,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339725,"{'13': 98.9, '09N': 29.1, '20': 28.9, '09L': 28.7, '36': 28.1}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000278845,"{'18C': 96.7, '18B': 96.6, '18F': 73.4, '18A': 60.0, '16F': 38.3}",1,96.7,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216485,"{'06E': 78.9, '06B-III': 72.9, '19AF': 30.0, '23B1': 29.8, '19A-II': 29.6}",1,78.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323075,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300535,"{'19A': 99.4, '19A-III': 99.2, '19A-I': 86.1, '19A-II': 83.9, '19AF': 57.2}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250615,"{'06A-II': 95.5, '06A-VI': 95.5, '06B-II': 89.4, '06A-V': 89.0, '06A-III': 88.4}",1,95.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335295,"{'14': 89.9, '36': 29.3, '09L': 23.6, '09N': 22.5, '19F-II': 22.2}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277705,"{'04': 99.6, '45': 33.7, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.6,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324745,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001121085,"{'06E': 99.8, '06B-III': 97.5, '06B-I': 45.1, '06A-III': 44.6, '06B-II': 43.8}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305705,"{'09A': 99.7, '09V': 99.5, '09N': 38.1, '09L': 36.8, '06A-IV': 27.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315645,"{'19F-I': 97.0, '19F': 96.5, '19F-III': 96.3, '19F-II': 92.3, '19F-IV': 87.9}",1,97.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001111145,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_003354825,"{'15A': 99.2, '15F': 73.5, '15C': 61.8, '15B': 61.7, '23F': 31.4}",1,99.2,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191525,"{'22F': 97.0, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,97.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001119605,"{'18C': 88.6, '18B': 88.5, '18F': 78.1, '18A': 61.6, '16F': 37.9}",1,88.6,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299965,"{'13': 83.3, '36': 28.8, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022945,"{'06B-I': 97.5, '06A-III': 95.4, '06A': 89.8, '06B-II': 88.5, '06A-V': 86.6}",1,97.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313875,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215235,"{'19AF': 97.4, '19A-II': 61.3, '19A-I': 60.6, '19A': 51.9, '19A-III': 51.7}",1,97.4,19A_19AF,19A_19AF,,[[7]],"{'wzy': [2, 92.87]}",{'wzy': 2},19A_19AF,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300495,"{'19F': 100.0, '19F-III': 97.5, '19F-I': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,100.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001105705,"{'19F-I': 95.5, '19F': 95.2, '19F-III': 93.7, '19F-II': 92.4, '19F-IV': 88.4}",1,95.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167125,"{'09A': 99.7, '09V': 99.5, '09N': 37.2, '09L': 35.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219815,"{'23F': 96.7, '23A': 63.8, '06A-IV': 50.8, '23B': 50.3, '06B-II': 48.5}",1,96.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323695,"{'10A': 99.4, '10B': 67.1, '10C': 27.7, '10F': 18.1, '22F': 15.5}",1,99.4,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220195,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900089485,"{'19A-II': 100.0, '19A-I': 96.6, '19A': 85.0, '19A-III': 84.8, '19AF': 62.1}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023625,"{'03': 95.2, '36': 17.4, '01': 16.7, '20': 16.1, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063365,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291315,"{'03': 95.2, '01': 17.5, '09L': 15.5, '09N': 15.1, '14': 13.9}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001087185,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311425,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 32.7}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314005,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057875,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325225,"{'45': 97.2, '04': 38.8, '06A-II': 32.7, '06A-VI': 32.6, '06B-I': 32.5}",1,97.2,,45,,,{},{},45,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001210345,"{'03': 95.2, '36': 16.8, '01': 16.2, '20': 15.6, '09N': 15.3}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233735,"{'23F': 94.1, '23A': 63.4, '28A': 47.7, '23B': 47.1, '06A': 46.9}",1,94.1,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259235,"{'04': 99.8, '45': 33.6, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216835,"{'07C': 94.0, '07B': 77.1, '40': 76.7, '24B': 48.6, '24F': 47.6}",1,94.0,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001162245,"{'34': 92.9, '33F2': 34.7, '35B': 30.5, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295825,"{'15A': 98.4, '15F': 73.6, '15C': 61.9, '15B': 61.8, '23F': 31.9}",1,98.4,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231875,"{'23F': 99.3, '23A': 65.5, '23B': 49.1, '28A': 48.2, '06A-IV': 47.3}",1,99.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321215,"{'06C-I': 92.2, '06C': 92.1, '06D': 84.7, '06B-I': 83.8, '06A-III': 82.6}",1,92.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329385,"{'01': 7.7, '25F': 5.9, '45': 5.9, '25A': 5.7, '22F': 5.2}",3,7.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001134305,"{'36': 11.9, '06A-IV': 8.5, '20': 7.6, '06C': 7.3, '06C-I': 7.2}",1,11.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001110025,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.6, '06A-IV': 46.3}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900034415,"{'23A': 99.6, '23F': 67.3, '23B': 43.6, '19F-II': 37.8, '15B': 37.1}",1,99.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230495,"{'15C': 87.7, '15B': 87.6, '15A': 60.9, '15F': 48.0, '23A': 31.3}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297395,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001207925,"{'14': 89.9, '36': 28.5, '09L': 22.9, '19F-II': 22.2, '09N': 21.8}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001115205,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033585,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043135,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290665,"{'04': 99.2, '45': 33.5, '12F': 23.4, '44': 23.2, '12A': 22.3}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253945,"{'15C': 87.9, '15B': 87.7, '15A': 64.6, '15F': 50.0, '23A': 30.2}",1,87.9,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001147285,"{'06E': 100.0, '06B-III': 99.2, '06B-I': 46.7, '06A-III': 46.2, '06A-II': 45.2}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193195,"{'11D': 99.8, '11A': 97.0, '11F': 41.9, '11C': 35.7, '11B': 34.3}",1,99.8,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028945,"{'03': 95.2, '01': 17.2, '36': 17.0, '09N': 15.6, '09L': 15.5}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304885,"{'09N': 99.8, '09L': 88.9, '09A': 32.7, '09V': 32.7, '36': 32.2}",1,99.8,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001329515,"{'19A': 99.4, '19A-III': 99.2, '19A-I': 86.1, '19A-II': 83.9, '19AF': 57.2}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280935,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019855,"{'23A': 99.6, '23F': 67.2, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276675,"{'16F': 71.9, '28F': 43.8, '28A': 41.0, '18F': 34.1, '18A': 33.9}",1,71.9,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334975,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237485,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245525,"{'14': 91.3, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302855,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001117065,"{'03': 95.1, '20': 15.1, '09L': 14.9, '09N': 14.7, '01': 14.4}",1,95.1,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302725,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019399275,"{'23F': 96.3, '23A': 63.2, '06A-IV': 48.7, '23B': 48.4, '28A': 47.2}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346115,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331315,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031525,"{'12F': 96.7, '44': 93.4, '12B': 92.7, '12A': 80.4, '46': 77.3}",1,96.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049065,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262615,"{'05': 95.3, '45': 22.2, '36': 21.5, '20': 20.0, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258745,"{'05': 95.3, '45': 22.3, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318245,"{'01': 99.2, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213365,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167265,"{'14': 92.9, '36': 27.1, '09L': 24.3, '15B': 24.3, '15C': 24.2}",1,92.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309485,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023975,"{'23F': 97.7, '23A': 63.2, '28A': 48.2, '23B': 48.1, '06A-IV': 46.8}",1,97.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325095,"{'04': 98.3, '45': 34.9, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900060305,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337575,"{'19F-I': 95.4, '19F': 95.1, '19F-III': 93.6, '19F-II': 92.3, '19F-IV': 88.3}",1,95.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065185,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245275,"{'07A': 97.5, '07F': 97.3, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,97.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214005,"{'15B': 99.7, '15C': 99.5, '15A': 62.7, '15F': 48.3, '23A': 33.1}",1,99.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272725,"{'18C': 99.2, '18B': 99.1, '18F': 75.9, '18A': 63.1, '16F': 39.3}",1,99.2,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001343895,"{'18A': 98.0, '18B': 53.8, '18C': 53.8, '18F': 53.5, '19F-IV': 37.3}",1,98.0,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311405,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269655,"{'06E': 100.0, '06B-III': 99.3, '06B-I': 46.7, '06A-III': 46.2, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215565,"{'15A': 97.4, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.4,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255245,"{'14': 93.7, '36': 25.6, '09L': 25.0, '09N': 24.4, '15B': 23.8}",1,93.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024725,"{'09A': 99.7, '09V': 99.5, '09N': 38.2, '09L': 36.8, '06A-IV': 27.4}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019399185,"{'18C': 88.5, '18B': 88.4, '18F': 78.1, '18A': 62.3, '16F': 37.9}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299695,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264065,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242385,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300475,"{'12F': 95.9, '12B': 93.3, '44': 92.9, '12A': 84.8, '46': 81.7}",1,95.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001131345,"{'15C': 87.4, '15B': 87.3, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.4,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221745,"{'09A': 99.7, '09V': 99.5, '09N': 38.6, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215045,"{'14': 91.4, '19F-IV': 25.9, '36': 24.9, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001118785,"{'36': 10.7, '20': 5.9, '06B-I': 5.5, '06C': 5.4, '06C-I': 5.4}",1,10.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021765,"{'09A': 99.7, '09V': 99.5, '09N': 38.1, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001117645,"{'06E': 100.0, '06B-III': 99.0, '06B-I': 46.6, '06A-III': 46.1, '06A-II': 45.1}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333545,"{'01': 98.6, '19F': 32.0, '19F-I': 31.5, '19F-III': 31.3, '19F-II': 31.0}",1,98.6,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019446475,"{'16F': 95.6, '28F': 41.8, '18F': 41.7, '28A': 40.1, '19F-II': 39.9}",1,95.6,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291215,"{'19A': 96.8, '19A-III': 96.6, '19A-I': 85.4, '19A-II': 83.4, '19AF': 56.7}",1,96.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217115,"{'01': 7.7, '25F': 6.0, '45': 5.9, '25A': 5.8, '06A-IV': 4.9}",3,7.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318305,"{'10B': 93.7, '10A': 69.8, '10F': 20.0, '10C': 18.7, '22F': 13.6}",1,93.7,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052195,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280025,"{'02': 92.6, '22F': 40.0, '06B-I': 38.9, '06A-III': 38.8, '06A-II': 38.6}",1,92.6,,2,,,{},{},2,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900034145,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226955,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001343295,"{'06E': 100.0, '06B-III': 97.8, '06B-I': 45.7, '06A-III': 44.8, '06A-IV': 44.1}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026345,"{'08': 99.7, '06A-II': 24.5, '02': 24.4, '06A-VI': 24.4, '06B-II': 23.9}",1,99.7,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235175,"{'06A-II': 85.7, '06A-VI': 85.7, '06A-III': 85.6, '06A-V': 85.0, '06B-I': 84.2}",1,85.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001158145,"{'19A': 95.2, '19A-III': 95.0, '19A-I': 84.4, '19A-II': 81.9, '19AF': 55.8}",1,95.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055075,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245695,"{'14': 99.4, '09L': 26.8, '36': 25.7, '09N': 24.7, '15B': 24.0}",1,99.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336605,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219095,"{'13': 98.9, '09N': 28.8, '09L': 28.7, '20': 28.7, '36': 27.5}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001134105,"{'07B': 99.9, '40': 92.9, '07C': 77.2, '24F2': 48.1, '24F': 47.7}",1,99.9,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256665,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265795,"{'19A': 99.4, '19A-III': 99.2, '19A-I': 86.1, '19A-II': 83.9, '19AF': 57.2}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001334775,"{'45': 6.8, '25F': 5.6, '20': 5.4, '25A': 5.4, '36': 5.4}",2,6.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193125,"{'15C': 95.2, '15B': 95.1, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001095005,"{'06A-II': 87.4, '06A-VI': 87.4, '06A': 86.0, '06A-IV': 85.2, '06A-V': 85.1}",1,87.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001203955,"{'06E': 100.0, '06B-III': 99.2, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240545,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051325,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254905,"{'04': 99.2, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258695,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.8, '23A': 30.1}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001085445,"{'19F-III': 96.9, '19F-I': 96.8, '19F': 96.4, '19F-II': 92.2, '19F-IV': 87.8}",1,96.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001169445,"{'24F': 97.1, '24B': 89.8, '24F2': 86.6, '24A': 62.9, '07C': 52.0}",1,97.1,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226695,"{'09A': 91.3, '09V': 91.1, '09N': 39.0, '09L': 38.4, '06A-IV': 25.8}",1,91.3,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001301435,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001151365,"{'45': 6.4, '01': 6.2, '25F': 5.7, '25A': 5.5, '20': 5.4}",3,6.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219115,"{'01': 98.9, '19F': 31.6, '19F-I': 31.1, '19F-III': 30.9, '19F-II': 30.6}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019399735,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 94.0, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169345,"{'14': 92.7, '36': 28.8, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_902652915,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218135,"{'14': 92.6, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054245,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342445,"{'15C': 89.7, '15B': 89.5, '15A': 62.5, '15F': 49.3, '23A': 31.0}",1,89.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900618125,"{'08': 99.5, '06A-II': 24.6, '06A-VI': 24.5, '02': 24.3, '06B-II': 24.0}",1,99.5,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268875,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324665,"{'06E': 99.5, '06B-III': 99.1, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344255,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265105,"{'04': 99.3, '45': 33.6, '12F': 23.4, '44': 23.2, '12A': 22.3}",1,99.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225215,"{'11D': 80.2, '11A': 78.9, '11F': 45.1, '11B': 34.6, '11C': 31.0}",1,80.2,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246065,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257245,"{'06A-V': 92.3, '06A-I': 92.0, '06A-III': 89.9, '06B': 88.8, '06B-I': 88.5}",1,92.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257155,"{'19A-I': 99.0, '19A-II': 97.4, '19A': 87.6, '19A-III': 87.4, '19AF': 61.8}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324055,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219995,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.5, '06A-V': 89.1, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284545,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023995,"{'12F': 96.7, '44': 93.4, '12B': 92.7, '12A': 80.4, '46': 77.3}",1,96.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311255,"{'06B-II': 99.8, '06A-V': 95.7, '06A': 94.3, '06A-IV': 92.1, '06A-II': 91.9}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286985,"{'27': 99.4, '06B-I': 41.8, '06A-III': 41.5, '06C': 41.0, '22F': 41.0}",1,99.4,,27,,,{},{},27,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001151485,"{'11F': 61.7, '11D': 38.3, '11A': 36.8, '09A': 25.3, '09V': 25.3}",1,61.7,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169835,"{'14': 92.2, '36': 28.9, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251365,"{'17F': 99.0, '06B': 44.3, '06B-I': 43.6, '06D': 43.5, '06A-III': 43.5}",1,99.0,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328485,"{'09A': 95.6, '09V': 95.4, '09N': 38.4, '09L': 37.4, '11F': 26.4}",1,95.6,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330715,"{'12F': 96.9, '44': 93.6, '12B': 92.9, '12A': 80.6, '46': 77.5}",1,96.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001104225,"{'18C': 88.6, '18B': 88.5, '18F': 78.1, '18A': 61.7, '16F': 37.9}",1,88.6,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189205,"{'19F-II': 99.5, '19F': 95.3, '19F-III': 94.3, '19F-I': 94.0, '19F-IV': 93.2}",1,99.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342905,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337095,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300895,"{'10A': 99.9, '10B': 66.8, '10C': 27.4, '10F': 17.9, '22F': 15.5}",1,99.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260075,"{'14': 94.1, '36': 26.0, '09L': 25.5, '09N': 24.7, '15B': 24.3}",1,94.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001909415,"{'03': 94.8, '36': 17.4, '20': 15.9, '09N': 15.6, '09L': 15.3}",1,94.8,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000945715,"{'36': 11.1, '06A-IV': 7.7, '01': 7.1, '20': 7.0, '06C': 6.4}",1,11.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335005,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025965,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342485,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285895,"{'38': 98.8, '25F': 84.4, '25A': 83.4, '36': 11.8, '20': 8.2}",1,98.8,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194205,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.5, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263295,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317395,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291765,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300765,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001104825,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329415,"{'04': 99.4, '45': 33.4, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.4,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295335,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219135,"{'19AF': 97.1, '19A-II': 61.5, '19A-I': 60.9, '19A': 52.1, '19A-III': 51.9}",1,97.1,19A_19AF,19A_19AF,,[[7]],"{'wzy': [2, 92.87]}",{'wzy': 2},19A_19AF,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272885,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001152065,"{'06E': 86.4, '06B-III': 84.6, '06B-I': 48.6, '06A-III': 48.2, '06C': 48.0}",1,86.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290275,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227055,"{'15C': 87.4, '15B': 87.2, '15A': 64.6, '15F': 50.0, '23A': 30.1}",1,87.4,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001087405,"{'35B': 95.0, '33F': 33.9, '35C': 33.6, '35A': 33.2, '34': 33.1}",1,95.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900058155,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327155,"{'06A-II': 85.8, '06A-VI': 85.8, '06A-III': 85.7, '06A-V': 85.1, '06B-I': 84.3}",1,85.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256455,"{'09A': 99.4, '09V': 99.2, '09N': 38.2, '09L': 36.5, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256545,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.7, '06B-II': 35.1, '06A-V': 34.9}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321955,"{'19A': 99.5, '19A-III': 99.3, '19A-I': 86.2, '19A-II': 84.0, '19AF': 57.2}",1,99.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030245,"{'07A': 99.6, '07F': 99.4, '19F-II': 36.3, '19F-IV': 35.7, '19F': 34.8}",1,99.6,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001142025,"{'13': 83.6, '36': 25.5, '14': 25.4, '09L': 24.3, '09N': 24.0}",1,83.6,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056375,"{'19A': 99.8, '19A-III': 99.6, '19A-I': 86.0, '19A-II': 83.5, '19AF': 57.1}",1,99.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900058975,"{'35B': 99.9, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.9,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215025,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263065,"{'23A': 99.7, '23F': 67.3, '23B': 43.7, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229325,"{'19A-II': 98.1, '19A-I': 95.6, '19A': 84.1, '19A-III': 83.9, '19AF': 61.7}",1,98.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315305,"{'15C': 94.9, '15B': 94.8, '15A': 60.7, '15F': 47.0, '23A': 34.7}",1,94.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001110785,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326925,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.7, '19A-III': 87.5, '19AF': 61.8}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328245,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 94.0, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001115925,"{'14': 94.1, '36': 24.5, '15B': 24.3, '15C': 24.2, '09L': 24.1}",1,94.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238625,"{'03': 97.4, '01': 17.8, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297205,"{'11A': 99.8, '11D': 96.7, '11F': 40.0, '11C': 36.0, '11B': 34.5}",1,99.8,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251765,"{'01': 99.1, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001166185,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278385,"{'06A-II': 85.8, '06A-VI': 85.8, '06A-III': 85.7, '06A-V': 85.1, '06B-I': 84.3}",1,85.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312865,"{'14': 92.5, '36': 28.8, '09L': 25.6, '09N': 24.5, '15B': 24.0}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340755,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339525,"{'09A': 99.4, '09V': 99.2, '09N': 38.5, '09L': 36.5, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274015,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214565,"{'06A-II': 95.6, '06A-VI': 95.6, '06B-II': 89.5, '06A-V': 89.1, '06A-III': 88.5}",1,95.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001122185,"{'16F': 95.6, '28F': 41.8, '18F': 41.7, '28A': 40.1, '19F-II': 39.9}",1,95.6,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263645,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230485,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029005,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.5, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264775,"{'23F': 96.7, '23A': 63.7, '23B': 47.8, '28A': 47.4, '06B-II': 45.8}",1,96.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050315,"{'38': 99.1, '25F': 84.5, '25A': 83.5, '36': 10.5, '01': 7.8}",1,99.1,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250205,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319665,"{'15C': 87.9, '15B': 87.7, '15A': 64.6, '15F': 50.0, '23A': 30.2}",1,87.9,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331245,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309255,"{'38': 99.3, '25F': 84.5, '25A': 83.5, '36': 10.3, '01': 7.9}",1,99.3,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261015,"{'20': 78.8, '47F': 28.0, '09L': 25.8, '13': 25.2, '09N': 25.1}",1,78.8,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242135,"{'15B': 99.8, '15C': 99.6, '15A': 62.7, '15F': 48.3, '23A': 32.9}",1,99.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238535,"{'17F': 99.6, '06B': 44.3, '06B-I': 44.1, '06A-III': 44.0, '06D': 43.7}",1,99.6,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024275,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054265,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258465,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238895,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322745,"{'14': 95.0, '36': 26.1, '09L': 25.5, '09N': 24.6, '15B': 24.3}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054745,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 84.5, '19AF': 58.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001113725,"{'13': 98.9, '20': 28.1, '09L': 27.9, '09N': 27.7, '14': 26.8}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001099225,"{'06E': 100.0, '06B-III': 97.5, '06B-I': 44.8, '06A-III': 44.3, '06B-II': 43.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276825,"{'06E': 99.7, '06B-III': 98.2, '06B-I': 45.9, '06A-III': 45.4, '06B-II': 44.6}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333755,"{'25F': 99.8, '25A': 98.8, '38': 80.9, '36': 9.0, '01': 7.9}",1,99.8,25F_25A_38,25F_25A_38,,"[[8], [18]]","{'wcyD': ['a', 100.0], 'wcyV': 0.12}","{'wcyD': 'a', 'wcyV': 'not_detected'}",25F/25A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020140425,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001123885,"{'28F': 98.3, '28A': 91.9, '23F': 47.5, '16F': 46.0, '06B-I': 42.5}",1,98.3,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281825,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247855,"{'08': 99.7, '06A-II': 24.9, '06A-VI': 24.8, '02': 24.4, '06B-II': 24.3}",1,99.7,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245615,"{'23B': 88.1, '23B1': 61.3, '23F': 38.5, '28A': 33.3, '23A': 33.0}",1,88.1,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267485,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.7, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001167125,"{'23F': 93.8, '23A': 63.5, '28A': 48.2, '23B': 46.8, '06A-III': 46.1}",1,93.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337515,"{'11F': 61.7, '11D': 38.3, '11A': 36.8, '09A': 25.3, '09V': 25.3}",1,61.7,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001108245,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033935,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233715,"{'14': 92.5, '36': 28.9, '09L': 25.7, '09N': 24.6, '15B': 24.1}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191955,"{'35F': 98.8, '47F': 74.2, '34': 26.7, '35B': 25.6, '29': 22.4}",1,98.8,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339085,"{'23F': 92.5, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.5}",1,92.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243595,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320235,"{'18A': 100.0, '18B': 54.0, '18C': 54.0, '18F': 53.7, '19F-IV': 37.3}",1,100.0,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328095,"{'15C': 94.9, '15B': 94.8, '15A': 60.8, '15F': 47.3, '23A': 34.0}",1,94.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243645,"{'16F': 95.7, '19F-II': 42.6, '19F-IV': 42.6, '28F': 42.4, '19F': 41.6}",1,95.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001156225,"{'13': 83.6, '36': 25.7, '09L': 25.3, '14': 25.3, '09N': 25.2}",1,83.6,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332285,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000211055,"{'03': 95.2, '01': 17.1, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299415,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281605,"{'06E': 100.0, '06B-III': 97.9, '06B-I': 45.6, '06A-III': 45.1, '06A-II': 44.1}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001005565,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319445,"{'13': 98.9, '20': 29.0, '09L': 28.6, '09N': 28.2, '36': 28.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300245,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021655,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001129825,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320505,"{'25F': 99.9, '25A': 98.9, '38': 80.9, '36': 9.0, '01': 7.9}",1,99.9,25F_25A_38,25F_25A_38,,"[[8], [18]]","{'wcyD': ['a', 100.0], 'wcyV': 0.12}","{'wcyD': 'a', 'wcyV': 'not_detected'}",25F/25A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167285,"{'09A': 99.4, '09V': 99.2, '09N': 36.6, '09L': 35.1, '11F': 26.6}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306625,"{'39': 97.9, '29': 28.6, '34': 22.6, '43': 19.3, '33C': 18.6}",1,97.9,,39,,,{},{},39,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018465,"{'06C-I': 87.4, '06C': 87.3, '06D': 84.7, '06A': 77.0, '06A-IV': 74.9}",1,87.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239565,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306005,"{'15C': 90.4, '15B': 90.3, '15A': 62.8, '15F': 48.6, '23A': 30.8}",1,90.4,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255615,"{'15C': 87.7, '15B': 87.6, '15A': 60.9, '15F': 48.0, '23A': 31.3}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300045,"{'38': 97.7, '25F': 84.4, '25A': 83.4, '36': 13.1, '20': 7.5}",1,97.7,25F_25A_38,25F_25A_38,,"[[0], [19]]","{'wcyD': ['b: 80.0'], 'wcyV': 100.0}","{'wcyD': 0, 'wcyV': 'detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255605,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333525,"{'23F': 97.0, '23A': 63.9, '28A': 47.7, '28F': 46.0, '06A': 45.0}",1,97.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259365,"{'18A': 99.7, '18B': 53.9, '18C': 53.9, '18F': 53.6, '19F-IV': 37.1}",1,99.7,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328455,"{'19F': 94.8, '19F-I': 94.3, '19F-III': 93.2, '19F-II': 91.9, '19F-IV': 88.1}",1,94.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001091265,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312275,"{'14': 93.7, '36': 25.9, '09L': 25.0, '09N': 24.4, '15B': 23.8}",1,93.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001909765,"{'03': 95.8, '20': 17.0, '09N': 15.9, '36': 15.8, '09L': 15.6}",1,95.8,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220975,"{'28F': 96.5, '28A': 91.0, '16F': 47.2, '23F': 46.6, '06A-IV': 43.5}",1,96.5,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253035,"{'15A': 99.7, '15F': 74.1, '15C': 61.8, '15B': 61.7, '23F': 31.5}",1,99.7,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001197275,"{'06E': 99.9, '06B-III': 99.7, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342525,"{'09A': 99.4, '09V': 99.2, '09N': 37.6, '09L': 36.9, '06A-IV': 27.3}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001148605,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288195,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226665,"{'08': 99.7, '02': 24.4, '06A-II': 24.4, '06A-VI': 24.3, '06B-II': 23.6}",1,99.7,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237745,"{'16F': 96.7, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298375,"{'14': 93.4, '36': 27.3, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
PHESPD0176,"{'25F': 96.3, '25A': 95.3, '38': 80.9, '36': 10.8, '20': 7.3}",1,96.3,25F_25A_38,25F_25A_38,,"[[8], [18]]","{'wcyD': ['a', 100.0], 'wcyV': 0.12}","{'wcyD': 'a', 'wcyV': 'not_detected'}",25F/25A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342885,"{'34': 95.7, '33F2': 35.6, '35B': 34.2, '33F': 30.4, '35C': 29.1}",1,95.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230155,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235035,"{'01': 99.9, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.3}",1,99.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234035,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001115465,"{'13': 98.7, '09L': 27.5, '09N': 27.2, '14': 26.7, '20': 26.0}",1,98.7,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334025,"{'15C': 95.3, '15B': 95.1, '15A': 60.8, '15F': 47.3, '23A': 34.0}",1,95.3,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250245,"{'07A': 98.1, '07F': 97.9, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,98.1,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001167665,"{'06C-I': 84.0, '06C': 83.9, '06D': 82.9, '06A-I': 74.9, '06B': 74.5}",1,84.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216675,"{'06A-II': 95.1, '06A-VI': 95.1, '06B-II': 88.9, '06A-V': 88.7, '06A-III': 88.2}",1,95.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340025,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296805,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000942775,"{'11F': 61.7, '11D': 38.3, '11A': 36.8, '09A': 25.3, '09V': 25.3}",1,61.7,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907172225,"{'14': 92.7, '36': 29.0, '09L': 25.7, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321025,"{'16F': 71.7, '28F': 43.2, '28A': 40.7, '18F': 33.7, '18A': 33.1}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247435,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299385,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331305,"{'12F': 96.9, '44': 93.6, '12B': 92.9, '12A': 80.6, '46': 77.5}",1,96.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303425,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000251745,"{'23F': 96.8, '23A': 63.9, '23B': 48.0, '28A': 47.7, '06B-II': 46.1}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238865,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326195,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001129005,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286735,"{'23F': 80.2, '23A': 73.9, '19F': 44.9, '23B': 44.8, '19F-I': 44.7}",1,80.2,,"Mixed serotypes- {'23A', '23F'}",,,{},{},"Mixed serotypes- {'23A', '23F'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239275,"{'06A-II': 92.7, '06A-VI': 92.7, '06B-II': 87.6, '06A-V': 87.1, '06A-III': 86.6}",1,92.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000279775,"{'14': 92.7, '36': 28.8, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001139845,"{'11F': 61.7, '11D': 38.3, '11A': 36.8, '09A': 25.3, '09V': 25.3}",1,61.7,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294355,"{'14': 92.7, '36': 28.8, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337215,"{'09A': 99.3, '09V': 99.1, '09N': 38.5, '09L': 36.5, '11F': 27.0}",1,99.3,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237955,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001163185,"{'03': 94.8, '36': 16.9, '01': 16.1, '20': 15.6, '14': 14.2}",1,94.8,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233755,"{'18A': 100.0, '18B': 54.0, '18C': 54.0, '18F': 53.7, '19F-IV': 37.3}",1,100.0,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255215,"{'06A-II': 88.7, '06A-VI': 88.7, '06A-III': 88.6, '06B-II': 87.8, '06A': 87.5}",1,88.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332525,"{'01': 99.0, '19F': 31.9, '19F-I': 31.5, '19F-III': 31.2, '19F-II': 30.9}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337885,"{'05': 95.1, '45': 22.3, '36': 21.8, '20': 20.4, '12A': 19.8}",1,95.1,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214415,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327095,"{'15C': 89.2, '15B': 89.0, '15A': 62.6, '15F': 48.6, '23A': 32.2}",1,89.2,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001137845,"{'10B': 99.4, '10A': 65.2, '10F': 20.1, '10C': 18.8, '22F': 12.8}",1,99.4,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192335,"{'21': 95.5, '22F': 38.1, '06A-II': 32.6, '06A-VI': 32.5, '06A-III': 32.0}",1,95.5,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001117605,"{'06A-III': 98.5, '06B-I': 96.9, '06A': 90.6, '06B-II': 90.4, '06A-V': 89.5}",1,98.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253085,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213125,"{'05': 95.0, '45': 22.6, '36': 21.6, '20': 20.3, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293155,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028705,"{'11D': 99.8, '11A': 97.0, '11F': 42.0, '11C': 35.7, '11B': 34.2}",1,99.8,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170715,"{'19F-III': 98.2, '19F': 97.8, '19F-I': 97.8, '19F-II': 93.6, '19F-IV': 89.0}",1,98.2,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305055,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043005,"{'38': 99.2, '25F': 84.4, '25A': 83.4, '36': 11.8, '20': 8.2}",1,99.2,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900059695,"{'33F': 99.7, '33A': 97.2, '33F2': 70.6, '35C': 42.5, '42': 41.5}",1,99.7,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311955,"{'16F': 71.7, '28F': 43.2, '28A': 40.7, '18F': 33.7, '18A': 33.0}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001121725,"{'15C': 87.8, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247635,"{'15C': 95.7, '15B': 95.6, '15A': 61.0, '15F': 47.5, '23A': 34.7}",1,95.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242295,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901212715,"{'23F': 93.9, '23A': 63.4, '28A': 48.4, '23B': 46.9, '06A-III': 46.4}",1,93.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333865,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.5, '46': 81.4}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244785,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 32.8}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191045,"{'06C-I': 93.1, '06C': 92.9, '06D': 82.8, '06B-I': 78.1, '06A-V': 77.9}",1,93.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303375,"{'15F': 90.8, '15A': 87.2, '15B': 60.4, '15C': 60.0, '23F': 46.6}",1,90.8,15F_15A,15F_15A,,"[[10], [12], [14], [16]]","{'glf': 100.0, 'rmlB': 94.91, 'rmlD': 100.0, 'wcjE': 100.0}","{'glf': 'detected', 'rmlB': 'detected', 'rmlD': 'detected', 'wcjE': 'detected'}",15F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283085,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340615,"{'06A-I': 95.1, '06B': 93.0, '06A-V': 89.4, '06A': 87.3, '06B-II': 86.2}",1,95.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314945,"{'14': 91.4, '36': 26.2, '09L': 25.0, '09N': 24.6, '15B': 23.4}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261185,"{'19F': 97.3, '19F-I': 96.3, '19F-III': 95.5, '19F-II': 95.4, '19F-IV': 90.9}",1,97.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306315,"{'06A-II': 85.5, '06A-VI': 85.5, '06A-III': 85.4, '06A-V': 84.8, '06A': 84.0}",1,85.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238155,"{'01': 99.1, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051485,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001107505,"{'25F': 5.6, '25A': 5.4, '22F': 4.9, '12A': 4.6, '38': 4.6}",1,5.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900035055,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027645,"{'11D': 99.8, '11A': 97.0, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,99.8,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266385,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171475,"{'14': 92.4, '36': 28.8, '09L': 25.2, '15B': 24.2, '15C': 24.1}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234015,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169545,"{'14': 91.8, '36': 27.9, '09L': 25.6, '09N': 24.5, '15B': 23.7}",1,91.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001404135,"{'23A': 97.5, '23F': 68.8, '23B': 40.1, '19F-II': 39.2, '15B': 38.8}",1,97.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267465,"{'06E': 99.9, '06B-III': 99.4, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296325,"{'23F': 93.9, '23A': 63.4, '28A': 48.4, '23B': 46.9, '06A-III': 46.4}",1,93.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002081435,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323885,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257215,"{'34': 98.2, '33F2': 34.9, '35B': 33.3, '33F': 29.5, '33C': 28.2}",1,98.2,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900188935,"{'15C': 93.8, '15B': 93.7, '15A': 62.1, '15F': 48.6, '23A': 32.9}",1,93.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001155205,"{'03': 94.7, '36': 16.8, '01': 16.0, '09N': 15.2, '20': 15.2}",1,94.7,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170555,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001160745,"{'35B': 99.9, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.9,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190375,"{'15C': 93.9, '15B': 93.7, '15A': 62.0, '15F': 48.6, '23A': 32.9}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245255,"{'15C': 90.7, '15B': 90.6, '15A': 63.0, '15F': 48.8, '23A': 31.1}",1,90.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001133785,"{'36': 11.5, '20': 7.5, '23B1': 5.6, '06B-I': 5.5, '06C': 5.3}",1,11.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282165,"{'07A': 99.5, '07F': 99.3, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266225,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294755,"{'09L': 98.8, '09N': 89.9, '36': 32.6, '09A': 31.6, '09V': 31.6}",1,98.8,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327275,"{'02': 92.4, '22F': 40.0, '06B-I': 38.7, '06A-III': 38.6, '06A-II': 38.5}",1,92.4,,2,,,{},{},2,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001150185,"{'16F': 98.2, '28F': 43.0, '19F-IV': 41.3, '18F': 41.1, '18A': 40.9}",1,98.2,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298155,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246775,"{'17F': 82.5, '06A-III': 42.8, '06B-I': 42.8, '06A-I': 42.3, '06B': 41.8}",1,82.5,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001130245,"{'37': 95.9, '33F': 77.1, '33A': 75.5, '33F2': 70.9, '35B': 31.7}",1,95.9,,37,,,{},{},37,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259595,"{'11D': 80.2, '11A': 78.9, '11F': 45.1, '11B': 34.6, '11C': 31.0}",1,80.2,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255785,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 89.6, '06A': 87.7, '06A-III': 86.1}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270335,"{'03': 74.9, '01': 7.1, '22F': 6.8, '20': 6.6, '45': 6.3}",1,74.9,,3,,,{},{},3,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288845,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900048865,"{'01': 99.1, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331765,"{'16F': 71.5, '28F': 43.1, '28A': 40.6, '18F': 33.6, '18A': 32.9}",1,71.5,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002081275,"{'35A': 94.4, '35C': 89.7, '42': 89.1, '33A': 46.3, '33F': 45.9}",1,94.4,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001345535,"{'19F-I': 95.4, '19F': 95.2, '19F-III': 93.7, '19F-II': 92.3, '19F-IV': 88.3}",1,95.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217635,"{'23A': 99.6, '23F': 67.3, '23B': 43.4, '19F-II': 37.7, '15B': 37.0}",1,99.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189245,"{'14': 92.6, '36': 28.5, '09L': 24.8, '15B': 24.2, '15C': 24.1}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225675,"{'09A': 99.4, '09V': 99.2, '09N': 38.3, '09L': 36.5, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190425,"{'23F': 99.0, '23A': 64.8, '23B': 47.6, '28A': 47.5, '06A-V': 45.7}",1,99.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019525,"{'01': 99.7, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.3}",1,99.7,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280755,"{'19F-I': 95.9, '19F': 95.6, '19F-III': 94.0, '19F-II': 92.8, '19F-IV': 88.8}",1,95.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218445,"{'19B': 92.9, '19C': 71.8, '19F-IV': 51.1, '19F-II': 51.0, '19F-I': 50.1}",1,92.9,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333255,"{'04': 99.8, '45': 33.7, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900060865,"{'09N': 99.9, '09L': 88.9, '09A': 32.7, '09V': 32.7, '36': 32.1}",1,99.9,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322155,"{'19F-II': 99.5, '19F': 95.3, '19F-III': 94.3, '19F-I': 94.0, '19F-IV': 93.1}",1,99.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307145,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232645,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242595,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321395,"{'23F': 92.5, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.5}",1,92.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257605,"{'35B': 99.4, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244985,"{'14': 91.4, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001199395,"{'33C': 98.7, '34': 29.9, '35B': 26.2, '33F2': 23.8, '33F': 23.0}",1,98.7,,33C,,,{},{},33C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264645,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294435,"{'10A': 99.1, '10B': 66.8, '10C': 27.7, '10F': 18.1, '22F': 15.5}",1,99.1,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331955,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293725,"{'15C': 90.7, '15B': 90.6, '15A': 63.0, '15F': 48.8, '23A': 31.1}",1,90.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023635,"{'06B-I': 97.8, '06A-III': 95.7, '06A': 89.8, '06B-II': 88.6, '06A-V': 86.7}",1,97.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001091625,"{'19F': 94.7, '19F-I': 94.2, '19F-III': 93.1, '19F-II': 91.8, '19F-IV': 88.1}",1,94.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242965,"{'01': 99.2, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001330775,"{'06E': 100.0, '06B-III': 97.0, '06B-I': 44.6, '06A-III': 44.1, '06B-II': 43.3}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001193435,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001147985,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265065,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214895,"{'19F-II': 99.0, '19F': 95.2, '19F-III': 93.8, '19F-I': 93.5, '19F-IV': 93.1}",1,99.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001128505,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272855,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234895,"{'08': 99.5, '06A-II': 24.6, '06A-VI': 24.5, '02': 24.4, '06B-II': 24.0}",1,99.5,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900061875,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019399785,"{'04': 97.7, '45': 33.6, '12F': 23.6, '44': 23.4, '12A': 22.4}",1,97.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194385,"{'10A': 94.2, '10B': 64.8, '10C': 29.3, '10F': 19.7, '47A': 16.8}",1,94.2,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043095,"{'06E': 99.9, '06B-III': 98.4, '06B-I': 46.3, '06A-III': 45.8, '06A-II': 44.8}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316825,"{'14': 91.6, '09L': 26.7, '36': 26.6, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214145,"{'10B': 93.6, '10A': 69.9, '10F': 20.0, '10C': 18.7, '22F': 14.0}",1,93.6,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284665,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001200975,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314755,"{'06A-V': 92.4, '06A-I': 91.8, '06A-III': 89.2, '06B': 88.3, '06A-II': 88.0}",1,92.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054095,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_012955565,"{'45': 5.8, '01': 5.4, '35B': 4.8, '38': 4.8, '20': 4.7}",3,5.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254345,"{'23A': 99.5, '23F': 67.1, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337085,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218435,"{'13': 83.6, '36': 31.3, '14': 26.9, '15B': 26.6, '15C': 26.2}",1,83.6,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320455,"{'19A-I': 99.0, '19A-II': 97.3, '19A': 87.6, '19A-III': 87.4, '19AF': 61.8}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261135,"{'07A': 99.6, '07F': 99.4, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.6,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296545,"{'06A-II': 88.7, '06A-VI': 88.7, '06A-III': 88.6, '06B-II': 87.8, '06A': 87.5}",1,88.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297905,"{'23F': 94.1, '23A': 63.4, '28A': 47.7, '23B': 47.1, '06A': 46.9}",1,94.1,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296135,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233705,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028265,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.4, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907172045,"{'14': 92.7, '36': 29.0, '09L': 25.5, '09N': 24.3, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001169665,"{'34': 92.5, '33F2': 34.4, '35B': 31.6, '33F': 28.7, '33C': 27.8}",1,92.5,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001137105,"{'10F': 98.2, '10C': 80.9, '10B': 22.4, '10A': 19.2, '22F': 15.7}",1,98.2,,10F,,,{},{},10F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341015,"{'14': 94.5, '36': 26.3, '09L': 24.9, '09N': 24.3, '15B': 24.1}",1,94.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227915,"{'10A': 99.4, '10B': 67.1, '10C': 27.7, '10F': 18.1, '22F': 15.5}",1,99.4,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168595,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249275,"{'06A-II': 94.1, '06A-VI': 94.0, '06B-II': 88.5, '06A-V': 88.1, '06A-III': 87.1}",1,94.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221275,"{'15A': 98.2, '15F': 72.9, '15C': 61.5, '15B': 61.4, '23F': 32.1}",1,98.2,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272025,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228155,"{'23F': 98.7, '23A': 64.5, '23B': 47.3, '28A': 47.2, '06A-V': 45.5}",1,98.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001209225,"{'06A-III': 98.5, '06B-I': 96.9, '06A': 90.6, '06B-II': 90.4, '06A-V': 89.5}",1,98.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240525,"{'05': 95.2, '45': 22.2, '36': 21.9, '20': 20.3, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019446215,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001115525,"{'37': 97.5, '33F': 77.5, '33A': 76.2, '33F2': 71.1, '35B': 31.1}",1,97.5,,37,,,{},{},37,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262715,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001161585,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032265,"{'10A': 99.9, '10B': 66.7, '10C': 27.5, '10F': 17.9, '22F': 14.9}",1,99.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340115,"{'14': 92.7, '36': 28.9, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331685,"{'16F': 71.5, '28F': 43.1, '28A': 40.6, '18F': 33.6, '18A': 32.9}",1,71.5,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310085,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230105,"{'05': 95.3, '45': 22.4, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900035095,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342755,"{'19F-I': 95.5, '19F': 95.2, '19F-III': 93.7, '19F-II': 92.4, '19F-IV': 88.4}",1,95.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001112905,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275415,"{'05': 95.2, '45': 22.2, '36': 20.7, '12A': 19.7, '46': 19.6}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278155,"{'05': 95.3, '45': 22.6, '36': 21.8, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190955,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001086605,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337695,"{'13': 98.9, '09N': 29.1, '20': 28.8, '09L': 28.7, '36': 27.9}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001134465,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321245,"{'03': 97.4, '01': 17.1, '20': 15.5, '09N': 15.3, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291615,"{'14': 93.3, '36': 27.4, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236755,"{'14': 91.4, '19F-IV': 25.9, '36': 25.2, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303805,"{'19F': 97.4, '19F-I': 96.4, '19F-III': 95.6, '19F-II': 95.5, '19F-IV': 91.0}",1,97.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265975,"{'31': 99.6, '41A': 57.1, '41F': 48.9, '06A-II': 36.5, '06A-VI': 36.5}",1,99.6,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299855,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032835,"{'03': 94.9, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.7}",1,94.9,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337125,"{'09A': 99.4, '09V': 99.2, '09N': 38.4, '09L': 36.5, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254585,"{'40': 99.6, '07B': 93.9, '07C': 75.4, '24F2': 48.2, '24F': 47.9}",1,99.6,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001143225,"{'28F': 98.6, '28A': 92.2, '23F': 47.6, '16F': 46.0, '06B-I': 42.6}",1,98.6,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193275,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287785,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342965,"{'03': 97.4, '01': 17.5, '20': 15.1, '09N': 15.0, '09L': 14.7}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227975,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306185,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332155,"{'15C': 89.7, '15B': 89.5, '15A': 62.5, '15F': 49.3, '23A': 31.0}",1,89.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019505,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001584805,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901212755,"{'35B': 91.1, '33F': 32.1, '34': 31.4, '33B': 30.8, '33A': 30.4}",1,91.1,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900088745,"{'15B': 99.8, '15C': 99.6, '15A': 62.7, '15F': 48.3, '23A': 32.9}",1,99.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338535,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282555,"{'19F': 93.9, '19F-I': 93.7, '19F-III': 92.5, '19F-IV': 91.4, '19F-II': 91.3}",1,93.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226565,"{'16F': 71.3, '28F': 42.9, '28A': 40.4, '18F': 33.4, '18A': 32.9}",1,71.3,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020140535,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223045,"{'40': 99.6, '07B': 93.9, '07C': 75.4, '24F2': 48.2, '24F': 47.9}",1,99.6,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254285,"{'40': 99.6, '07B': 93.9, '07C': 75.4, '24F2': 48.2, '24F': 47.9}",1,99.6,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233785,"{'09L': 99.4, '09N': 90.1, '36': 32.8, '09A': 31.5, '09V': 31.5}",1,99.4,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001142045,"{'15C': 96.2, '15B': 96.1, '15A': 61.5, '15F': 47.8, '23A': 34.7}",1,96.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052885,"{'18A': 90.2, '18B': 54.0, '18C': 54.0, '18F': 53.4, '16F': 35.5}",1,90.2,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900692755,"{'34': 98.6, '33F2': 35.2, '35B': 33.6, '33F': 29.8, '33C': 28.5}",1,98.6,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310225,"{'33F2': 99.8, '33F': 74.7, '33A': 70.3, '34': 41.7, '35B': 32.5}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334335,"{'37': 98.8, '33F': 76.8, '33A': 75.5, '33F2': 70.3, '35B': 32.1}",1,98.8,,37,,,{},{},37,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309405,"{'33F': 100.0, '33A': 99.9, '33F2': 70.9, '35C': 43.0, '42': 42.0}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235575,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001336815,"{'36': 14.4, '20': 8.8, '06A-IV': 8.5, '06B-I': 7.3, '06C': 7.2}",1,14.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170355,"{'14': 91.7, '36': 27.6, '09L': 24.8, '09N': 24.3, '15B': 23.7}",1,91.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270765,"{'06A-II': 96.5, '06A-VI': 96.5, '06B-II': 93.2, '06A-III': 91.0, '06A-IV': 91.0}",1,96.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193485,"{'06C-I': 92.4, '06C': 92.2, '06D': 82.9, '06B-I': 77.3, '06A-V': 77.2}",1,92.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021021995,"{'02': 57.6, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322555,"{'19A': 99.9, '19A-III': 99.7, '19A-I': 86.1, '19A-II': 83.6, '19AF': 57.2}",1,99.9,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311555,"{'06A': 100.0, '06A-IV': 99.6, '06B-II': 95.4, '06A-V': 93.7, '06A-III': 91.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001152025,"{'36': 10.6, '45': 6.0, '20': 5.8, '06B-I': 5.4, '06C': 5.3}",1,10.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001123305,"{'19A-I': 99.2, '19A-II': 97.5, '19A': 87.8, '19A-III': 87.6, '19AF': 61.8}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296045,"{'01': 6.5, '45': 6.1, '20': 5.9, '25F': 5.8, '25A': 5.6}",5,6.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228675,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001334675,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001102585,"{'11D': 99.8, '11A': 97.0, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,99.8,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282095,"{'14': 94.2, '36': 26.4, '09L': 25.5, '09N': 24.6, '15B': 24.3}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001136525,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314995,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301455,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192955,"{'22F': 96.8, '22A': 73.3, '06A': 42.5, '06B': 42.0, '06A-II': 41.8}",1,96.8,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235775,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282185,"{'35B': 99.7, '33F': 33.6, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.7,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309815,"{'11F': 61.8, '11D': 38.4, '11A': 36.8, '09V': 25.4, '09A': 25.3}",1,61.8,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324775,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316235,"{'03': 97.4, '01': 17.9, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236275,"{'16F': 71.7, '28F': 43.2, '28A': 40.7, '18F': 33.7, '18A': 33.0}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265255,"{'14': 92.7, '36': 29.0, '09L': 25.6, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026015,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259335,"{'03': 97.4, '01': 17.8, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900061195,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347775,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001118765,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.0, '19A-II': 83.5, '19AF': 57.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170215,"{'14': 92.6, '36': 28.5, '09L': 24.9, '15B': 24.2, '15C': 24.1}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288265,"{'05': 95.0, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001132865,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171185,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282495,"{'18F': 85.9, '18B': 72.3, '18C': 72.3, '18A': 60.3, '16F': 42.2}",1,85.9,,18F,,,{},{},18F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192285,"{'06A-IV': 99.9, '06A': 99.7, '06B-II': 95.1, '06A-V': 93.5, '06A-III': 91.4}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028935,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307905,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340515,"{'18A': 100.0, '18B': 54.0, '18C': 54.0, '18F': 53.7, '19F-IV': 37.3}",1,100.0,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258125,"{'07A': 99.5, '07F': 99.3, '19F-II': 36.7, '19F-IV': 36.1, '19F': 35.2}",1,99.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228955,"{'03': 97.4, '01': 17.4, '20': 15.1, '09N': 15.0, '09L': 14.7}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170435,"{'19F-III': 98.2, '19F': 97.8, '19F-I': 97.8, '19F-II': 93.6, '19F-IV': 89.0}",1,98.2,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311335,"{'23F': 98.8, '23A': 65.3, '23B': 48.9, '28A': 48.0, '06A-IV': 47.2}",1,98.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338365,"{'06C-I': 89.3, '06C': 89.2, '06D': 87.0, '06A-I': 77.6, '06B': 77.5}",1,89.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001119165,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001334355,"{'32A': 97.5, '32F': 97.4, '06A-II': 40.5, '06A-VI': 40.4, '06B-II': 39.7}",1,97.5,,32F/32A,,,{},{},32F/32A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001334795,"{'04': 98.3, '45': 31.9, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055065,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221565,"{'14': 92.5, '36': 28.9, '09L': 25.7, '09N': 24.6, '15B': 24.1}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320625,"{'19F-II': 99.3, '19F': 95.5, '19F-III': 94.1, '19F-I': 93.8, '19F-IV': 93.0}",1,99.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900037435,"{'06A-III': 99.9, '06B-I': 98.3, '06B-II': 91.3, '06A': 90.9, '06A-V': 90.4}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291515,"{'06E': 89.8, '06B-III': 88.7, '06B-I': 52.2, '06A-III': 51.1, '06A-II': 49.7}",1,89.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167065,"{'09A': 99.2, '09V': 99.0, '09N': 37.3, '09L': 35.8, '11F': 26.6}",1,99.2,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279305,"{'06A-II': 85.5, '06A-VI': 85.5, '06A-III': 85.4, '06A-V': 84.8, '06A': 84.0}",1,85.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247075,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190535,"{'22F': 97.4, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-I': 41.8}",1,97.4,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028925,"{'10A': 99.3, '10B': 66.4, '10C': 27.4, '10F': 17.8, '22F': 14.6}",1,99.3,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001340335,"{'33B': 89.8, '33D': 89.7, '35B': 33.5, '33F2': 30.3, '22F': 27.4}",1,89.8,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220465,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018985,"{'09A': 99.7, '09V': 99.5, '09N': 38.5, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900059065,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900188765,"{'06A': 99.5, '06A-IV': 99.4, '06B-II': 94.7, '06A-V': 93.1, '06A-III': 90.9}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055005,"{'07C': 99.3, '07B': 72.9, '40': 70.7, '24B': 48.7, '24F': 48.5}",1,99.3,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288555,"{'12F': 95.9, '12B': 93.3, '44': 92.9, '12A': 84.8, '46': 81.7}",1,95.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264515,"{'15A': 98.3, '15F': 72.9, '15C': 61.6, '15B': 61.5, '23F': 32.2}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001083205,"{'45': 6.7, '25F': 5.6, '20': 5.4, '25A': 5.4, '36': 5.4}",4,6.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287645,"{'07C': 93.9, '07B': 77.1, '40': 76.7, '24B': 48.6, '24F': 47.6}",1,93.9,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001167205,"{'06E': 100.0, '06B-III': 98.0, '06B-I': 45.6, '06A-III': 45.1, '06A-II': 44.1}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189525,"{'06A-IV': 99.9, '06A': 99.7, '06B-II': 95.1, '06A-V': 93.5, '06A-III': 91.3}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217065,"{'24F': 96.9, '24B': 89.5, '24F2': 85.7, '24A': 67.2, '07C': 56.8}",1,96.9,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585785,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262335,"{'01': 98.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262295,"{'15C': 87.6, '15B': 87.5, '15A': 64.4, '15F': 49.8, '23A': 30.0}",1,87.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018675,"{'19A': 99.2, '19A-III': 99.0, '19A-I': 86.1, '19A-II': 83.8, '19AF': 57.2}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287245,"{'06A-I': 98.3, '06B': 96.2, '06A-V': 89.7, '06A': 87.6, '06B-II': 86.5}",1,98.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278035,"{'06E': 100.0, '06B-III': 97.9, '06B-I': 45.6, '06A-III': 45.1, '06A-II': 44.1}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002889455,"{'19B': 95.7, '19C': 70.0, '19F-II': 53.9, '19F-I': 53.1, '19F': 53.0}",1,95.7,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024845,"{'33F2': 99.5, '33F': 74.3, '33A': 69.9, '34': 41.3, '35B': 32.1}",1,99.5,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301025,"{'13': 83.3, '36': 28.8, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318995,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257315,"{'09A': 99.4, '09V': 99.2, '09N': 37.6, '09L': 36.8, '06A-IV': 27.3}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065115,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001148925,"{'35B': 99.3, '33F': 33.6, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.3,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001087385,"{'06E': 100.0, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001202315,"{'36': 9.5, '20': 7.7, '06A-IV': 7.3, '06B-I': 5.9, '06C': 5.8}",1,9.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251405,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257985,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170655,"{'14': 92.6, '36': 27.9, '09L': 24.9, '15B': 24.2, '15C': 24.1}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001328955,"{'06E': 100.0, '06B-III': 96.2, '06B-I': 43.6, '06A-III': 43.1, '06A-I': 42.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900034045,"{'04': 99.7, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262915,"{'11D': 80.2, '11A': 78.9, '11F': 45.1, '11B': 34.6, '11C': 31.0}",1,80.2,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221135,"{'33D': 80.6, '33B': 76.6, '06A-I': 36.6, '06B': 36.0, '35B': 36.0}",1,80.6,,"Mixed serotypes- {'33B', '33D'}",,,{},{},"Mixed serotypes- {'33B', '33D'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001112525,"{'14': 95.1, '36': 26.4, '09L': 25.0, '15B': 24.3, '15C': 24.2}",1,95.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256825,"{'23F': 96.0, '23A': 64.5, '23B': 47.9, '28A': 47.0, '28F': 46.3}",1,96.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213735,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267275,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254965,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001134845,"{'06A': 90.4, '06A-III': 89.4, '06A-II': 89.3, '06A-VI': 89.3, '06B-II': 89.3}",1,90.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265815,"{'19F-III': 99.6, '19F': 97.6, '19F-I': 96.9, '19F-II': 94.4, '19F-IV': 89.1}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_005780115,"{'04': 98.3, '45': 34.3, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311545,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192645,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 25.2, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235475,"{'15A': 99.2, '15F': 73.7, '15C': 61.8, '15B': 61.7, '23F': 31.5}",1,99.2,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026205,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001106865,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232265,"{'19A': 93.8, '19A-III': 93.6, '19A-II': 82.2, '19A-I': 80.4, '19AF': 56.3}",1,93.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026365,"{'23B': 99.3, '23B1': 64.5, '23F': 45.7, '23A': 39.9, '06A-IV': 36.7}",1,99.3,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279475,"{'14': 93.9, '36': 26.2, '09L': 25.5, '09N': 24.7, '15B': 24.3}",1,93.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021095,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289765,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001106165,"{'33F': 100.0, '33A': 97.5, '33F2': 70.9, '35C': 42.8, '42': 41.8}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305645,"{'14': 92.7, '36': 28.7, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339515,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001115085,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342935,"{'36': 10.8, '23B1': 7.1, '45': 6.7, '06A-IV': 6.7, '20': 6.0}",1,10.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331505,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295955,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001148565,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270345,"{'09A': 95.8, '09V': 95.6, '09N': 39.0, '09L': 37.0, '06A-IV': 26.4}",1,95.8,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001136945,"{'19F-I': 95.4, '19F': 95.1, '19F-III': 93.6, '19F-II': 92.3, '19F-IV': 88.3}",1,95.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308375,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171915,"{'14': 92.4, '36': 28.8, '09L': 25.7, '09N': 24.6, '15B': 24.1}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313375,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001345055,"{'19F-I': 95.4, '19F': 95.2, '19F-III': 93.7, '19F-II': 92.3, '19F-IV': 88.3}",1,95.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001156765,"{'35B': 94.5, '33F': 33.7, '35C': 33.4, '34': 33.1, '35A': 33.0}",1,94.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190315,"{'06A': 86.6, '06A-V': 86.1, '06A-IV': 86.0, '06B-II': 86.0, '06B-I': 83.8}",1,86.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 83.83']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266435,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316215,"{'34': 98.7, '33F2': 35.2, '35B': 33.5, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293735,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293865,"{'13': 83.3, '36': 28.8, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257085,"{'22A': 94.2, '22F': 77.6, '06A-IV': 45.8, '06A-II': 44.1, '06B-I': 44.1}",1,94.2,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169155,"{'14': 92.7, '36': 27.1, '09L': 24.5, '15B': 24.3, '15C': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002889355,"{'14': 90.0, '36': 29.3, '09L': 23.3, '19F-II': 22.2, '09N': 22.0}",1,90.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001152405,"{'36': 11.3, '06A-IV': 6.4, '45': 5.5, '20': 5.3, '06B-I': 5.2}",1,11.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001330035,"{'06E': 100.0, '06B-III': 95.1, '06A-I': 42.6, '06B-I': 42.5, '06B': 42.2}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227035,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297315,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341165,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.5, '46': 81.4}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245555,"{'08': 99.7, '06A-II': 24.6, '06A-VI': 24.5, '02': 24.3, '06B-II': 24.0}",1,99.7,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001329495,"{'23F': 92.5, '23A': 61.3, '28A': 48.0, '23B': 46.3, '06A-IV': 46.0}",1,92.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249715,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000762445,"{'01': 7.2, '45': 5.8, '25F': 5.7, '25A': 5.5, '06A-IV': 5.3}",2,7.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167115,"{'09A': 99.3, '09V': 99.1, '09N': 36.3, '09L': 34.7, '11F': 26.6}",1,99.3,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222205,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213335,"{'09A': 99.7, '09V': 99.5, '09N': 38.2, '09L': 36.8, '06A-IV': 27.5}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001329655,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224305,"{'23F': 92.4, '23A': 61.1, '28A': 48.1, '23B': 46.4, '06A-IV': 46.4}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332375,"{'03': 74.9, '20': 7.9, '01': 7.2, '36': 7.1, '22F': 6.8}",1,74.9,,3,,,{},{},3,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260725,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234375,"{'19A-II': 97.7, '19A-I': 95.4, '19A': 83.7, '19A-III': 83.5, '19AF': 61.0}",1,97.7,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001132105,"{'14': 94.6, '36': 25.5, '15B': 24.2, '15C': 24.1, '09L': 24.0}",1,94.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900060895,"{'35B': 93.1, '22F': 34.2, '34': 30.0, '33B': 29.5, '33F': 29.3}",1,93.1,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001118945,"{'36': 11.6, '20': 7.6, '06A-IV': 7.4, '06B-I': 6.3, '06C': 6.0}",1,11.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243035,"{'12F': 95.8, '12B': 93.2, '44': 92.8, '12A': 84.7, '46': 81.6}",1,95.8,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338195,"{'19F-I': 95.4, '19F': 95.1, '19F-III': 93.5, '19F-II': 92.3, '19F-IV': 88.7}",1,95.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900692675,"{'14': 100.0, '09L': 27.2, '36': 26.1, '09N': 25.0, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255535,"{'19F-I': 97.3, '19F': 96.6, '19F-III': 96.1, '19F-II': 94.6, '19F-IV': 89.7}",1,97.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256465,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248425,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900459505,"{'18C': 100.0, '18B': 99.7, '18F': 75.7, '18A': 62.4, '16F': 39.2}",1,100.0,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312995,"{'14': 93.2, '09L': 27.5, '36': 27.3, '09N': 25.3, '15B': 24.3}",1,93.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238655,"{'06A': 86.6, '06A-V': 85.7, '06A-IV': 85.6, '06B-II': 85.6, '06B-I': 83.4}",1,86.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 83.83']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001167645,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276975,"{'06E': 99.3, '06B-III': 98.9, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,99.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027265,"{'06A-III': 99.8, '06B-I': 98.2, '06B-II': 91.2, '06A': 90.9, '06A-V': 90.3}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001092805,"{'15A': 97.0, '15F': 73.4, '15C': 61.2, '15B': 61.1, '23F': 31.1}",1,97.0,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316695,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306205,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 94.0, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281005,"{'06E': 100.0, '06B-III': 99.0, '06B-I': 46.3, '06A-III': 45.8, '06A-II': 44.8}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001138965,"{'24F': 97.1, '24B': 89.8, '24F2': 86.6, '24A': 62.9, '07C': 52.0}",1,97.1,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192815,"{'15C': 95.6, '15B': 95.5, '15A': 61.0, '15F': 47.4, '23A': 34.7}",1,95.6,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001115265,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297495,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277205,"{'01': 99.0, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168805,"{'14': 91.2, '36': 26.3, '09L': 25.8, '09N': 25.0, '15B': 23.3}",1,91.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214255,"{'34': 93.0, '33F2': 34.8, '35B': 32.3, '33F': 29.0, '33C': 28.4}",1,93.0,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267205,"{'10A': 93.9, '10B': 64.7, '10C': 29.0, '10F': 19.4, '22F': 16.5}",1,93.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056105,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338855,"{'11F': 61.8, '11D': 38.4, '11A': 36.8, '09V': 25.4, '09A': 25.3}",1,61.8,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293635,"{'07A': 91.2, '07F': 91.0, '19F-II': 39.3, '19F': 37.8, '19F-IV': 37.8}",1,91.2,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291325,"{'14': 92.4, '36': 30.1, '09L': 25.8, '09N': 24.7, '15B': 24.3}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323035,"{'17F': 82.2, '06A-I': 42.1, '06B': 41.7, '06A': 41.0, '06A-III': 40.4}",1,82.2,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338475,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.7, '06A-IV': 46.5}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268585,"{'16F': 97.7, '28F': 42.7, '19F-IV': 42.4, '19F-II': 41.6, '18F': 41.5}",1,97.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021021915,"{'02': 56.8, '06C': 23.4, '06B-I': 23.4, '06C-I': 23.4, '06A-II': 23.1}",1,56.8,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020140415,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230425,"{'29': 99.2, '39': 21.1, '35F': 19.4, '22F': 16.6, '35B': 16.4}",1,99.2,,29,,,{},{},29,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230585,"{'31': 99.6, '41A': 57.3, '41F': 48.9, '06A-II': 36.5, '06A-VI': 36.5}",1,99.6,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227865,"{'05': 95.2, '45': 22.6, '36': 21.7, '20': 20.4, '12A': 19.8}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227995,"{'35B': 44.1, '33B': 39.2, '33D': 35.7, '34': 31.8, '33F': 30.2}",1,44.1,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334845,"{'23F': 96.1, '23A': 63.9, '28A': 46.6, '28F': 44.9, '06A': 44.0}",1,96.1,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225805,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215605,"{'11A': 97.7, '11D': 95.3, '11F': 39.3, '11C': 36.5, '11B': 35.0}",1,97.7,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001139485,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265685,"{'23F': 78.3, '23A': 58.1, '23B': 52.1, '28A': 39.2, '28F': 36.6}",1,78.3,,23F,,,{},{},23F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220155,"{'35A': 94.4, '35C': 89.7, '42': 89.1, '33A': 46.4, '33F': 45.9}",1,94.4,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217105,"{'04': 99.4, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.4,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192625,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 25.2, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021245,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294585,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189155,"{'23F': 99.1, '23A': 65.4, '23B': 49.0, '28A': 48.0, '06A-IV': 46.9}",1,99.1,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229915,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167275,"{'09A': 99.0, '09V': 98.8, '09N': 36.4, '09L': 35.3, '11F': 26.6}",1,99.0,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001128965,"{'09N': 99.7, '09L': 88.3, '09A': 32.4, '09V': 32.4, '36': 30.5}",1,99.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026415,"{'19A-I': 99.2, '19A-II': 97.5, '19A': 87.7, '19A-III': 87.5, '19AF': 62.0}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305735,"{'19F': 94.7, '19F-I': 94.2, '19F-III': 93.1, '19F-II': 91.8, '19F-IV': 88.0}",1,94.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274435,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043045,"{'09A': 99.7, '09V': 99.5, '09N': 38.2, '09L': 36.8, '35B': 26.7}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294135,"{'09A': 99.4, '09V': 99.2, '09N': 37.6, '09L': 36.9, '06A-IV': 27.3}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001169225,"{'16F': 99.9, '28F': 42.4, '19F-IV': 41.1, '18A': 40.8, '18F': 40.7}",1,99.9,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326815,"{'15C': 95.2, '15B': 95.1, '15A': 60.8, '15F': 47.3, '23A': 34.0}",1,95.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342775,"{'03': 75.1, '20': 7.9, '01': 7.1, '36': 7.1, '22F': 6.8}",1,75.1,,3,,,{},{},3,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277765,"{'34': 98.7, '33F2': 35.2, '35B': 33.5, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249235,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001124305,"{'36': 11.9, '20': 7.6, '45': 7.0, '06B-I': 6.1, '06C': 6.0}",1,11.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019456895,"{'10A': 93.9, '10B': 64.7, '10C': 29.0, '10F': 19.4, '47A': 16.3}",1,93.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316335,"{'04': 89.0, '12A': 34.8, '46': 34.7, '12B': 30.4, '12F': 28.8}",1,89.0,,4,,,{},{},4,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258885,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001201355,"{'35B': 97.9, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,97.9,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339315,"{'14': 91.4, '19F-IV': 25.9, '36': 25.1, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001127985,"{'03': 95.2, '36': 16.8, '20': 15.7, '09N': 15.4, '09L': 14.9}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001162305,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269745,"{'35F': 99.9, '47F': 74.7, '34': 26.7, '35B': 26.6, '36': 22.7}",1,99.9,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249965,"{'15A': 99.6, '15F': 73.9, '15C': 62.3, '15B': 62.2, '23F': 31.3}",1,99.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297175,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301795,"{'18C': 88.5, '18B': 88.4, '18F': 77.8, '18A': 61.8, '16F': 37.6}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291745,"{'15C': 96.0, '15B': 95.8, '15A': 61.5, '15F': 47.8, '23A': 34.8}",1,96.0,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900059055,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001302195,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056385,"{'15A': 98.4, '15F': 73.7, '15C': 62.1, '15B': 62.0, '23F': 31.7}",1,98.4,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000251665,"{'19A': 99.8, '19A-III': 99.6, '19A-I': 86.0, '19A-II': 83.5, '19AF': 57.1}",1,99.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256745,"{'14': 92.7, '36': 28.4, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249835,"{'14': 93.0, '36': 27.3, '09L': 25.8, '09N': 25.5, '15B': 24.3}",1,93.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218595,"{'06B-III': 87.3, '06E': 86.9, '06A-V': 53.0, '06B-I': 52.6, '06B-II': 52.6}",1,87.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002081365,"{'14': 99.7, '36': 26.6, '15B': 24.0, '15C': 23.9, '09L': 23.4}",1,99.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229205,"{'14': 99.0, '36': 28.4, '09L': 27.2, '09N': 25.0, '15B': 24.2}",1,99.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287915,"{'16F': 71.5, '28F': 43.1, '28A': 40.6, '18F': 33.6, '18A': 32.9}",1,71.5,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001129425,"{'45': 7.0, '01': 6.7, '25F': 5.7, '25A': 5.5, '22F': 4.9}",3,7.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170505,"{'14': 92.6, '36': 28.9, '09L': 25.5, '09N': 24.4, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001096465,"{'14': 94.1, '36': 26.2, '09L': 25.2, '09N': 24.6, '15B': 24.3}",1,94.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323825,"{'13': 83.3, '36': 28.9, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277215,"{'03': 96.9, '01': 17.6, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,96.9,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021775,"{'06B-I': 99.7, '06A-III': 97.6, '06B-II': 90.3, '06A': 89.8, '06A-V': 88.4}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263325,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260085,"{'01': 99.0, '19F': 32.0, '19F-I': 31.5, '19F-III': 31.3, '19F-II': 31.0}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249495,"{'23A': 97.6, '23F': 68.9, '23B': 40.1, '19F-II': 39.3, '15B': 38.7}",1,97.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900039335,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021022215,"{'02': 57.6, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259255,"{'23F': 96.8, '23A': 63.7, '23B': 48.0, '28A': 47.7, '06B-II': 46.1}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341555,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.5, '46': 81.4}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219905,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347635,"{'14': 94.2, '36': 26.3, '09L': 25.4, '09N': 24.5, '15B': 24.3}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292375,"{'19A': 99.4, '19A-III': 99.2, '19A-I': 86.1, '19A-II': 83.9, '19AF': 57.1}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296005,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 89.6, '06A': 87.7, '06A-III': 86.1}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292985,"{'02': 92.4, '22F': 40.0, '06B-I': 38.7, '06A-III': 38.6, '06A-II': 38.5}",1,92.4,,2,,,{},{},2,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304915,"{'15B': 99.8, '15C': 99.6, '15A': 62.7, '15F': 48.3, '23A': 32.9}",1,99.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001141525,"{'19A': 99.8, '19A-III': 99.6, '19A-I': 86.0, '19A-II': 83.5, '19AF': 57.0}",1,99.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342025,"{'16F': 71.5, '28F': 43.1, '28A': 40.6, '18F': 33.6, '18A': 32.9}",1,71.5,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238485,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279425,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312075,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337015,"{'09N': 97.8, '09L': 87.0, '09A': 31.4, '09V': 31.4, '36': 30.2}",1,97.8,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054515,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 7.9}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312455,"{'17F': 82.2, '06A-I': 42.2, '06B': 41.8, '06A': 41.2, '06A-III': 40.5}",1,82.2,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308945,"{'23F': 78.0, '23A': 57.7, '23B': 51.5, '28A': 38.9, '28F': 36.3}",1,78.0,,23F,,,{},{},23F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002890035,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292635,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001201755,"{'09A': 95.9, '09V': 95.7, '09N': 38.2, '09L': 36.7, '11F': 26.7}",1,95.9,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001114205,"{'36': 10.6, '06A-IV': 7.1, '20': 6.2, '06B-I': 5.9, '06C': 5.8}",1,10.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320995,"{'01': 99.5, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250175,"{'34': 98.6, '33F2': 35.2, '35B': 33.2, '33F': 29.8, '33C': 28.5}",1,98.6,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215085,"{'06E': 99.6, '06B-III': 96.8, '06B-I': 44.6, '06A-III': 44.1, '06B-II': 43.5}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213785,"{'19F-I': 97.7, '19F': 97.0, '19F-III': 96.5, '19F-II': 95.0, '19F-IV': 90.1}",1,97.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001302015,"{'23A': 99.2, '23F': 67.3, '23B': 43.6, '19F-II': 37.4, '19F-IV': 37.0}",1,99.2,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256065,"{'15A': 98.3, '15F': 72.9, '15C': 61.6, '15B': 61.5, '23F': 32.2}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232405,"{'06C-I': 92.5, '06C': 92.4, '06D': 82.2, '06B-I': 77.3, '06A-III': 76.7}",1,92.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 88.3']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311185,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328765,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.8, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053945,"{'06C-I': 88.9, '06C': 88.8, '06D': 86.7, '06A-I': 77.5, '06B': 77.2}",1,88.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191795,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 25.4, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001088565,"{'16F': 95.7, '19F-II': 42.6, '19F-IV': 42.6, '28F': 42.4, '19F': 41.6}",1,95.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001340355,"{'36': 10.4, '45': 7.0, '20': 5.9, '06B-I': 5.5, '06C': 5.4}",1,10.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001148405,"{'20': 5.5, '22F': 5.1, '45': 5.0, '25A': 4.5, '25F': 4.5}",1,5.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241255,"{'17F': 82.3, '06A-I': 42.2, '06B': 41.8, '06A': 41.2, '06A-III': 40.5}",1,82.3,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258205,"{'01': 6.7, '20': 6.1, '45': 6.0, '25F': 5.7, '36': 5.6}",3,6.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337875,"{'06A-II': 95.1, '06A-VI': 95.1, '06B-II': 89.0, '06A-V': 88.6, '06A-III': 88.0}",1,95.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254545,"{'06E': 100.0, '06B-III': 99.2, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 96.61]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258445,"{'38': 97.7, '25F': 84.4, '25A': 83.4, '36': 15.7, '01': 7.7}",1,97.7,25F_25A_38,25F_25A_38,,"[[0], [19]]","{'wcyD': ['b: 80.0'], 'wcyV': 100.0}","{'wcyD': 0, 'wcyV': 'detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279915,"{'23F': 96.6, '23A': 63.0, '06A-IV': 51.0, '23B': 50.1, '06A-V': 48.8}",1,96.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063435,"{'19A': 99.2, '19A-III': 99.0, '19A-I': 86.1, '19A-II': 83.8, '19AF': 57.2}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189505,"{'06A-II': 95.0, '06A-VI': 95.0, '06A-V': 88.4, '06B-II': 88.4, '06A-III': 87.9}",1,95.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001138925,"{'06C': 85.6, '06C-I': 85.6, '06D': 84.7, '06A': 77.0, '06A-IV': 73.3}",1,85.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001130165,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256815,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09L': 15.6}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229785,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193825,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316125,"{'07A': 97.3, '07F': 97.1, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,97.3,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026255,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019670825,"{'13': 98.8, '20': 28.6, '09L': 28.4, '09N': 28.1, '14': 26.9}",1,98.8,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300915,"{'35B': 99.3, '33F': 33.7, '35C': 33.4, '34': 33.3, '35A': 33.2}",1,99.3,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279355,"{'06E': 98.9, '06B-III': 98.1, '06B-I': 47.5, '06A-III': 47.0, '06A-II': 46.7}",1,98.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277985,"{'23F': 96.6, '23A': 63.7, '06A-IV': 50.8, '23B': 50.3, '06B-II': 48.5}",1,96.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288205,"{'18A': 90.5, '18B': 54.1, '18C': 54.1, '18F': 53.5, '16F': 35.5}",1,90.5,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277745,"{'29': 59.6, '35B': 37.6, '35F': 26.8, '33B': 23.1, '33D': 22.9}",1,59.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220995,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244435,"{'31': 99.7, '41A': 57.2, '41F': 49.3, '06A-II': 36.5, '06A-VI': 36.5}",1,99.7,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190575,"{'06A': 100.0, '06A-IV': 99.6, '06B-II': 95.4, '06A-V': 93.7, '06A-III': 91.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268205,"{'14': 91.3, '19F-IV': 25.9, '36': 25.4, '09L': 25.0, '09N': 24.7}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001154085,"{'03': 95.1, '01': 15.6, '09L': 15.1, '20': 15.1, '09N': 14.8}",1,95.1,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261315,"{'09L': 94.7, '09N': 93.2, '09A': 31.1, '09V': 31.1, '36': 29.4}",1,94.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023215,"{'03': 95.2, '36': 17.4, '01': 16.8, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266675,"{'09A': 99.7, '09V': 99.5, '09N': 38.1, '09L': 36.7, '06A-IV': 27.5}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243315,"{'19A-I': 98.9, '19A-II': 96.9, '19A': 87.5, '19A-III': 87.3, '19AF': 61.5}",1,98.9,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232405,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001093305,"{'06A-III': 87.8, '06B-I': 87.2, '06A-II': 87.1, '06A-VI': 87.1, '06B-II': 85.9}",1,87.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001083585,"{'06A': 90.4, '06A-III': 89.3, '06A-II': 89.2, '06A-VI': 89.2, '06B-II': 89.2}",1,90.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328865,"{'21': 98.6, '22F': 36.4, '06A-IV': 33.1, '06A-II': 32.6, '06A-VI': 32.5}",1,98.6,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001164685,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284655,"{'09A': 95.9, '09V': 95.7, '09N': 38.8, '09L': 37.4, '11F': 26.6}",1,95.9,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900195235,"{'22F': 94.0, '22A': 70.2, '06A-II': 45.3, '06A-VI': 45.2, '06B-I': 45.2}",1,94.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001125945,"{'36': 11.3, '06A-IV': 6.6, '20': 5.8, '45': 5.7, '23B1': 5.7}",1,11.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226095,"{'19B': 99.7, '19C': 70.2, '19F-IV': 54.1, '19F-II': 53.9, '19F-I': 53.4}",1,99.7,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326105,"{'10F': 98.2, '10C': 80.9, '10B': 22.4, '10A': 19.2, '22F': 15.7}",1,98.2,,10F,,,{},{},10F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001150785,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219975,"{'38': 90.2, '25F': 86.1, '25A': 85.1, '36': 11.9, '20': 8.3}",1,90.2,25F_25A_38,25F_25A_38,,"[[0], [18]]","{'wcyD': ['b: 22.59'], 'wcyV': 4.69}","{'wcyD': 0, 'wcyV': 'not_detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286445,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243465,"{'11D': 75.9, '11A': 74.6, '11F': 45.7, '11B': 33.4, '11C': 29.8}",1,75.9,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284145,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001091925,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900060105,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031785,"{'09N': 99.8, '09L': 88.9, '09A': 32.7, '09V': 32.7, '36': 32.2}",1,99.8,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033445,"{'14': 100.0, '09L': 27.1, '36': 25.6, '09N': 24.9, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055655,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001165545,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024555,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214525,"{'19F-I': 99.7, '19F': 96.7, '19F-III': 96.7, '19F-II': 93.9, '19F-IV': 89.3}",1,99.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031745,"{'09A': 99.7, '09V': 99.5, '09N': 38.2, '09L': 36.8, '06A-IV': 27.4}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001121105,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001160765,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001156045,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235015,"{'01': 99.5, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216515,"{'23F': 98.7, '23A': 65.2, '28A': 48.0, '23B': 47.9, '06A-V': 46.1}",1,98.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167175,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057035,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235485,"{'06A-III': 94.7, '06B-I': 93.3, '06A': 90.2, '06A-IV': 89.4, '06B-II': 89.3}",1,94.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336015,"{'01': 7.5, '45': 6.4, '25F': 5.8, '25A': 5.6, '22F': 5.3}",3,7.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234585,"{'12F': 95.8, '12B': 93.2, '44': 92.8, '12A': 84.7, '46': 81.6}",1,95.8,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297225,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213045,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033865,"{'19A': 99.2, '19A-III': 99.0, '19A-I': 86.1, '19A-II': 83.8, '19AF': 57.1}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326075,"{'01': 99.6, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.6,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301575,"{'23F': 96.7, '23A': 63.8, '06A-IV': 50.8, '23B': 50.3, '06B-II': 48.5}",1,96.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336335,"{'35F': 99.2, '47F': 74.5, '34': 26.7, '35B': 26.5, '29': 22.5}",1,99.2,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231335,"{'08': 99.5, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.5,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216165,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001145325,"{'06E': 99.8, '06B-III': 99.0, '06B-I': 46.7, '06A-III': 46.2, '06A-II': 45.3}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023675,"{'04': 99.8, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001330615,"{'06E': 100.0, '06B-III': 99.2, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259015,"{'21': 99.3, '22F': 35.7, '06A-IV': 30.8, '06B': 30.2, '06A': 30.1}",1,99.3,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298655,"{'14': 99.6, '09L': 27.0, '36': 25.9, '09N': 24.8, '15B': 24.1}",1,99.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019397925,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339235,"{'31': 99.6, '41A': 57.2, '41F': 49.3, '06A-II': 36.5, '06A-VI': 36.5}",1,99.6,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239155,"{'20': 81.8, '47F': 25.9, '09L': 24.5, '35A': 24.3, '36': 23.9}",1,81.8,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217395,"{'19AF': 97.4, '19A-II': 61.3, '19A-I': 60.6, '19A': 51.9, '19A-III': 51.7}",1,97.4,19A_19AF,19A_19AF,,[[7]],"{'wzy': [2, 92.87]}",{'wzy': 2},19A_19AF,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300275,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299505,"{'08': 98.0, '02': 24.4, '06A-II': 24.2, '06A-VI': 24.1, '06B-II': 23.7}",1,98.0,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189975,"{'17F': 99.6, '06B': 44.3, '06B-I': 44.1, '06A-III': 44.0, '06D': 43.7}",1,99.6,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001097565,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056715,"{'22F': 98.9, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-I': 41.8}",1,98.9,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304625,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316955,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.6}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261035,"{'06E': 100.0, '06B-III': 99.1, '06B-I': 46.5, '06A-III': 46.0, '06A-II': 45.0}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272475,"{'15A': 98.3, '15F': 72.9, '15C': 61.6, '15B': 61.5, '23F': 32.2}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281265,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021065,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307755,"{'10A': 99.5, '10B': 66.3, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,99.5,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295805,"{'23B': 99.5, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.8}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001167905,"{'20': 5.4, '22F': 5.0, '45': 4.8, '25A': 4.1, '25F': 4.1}",1,5.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253975,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342245,"{'16F': 71.5, '28F': 43.1, '28A': 40.6, '18F': 33.6, '18A': 32.9}",1,71.5,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243885,"{'23F': 97.0, '23A': 63.9, '23B': 48.0, '28A': 47.7, '06B-II': 46.1}",1,97.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300195,"{'15C': 96.1, '15B': 96.0, '15A': 61.4, '15F': 47.7, '23A': 34.7}",1,96.1,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001124345,"{'36': 11.2, '06A-IV': 7.3, '20': 7.2, '06C': 5.9, '06B-I': 5.9}",2,11.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316135,"{'06A-II': 95.6, '06A-VI': 95.6, '06B-II': 89.5, '06A-V': 89.1, '06A-III': 88.5}",1,95.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292585,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001200455,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309665,"{'19A': 99.1, '19A-III': 98.9, '19A-I': 86.0, '19A-II': 83.7, '19AF': 57.4}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265695,"{'06A-II': 100.0, '06A-VI': 100.0, '06B-II': 91.8, '06A-V': 91.0, '06A-III': 89.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335535,"{'06E': 100.0, '06B-III': 97.6, '06B-I': 44.9, '06A-III': 44.4, '06B-II': 43.8}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019446695,"{'10A': 94.2, '10B': 64.8, '10C': 29.3, '10F': 19.7, '47A': 16.8}",1,94.2,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169575,"{'14': 92.6, '36': 29.9, '09L': 25.7, '09N': 24.5, '15B': 24.3}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001114965,"{'25F': 5.7, '45': 5.6, '25A': 5.5, '01': 5.4, '20': 5.0}",3,5.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169625,"{'14': 91.8, '36': 27.9, '09L': 25.6, '09N': 24.5, '15B': 23.7}",1,91.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272715,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002093345,"{'04': 99.7, '45': 35.0, '19A': 30.2, '19A-III': 30.2, '19A-II': 29.7}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299765,"{'09A': 98.3, '09V': 98.1, '09N': 38.1, '09L': 36.6, '11F': 26.6}",1,98.3,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255965,"{'14': 94.2, '36': 26.3, '09L': 25.5, '09N': 24.5, '15B': 24.3}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001163065,"{'36': 12.0, '20': 6.8, '06A-IV': 6.7, '01': 6.1, '45': 6.0}",1,12.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309095,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321375,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.8, '24F': 48.6}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302895,"{'10A': 99.4, '10B': 67.1, '10C': 27.7, '10F': 18.1, '22F': 15.2}",1,99.4,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305165,"{'17F': 99.7, '06B': 44.4, '06B-I': 43.7, '06D': 43.6, '06A-III': 43.6}",1,99.7,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192715,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288275,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020695,"{'09A': 99.7, '09V': 99.5, '09N': 38.6, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324865,"{'23F': 96.7, '23A': 63.8, '06A-IV': 50.8, '23B': 50.3, '06B-II': 48.5}",1,96.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344195,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338605,"{'01': 99.1, '19F': 32.0, '19F-I': 31.5, '19F-III': 31.3, '19F-II': 31.0}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001108105,"{'34': 92.9, '33F2': 34.7, '35B': 30.9, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167695,"{'09A': 97.4, '09V': 97.2, '09N': 35.9, '09L': 34.0, '35B': 25.5}",1,97.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259505,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328595,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023955,"{'22A': 93.8, '22F': 81.1, '06A-I': 41.0, '06A-IV': 40.7, '06B': 40.5}",1,93.8,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260475,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267535,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001166425,"{'34': 92.7, '33F2': 34.5, '35B': 30.7, '33F': 28.8, '33C': 27.8}",1,92.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303005,"{'34': 98.5, '33F2': 35.1, '35B': 33.5, '33F': 29.7, '33C': 28.5}",1,98.5,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019845,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.4, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043795,"{'13': 98.5, '20': 29.4, '09N': 29.1, '09L': 28.9, '36': 27.4}",1,98.5,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001166385,"{'15A': 97.1, '15F': 73.5, '15C': 61.3, '15B': 61.2, '23F': 31.2}",1,97.1,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282835,"{'10A': 99.6, '10B': 66.5, '10C': 27.5, '10F': 17.9, '22F': 15.2}",1,99.6,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001116205,"{'36': 10.1, '06A-IV': 7.3, '20': 7.0, '01': 6.9, '06B-I': 6.1}",1,10.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252815,"{'01': 99.5, '19F': 32.2, '19F-I': 31.7, '19F-III': 31.5, '19F-II': 31.2}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900195245,"{'15C': 93.9, '15B': 93.8, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049585,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001326715,"{'03': 95.2, '36': 16.9, '01': 16.5, '20': 15.3, '09L': 14.9}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001089405,"{'33B': 89.8, '33D': 89.7, '35B': 34.5, '33F2': 30.3, '22F': 26.6}",1,89.8,,"Mixed serotypes- {'33B', '33D'}",,,{},{},"Mixed serotypes- {'33B', '33D'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300925,"{'23A': 97.5, '23F': 68.8, '23B': 40.1, '19F-II': 39.2, '15B': 38.8}",1,97.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018825,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000170015,"{'03': 95.2, '36': 16.9, '01': 16.2, '20': 15.8, '09L': 15.6}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900048415,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219065,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.5, '46': 81.4}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333465,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063245,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267665,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585435,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318635,"{'22F': 88.6, '22A': 68.2, '06A-IV': 45.4, '06A-II': 44.2, '06A-VI': 44.1}",1,88.6,,22F,,,{},{},22F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051615,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.5, '46': 81.4}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301055,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259745,"{'09A': 99.7, '09V': 99.5, '09N': 38.5, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216625,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001301935,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266055,"{'06E': 99.8, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335345,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000251445,"{'19F': 95.1, '19F-I': 94.3, '19F-III': 93.5, '19F-II': 91.9, '19F-IV': 88.2}",1,95.1,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001104625,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055355,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265335,"{'33F2': 98.5, '33F': 75.2, '33A': 70.8, '34': 42.5, '35B': 32.7}",1,98.5,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342545,"{'29': 59.4, '35B': 37.8, '35F': 26.6, '22F': 23.4, '33B': 23.1}",1,59.4,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272235,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334855,"{'25F': 99.8, '25A': 98.8, '38': 80.9, '36': 9.0, '01': 7.9}",1,99.8,25F_25A_38,25F_25A_38,,"[[8], [18]]","{'wcyD': ['a', 100.0], 'wcyV': 0.12}","{'wcyD': 'a', 'wcyV': 'not_detected'}",25F/25A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238165,"{'23F': 94.1, '23A': 63.4, '28A': 47.7, '23B': 47.1, '06A': 46.9}",1,94.1,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286425,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001198875,"{'36': 11.2, '23B1': 7.9, '06A-IV': 6.7, '20': 6.3, '45': 5.8}",1,11.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001160785,"{'35B': 95.4, '33F': 33.9, '35C': 33.6, '35A': 33.2, '34': 33.1}",1,95.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325725,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321445,"{'15A': 98.3, '15F': 72.9, '15C': 61.6, '15B': 61.5, '23F': 32.2}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286155,"{'06A-I': 95.1, '06B': 93.0, '06A-V': 89.4, '06A': 87.3, '06B-II': 86.2}",1,95.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900036165,"{'14': 99.9, '09L': 27.1, '36': 25.9, '09N': 24.7, '15B': 24.3}",1,99.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001086465,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285765,"{'33B': 89.4, '33D': 89.3, '35B': 34.6, '33F2': 30.3, '22F': 28.0}",1,89.4,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263135,"{'18C': 88.3, '18B': 88.2, '18F': 77.8, '18A': 61.9, '16F': 37.6}",1,88.3,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280215,"{'19F-IV': 73.6, '19F-II': 73.4, '19F': 72.4, '19F-I': 71.7, '19F-III': 71.3}",1,73.6,,19F,,,{},{},19F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261465,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241725,"{'35F': 99.2, '47F': 74.5, '34': 26.7, '35B': 26.5, '29': 22.2}",1,99.2,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001115425,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001132025,"{'33B': 89.8, '33D': 89.7, '35B': 34.8, '33F2': 30.3, '22F': 28.1}",1,89.8,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228215,"{'06A-II': 91.4, '06A-VI': 91.4, '06A-V': 90.1, '06B-II': 89.7, '06A-III': 89.6}",1,91.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001348135,"{'23A': 96.5, '23F': 67.6, '23B': 45.9, '19F-II': 39.4, '15B': 38.5}",1,96.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255585,"{'23F': 92.4, '23A': 61.1, '28A': 48.1, '23B': 46.6, '06A-IV': 46.6}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333155,"{'07C': 92.9, '07B': 71.8, '40': 70.0, '24B': 48.4, '24F': 47.0}",1,92.9,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224535,"{'09N': 97.6, '09L': 86.7, '09A': 31.4, '09V': 31.4, '36': 29.5}",1,97.6,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234225,"{'08': 99.8, '06A-II': 26.2, '06A-VI': 26.2, '06B-II': 25.6, '06A-V': 25.2}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900195255,"{'15B': 99.8, '15C': 99.6, '15A': 62.7, '15F': 48.3, '23A': 32.9}",1,99.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303045,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226855,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001121025,"{'33B': 89.8, '33D': 89.7, '35B': 34.5, '33F2': 30.3, '22F': 27.7}",1,89.8,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001130205,"{'36': 12.4, '20': 7.5, '06A-IV': 7.5, '06C': 6.1, '06C-I': 6.1}",1,12.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001205515,"{'24F': 97.1, '24B': 89.8, '24F2': 86.6, '24A': 62.9, '07C': 52.0}",1,97.1,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313475,"{'14': 89.4, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,89.4,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257185,"{'14': 92.7, '36': 28.8, '09L': 25.7, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255025,"{'19F': 97.3, '19F-I': 96.3, '19F-III': 95.5, '19F-II': 95.4, '19F-IV': 90.9}",1,97.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001122925,"{'06E': 99.9, '06B-III': 98.9, '06B-I': 46.3, '06A-III': 45.8, '06A-II': 44.8}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001141605,"{'25F': 6.9, '25A': 6.7, '38': 4.4, '36': 4.2, '35B': 4.0}",1,6.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282145,"{'04': 99.7, '45': 33.9, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229725,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.4, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218845,"{'13': 83.7, '36': 32.6, '14': 27.2, '15B': 26.7, '15C': 26.3}",1,83.7,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052555,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330635,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000170075,"{'11D': 99.7, '11A': 96.9, '11F': 41.9, '11C': 35.9, '11B': 34.4}",1,99.7,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317645,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340525,"{'03': 75.1, '20': 7.9, '36': 7.1, '01': 7.0, '22F': 6.8}",1,75.1,,3,,,{},{},3,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287775,"{'35F': 99.9, '47F': 74.7, '34': 26.7, '35B': 26.5, '36': 23.5}",1,99.9,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001095945,"{'19A-I': 99.0, '19A-II': 97.4, '19A': 87.6, '19A-III': 87.4, '19AF': 61.6}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338725,"{'22F': 96.4, '22A': 73.2, '06A': 42.6, '06B-II': 42.5, '06A-II': 42.4}",1,96.4,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001207255,"{'34': 98.6, '33F2': 35.2, '35B': 32.4, '33F': 29.7, '33C': 28.4}",1,98.6,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237685,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900195145,"{'24F2': 99.6, '24B': 88.4, '24F': 86.9, '24A': 71.2, '07B': 55.1}",1,99.6,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315915,"{'15A': 99.6, '15F': 73.9, '15C': 62.3, '15B': 62.2, '23F': 31.3}",1,99.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233325,"{'33D': 80.6, '33B': 76.6, '06A-I': 36.6, '06B': 36.0, '35B': 36.0}",1,80.6,,"Mixed serotypes- {'33B', '33D'}",,,{},{},"Mixed serotypes- {'33B', '33D'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306925,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_909594485,"{'19F-III': 98.4, '19F': 98.0, '19F-I': 98.0, '19F-II': 93.8, '19F-IV': 89.2}",1,98.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001162885,"{'09N': 99.7, '09L': 88.6, '09A': 32.7, '09V': 32.7, '36': 29.4}",1,99.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900692925,"{'06E': 99.5, '06B-III': 99.2, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290465,"{'19F': 98.3, '19F-I': 97.4, '19F-III': 96.5, '19F-II': 96.2, '19F-IV': 91.3}",1,98.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323785,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298215,"{'20': 92.7, '09L': 26.2, '13': 26.1, '47F': 24.8, '09N': 24.6}",1,92.7,,20,,,{},{},20,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257705,"{'38': 98.8, '25F': 84.4, '25A': 83.4, '36': 11.8, '20': 8.2}",1,98.8,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226295,"{'19A': 99.5, '19A-III': 99.3, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,99.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001348515,"{'23F': 93.9, '23A': 63.4, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,93.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316445,"{'14': 92.8, '36': 27.3, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,92.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031285,"{'19F-II': 99.5, '19F': 95.3, '19F-III': 94.3, '19F-I': 94.0, '19F-IV': 93.2}",1,99.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286395,"{'06A-I': 98.5, '06B': 96.4, '06A-V': 89.9, '06A': 87.9, '06B-II': 86.7}",1,98.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001154465,"{'37': 98.8, '33F': 77.0, '33A': 75.7, '33F2': 70.6, '35B': 30.0}",1,98.8,,37,,,{},{},37,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280395,"{'14': 95.0, '36': 26.5, '09L': 25.5, '09N': 24.6, '15B': 24.3}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001199595,"{'10A': 99.3, '10B': 67.0, '10C': 27.7, '10F': 18.1, '06B-I': 15.2}",1,99.3,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320545,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232325,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001170825,"{'35A': 99.9, '35C': 85.2, '42': 84.6, '33A': 42.9, '33F': 42.6}",1,99.9,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242205,"{'06A-II': 85.4, '06A-VI': 85.4, '06A-III': 85.3, '06A-V': 84.7, '06B-I': 83.9}",1,85.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234555,"{'14': 92.7, '36': 29.0, '09L': 25.7, '09N': 24.5, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226775,"{'19A-II': 98.1, '19A-I': 95.6, '19A': 84.1, '19A-III': 83.9, '19AF': 61.7}",1,98.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900058535,"{'24F': 97.0, '24B': 89.8, '24F2': 86.5, '24A': 63.0, '07C': 52.1}",1,97.0,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900061325,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330295,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001108645,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001140785,"{'36': 12.9, '20': 7.7, '06A-IV': 7.6, '06C': 6.2, '06C-I': 6.2}",1,12.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269365,"{'23A': 83.5, '23F': 63.2, '23B': 41.2, '15B': 36.5, '15C': 36.1}",1,83.5,,23A,,,{},{},23A,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018795,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320825,"{'19B': 99.7, '19C': 70.2, '19F-IV': 54.1, '19F-II': 53.9, '19F-I': 53.4}",1,99.7,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226755,"{'14': 92.7, '36': 29.0, '09L': 25.7, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312675,"{'23F': 78.7, '23A': 60.1, '23B': 47.1, '06E': 40.4, '06B-III': 38.5}",1,78.7,,23F,,,{},{},23F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029505,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001142425,"{'23F': 99.3, '23A': 65.5, '23B': 49.1, '28A': 48.2, '06A-IV': 47.3}",1,99.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001153885,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306715,"{'20': 82.0, '47F': 25.9, '09L': 24.5, '35A': 24.5, '36': 23.9}",1,82.0,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295205,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243875,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001112485,"{'35F': 91.1, '47F': 67.7, '29': 25.7, '34': 25.3, '35B': 24.5}",1,91.1,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232145,"{'06E': 99.1, '06B-III': 98.8, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300635,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240495,"{'12F': 95.8, '12B': 93.2, '44': 92.8, '12A': 84.7, '46': 81.6}",1,95.8,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001302175,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292235,"{'15C': 96.1, '15B': 95.9, '15A': 61.4, '15F': 47.7, '23A': 34.8}",1,96.1,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001131925,"{'17F': 93.5, '06A-III': 45.6, '06B-I': 45.4, '06A-IV': 45.3, '06A': 44.5}",1,93.5,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029405,"{'23F': 99.2, '23A': 65.4, '23B': 49.0, '28A': 48.1, '06A-IV': 47.3}",1,99.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000278945,"{'22F': 93.6, '22A': 70.0, '06A': 42.6, '06A-II': 41.9, '06B-II': 41.9}",1,93.6,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900036585,"{'03': 95.5, '20': 17.6, '01': 16.9, '36': 16.3, '09L': 16.0}",1,95.5,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281015,"{'23A': 99.4, '23F': 67.3, '23B': 43.6, '19F-II': 37.6, '15B': 36.9}",1,99.4,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026115,"{'03': 95.2, '01': 17.2, '36': 17.1, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031905,"{'23B': 99.5, '23B1': 64.6, '23F': 45.8, '23A': 40.0, '06A-IV': 36.9}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258435,"{'01': 99.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055015,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189965,"{'06A': 99.6, '06A-IV': 99.3, '06B-II': 95.1, '06A-V': 93.4, '06A-III': 91.4}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280905,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238435,"{'14': 93.9, '36': 26.4, '09L': 25.3, '09N': 24.7, '15B': 24.3}",1,93.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190175,"{'06A-IV': 99.8, '06A': 99.5, '06B-II': 95.0, '06A-V': 93.4, '06A-III': 91.2}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213445,"{'18F': 89.0, '18C': 64.8, '18B': 64.7, '18A': 57.2, '16F': 39.1}",1,89.0,,18F,,,{},{},18F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001206595,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019457265,"{'15A': 99.8, '15F': 74.1, '15C': 62.0, '15B': 61.9, '23F': 31.7}",1,99.8,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243665,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250525,"{'19F': 97.4, '19F-I': 96.4, '19F-III': 95.6, '19F-II': 95.5, '19F-IV': 91.0}",1,97.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326345,"{'14': 91.7, '36': 27.9, '09L': 25.6, '09N': 24.5, '15B': 23.7}",1,91.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900059655,"{'01': 98.9, '19A': 58.4, '19A-III': 58.2, '19A-II': 51.3, '19A-I': 49.7}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337815,"{'09A': 99.4, '09V': 99.2, '09N': 38.5, '09L': 36.6, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398625,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300875,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221925,"{'06A-I': 98.4, '06B': 94.4, '06A-V': 89.4, '06A': 87.4, '06A-III': 85.9}",1,98.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026375,"{'08': 99.8, '06A-II': 26.5, '06A-VI': 26.4, '06B-II': 25.8, '06A-V': 25.4}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262585,"{'23F': 91.1, '23A': 59.9, '06A-IV': 46.9, '28A': 46.6, '23B': 46.2}",1,91.1,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900064935,"{'19A': 99.0, '19A-III': 98.8, '19A-I': 85.9, '19A-II': 83.6, '19AF': 56.9}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001149425,"{'23F': 94.6, '23A': 63.7, '28A': 47.7, '23B': 47.0, '06A': 46.4}",1,94.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286065,"{'23F': 99.0, '23A': 64.8, '23B': 47.6, '28A': 47.5, '06A-V': 45.8}",1,99.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021905,"{'22F': 98.9, '22A': 73.2, '06A': 42.4, '06B': 41.9, '06A-II': 41.7}",1,98.9,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279205,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279625,"{'06E': 99.6, '06B-III': 98.8, '06B-I': 46.5, '06A-III': 46.0, '06A-II': 45.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218905,"{'01': 99.1, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253015,"{'10B': 93.5, '10A': 70.2, '10F': 20.1, '10C': 18.8, '22F': 14.3}",1,93.5,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_004359405,"{'12F': 96.2, '12B': 93.2, '44': 92.9, '12A': 80.3, '46': 77.2}",1,96.2,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001121385,"{'06E': 77.8, '06B-III': 76.7, '06D': 59.6, '06B-I': 58.7, '06A-III': 57.9}",1,77.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317555,"{'35F': 98.9, '47F': 74.2, '34': 26.7, '35B': 26.7, '29': 22.2}",1,98.9,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266445,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228145,"{'17F': 82.3, '06A-I': 42.2, '06B': 41.8, '06A': 41.2, '06A-III': 40.5}",1,82.3,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001109765,"{'36': 12.8, '20': 7.9, '06A-IV': 7.6, '06C': 6.2, '06C-I': 6.2}",1,12.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289345,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001330055,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190115,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306115,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336785,"{'01': 6.9, '36': 6.3, '25F': 5.6, '45': 5.6, '25A': 5.4}",2,6.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032895,"{'09A': 99.7, '09V': 99.5, '09N': 38.5, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267885,"{'31': 99.5, '41A': 57.1, '41F': 48.9, '22F': 36.0, '06A-II': 35.1}",1,99.5,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047785,"{'14': 99.9, '09L': 26.5, '36': 25.7, '09N': 24.8, '15B': 24.2}",1,99.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001101865,"{'22F': 99.0, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001127005,"{'08': 98.0, '02': 24.4, '06A-IV': 23.3, '06A': 22.9, '06A-II': 22.3}",1,98.0,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313215,"{'29': 59.6, '35B': 37.4, '35F': 26.8, '22F': 23.1, '33B': 23.1}",1,59.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334135,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001143525,"{'06C': 85.6, '06C-I': 85.6, '06D': 84.7, '06A': 77.0, '06A-IV': 73.3}",1,85.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001144525,"{'36': 13.5, '20': 8.8, '23B1': 8.1, '06A-IV': 7.1, '45': 5.9}",2,13.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001195365,"{'36': 10.9, '06A-IV': 7.7, '20': 6.8, '06C': 6.4, '06B-I': 6.4}",1,10.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019456995,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221945,"{'15A': 98.3, '15F': 72.9, '15C': 61.6, '15B': 61.5, '23F': 32.2}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019456965,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.5, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304325,"{'14': 93.4, '36': 27.3, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292915,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.8, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001203015,"{'18C': 88.6, '18B': 88.5, '18F': 78.1, '18A': 60.9, '16F': 37.9}",1,88.6,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261655,"{'14': 95.1, '36': 28.7, '09L': 25.5, '09N': 24.8, '15B': 24.3}",1,95.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050505,"{'14': 90.8, '09L': 24.6, '15B': 24.0, '15C': 23.9, '36': 23.8}",1,90.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398265,"{'14': 100.0, '36': 26.8, '09L': 25.7, '15B': 24.3, '09N': 24.2}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250765,"{'11D': 80.2, '11A': 78.9, '11F': 45.2, '11B': 34.7, '11C': 31.0}",1,80.2,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283065,"{'15C': 96.3, '15B': 96.1, '15A': 61.5, '15F': 47.8, '23A': 34.7}",1,96.3,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311345,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292805,"{'12F': 96.8, '44': 93.5, '12B': 93.0, '12A': 84.9, '46': 81.8}",1,96.8,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335195,"{'04': 99.8, '45': 33.8, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218085,"{'23F': 92.4, '23A': 61.3, '28A': 48.1, '23B': 46.9, '06A-IV': 46.5}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335775,"{'20': 5.5, '45': 5.1, '22F': 4.9, '25F': 4.8, '25A': 4.7}",1,5.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001161745,"{'06C': 85.6, '06C-I': 85.6, '06D': 84.7, '06A': 77.0, '06A-IV': 73.3}",1,85.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017895,"{'03': 94.9, '01': 17.2, '36': 16.5, '09N': 15.8, '20': 15.8}",1,94.9,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273495,"{'10A': 99.4, '10B': 67.1, '10C': 27.7, '10F': 18.1, '22F': 15.5}",1,99.4,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001193895,"{'03': 95.2, '36': 16.9, '20': 15.6, '14': 14.1, '01': 14.0}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260815,"{'03': 95.2, '01': 17.4, '36': 16.6, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290545,"{'37': 97.6, '33F': 77.5, '33A': 75.9, '33F2': 71.1, '35B': 32.4}",1,97.6,,37,,,{},{},37,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228075,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001126465,"{'36': 7.6, '22F': 5.0, '12A': 4.4, '45': 4.4, '46': 4.4}",1,7.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585985,"{'12F': 96.9, '44': 93.6, '12B': 92.9, '12A': 80.6, '46': 77.5}",1,96.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304795,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001170885,{'33C': 0.1},1,0.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268805,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265885,"{'07C': 97.9, '07B': 76.5, '40': 75.2, '24B': 48.2, '24F': 47.8}",1,97.9,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215345,"{'23F': 96.3, '23A': 63.0, '06A-IV': 48.6, '23B': 48.2, '28A': 47.0}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001106725,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257365,"{'04': 98.3, '45': 34.1, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052875,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213235,"{'06A-II': 99.9, '06A-VI': 99.9, '06B-II': 91.8, '06A-V': 91.0, '06A-III': 89.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001163725,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309565,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025065,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025975,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243375,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171255,"{'14': 92.5, '36': 28.3, '09L': 24.8, '15B': 24.2, '15C': 24.1}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314695,"{'17F': 99.8, '06B': 44.5, '06D': 43.7, '06A-I': 43.7, '06B-I': 43.4}",1,99.8,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327575,"{'03': 75.1, '20': 7.2, '22F': 6.7, '45': 6.5, '01': 6.3}",1,75.1,,3,,,{},{},3,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220105,"{'13': 98.6, '36': 29.6, '20': 29.5, '09L': 28.8, '09N': 28.3}",1,98.6,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257545,"{'14': 94.2, '36': 26.4, '09L': 25.5, '09N': 24.7, '15B': 24.3}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312125,"{'23F': 92.4, '23A': 61.1, '28A': 48.1, '23B': 46.6, '06A-IV': 46.6}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030625,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190135,"{'14': 99.5, '36': 25.9, '09L': 24.8, '15B': 24.1, '15C': 24.0}",1,99.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285435,"{'18C': 99.8, '18B': 99.7, '18F': 75.7, '18A': 62.5, '16F': 39.2}",1,99.8,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286195,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001205725,"{'14': 94.5, '36': 25.8, '09L': 24.9, '09N': 24.3, '15B': 24.2}",1,94.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264155,"{'21': 100.0, '22F': 36.1, '06A-IV': 34.1, '06A-II': 33.4, '06A-VI': 33.3}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054725,"{'19A': 99.1, '19A-III': 98.9, '19A-I': 86.0, '19A-II': 83.7, '19AF': 57.0}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248595,"{'16F': 71.7, '28F': 43.2, '28A': 40.7, '18F': 33.7, '18A': 33.6}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052685,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001096885,"{'13': 98.9, '09L': 28.1, '20': 28.1, '09N': 27.9, '14': 27.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338815,"{'35B': 99.4, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292205,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047675,"{'19F-I': 99.8, '19F': 96.8, '19F-III': 96.8, '19F-II': 94.0, '19F-IV': 89.4}",1,99.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276455,"{'23F': 96.7, '23A': 63.8, '06A-IV': 50.8, '23B': 50.3, '06B-II': 48.5}",1,96.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900188805,"{'06A': 100.0, '06A-IV': 99.6, '06B-II': 95.4, '06A-V': 93.7, '06A-III': 91.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189915,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315485,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901212785,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.3, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223955,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229315,"{'23F': 99.2, '23A': 65.4, '23B': 49.0, '28A': 48.1, '06A-IV': 47.3}",1,99.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233815,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253805,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335425,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001084625,"{'18F': 79.7, '18B': 73.1, '18C': 73.1, '18A': 60.5, '16F': 45.5}",1,79.7,,"Mixed serotypes- {'18F', '18C/18B'}",,,{},{},"Mixed serotypes- {'18F', '18C/18B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305315,"{'06A': 83.3, '06A-IV': 81.7, '06A-V': 81.2, '06B-II': 81.1, '06B-I': 80.9}",1,83.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 83.83']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001155305,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293875,"{'18C': 99.7, '18B': 99.6, '18F': 75.6, '18A': 62.5, '16F': 39.2}",1,99.7,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000506625,"{'01': 7.5, '45': 6.5, '25F': 5.8, '25A': 5.6, '22F': 5.0}",6,7.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243155,"{'06A-II': 97.9, '06A-VI': 97.9, '06B-II': 90.4, '06A-V': 89.6, '06A-III': 89.2}",1,97.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335755,"{'24F': 97.0, '24B': 89.7, '24F2': 86.4, '24A': 62.9, '07C': 51.9}",1,97.0,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293535,"{'06A-I': 98.3, '06B': 94.3, '06A-V': 89.4, '06A': 87.4, '06A-III': 85.8}",1,98.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222245,"{'19A-I': 99.3, '19A-II': 97.3, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022285,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328395,"{'19F-I': 96.1, '19F': 95.8, '19F-III': 94.2, '19F-II': 93.0, '19F-IV': 89.0}",1,96.1,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225165,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001085465,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283235,"{'01': 99.0, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289095,"{'33F': 100.0, '33A': 99.9, '33F2': 70.9, '35C': 43.0, '42': 42.0}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170905,"{'14': 92.7, '36': 28.9, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311665,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.9, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001207865,"{'35B': 99.4, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026555,"{'04': 99.7, '45': 33.3, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272425,"{'01': 99.5, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171905,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001157465,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257135,"{'35F': 99.0, '47F': 74.3, '34': 26.6, '35B': 26.5, '29': 22.2}",1,99.0,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313975,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019397965,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338755,"{'21': 92.2, '22F': 34.5, '06A-IV': 34.3, '06A-II': 34.0, '06A-VI': 34.0}",1,92.2,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001167505,"{'22F': 5.1, '20': 5.0, '45': 4.8, '25F': 4.4, '25A': 4.3}",2,5.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263865,"{'06A-II': 95.3, '06A-VI': 95.3, '06B-II': 89.2, '06A-V': 88.8, '06A-III': 88.2}",1,95.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272215,"{'05': 95.2, '45': 22.1, '36': 21.9, '20': 20.0, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029795,"{'04': 99.8, '45': 33.3, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215105,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001203715,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001144405,"{'19F-I': 97.8, '19F': 97.1, '19F-III': 96.6, '19F-II': 95.1, '19F-IV': 90.2}",1,97.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287875,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309625,"{'04': 99.7, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231995,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213215,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234605,"{'03': 95.5, '20': 17.5, '01': 16.8, '36': 16.3, '09L': 16.1}",1,95.5,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216785,"{'04': 98.1, '45': 34.6, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.1,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269795,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311125,"{'28A': 95.2, '28F': 93.4, '23F': 48.8, '16F': 47.9, '06A-IV': 39.9}",1,95.2,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213485,"{'01': 99.1, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280705,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.4}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236245,"{'03': 94.9, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.7}",1,94.9,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326985,"{'19A': 99.8, '19A-III': 99.6, '19A-I': 86.0, '19A-II': 83.5, '19AF': 57.0}",1,99.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320425,"{'35B': 99.1, '33F': 33.4, '35C': 33.2, '34': 33.0, '35A': 32.8}",1,99.1,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311245,"{'18C': 99.2, '18B': 99.1, '18F': 75.1, '18A': 62.4, '16F': 38.6}",1,99.2,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026545,"{'07A': 99.5, '07F': 99.3, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001197075,"{'33B': 89.8, '33D': 89.7, '35B': 32.7, '33F2': 30.3, '22F': 27.7}",1,89.8,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001340735,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.3, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318885,"{'13': 98.9, '20': 29.0, '09L': 28.6, '09N': 28.2, '36': 28.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239815,"{'06A-II': 95.4, '06A-VI': 95.4, '06B-II': 89.3, '06A-V': 88.9, '06A-III': 88.3}",1,95.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171875,"{'14': 92.5, '36': 28.9, '09L': 24.7, '15B': 24.2, '15C': 24.1}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289135,"{'35F': 97.2, '47F': 72.9, '34': 26.9, '35B': 26.1, '29': 23.0}",1,97.2,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321015,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025395,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026505,"{'01': 93.1, '19F': 34.5, '19F-I': 34.1, '19F-III': 33.7, '19F-II': 33.6}",1,93.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251145,"{'12F': 96.4, '44': 93.4, '12B': 93.3, '12A': 84.8, '46': 81.7}",1,96.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901905325,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334235,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264205,"{'14': 93.0, '36': 27.3, '09L': 25.7, '09N': 25.4, '15B': 24.3}",1,93.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280655,"{'25F': 99.9, '25A': 98.9, '38': 80.9, '36': 9.0, '01': 7.9}",1,99.9,25F_25A_38,25F_25A_38,,"[[8], [18]]","{'wcyD': ['a', 100.0], 'wcyV': 0.12}","{'wcyD': 'a', 'wcyV': 'not_detected'}",25F/25A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328255,"{'19F-III': 99.9, '19F': 97.9, '19F-I': 97.2, '19F-II': 94.7, '19F-IV': 89.4}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252975,"{'20': 81.5, '47F': 25.8, '35A': 24.6, '09L': 24.4, '36': 24.0}",1,81.5,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256965,"{'06B-I': 97.1, '06A-III': 95.0, '06B-II': 89.1, '06A': 88.9, '06A-V': 87.2}",1,97.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283045,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338915,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302605,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215405,"{'18C': 85.8, '18B': 85.7, '18F': 78.0, '18A': 62.1, '16F': 37.8}",1,85.8,,"Mixed serotypes- {'18F', '18C/18B'}",,,{},{},"Mixed serotypes- {'18F', '18C/18B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323855,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 89.4, '06A': 87.7, '06A-III': 86.0}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233825,"{'12F': 96.4, '44': 93.4, '12B': 93.3, '12A': 84.8, '46': 81.7}",1,96.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342635,"{'06E': 96.8, '06B-III': 96.0, '06B-I': 46.5, '06A-III': 45.9, '06A-IV': 45.2}",1,96.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 96.61]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213765,"{'03': 95.2, '01': 17.5, '36': 17.3, '09N': 15.7, '20': 15.6}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297995,"{'18C': 88.5, '18B': 88.4, '18F': 77.8, '18A': 61.5, '16F': 37.6}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297805,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001340315,"{'06E': 100.0, '06B-III': 98.6, '06B-I': 46.2, '06A-III': 45.7, '06A-II': 44.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001111445,"{'06E': 100.0, '06B-III': 95.2, '06A-I': 42.6, '06B-I': 42.5, '06B': 42.2}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021585,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001099345,"{'46': 98.3, '12A': 96.0, '12B': 84.3, '44': 82.3, '12F': 82.1}",1,98.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[4]],"{'wciI': [1, 100.0]}",{'wciI': 1},12A/12B/44/46,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248035,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002081535,"{'19A-I': 99.5, '19A-II': 97.3, '19A': 87.5, '19A-III': 87.3, '19AF': 61.8}",1,99.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001169385,"{'14': 89.6, '36': 29.4, '09L': 24.3, '09N': 23.4, '19F-II': 22.2}",1,89.6,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052625,"{'35B': 91.2, '33F': 32.1, '34': 31.4, '33B': 30.8, '33A': 30.4}",1,91.2,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225015,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327305,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001161305,"{'09A': 99.4, '09V': 99.2, '09N': 37.2, '09L': 35.9, '11F': 26.6}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254085,"{'35B': 99.4, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332705,"{'23F': 99.2, '23A': 65.4, '23B': 48.9, '28A': 47.9, '06A-IV': 47.0}",1,99.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065665,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019465,"{'09N': 100.0, '09L': 89.1, '09A': 32.7, '09V': 32.7, '36': 32.3}",1,100.0,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001301535,"{'23B1': 78.7, '23B': 66.6, '06B-III': 29.7, '06A-II': 28.6, '06A-VI': 28.5}",1,78.7,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900088795,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 61.5}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033045,"{'23B': 99.5, '23B1': 64.6, '23F': 45.8, '23A': 40.0, '06A-IV': 36.9}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_009721125,"{'23A': 99.4, '23F': 72.0, '23B': 48.2, '28A': 46.2, '28F': 44.2}",1,99.4,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264335,"{'05': 95.3, '45': 22.4, '36': 21.5, '20': 20.0, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301965,"{'15C': 87.8, '15B': 87.7, '15A': 64.6, '15F': 50.0, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276475,"{'35A': 92.6, '35C': 88.5, '42': 87.7, '33A': 45.8, '33F': 45.4}",1,92.6,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001102765,"{'13': 83.6, '36': 25.5, '14': 25.3, '09L': 25.1, '09N': 24.7}",1,83.6,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001330275,"{'06E': 99.8, '06B-III': 95.6, '06B-I': 43.1, '06A-I': 42.6, '06A-III': 42.6}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026195,"{'09A': 99.7, '09V': 99.5, '09N': 38.1, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232935,"{'06A-II': 85.9, '06A-III': 85.9, '06A-VI': 85.9, '06A-V': 85.2, '06B-I': 84.5}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170455,"{'14': 92.6, '36': 28.9, '09L': 25.7, '09N': 24.4, '15B': 24.1}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318465,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '23B': 47.1, '06A': 46.0}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257465,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335885,"{'06E': 99.6, '06B-III': 99.2, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319325,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338895,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317365,"{'14': 93.4, '36': 27.3, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231795,"{'09L': 99.4, '09N': 90.2, '36': 32.8, '09A': 31.5, '09V': 31.5}",1,99.4,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308445,"{'09N': 99.8, '09L': 89.0, '09A': 32.6, '09V': 32.6, '36': 32.3}",1,99.8,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001334515,"{'11F': 61.8, '11D': 38.4, '11A': 36.8, '09V': 25.4, '09A': 25.3}",1,61.8,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900058985,"{'21': 95.8, '22F': 38.4, '06A-II': 34.6, '06A-VI': 34.5, '06A-III': 33.9}",1,95.8,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219205,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001131145,"{'36': 12.5, '20': 8.1, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",2,12.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304805,"{'16F': 71.6, '28F': 43.0, '28A': 40.5, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280035,"{'23B1': 99.4, '23B': 59.0, '19A-II': 36.1, '19A-I': 35.9, '19AF': 31.7}",1,99.4,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347535,"{'19B': 91.7, '19C': 70.5, '19F-II': 49.3, '19F-IV': 49.3, '19F-I': 48.5}",1,91.7,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347895,"{'13': 98.9, '20': 28.0, '09L': 27.9, '09N': 27.7, '14': 26.8}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001172725,"{'35F': 91.1, '47F': 67.7, '29': 25.7, '34': 25.3, '35B': 25.3}",1,91.1,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262525,"{'21': 91.7, '22F': 36.7, '06A-IV': 31.6, '06A-II': 31.2, '06A-VI': 31.2}",1,91.7,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253355,"{'23F': 90.2, '23A': 61.4, '28A': 48.2, '28F': 46.2, '23B': 46.0}",1,90.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000233005,"{'07A': 97.4, '07F': 97.2, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,97.4,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276395,"{'31': 99.7, '41A': 57.2, '41F': 49.3, '06A-II': 36.5, '06A-VI': 36.5}",1,99.7,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317285,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328025,"{'19F-I': 95.9, '19F': 95.6, '19F-III': 94.0, '19F-II': 92.8, '19F-IV': 88.9}",1,95.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302215,"{'14': 92.7, '36': 29.0, '09L': 25.9, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261265,"{'22F': 98.7, '22A': 73.0, '06A': 42.4, '06B': 41.9, '06A-II': 41.7}",1,98.7,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219925,"{'09N': 98.3, '09L': 87.4, '09A': 31.4, '09V': 31.4, '36': 30.2}",1,98.3,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001637485,"{'19A': 99.8, '19A-III': 99.6, '19A-I': 86.0, '19A-II': 83.5, '19AF': 57.2}",1,99.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335475,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279005,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306285,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001144705,"{'06E': 100.0, '06B-III': 99.1, '06B-I': 46.7, '06A-III': 46.2, '06A-II': 45.2}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291305,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341655,"{'14': 89.6, '36': 29.1, '09L': 23.2, '09N': 22.2, '19F-II': 22.2}",1,89.6,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019397645,"{'19F-I': 95.9, '19F': 95.6, '19F-III': 94.0, '19F-II': 92.8, '19F-IV': 88.8}",1,95.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001131885,"{'06E': 99.3, '06B-III': 95.6, '06B-I': 43.6, '06A-III': 43.1, '06A-IV': 42.3}",1,99.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278845,"{'09A': 99.5, '09V': 99.3, '09N': 38.5, '09L': 36.6, '11F': 26.6}",1,99.5,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331385,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272895,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001097025,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255415,"{'18C': 88.3, '18B': 88.2, '18F': 77.6, '18A': 61.5, '16F': 37.4}",1,88.3,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001169285,"{'11F': 61.7, '11D': 38.3, '11A': 36.8, '09A': 25.3, '09V': 25.3}",1,61.7,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001115805,"{'19A': 99.5, '19A-III': 99.3, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,99.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189745,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900042995,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063175,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294225,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900046635,"{'24F2': 99.7, '24B': 88.5, '24F': 87.0, '24A': 71.3, '07B': 55.2}",1,99.7,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233845,"{'11D': 96.5, '11A': 95.3, '11F': 43.3, '11C': 36.2, '11B': 34.8}",1,96.5,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171455,"{'14': 92.6, '36': 28.8, '09L': 25.6, '09N': 24.5, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319335,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218985,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001126765,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900692955,"{'06A-III': 94.7, '06B-I': 93.3, '06A': 90.3, '06A-IV': 89.7, '06B-II': 89.4}",1,94.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235065,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257525,"{'04': 99.7, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261075,"{'01': 98.8, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305505,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232885,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311265,"{'34': 94.8, '33F2': 36.3, '35B': 32.2, '33F': 29.0, '33C': 28.7}",1,94.8,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279885,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001083125,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001134085,"{'19A': 99.2, '19A-III': 99.0, '19A-I': 85.9, '19A-II': 83.7, '19AF': 57.2}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328925,"{'06A-I': 98.4, '06B': 94.4, '06A-V': 89.4, '06A': 87.4, '06A-III': 85.9}",1,98.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227805,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.5, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292135,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287425,"{'23F': 94.6, '23A': 63.7, '28A': 47.7, '23B': 47.0, '06A': 46.4}",1,94.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299745,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001197635,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000251725,"{'19A': 93.8, '19A-III': 93.6, '19A-II': 82.2, '19A-I': 80.4, '19AF': 56.3}",1,93.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001152425,"{'32A': 97.4, '32F': 97.3, '06A-II': 40.4, '06A-VI': 40.3, '06B-II': 39.6}",1,97.4,,32F/32A,,,{},{},32F/32A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171855,"{'14': 92.6, '36': 28.5, '09L': 24.7, '15B': 24.2, '09N': 24.1}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194185,"{'03': 95.2, '01': 17.2, '36': 17.1, '20': 15.9, '09N': 15.5}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341225,"{'14': 91.4, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237155,"{'12F': 96.0, '12B': 93.4, '44': 93.2, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342675,"{'23B1': 98.7, '23B': 55.8, '19A-II': 36.0, '19A-I': 35.7, '19AF': 31.5}",1,98.7,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244655,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194065,"{'06C-I': 97.8, '06C': 97.7, '06D': 84.6, '06A-II': 77.7, '06A-VI': 77.7}",1,97.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314035,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.7}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326955,"{'18C': 88.5, '18B': 88.4, '18F': 77.9, '18A': 61.8, '16F': 37.9}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053305,"{'23F': 93.9, '23A': 63.4, '28A': 48.4, '23B': 46.9, '06A-III': 46.4}",1,93.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341055,"{'19A-I': 99.0, '19A-II': 97.4, '19A': 87.6, '19A-III': 87.4, '19AF': 61.6}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901212895,"{'14': 91.4, '19F-IV': 25.9, '09L': 25.2, '09N': 24.7, '36': 24.1}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282775,"{'04': 98.2, '45': 34.2, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001200355,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273295,"{'19F': 93.9, '19F-I': 93.7, '19F-III': 92.5, '19F-IV': 91.4, '19F-II': 91.3}",1,93.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215145,"{'04': 99.8, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001136565,"{'16F': 98.2, '28F': 43.0, '19F-IV': 41.3, '18F': 41.1, '19F-II': 40.9}",1,98.2,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247525,"{'19F-I': 97.7, '19F': 97.0, '19F-III': 96.5, '19F-II': 95.0, '19F-IV': 90.1}",1,97.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285415,"{'14': 91.5, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335385,"{'05': 95.1, '45': 22.4, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.1,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320145,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246995,"{'08': 99.5, '06A-II': 24.4, '06A-VI': 24.3, '02': 24.1, '06B-II': 23.8}",1,99.5,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001192475,"{'36': 10.6, '06A-IV': 7.1, '20': 6.2, '06B-I': 5.9, '06C': 5.8}",1,10.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021022015,"{'02': 57.6, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275445,"{'06E': 99.4, '06B-III': 99.0, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,99.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001334295,"{'45': 5.6, '20': 5.5, '25F': 5.5, '25A': 5.4, '22F': 5.0}",1,5.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001151545,"{'06A-II': 87.2, '06A-VI': 87.2, '06A': 86.0, '06A-IV': 85.1, '06A-V': 84.9}",1,87.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001162505,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167085,"{'09A': 99.2, '09V': 99.0, '09N': 37.1, '09L': 35.5, '11F': 26.4}",1,99.2,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001198735,"{'45': 6.8, '25F': 5.7, '25A': 5.5, '20': 5.4, '36': 5.4}",3,6.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334955,"{'04': 99.8, '45': 33.7, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296685,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030375,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328645,"{'15A': 99.6, '15F': 73.9, '15C': 62.3, '15B': 62.2, '23F': 31.3}",1,99.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266925,"{'15C': 90.7, '15B': 90.6, '15A': 63.0, '15F': 48.8, '23A': 31.1}",1,90.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001123985,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325825,"{'13': 98.7, '20': 29.5, '09N': 29.2, '09L': 29.1, '36': 27.5}",1,98.7,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339795,"{'36': 11.7, '20': 8.0, '06A-IV': 7.5, '06B-I': 6.4, '45': 6.3}",1,11.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056065,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900039325,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301365,"{'14': 92.9, '36': 27.3, '09L': 25.8, '09N': 25.5, '15B': 24.3}",1,92.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261475,"{'04': 99.2, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337825,"{'34': 93.0, '33F2': 34.7, '35B': 32.3, '33F': 29.0, '33C': 28.0}",1,93.0,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307865,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340015,"{'35F': 99.0, '47F': 74.3, '34': 26.7, '35B': 25.8, '29': 22.5}",1,99.0,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315275,"{'14': 93.9, '36': 25.9, '09L': 25.2, '09N': 24.1, '15B': 24.0}",1,93.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320705,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232235,"{'12F': 95.9, '12B': 93.3, '44': 92.9, '12A': 84.4, '46': 81.3}",1,95.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225785,"{'19A': 99.8, '19A-III': 99.6, '19A-I': 86.0, '19A-II': 83.5, '19AF': 57.0}",1,99.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264105,"{'01': 99.1, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219295,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335135,"{'04': 98.3, '45': 34.9, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329145,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315465,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347555,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287595,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277225,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242585,"{'09A': 99.6, '09V': 99.4, '09N': 38.1, '09L': 36.8, '06A-IV': 27.5}",1,99.6,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274565,"{'15C': 87.8, '15B': 87.6, '15A': 60.9, '15F': 48.0, '23A': 31.3}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288245,"{'16F': 95.8, '19F-IV': 42.8, '19F-II': 42.6, '28F': 42.5, '19F': 41.6}",1,95.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331125,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171515,"{'14': 92.6, '36': 27.9, '09L': 25.0, '15B': 24.2, '15C': 24.1}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900044125,"{'19A': 98.9, '19A-III': 98.7, '19A-I': 85.8, '19A-II': 83.5, '19AF': 56.8}",1,98.9,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001153205,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311045,"{'04': 98.3, '45': 34.1, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001109725,"{'06A': 90.4, '06A-III': 89.4, '06A-II': 89.3, '06A-VI': 89.3, '06B-II': 89.3}",1,90.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269085,"{'10F': 98.0, '10C': 80.7, '10B': 22.4, '10A': 19.2, '22F': 15.7}",1,98.0,,10F,,,{},{},10F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049695,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053045,"{'15A': 98.2, '15F': 73.5, '15C': 61.9, '15B': 61.8, '23F': 31.5}",1,98.2,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305195,"{'14': 92.3, '36': 26.5, '09L': 25.3, '09N': 24.9, '15B': 23.7}",1,92.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000256645,"{'03': 95.2, '01': 17.6, '36': 17.2, '20': 17.1, '09L': 15.6}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194815,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267305,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335395,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275635,"{'16F': 71.9, '28F': 43.4, '28A': 40.9, '18F': 33.9, '18A': 33.7}",1,71.9,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314525,"{'01': 99.9, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.3}",1,99.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332615,"{'14': 93.0, '36': 27.3, '09L': 25.8, '09N': 25.5, '15B': 24.3}",1,93.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001127345,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221775,"{'14': 91.4, '19F-IV': 25.9, '09L': 24.8, '09N': 24.7, '36': 23.4}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341805,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321935,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315545,"{'35B': 98.9, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,98.9,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001166645,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295655,"{'07A': 97.5, '07F': 97.3, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,97.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246175,"{'31': 99.7, '41A': 57.2, '41F': 49.3, '06A-II': 36.7, '06A-VI': 36.7}",1,99.7,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329185,"{'17F': 93.5, '06A-III': 45.6, '06B-I': 45.4, '06A-IV': 45.3, '06A': 44.5}",1,93.5,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295625,"{'03': 97.7, '01': 18.0, '20': 15.6, '09N': 15.4, '09L': 15.3}",1,97.7,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001119145,"{'23F': 96.8, '23A': 66.4, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216525,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276915,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261095,"{'04': 98.1, '45': 34.1, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.1,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051855,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231045,"{'24F': 97.1, '24B': 89.8, '24F2': 86.5, '24A': 63.0, '07C': 52.1}",1,97.1,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242995,"{'12F': 96.4, '44': 93.4, '12B': 93.3, '12A': 84.8, '46': 81.7}",1,96.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215805,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266265,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253555,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.0, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317565,"{'23F': 96.8, '23A': 63.7, '23B': 48.0, '28A': 47.7, '06B-II': 46.1}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232925,"{'07A': 99.0, '07F': 98.5, '19F-II': 36.3, '19F-IV': 35.7, '19F': 34.8}",1,99.0,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310215,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232945,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900046915,"{'04': 99.8, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300315,"{'35A': 93.8, '35C': 84.3, '42': 83.5, '33A': 41.8, '33F': 41.6}",1,93.8,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030165,"{'12F': 96.7, '44': 93.4, '12B': 92.7, '12A': 80.4, '46': 77.3}",1,96.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213855,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250455,"{'13': 83.7, '36': 32.6, '14': 27.2, '15B': 26.7, '15C': 26.3}",1,83.7,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291945,"{'03': 95.2, '01': 17.5, '09L': 15.5, '09N': 15.1, '14': 13.9}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190395,"{'06A': 99.7, '06A-IV': 99.7, '06B-II': 94.9, '06A-V': 93.3, '06A-III': 91.2}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900037425,"{'23F': 99.0, '23A': 65.4, '23B': 48.9, '28A': 48.0, '06A-IV': 47.2}",1,99.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001125625,"{'06D': 98.9, '06C': 84.2, '06C-I': 84.2, '06A-III': 77.2, '06B-I': 77.1}",1,98.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 89.0']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001586015,"{'12F': 96.9, '44': 93.6, '12B': 92.9, '12A': 80.7, '46': 77.6}",1,96.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001096305,"{'03': 98.2, '09N': 15.7, '20': 15.6, '09L': 15.5, '14': 13.8}",1,98.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292445,"{'07C': 94.0, '07B': 77.1, '40': 76.7, '24B': 48.6, '24F': 47.6}",1,94.0,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322115,"{'03': 94.4, '01': 18.2, '36': 17.4, '20': 16.1, '09N': 15.8}",1,94.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228965,"{'23B': 99.5, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.6}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265525,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900044075,"{'04': 99.8, '45': 33.1, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001094385,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001110705,"{'09N': 99.7, '09L': 88.7, '09A': 32.4, '09V': 32.4, '36': 30.5}",1,99.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218475,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288055,"{'28F': 95.1, '28A': 88.3, '23F': 51.1, '06A-IV': 50.9, '06B-II': 48.9}",1,95.1,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053965,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001206655,"{'36': 11.9, '20': 7.9, '06A-IV': 7.0, '45': 6.1, '23B1': 5.6}",2,11.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312445,"{'11D': 99.9, '11A': 97.2, '11F': 41.9, '11C': 35.9, '11B': 34.4}",1,99.9,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263365,"{'19A': 92.3, '19A-III': 92.1, '19A-II': 83.0, '19A-I': 81.0, '19AF': 55.8}",1,92.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.86]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022995,"{'18C': 99.7, '18B': 99.6, '18F': 75.6, '18A': 62.1, '16F': 39.3}",1,99.7,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219865,"{'06E': 100.0, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000233025,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306215,"{'14': 93.4, '09L': 27.5, '36': 27.3, '09N': 25.4, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001152745,"{'10B': 99.5, '10A': 65.3, '10F': 20.1, '10C': 18.8, '22F': 13.7}",1,99.5,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256625,"{'05': 95.2, '45': 21.9, '36': 21.7, '20': 20.1, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242625,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001334535,"{'35F': 92.1, '47F': 68.2, '34': 27.0, '35B': 25.9, '29': 21.2}",1,92.1,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273915,"{'19F-I': 97.7, '19F': 97.0, '19F-III': 96.5, '19F-II': 95.0, '19F-IV': 90.1}",1,97.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219705,"{'14': 91.6, '09L': 26.6, '36': 26.6, '09N': 26.3, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244945,"{'14': 91.1, '19F-IV': 25.9, '36': 25.4, '09L': 25.0, '09N': 24.8}",1,91.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287605,"{'23A': 99.5, '23F': 67.2, '23B': 43.6, '19F-II': 37.8, '15B': 37.2}",1,99.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299835,"{'03': 95.2, '01': 18.1, '36': 17.4, '20': 16.1, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001131005,"{'23F': 96.8, '23A': 66.4, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001860565,"{'22F': 98.7, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-I': 41.8}",1,98.7,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001152545,"{'14': 94.5, '36': 26.0, '09L': 24.7, '15B': 24.2, '15C': 24.1}",1,94.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321855,"{'19A-I': 99.4, '19A-II': 97.3, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019665,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299925,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282385,"{'03': 97.4, '01': 17.9, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327835,"{'23F': 91.1, '23A': 59.9, '06A-IV': 46.9, '28A': 46.7, '23B': 46.2}",1,91.1,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248525,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331415,"{'05': 95.1, '45': 22.3, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.1,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337705,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001112645,"{'15C': 87.8, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292465,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305925,"{'28A': 99.5, '28F': 92.4, '23F': 49.6, '16F': 43.7, '06B-I': 39.2}",1,99.5,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001560935,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320495,"{'06A-III': 94.7, '06B-I': 93.3, '06A': 90.2, '06A-IV': 89.4, '06B-II': 89.3}",1,94.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001162165,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325955,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189465,"{'38': 96.8, '25F': 82.5, '25A': 81.7, '36': 9.5, '22F': 5.7}",1,96.8,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305375,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.5, '06A-III': 46.6, '06A-II': 45.6}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309325,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.7, '19A-III': 87.5, '19AF': 61.8}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213805,"{'06A-II': 95.5, '06A-VI': 95.5, '06B-II': 89.5, '06A-V': 89.1, '06A-III': 88.4}",1,95.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001106425,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001301895,"{'23B': 99.5, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.6}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326895,"{'05': 95.2, '45': 22.2, '36': 21.5, '20': 20.4, '12A': 19.8}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286545,"{'23A': 99.6, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289145,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.5, '46': 81.4}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328635,"{'23A': 96.6, '23F': 67.7, '23B': 45.9, '19F-II': 39.4, '15B': 38.5}",1,96.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189705,"{'06C-I': 99.1, '06C': 99.0, '06D': 84.6, '06A-II': 78.8, '06A-VI': 78.8}",1,99.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289425,"{'04': 98.3, '45': 34.2, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218455,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168505,"{'14': 91.5, '36': 26.5, '09L': 26.0, '09N': 25.5, '15B': 23.4}",1,91.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223635,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050695,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229245,"{'06B-I': 99.3, '06A-III': 97.1, '06B-II': 89.7, '06A': 89.4, '06A-V': 87.8}",1,99.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194575,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308135,"{'09N': 100.0, '09L': 89.1, '09A': 32.7, '09V': 32.7, '36': 32.3}",1,100.0,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322675,"{'19F-III': 99.9, '19F': 97.9, '19F-I': 97.2, '19F-II': 94.7, '19F-IV': 89.4}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237935,"{'19F-I': 95.9, '19F': 95.2, '19F-III': 94.7, '19F-II': 93.2, '19F-IV': 90.4}",1,95.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270225,"{'13': 99.0, '20': 29.5, '36': 29.4, '09L': 28.8, '09N': 28.8}",1,99.0,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023905,"{'18C': 99.7, '18B': 99.6, '18F': 75.7, '18A': 62.5, '16F': 39.2}",1,99.7,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244555,"{'21': 99.8, '22F': 36.0, '06A-IV': 34.0, '06A-II': 33.3, '06A-VI': 33.2}",1,99.8,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318815,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192945,"{'35B': 98.1, '33F': 33.6, '35C': 33.4, '34': 33.2, '35A': 33.0}",1,98.1,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170755,"{'14': 92.1, '36': 28.4, '09L': 25.1, '15B': 24.2, '15C': 24.1}",1,92.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306195,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277815,"{'10A': 93.9, '10B': 64.7, '10C': 29.0, '10F': 19.4, '22F': 16.5}",1,93.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295715,"{'14': 91.4, '36': 26.7, '09L': 26.6, '09N': 25.8, '15B': 23.2}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001095185,"{'19F': 94.6, '19F-I': 94.1, '19F-III': 93.0, '19F-II': 91.8, '19F-IV': 88.1}",1,94.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001345415,"{'37': 57.3, '36': 12.5, '20': 7.7, '45': 6.8, '06B-I': 6.4}",1,57.3,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001123565,"{'36': 11.4, '06A-IV': 6.7, '45': 6.0, '20': 5.9, '23B1': 5.7}",1,11.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304395,"{'06A-II': 95.4, '06A-VI': 95.4, '06B-II': 89.2, '06A-V': 88.8, '06A-III': 88.3}",1,95.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283435,"{'24F': 97.1, '24B': 89.8, '24F2': 86.5, '24A': 63.0, '07C': 52.1}",1,97.1,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001104525,"{'45': 5.5, '25F': 5.3, '20': 5.1, '22F': 5.1, '25A': 5.1}",2,5.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326145,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326865,"{'18F': 79.6, '18B': 73.3, '18C': 73.3, '18A': 62.5, '16F': 45.5}",1,79.6,,"Mixed serotypes- {'18F', '18C/18B'}",,,{},{},"Mixed serotypes- {'18F', '18C/18B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240245,"{'23A': 99.5, '23F': 67.3, '23B': 43.6, '19F-II': 37.7, '15B': 37.0}",1,99.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243695,"{'18C': 99.3, '18B': 99.2, '18F': 76.0, '18A': 62.9, '16F': 39.3}",1,99.3,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585665,"{'12F': 96.9, '44': 93.6, '12B': 92.9, '12A': 80.6, '46': 77.5}",1,96.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291965,"{'03': 95.2, '01': 17.5, '09L': 15.5, '09N': 15.1, '14': 13.9}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251845,"{'35A': 94.4, '35C': 89.7, '42': 89.1, '33A': 46.3, '33F': 45.9}",1,94.4,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019399225,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325375,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065685,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001111105,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240185,"{'18A': 90.4, '18B': 54.1, '18C': 54.1, '18F': 53.5, '16F': 35.5}",1,90.4,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306905,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252085,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220925,"{'28A': 99.5, '28F': 92.4, '23F': 49.6, '16F': 43.7, '06B-I': 39.2}",1,99.5,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020139385,"{'15A': 98.5, '15F': 73.7, '15C': 62.0, '15B': 61.9, '23F': 31.9}",1,98.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900188735,"{'15C': 93.3, '15B': 93.2, '15A': 61.6, '15F': 48.2, '14': 32.8}",1,93.3,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001091365,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001301455,"{'23A': 99.5, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319235,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314045,"{'14': 92.9, '36': 27.2, '09L': 25.9, '09N': 25.5, '15B': 24.3}",1,92.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284365,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021715,"{'03': 95.2, '01': 17.2, '36': 16.5, '09N': 15.8, '20': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019397825,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322245,"{'06A-III': 99.4, '06B-I': 98.0, '06B-II': 91.0, '06A': 90.5, '06A-V': 89.9}",1,99.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330455,"{'33F2': 98.4, '33F': 75.2, '33A': 70.8, '34': 42.4, '35B': 32.9}",1,98.4,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237445,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226415,"{'13': 98.9, '09N': 29.1, '20': 28.9, '09L': 28.7, '36': 28.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243745,"{'01': 99.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303415,"{'15A': 98.4, '15F': 73.6, '15C': 62.1, '15B': 62.0, '23F': 31.7}",1,98.4,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189635,"{'06A': 99.6, '06A-IV': 99.3, '06B-II': 95.1, '06A-V': 93.4, '06A-III': 91.4}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900195055,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319195,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262395,"{'05': 95.3, '45': 22.5, '36': 21.7, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001099725,"{'06A': 89.7, '06A-III': 89.3, '06B-I': 88.0, '06B-II': 87.8, '06A-II': 87.3}",1,89.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334005,"{'15C': 95.2, '15B': 95.1, '15A': 60.8, '15F': 47.3, '23A': 34.0}",1,95.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304465,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.5, '46': 81.4}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232375,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316735,"{'07C': 98.7, '07B': 76.9, '40': 76.3, '24B': 48.5, '24F': 48.2}",1,98.7,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309575,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.7, '19A-III': 87.5, '19AF': 61.8}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001336115,"{'34': 92.9, '33F2': 34.7, '35B': 31.1, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001126305,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043025,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.3, '19F-IV': 35.7, '19F': 34.8}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329345,"{'24F2': 99.8, '24B': 88.6, '24F': 87.1, '24A': 71.3, '07B': 55.3}",1,99.8,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001092085,"{'14': 94.2, '36': 24.6, '15B': 24.3, '15C': 24.2, '09L': 23.5}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255645,"{'11D': 99.6, '11A': 96.8, '11F': 41.9, '11C': 35.9, '11B': 34.4}",1,99.6,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900064605,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341815,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231395,"{'01': 99.1, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259415,"{'05': 95.3, '45': 22.6, '36': 21.0, '12A': 19.8, '46': 19.7}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215575,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262635,"{'03': 98.2, '01': 15.6, '24A': 15.6, '09L': 13.2, '09N': 13.2}",1,98.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298945,"{'13': 83.3, '36': 28.9, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332205,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001201435,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.3}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001096925,"{'36': 5.4, '20': 5.0, '06C-I': 3.9, '06C': 3.8, '06A-III': 3.8}",1,5.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318015,"{'23F': 92.2, '23A': 61.1, '28A': 47.9, '23B': 46.6, '06A-IV': 46.4}",1,92.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239665,"{'23B1': 99.9, '23B': 55.7, '19A-II': 36.2, '19A-I': 35.9, '19AF': 31.3}",1,99.9,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028835,"{'03': 95.2, '01': 17.0, '36': 16.6, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315735,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.3, '19F-IV': 90.4}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001133825,"{'17F': 93.5, '06A-III': 45.5, '06B-I': 45.3, '06A-IV': 45.2, '06A': 44.5}",1,93.5,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243965,"{'03': 95.8, '20': 17.9, '01': 17.7, '09L': 16.2, '36': 16.1}",1,95.8,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255255,"{'23F': 96.7, '23A': 63.8, '06A-IV': 50.8, '23B': 50.3, '06B-II': 48.5}",1,96.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285785,"{'35B': 96.6, '33F': 33.9, '35C': 33.6, '35A': 33.2, '34': 33.1}",1,96.6,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031335,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226845,"{'23F': 94.0, '23A': 63.5, '28A': 48.3, '23B': 47.0, '06A-III': 46.2}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230805,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001156605,"{'21': 97.5, '22F': 36.6, '06A-II': 32.6, '06A-VI': 32.5, '06A-III': 31.8}",1,97.5,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001089725,"{'23A': 99.5, '23F': 67.3, '23B': 43.6, '19F-II': 37.6, '19F-IV': 37.2}",1,99.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260755,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_018531085,"{'03': 75.1, '20': 8.2, '36': 8.2, '06A-IV': 6.8, '22F': 6.5}",1,75.1,,3,,,{},{},3,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319515,"{'09A': 99.6, '09V': 99.4, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.6,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189225,"{'19A-II': 98.5, '19A-I': 96.6, '19A': 85.3, '19A-III': 85.1, '19AF': 61.9}",1,98.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001174345,"{'13': 98.9, '09L': 28.2, '20': 28.0, '09N': 27.8, '14': 26.7}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001161885,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026215,"{'04': 99.8, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257205,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001084565,"{'36': 11.5, '20': 7.9, '01': 6.7, '45': 6.7, '06B-I': 5.5}",1,11.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302245,"{'18C': 99.6, '18B': 99.5, '18F': 75.7, '18A': 62.5, '16F': 39.2}",1,99.6,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320945,"{'20': 78.7, '47F': 28.0, '09L': 25.8, '13': 25.2, '09N': 25.1}",1,78.7,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215855,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231825,"{'17F': 82.5, '06A-I': 42.1, '06B': 41.7, '06A': 41.2, '06A-III': 40.5}",1,82.5,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043145,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001137805,"{'19A': 99.5, '19A-III': 99.3, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,99.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901343055,"{'21': 99.9, '22F': 36.1, '06A-IV': 33.0, '06A-II': 32.3, '06A-VI': 32.2}",1,99.9,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256575,"{'06A-V': 93.2, '06A-III': 90.2, '06A-II': 89.8, '06A-VI': 89.8, '06B-I': 89.4}",1,93.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231415,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270135,"{'03': 97.9, '01': 17.7, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.9,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330985,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001208025,"{'19F-I': 95.1, '19F': 94.9, '19F-III': 93.4, '19F-II': 92.2, '19F-IV': 88.2}",1,95.1,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_003492585,"{'23F': 95.8, '23A': 63.0, '23B': 48.4, '06A-IV': 48.3, '28A': 46.9}",1,95.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315445,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294235,"{'06A': 94.3, '06A-III': 93.4, '06A-V': 92.9, '06B-I': 92.1, '06B-II': 91.9}",1,94.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223385,"{'15C': 87.7, '15B': 87.6, '15A': 60.9, '15F': 48.0, '23A': 31.3}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286925,"{'09A': 96.0, '09V': 95.8, '09N': 38.4, '09L': 37.4, '11F': 26.7}",1,96.0,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053075,"{'09N': 99.9, '09L': 89.0, '09A': 32.7, '09V': 32.7, '36': 31.7}",1,99.9,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338885,"{'07A': 97.5, '07F': 97.3, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,97.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253365,"{'03': 95.2, '01': 17.1, '36': 17.0, '20': 15.8, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001158225,"{'24F': 97.1, '24B': 89.8, '24F2': 86.6, '24A': 62.9, '07C': 52.0}",1,97.1,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245915,"{'23F': 95.9, '23A': 62.8, '06A-IV': 48.3, '23B': 48.0, '06A-V': 46.8}",1,95.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269305,"{'06A-II': 92.9, '06A-VI': 92.9, '06A-III': 91.6, '06B-I': 90.6, '06A': 89.2}",1,92.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236885,"{'17F': 99.5, '06B': 44.3, '06B-I': 44.2, '06A-III': 44.1, '06D': 43.7}",1,99.5,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332425,"{'18C': 93.7, '18B': 93.6, '18F': 75.6, '18A': 62.7, '16F': 39.6}",1,93.7,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320985,"{'13': 98.9, '09N': 29.1, '20': 28.9, '09L': 28.7, '36': 28.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051915,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900059225,"{'01': 99.3, '19F': 32.5, '19F-I': 32.1, '19F-III': 31.8, '19F-II': 31.5}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314195,"{'06A-I': 98.5, '06B': 94.5, '06A-V': 89.5, '06A': 87.6, '06A-III': 86.0}",1,98.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169555,"{'14': 91.7, '36': 27.9, '09L': 25.6, '09N': 24.5, '15B': 23.7}",1,91.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001134505,"{'25A': 4.7, '25F': 4.7, '06A-IV': 4.7, '45': 4.3, '20': 4.0}",1,4.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001085405,"{'35B': 42.7, '33B': 40.2, '33D': 36.1, '34': 31.3, '33F': 29.7}",1,42.7,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217005,"{'06B-I': 89.4, '06B-II': 89.2, '06A-III': 88.9, '06A-II': 88.1, '06A-VI': 88.1}",1,89.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001089745,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229845,"{'17F': 99.8, '06B': 44.5, '06B-I': 44.1, '06A-III': 44.0, '06D': 43.7}",1,99.8,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233695,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170625,"{'14': 92.1, '36': 28.7, '09L': 25.1, '15B': 24.2, '09N': 24.1}",1,92.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265555,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339395,"{'01': 99.2, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321945,"{'34': 98.4, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.4,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000279125,"{'20': 98.8, '13': 25.9, '09L': 25.7, '36': 24.7, '09N': 24.6}",1,98.8,,20,,,{},{},20,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301755,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275875,"{'12F': 95.9, '12B': 93.3, '44': 92.9, '12A': 84.4, '46': 81.3}",1,95.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293805,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001125565,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031085,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296725,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246805,"{'19A-I': 99.2, '19A-II': 97.5, '19A': 87.8, '19A-III': 87.6, '19AF': 61.8}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002889755,"{'35A': 99.9, '35C': 85.2, '42': 84.6, '33A': 42.9, '33F': 42.6}",1,99.9,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298625,"{'16F': 98.2, '28F': 42.9, '18A': 41.5, '19F-IV': 41.5, '19F-II': 41.1}",1,98.2,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214905,"{'19F': 94.6, '19F-I': 94.1, '19F-III': 93.0, '19F-II': 91.7, '19F-IV': 88.0}",1,94.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001146525,"{'15C': 95.5, '15B': 95.4, '15A': 61.5, '15F': 47.8, '23A': 34.2}",1,95.5,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171025,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.3, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170035,"{'14': 92.5, '36': 28.7, '09L': 24.8, '09N': 24.2, '15B': 24.2}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335115,"{'14': 94.6, '36': 26.1, '15B': 24.2, '15C': 24.1, '09L': 23.9}",1,94.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267515,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249535,"{'15C': 95.2, '15B': 95.1, '15A': 61.0, '15F': 47.3, '23A': 34.7}",1,95.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026265,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232115,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065615,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311315,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.5, '06A-IV': 46.3}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001143885,"{'14': 99.7, '09L': 26.7, '36': 25.9, '09N': 24.8, '15B': 24.1}",1,99.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330175,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331665,"{'35B': 99.2, '33F': 33.6, '35C': 33.4, '34': 33.2, '35A': 32.9}",1,99.2,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169395,"{'14': 92.7, '36': 28.8, '09L': 25.7, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312705,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001171905,"{'40': 99.6, '07B': 93.9, '07C': 75.4, '24F2': 48.2, '24F': 47.9}",1,99.6,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243565,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030555,"{'08': 99.8, '02': 24.4, '06A-II': 24.3, '06A-VI': 24.2, '06B-II': 23.7}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024535,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171785,"{'14': 92.7, '36': 28.6, '09L': 24.8, '15B': 24.2, '15C': 24.1}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319855,"{'14': 91.1, '19F-IV': 25.9, '36': 25.4, '09L': 25.0, '09N': 24.4}",1,91.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001326395,"{'23A': 100.0, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,100.0,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307085,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317425,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260045,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231655,"{'06A-I': 98.1, '06B': 95.1, '06A': 88.3, '06A-V': 84.9, '06A-III': 83.1}",1,98.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257875,"{'28F': 93.9, '28A': 88.9, '23F': 48.2, '16F': 44.2, '06A-IV': 41.9}",1,93.9,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001170945,"{'45': 6.0, '36': 5.4, '20': 5.2, '25F': 5.0, '25A': 4.8}",2,6.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274465,"{'14': 91.4, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234925,"{'14': 93.7, '36': 25.7, '09L': 25.0, '09N': 24.4, '15B': 23.8}",1,93.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241045,"{'01': 98.8, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,98.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019397405,"{'23A': 97.5, '23F': 68.8, '23B': 40.1, '19F-II': 39.1, '15B': 38.8}",1,97.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001343055,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265265,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267155,"{'36': 10.8, '23B1': 6.8, '06A-IV': 6.7, '45': 6.5, '20': 6.0}",1,10.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304065,"{'01': 99.9, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.3}",1,99.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001206135,"{'45': 4.8, '01': 3.9, '25A': 3.3, '25F': 3.3, '20': 2.7}",2,4.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190985,"{'31': 94.2, '41A': 55.2, '41F': 46.8, '06A-II': 35.9, '06A-VI': 35.9}",1,94.2,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279035,"{'18F': 86.4, '18B': 72.3, '18C': 72.3, '18A': 60.0, '16F': 42.2}",1,86.4,,18F,,,{},{},18F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321485,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346895,"{'06E': 100.0, '06B-III': 99.3, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287385,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021455,"{'23A': 99.6, '23F': 67.3, '23B': 43.6, '19F-II': 37.8, '15B': 37.1}",1,99.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248785,"{'33F': 100.0, '33A': 99.7, '33F2': 70.9, '35C': 42.9, '42': 41.9}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001137945,"{'14': 89.7, '36': 28.5, '09L': 23.2, '19F-II': 22.2, '09N': 22.0}",1,89.7,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301615,"{'17F': 99.7, '06B': 44.4, '06B-I': 43.7, '06D': 43.6, '06A-III': 43.6}",1,99.7,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242185,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255515,"{'06C-I': 89.2, '06C': 89.1, '06D': 86.9, '06A-I': 78.0, '06B': 77.7}",1,89.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 94.1]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287705,"{'07C': 94.0, '07B': 77.1, '40': 76.7, '24B': 48.6, '24F': 47.6}",1,94.0,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001637405,"{'06B': 99.8, '06A-I': 96.2, '06A': 90.3, '06B-II': 86.6, '06B-I': 86.0}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223165,"{'06B-I': 99.4, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001329455,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900692585,"{'19A': 79.4, '19A-III': 79.2, '19A-I': 68.1, '19A-II': 66.7, '19AF': 60.2}",1,79.4,19A_19AF,19A_19AF,,[[0]],{'wzy': ['2: 69.2']},{'wzy': 0},19A_19AF,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272585,"{'22F': 96.4, '22A': 73.2, '06A-IV': 42.9, '06A': 42.6, '06B': 42.1}",1,96.4,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293405,"{'15C': 96.2, '15B': 96.1, '15A': 61.5, '15F': 47.8, '23A': 34.7}",1,96.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251955,"{'07C': 94.0, '07B': 77.1, '40': 76.7, '24B': 48.6, '24F': 47.6}",1,94.0,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338015,"{'19F-I': 91.8, '19F': 91.6, '19F-III': 91.2, '19F-II': 89.1, '19F-IV': 84.3}",1,91.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218155,"{'06E': 99.9, '06B-III': 99.2, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.7}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 96.61]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337155,"{'19A': 99.0, '19A-III': 98.8, '19A-I': 85.9, '19A-II': 83.6, '19AF': 56.9}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219765,"{'34': 93.0, '33F2': 34.7, '35B': 32.1, '33F': 29.0, '33C': 28.0}",1,93.0,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312185,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_014472615,"{'01': 99.3, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248275,"{'12F': 96.3, '44': 93.3, '12B': 93.2, '12A': 84.7, '46': 81.6}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030035,"{'22F': 99.1, '22A': 73.4, '06A-IV': 43.4, '06A': 42.6, '06B': 42.1}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258195,"{'03': 95.0, '01': 17.2, '36': 16.4, '09N': 15.6, '20': 15.4}",1,95.0,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_009721215,"{'23A': 99.0, '23F': 75.4, '15A': 68.1, '15B': 65.0, '15C': 64.9}",1,99.0,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310685,"{'11D': 99.5, '11A': 96.7, '11F': 41.9, '11C': 35.9, '11B': 34.4}",1,99.5,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251415,"{'34': 98.7, '33F2': 35.2, '35B': 33.3, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295015,"{'11A': 99.3, '11D': 96.9, '11F': 40.1, '11C': 36.1, '11B': 34.6}",1,99.3,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320185,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288785,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221365,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398485,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302765,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218685,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.3, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019446815,"{'33F': 99.5, '33A': 97.0, '33F2': 70.4, '35C': 42.5, '42': 41.5}",1,99.5,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338865,"{'17F': 82.5, '06A-I': 42.2, '06B': 41.8, '06A': 41.2, '22F': 40.5}",1,82.5,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270645,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223645,"{'35F': 99.2, '47F': 74.5, '34': 26.7, '35B': 26.5, '29': 22.2}",1,99.2,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900064955,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051445,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257685,"{'05': 95.3, '45': 22.6, '36': 21.7, '20': 20.3, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900058175,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274645,"{'11D': 80.0, '11A': 78.7, '11F': 44.1, '11B': 34.6, '11C': 30.9}",1,80.0,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286295,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295465,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001301555,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339445,"{'03': 95.2, '36': 17.1, '01': 16.9, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298675,"{'35B': 99.8, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275515,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028305,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295085,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900040025,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.4, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269905,"{'04': 98.3, '45': 34.5, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235145,"{'09A': 92.5, '09V': 92.3, '09N': 39.0, '09L': 38.4, '06A-IV': 25.8}",1,92.5,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001088865,"{'19A': 99.1, '19A-III': 98.9, '19A-I': 86.0, '19A-II': 83.7, '19AF': 57.0}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001104085,"{'36': 11.8, '06A-IV': 6.9, '20': 6.5, '06C': 5.5, '23B1': 5.5}",1,11.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216335,"{'19A': 96.8, '19A-III': 96.6, '19A-I': 85.4, '19A-II': 83.4, '19AF': 56.7}",1,96.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001163745,"{'03': 95.1, '20': 15.1, '01': 14.8, '09N': 14.4, '09L': 14.3}",1,95.1,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236195,"{'16F': 98.0, '28F': 42.7, '19F-IV': 42.4, '19F-II': 41.6, '18F': 41.5}",1,98.0,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001112385,"{'36': 10.9, '01': 7.4, '06A-IV': 7.2, '20': 6.5, '06B-I': 6.0}",1,10.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001151445,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232525,"{'19F-I': 91.3, '19F-III': 88.9, '19F': 88.3, '19F-II': 85.9, '19F-IV': 85.8}",1,91.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001146445,"{'34': 98.3, '33F2': 35.2, '35B': 33.1, '33F': 29.7, '33C': 28.4}",1,98.3,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055235,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249945,"{'06E': 97.4, '06B-III': 97.3, '06B-I': 46.0, '06A-III': 45.5, '06A-II': 44.6}",1,97.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317795,"{'15C': 95.7, '15B': 95.6, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001326535,"{'02': 100.0, '06A-IV': 41.5, '06A-II': 40.6, '06A-VI': 40.5, '06B-II': 40.4}",1,100.0,,2,,,{},{},2,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295075,"{'07A': 97.5, '07F': 97.3, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,97.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333615,"{'35C': 99.7, '42': 98.7, '35A': 85.9, '33A': 45.5, '33F': 45.1}",1,99.7,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242495,"{'14': 95.0, '36': 26.3, '09L': 25.0, '09N': 24.5, '15B': 24.3}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277175,"{'15A': 99.6, '15F': 73.9, '15C': 62.3, '15B': 62.2, '23F': 31.3}",1,99.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213195,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241885,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001719825,"{'06A-II': 85.1, '06A-VI': 85.1, '06A-III': 85.0, '06A-V': 84.3, '06B-I': 83.6}",1,85.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297785,"{'18A': 90.3, '18B': 54.1, '18C': 54.1, '18F': 53.4, '16F': 35.5}",1,90.3,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296695,"{'15C': 87.8, '15B': 87.7, '15A': 64.6, '15F': 50.0, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232755,"{'05': 95.2, '45': 22.2, '36': 21.5, '20': 19.8, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055365,"{'19A': 99.2, '19A-III': 99.0, '19A-I': 86.1, '19A-II': 83.8, '19AF': 57.1}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001152725,"{'36': 14.2, '20': 9.0, '06A-IV': 8.5, '06B-I': 7.3, '06C': 7.2}",1,14.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228115,"{'09N': 99.6, '09L': 88.5, '09A': 32.7, '09V': 32.7, '36': 31.7}",1,99.6,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329125,"{'05': 95.0, '45': 22.6, '36': 21.8, '20': 20.3, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264195,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331695,"{'18C': 88.5, '18B': 88.4, '18F': 77.8, '18A': 61.5, '16F': 37.6}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238495,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285555,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001343995,"{'15C': 95.2, '15B': 95.1, '15A': 60.9, '15F': 47.3, '23A': 34.5}",1,95.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281505,"{'25F': 99.9, '25A': 98.9, '38': 80.9, '36': 9.0, '01': 7.4}",1,99.9,25F_25A_38,25F_25A_38,,"[[8], [18]]","{'wcyD': ['a', 100.0], 'wcyV': 0.12}","{'wcyD': 'a', 'wcyV': 'not_detected'}",25F/25A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001107865,"{'35B': 99.8, '33F': 33.6, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001094185,"{'10B': 99.5, '10A': 65.3, '10F': 20.1, '10C': 18.8, '22F': 14.0}",1,99.5,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239465,"{'23F': 91.7, '23A': 60.3, '28A': 48.3, '06A-IV': 46.6, '23B': 46.5}",1,91.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275805,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325185,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220545,"{'11D': 96.5, '11A': 95.3, '11F': 43.3, '11C': 36.2, '11B': 34.8}",1,96.5,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398025,"{'19F-I': 95.9, '19F': 95.6, '19F-III': 94.0, '19F-II': 92.8, '19F-IV': 88.8}",1,95.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245105,"{'14': 92.6, '36': 29.0, '09L': 25.8, '09N': 24.5, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257175,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322405,"{'06A-II': 95.4, '06A-VI': 95.4, '06B-II': 89.4, '06A-V': 89.0, '06A-III': 88.3}",1,95.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309705,"{'13': 98.9, '09N': 29.1, '09L': 28.7, '20': 28.7, '36': 28.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308635,"{'14': 93.4, '36': 27.3, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001202355,"{'10B': 99.5, '10A': 65.3, '10F': 20.1, '10C': 18.8, '22F': 13.8}",1,99.5,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300735,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001163245,"{'35B': 98.2, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,98.2,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001137505,"{'06D': 31.4, '06C': 30.6, '06C-I': 30.6, '35B': 29.5, '22F': 29.2}",1,31.4,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248295,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304165,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047905,"{'34': 99.3, '33F2': 35.4, '35B': 33.4, '33F': 30.0, '33C': 28.7}",1,99.3,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001140105,"{'06A': 94.7, '06A-IV': 91.7, '06B-II': 88.7, '06A-III': 87.6, '06A-V': 87.1}",1,94.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334245,"{'03': 97.4, '01': 18.0, '20': 17.0, '36': 16.1, '09L': 15.4}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001211545,"{'03': 94.8, '36': 17.1, '20': 15.9, '09L': 14.2, '14': 13.8}",1,94.8,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001095445,"{'35F': 91.1, '47F': 67.7, '29': 25.7, '34': 25.3, '35B': 25.1}",1,91.1,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246355,"{'09N': 97.7, '09L': 87.5, '09A': 32.6, '09V': 32.6, '36': 29.8}",1,97.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326415,"{'23B1': 98.7, '23B': 59.0, '19A-II': 36.7, '19A-I': 35.5, '19AF': 32.0}",1,98.7,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170705,"{'14': 92.3, '36': 28.9, '09L': 25.4, '15B': 24.2, '09N': 24.1}",1,92.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340495,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216965,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315675,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001169905,"{'36': 12.4, '20': 8.1, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",2,12.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342865,"{'14': 93.8, '36': 26.1, '09L': 25.3, '09N': 24.1, '15B': 24.0}",1,93.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315635,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001170565,"{'15C': 95.2, '15B': 95.1, '15A': 60.9, '15F': 47.3, '23A': 34.5}",1,95.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214365,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.8, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307845,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021425,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229705,"{'19F-I': 97.8, '19F': 97.1, '19F-III': 96.6, '19F-II': 95.1, '19F-IV': 90.2}",1,97.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260935,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249155,"{'03': 95.8, '01': 17.4, '20': 17.3, '09L': 16.3, '36': 16.2}",1,95.8,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258645,"{'23F': 96.9, '23A': 63.9, '23B': 47.9, '28A': 47.6, '06B-II': 46.3}",1,96.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243485,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276665,"{'04': 97.7, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.6}",1,97.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001110345,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900188615,"{'06A-IV': 99.9, '06A': 99.7, '06B-II': 95.1, '06A-V': 93.5, '06A-III': 91.3}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190385,"{'06C-I': 98.6, '06C': 98.4, '06D': 84.6, '06A-II': 78.2, '06A-VI': 78.2}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219255,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398745,"{'06A': 83.5, '06A-IV': 83.0, '06A-V': 82.4, '06B-I': 82.3, '06B-II': 82.3}",1,83.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 83.83']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302345,"{'01': 7.2, '36': 6.2, '25F': 5.8, '25A': 5.6, '45': 5.6}",2,7.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217755,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002014115,"{'23F': 96.9, '23A': 63.8, '23B': 47.9, '28A': 47.6, '06B-II': 46.0}",1,96.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294205,"{'09A': 99.5, '09V': 99.3, '09N': 38.6, '09L': 36.7, '11F': 26.5}",1,99.5,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242345,"{'07A': 97.5, '07F': 97.3, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,97.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227235,"{'06E': 99.5, '06B-III': 99.1, '06A-II': 63.8, '06A-VI': 63.8, '06A-V': 61.8}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287965,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320525,"{'46': 87.8, '12A': 86.5, '12B': 78.1, '12F': 76.1, '44': 76.1}",1,87.8,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[4]],"{'wciI': [1, 91.4]}",{'wciI': 1},12A/12B/44/46,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191075,"{'19A-II': 100.0, '19A-I': 96.6, '19A': 85.0, '19A-III': 84.8, '19AF': 62.1}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285975,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288105,"{'23B': 81.0, '23B1': 65.0, '06B-II': 34.6, '06A-V': 34.4, '06A-IV': 34.0}",1,81.0,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900042345,"{'03': 95.2, '36': 17.8, '01': 15.8, '09N': 15.8, '20': 15.6}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001100645,"{'23F': 94.6, '23A': 63.7, '28A': 47.7, '23B': 47.0, '06A': 46.4}",1,94.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321195,"{'15C': 94.1, '15B': 94.0, '15A': 60.1, '15F': 46.5, '23A': 34.0}",1,94.1,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031995,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.7, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049915,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900061135,"{'15A': 98.4, '15F': 73.7, '15C': 62.1, '15B': 62.0, '23F': 31.7}",1,98.4,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220625,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259815,"{'33F2': 98.2, '33F': 75.1, '33A': 70.7, '34': 42.5, '35B': 32.6}",1,98.2,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001085965,"{'15A': 98.5, '15F': 73.7, '15C': 62.0, '15B': 61.9, '23F': 31.9}",1,98.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001164445,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339825,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001139005,"{'15C': 95.7, '15B': 95.6, '15A': 61.2, '15F': 47.6, '23A': 34.6}",1,95.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335435,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001168585,"{'01': 5.1, '22F': 4.9, '25F': 4.7, '25A': 4.6, '38': 3.8}",1,5.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001121625,"{'45': 5.5, '22F': 5.1, '20': 5.0, '25F': 5.0, '25A': 4.9}",1,5.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023365,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260055,"{'15C': 87.8, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052615,"{'23F': 89.6, '23A': 63.0, '28A': 48.5, '23B': 46.9, '06A-III': 46.3}",1,89.6,,23F,,,{},{},23F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001103245,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255835,"{'05': 95.3, '45': 22.5, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309355,"{'19A': 99.7, '19A-III': 99.5, '19A-I': 85.9, '19A-II': 83.4, '19AF': 57.0}",1,99.7,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223715,"{'15A': 98.3, '15F': 73.0, '15C': 61.8, '15B': 61.7, '23F': 32.3}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055685,"{'22F': 98.6, '22A': 73.2, '06A': 42.6, '06A-II': 41.9, '06B-II': 41.9}",1,98.6,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312415,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224055,"{'06A': 100.0, '06A-IV': 99.5, '06B-II': 95.3, '06A-V': 93.6, '06A-III': 91.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257455,"{'19F-I': 97.8, '19F': 97.1, '19F-III': 96.6, '19F-II': 95.1, '19F-IV': 90.2}",1,97.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256925,"{'09N': 97.5, '09L': 87.3, '09A': 32.6, '09V': 32.6, '36': 29.2}",1,97.5,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251215,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.6}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025915,"{'03': 95.2, '01': 17.2, '36': 17.0, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001115165,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255305,"{'06A-II': 85.5, '06A-VI': 85.5, '06A-III': 85.4, '06A-V': 84.9, '06B-I': 84.0}",1,85.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900042875,"{'03': 95.2, '01': 17.2, '36': 16.5, '09N': 15.6, '09L': 15.5}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001092725,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001112265,"{'23F': 93.9, '23A': 63.5, '28A': 48.5, '23B': 46.9, '06A-III': 46.3}",1,93.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001100485,"{'23F': 96.9, '23A': 63.9, '23B': 48.0, '28A': 47.7, '06B-II': 46.1}",1,96.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001144585,"{'20': 86.6, '36': 27.7, '13': 25.6, '09L': 24.7, '47F': 24.6}",1,86.6,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290925,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322965,"{'01': 99.1, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001083965,"{'06A': 89.6, '06A-III': 89.3, '06B-I': 88.0, '06B-II': 87.8, '06A-II': 87.3}",1,89.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220855,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219525,"{'23F': 92.5, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236595,"{'03': 95.2, '36': 17.4, '01': 16.8, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275945,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_909594525,"{'14': 92.7, '36': 28.4, '09L': 25.6, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302475,"{'23F': 82.4, '23A': 59.1, '23B': 52.7, '28A': 41.0, '28F': 39.6}",1,82.4,,23F,,,{},{},23F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261695,"{'04': 99.7, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053855,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331135,"{'06E': 99.7, '06B-III': 99.4, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213615,"{'18C': 99.3, '18B': 99.2, '18F': 76.0, '18A': 63.1, '16F': 39.3}",1,99.3,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284555,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319245,"{'06B-III': 92.4, '06E': 92.1, '06A-II': 49.2, '06A-VI': 49.2, '06B-I': 49.2}",1,92.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263845,"{'16F': 71.7, '28F': 43.6, '28A': 40.8, '18F': 33.9, '18A': 33.7}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219425,"{'23F': 94.1, '23A': 63.4, '28A': 47.7, '23B': 47.1, '06A': 46.9}",1,94.1,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192535,"{'15A': 100.0, '15F': 74.3, '15C': 62.0, '15B': 61.9, '23F': 31.7}",1,100.0,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001106125,"{'14': 94.1, '36': 26.1, '09L': 24.9, '15B': 24.2, '15C': 24.1}",1,94.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227575,"{'19A': 79.1, '19A-III': 78.9, '19A-I': 67.8, '19A-II': 66.1, '19AF': 59.9}",1,79.1,19A_19AF,19A_19AF,,[[0]],{'wzy': ['2: 69.2']},{'wzy': 0},19A_19AF,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255955,"{'06C-I': 89.1, '06C': 89.0, '06D': 86.9, '06A-I': 77.7, '06B': 77.4}",1,89.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288305,"{'07A': 91.1, '07F': 90.9, '19F-II': 39.3, '19F': 37.8, '19F-IV': 37.8}",1,91.1,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191255,"{'06C-I': 99.4, '06C': 99.2, '06D': 84.0, '06A-II': 79.1, '06A-VI': 79.1}",1,99.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001140645,"{'03': 95.2, '36': 17.0, '20': 15.7, '01': 14.2, '09N': 14.2}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301605,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306815,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233015,"{'15A': 99.7, '15F': 74.1, '15C': 61.9, '15B': 61.8, '23F': 31.6}",1,99.7,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031195,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194705,"{'15A': 100.0, '15F': 74.3, '15C': 62.0, '15B': 61.9, '23F': 31.7}",1,100.0,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189415,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252485,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281555,"{'14': 92.7, '36': 28.7, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900058165,"{'19A': 93.2, '19A-III': 93.0, '19A-II': 81.6, '19A-I': 79.8, '19AF': 55.9}",1,93.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063395,"{'19A': 78.6, '19A-III': 78.5, '19A-II': 68.7, '19A-I': 66.3, '19AF': 49.9}",1,78.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295135,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284995,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023405,"{'07A': 98.0, '07F': 97.8, '19F-II': 34.6, '19F-IV': 33.9, '19F': 32.8}",1,98.0,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249615,"{'14': 93.6, '36': 25.7, '09L': 25.0, '09N': 24.4, '15B': 23.8}",1,93.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900195195,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268735,"{'23F': 92.0, '23A': 59.0, '28F': 46.3, '06B-II': 45.9, '06A-IV': 45.8}",1,92.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310285,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 96.61]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001130605,"{'10A': 99.3, '10B': 67.0, '10C': 27.7, '10F': 18.1, '06B-I': 15.2}",1,99.3,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033515,"{'14': 92.6, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296825,"{'23F': 96.7, '23A': 63.8, '23B': 47.9, '28A': 47.6, '06B-II': 46.1}",1,96.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171975,"{'14': 92.7, '36': 28.7, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341765,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001171285,"{'19F-I': 95.4, '19F': 95.2, '19F-III': 93.7, '19F-II': 92.3, '19F-IV': 88.3}",1,95.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288855,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 89.0, '06A': 87.7, '06A-III': 85.6}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243705,"{'05': 95.1, '45': 22.5, '36': 21.6, '20': 20.2, '12A': 19.8}",1,95.1,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294495,"{'19F-III': 100.0, '19F': 98.0, '19F-I': 97.3, '19F-II': 94.8, '19F-IV': 89.5}",1,100.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063265,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170545,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259865,"{'03': 98.2, '01': 15.6, '24A': 15.6, '09L': 13.3, '09N': 13.2}",1,98.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030395,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336535,"{'06E': 80.0, '06B-III': 80.0, '06B-I': 55.5, '06A-III': 54.9, '06A-II': 54.0}",1,80.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329645,"{'12A': 93.0, '12B': 92.8, '46': 90.6, '12F': 86.6, '44': 83.9}",1,93.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[4]],"{'wciI': [1, 99.3]}",{'wciI': 1},12A/12B/44/46,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900060055,"{'08': 99.5, '06A-II': 25.8, '06A-VI': 25.7, '06B-II': 25.1, '06A-V': 24.8}",1,99.5,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282135,"{'06A-II': 85.3, '06A-VI': 85.3, '06A-III': 85.2, '06A-V': 84.4, '06A': 84.0}",1,85.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268705,"{'01': 7.8, '25F': 6.1, '25A': 5.9, '36': 5.8, '38': 5.2}",4,7.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265635,"{'06E': 89.8, '06B-III': 88.7, '06B-I': 52.2, '06A-III': 51.1, '06A-II': 49.7}",1,89.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025895,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268095,"{'04': 98.0, '45': 32.9, '12A': 26.9, '46': 26.8, '12F': 23.4}",1,98.0,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170105,"{'14': 92.6, '36': 27.8, '09L': 25.2, '15B': 24.2, '09N': 24.1}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334715,"{'14': 93.0, '36': 27.3, '09L': 25.8, '09N': 25.5, '15B': 24.3}",1,93.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307595,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329785,"{'09A': 98.0, '09V': 97.8, '09N': 39.5, '09L': 37.7, '11F': 26.5}",1,98.0,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001113045,"{'36': 10.6, '20': 5.8, '22F': 5.7, '23B1': 5.6, '45': 5.1}",1,10.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302035,"{'14': 96.8, '36': 25.0, '09L': 24.4, '15B': 23.7, '09N': 23.6}",1,96.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336645,"{'16F': 98.2, '28F': 42.5, '19F-IV': 41.2, '18A': 41.1, '19F-II': 40.7}",1,98.2,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001109945,"{'01': 4.9, '22F': 4.9, '25F': 4.5, '25A': 4.4, '45': 4.2}",1,4.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295505,"{'33F': 100.0, '33A': 97.5, '33F2': 70.9, '35C': 42.8, '42': 41.8}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901343065,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001203655,"{'36': 11.4, '06A-IV': 6.7, '20': 6.1, '06B-I': 5.5, '06C': 5.4}",1,11.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585885,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900034955,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194945,"{'24F2': 99.6, '24B': 88.4, '24F': 86.9, '24A': 71.1, '07B': 55.1}",1,99.6,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001343535,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213775,"{'19A': 96.8, '19A-III': 96.6, '19A-I': 85.4, '19A-II': 83.4, '19AF': 56.7}",1,96.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001348215,"{'19F': 94.7, '19F-I': 94.2, '19F-III': 93.1, '19F-II': 91.8, '19F-IV': 88.1}",1,94.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229165,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218295,"{'12F': 96.7, '44': 93.4, '12B': 92.7, '12A': 80.4, '46': 77.3}",1,96.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225775,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001334015,"{'20': 5.4, '22F': 5.1, '45': 5.0, '01': 4.4, '25A': 4.3}",1,5.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310065,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020097335,"{'09A': 99.5, '09V': 99.3, '09N': 38.7, '09L': 36.8, '11F': 26.4}",1,99.5,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299565,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 96.61]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232965,"{'19F-III': 99.8, '19F': 97.8, '19F-I': 97.1, '19F-II': 94.6, '19F-IV': 89.3}",1,99.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270095,"{'14': 94.1, '36': 26.0, '09L': 25.5, '09N': 24.6, '15B': 24.3}",1,94.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001166685,"{'06E': 100.0, '06B-III': 95.4, '06B-I': 42.7, '06A-I': 42.6, '06B': 42.2}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900064125,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296915,"{'22F': 93.8, '22A': 70.2, '06A-II': 45.3, '06A-VI': 45.2, '06B-I': 45.2}",1,93.8,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001150345,"{'34': 92.9, '33F2': 34.7, '35B': 31.9, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312775,"{'02': 92.4, '22F': 40.0, '06B-I': 38.7, '06A-III': 38.6, '06A-II': 38.5}",1,92.4,,2,,,{},{},2,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328705,"{'06E': 99.6, '06B-III': 99.3, '06B-I': 46.7, '06A-III': 46.5, '06A-II': 45.6}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001566275,"{'06C-I': 88.7, '06C': 88.6, '06D': 86.6, '06A-I': 77.7, '06B': 77.4}",1,88.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219155,"{'19F': 93.9, '19F-I': 93.7, '19F-III': 92.5, '19F-IV': 91.4, '19F-II': 91.3}",1,93.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239185,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021185,"{'17F': 98.7, '06B': 44.1, '06B-I': 44.0, '06A-III': 43.9, '06D': 43.6}",1,98.7,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053015,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001136045,"{'14': 89.6, '36': 28.9, '09L': 23.3, '09N': 22.2, '19F-II': 22.2}",1,89.6,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252715,"{'14': 93.4, '36': 27.3, '09L': 25.7, '09N': 24.9, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320975,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246595,"{'25F': 99.9, '25A': 98.9, '38': 80.9, '36': 9.0, '01': 7.9}",1,99.9,25F_25A_38,25F_25A_38,,"[[8], [18]]","{'wcyD': ['a', 100.0], 'wcyV': 0.12}","{'wcyD': 'a', 'wcyV': 'not_detected'}",25F/25A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000252005,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021022805,"{'02': 57.6, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219575,"{'39': 97.7, '29': 28.5, '34': 22.5, '43': 19.1, '33C': 18.5}",1,97.7,,39,,,{},{},39,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901343025,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335155,"{'14': 94.6, '36': 26.1, '15B': 24.2, '15C': 24.1, '09L': 23.7}",1,94.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324735,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216145,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301875,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043215,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263735,"{'23F': 99.3, '23A': 65.1, '23B': 47.8, '28A': 47.7, '06A-V': 45.8}",1,99.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311645,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316845,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019399855,"{'29': 98.9, '39': 20.3, '35F': 19.6, '22F': 17.0, '35B': 15.8}",1,98.9,,29,,,{},{},29,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001090145,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302425,"{'19F': 94.8, '19F-I': 94.3, '19F-III': 93.2, '19F-II': 91.9, '19F-IV': 88.1}",1,94.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231815,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219565,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167355,"{'09A': 99.3, '09V': 99.1, '09N': 36.9, '09L': 35.4, '11F': 26.6}",1,99.3,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227255,"{'01': 99.1, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_008423505,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_902652975,"{'01': 99.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280045,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313825,"{'01': 99.8, '19F': 32.1, '19F-I': 31.7, '19F-III': 31.4, '19F-II': 31.2}",1,99.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265445,"{'19A': 98.3, '19A-III': 98.1, '19A-I': 86.8, '19A-II': 84.5, '19AF': 57.1}",1,98.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222395,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221405,"{'13': 83.1, '36': 28.8, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.1,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001329795,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247005,"{'15C': 87.9, '15B': 87.7, '15A': 64.6, '15F': 50.0, '23A': 30.2}",1,87.9,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334255,"{'06C-I': 85.7, '06C': 85.6, '06D': 84.3, '06A-I': 79.9, '06B': 79.8}",1,85.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 94.1]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281155,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342705,"{'16F': 71.5, '28F': 43.1, '28A': 40.6, '18F': 33.6, '18A': 32.9}",1,71.5,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329475,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 89.0, '06A': 87.7, '06A-III': 85.6}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300345,"{'15A': 99.6, '15F': 74.0, '15C': 61.8, '15B': 61.7, '23F': 31.7}",1,99.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900036985,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226675,"{'03': 75.1, '20': 7.9, '01': 7.2, '36': 7.1, '22F': 6.8}",1,75.1,,3,,,{},{},3,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286965,"{'15C': 95.5, '15B': 95.3, '15A': 60.9, '15F': 47.3, '23A': 34.7}",1,95.5,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001105565,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.4, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214425,"{'23F': 96.9, '23A': 62.9, '23B': 47.8, '28A': 47.6, '06A-IV': 47.6}",1,96.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320745,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239035,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001154665,"{'13': 98.9, '09L': 28.4, '20': 28.1, '09N': 27.8, '14': 27.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226765,"{'34': 98.3, '33F2': 35.4, '35B': 33.6, '33F': 30.0, '33C': 28.7}",1,98.3,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337715,"{'14': 94.1, '09L': 25.5, '36': 25.5, '09N': 24.4, '15B': 24.3}",1,94.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229115,"{'35F': 100.0, '47F': 74.8, '34': 26.7, '35B': 26.6, '36': 23.8}",1,100.0,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001156985,"{'15C': 96.1, '15B': 95.9, '15A': 61.3, '15F': 47.6, '23A': 34.7}",1,96.1,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001909885,"{'03': 95.0, '20': 17.5, '01': 16.4, '36': 16.4, '09N': 15.7}",1,95.0,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169095,"{'14': 92.8, '36': 27.0, '15B': 24.3, '15C': 24.2, '09L': 23.9}",1,92.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291605,"{'15C': 94.5, '15B': 94.4, '15A': 60.3, '15F': 46.6, '23A': 34.7}",1,94.5,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001163265,"{'06C': 85.1, '06C-I': 85.1, '06D': 84.1, '06A': 76.8, '06A-IV': 73.2}",1,85.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278495,"{'05': 95.2, '45': 22.3, '36': 21.9, '20': 20.3, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327105,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242445,"{'19F-II': 99.4, '19F': 95.2, '19F-III': 94.2, '19F-I': 93.9, '19F-IV': 93.1}",1,99.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244075,"{'09A': 99.7, '09V': 99.5, '09N': 38.6, '09L': 36.7, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190235,"{'17F': 99.4, '06B': 44.1, '06B-I': 44.0, '06A-III': 43.9, '06D': 43.6}",1,99.4,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214875,"{'06E': 78.9, '06B-III': 78.3, '06B-I': 57.2, '06A-III': 55.7, '06A-II': 54.9}",1,78.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_017569245,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277325,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279455,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001301255,"{'10A': 99.6, '10B': 66.5, '10C': 27.8, '10F': 18.2, '35B': 14.2}",1,99.6,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023775,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310515,"{'35A': 94.4, '35C': 89.7, '42': 89.1, '33A': 46.4, '33F': 45.9}",1,94.4,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168285,"{'09A': 99.7, '09V': 99.5, '09N': 38.2, '09L': 36.8, '06A-IV': 27.4}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230025,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001132805,"{'35B': 42.5, '33B': 40.2, '33D': 36.1, '34': 31.3, '22F': 29.9}",1,42.5,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330885,"{'28F': 95.2, '28A': 88.4, '23F': 51.1, '06B-II': 49.1, '06A-IV': 48.7}",1,95.2,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272145,"{'23F': 96.7, '23A': 63.8, '23B': 47.9, '28A': 47.6, '06B-II': 46.1}",1,96.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241215,"{'15C': 94.0, '15B': 93.8, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,94.0,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336415,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900088775,"{'19A-II': 100.0, '19A-I': 96.6, '19A': 85.0, '19A-III': 84.8, '19AF': 62.1}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031515,"{'01': 99.7, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.3}",1,99.7,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295395,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261555,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341475,"{'32A': 97.4, '32F': 97.3, '06A-II': 40.6, '06A-VI': 40.5, '06B-II': 39.8}",1,97.4,,32F/32A,,,{},{},32F/32A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001150625,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900046995,"{'01': 99.8, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.3}",1,99.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332815,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298385,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292675,"{'11D': 96.5, '11A': 95.3, '11F': 43.3, '11C': 36.2, '11B': 34.8}",1,96.5,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001085705,"{'10A': 99.3, '10B': 67.0, '10C': 27.7, '10F': 18.1, '06B-I': 15.2}",1,99.3,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341955,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001110625,"{'18C': 88.6, '18B': 88.5, '18F': 78.1, '18A': 60.0, '16F': 37.9}",1,88.6,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331185,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252175,"{'07C': 97.9, '07B': 76.5, '40': 75.2, '24B': 48.2, '24F': 47.8}",1,97.9,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322975,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170885,"{'14': 92.1, '36': 28.4, '09L': 24.7, '15B': 24.0, '15C': 23.9}",1,92.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276205,"{'35F': 99.2, '47F': 74.5, '34': 26.7, '35B': 26.7, '29': 22.2}",1,99.2,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585805,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001135725,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308785,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.4, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001336415,"{'23B1': 98.8, '23B': 55.9, '19A-II': 36.0, '19A-I': 35.7, '19AF': 31.5}",1,98.8,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_902652955,"{'01': 99.8, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.3}",1,99.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324365,"{'19F-I': 97.3, '19F': 96.6, '19F-III': 96.1, '19F-II': 94.6, '19F-IV': 89.7}",1,97.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236155,"{'10A': 99.1, '10B': 66.8, '10C': 27.7, '10F': 18.1, '22F': 15.5}",1,99.1,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001152925,"{'06C-I': 89.0, '06C': 88.9, '06D': 86.9, '06A-I': 78.0, '06B': 77.7}",1,89.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 94.1]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266575,"{'06A': 96.6, '06B': 87.6, '06A-IV': 86.8, '06A-I': 86.5, '06B-II': 86.3}",1,96.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282905,"{'15A': 99.5, '15F': 73.8, '15C': 62.2, '15B': 62.1, '23F': 31.3}",1,99.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342935,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054025,"{'22F': 98.6, '22A': 73.0, '19A': 51.8, '19A-III': 51.8, '19A-II': 43.3}",1,98.6,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252355,"{'05': 95.2, '45': 22.2, '36': 21.8, '20': 20.2, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242605,"{'07C': 94.0, '07B': 77.1, '40': 76.7, '24B': 48.6, '24F': 47.6}",1,94.0,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171035,"{'14': 90.7, '36': 28.9, '09L': 25.6, '09N': 24.7, '19F-II': 23.0}",1,90.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001108465,"{'06C': 85.2, '06C-I': 85.2, '06D': 84.2, '06A': 76.9, '06A-IV': 73.3}",1,85.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194085,"{'15A': 100.0, '15F': 74.3, '15C': 62.0, '15B': 61.9, '23F': 31.7}",1,100.0,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260965,"{'14': 99.6, '09L': 26.1, '36': 25.8, '09N': 24.7, '15B': 24.0}",1,99.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192835,"{'35B': 99.3, '33F': 33.6, '35C': 33.4, '34': 33.1, '35A': 33.0}",1,99.3,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312805,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325085,"{'03': 97.4, '01': 17.8, '20': 16.1, '09N': 15.8, '09L': 15.3}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256275,"{'09A': 99.3, '09V': 99.1, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.3,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218745,"{'04': 98.3, '45': 34.1, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284415,"{'15C': 96.2, '15B': 96.1, '15A': 61.5, '15F': 47.8, '23A': 34.7}",1,96.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189265,"{'06A-II': 98.7, '06A-VI': 98.7, '06B-II': 90.5, '06A-V': 89.7, '06A-III': 88.7}",1,98.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017785,"{'23F': 97.8, '23A': 63.3, '28A': 48.3, '23B': 48.0, '06A-IV': 46.3}",1,97.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336955,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191195,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001121765,"{'07A': 99.5, '07F': 99.3, '19F-II': 36.7, '19F-IV': 36.1, '19F': 35.2}",1,99.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339195,"{'33D': 80.3, '33B': 75.4, '06A-I': 36.8, '06B': 35.4, '06A-IV': 35.3}",1,80.3,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055395,"{'19A': 99.0, '19A-III': 98.8, '19A-I': 85.9, '19A-II': 83.6, '19AF': 57.2}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330285,"{'13': 83.7, '36': 32.3, '14': 27.3, '15B': 26.7, '15C': 26.3}",1,83.7,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001208365,"{'25F': 5.6, '25A': 5.5, '45': 5.5, '36': 5.3, '20': 5.0}",1,5.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278825,"{'19F-I': 97.7, '19F': 97.0, '19F-III': 96.5, '19F-II': 95.0, '19F-IV': 90.1}",1,97.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217985,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291735,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900060625,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001139125,"{'45': 6.6, '25F': 5.5, '20': 5.4, '36': 5.4, '25A': 5.3}",2,6.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189555,"{'06B-I': 99.4, '06A-III': 97.3, '06B-II': 90.0, '06A': 89.8, '06A-V': 88.1}",1,99.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244895,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240785,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.0, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322145,"{'19A': 99.5, '19A-III': 99.3, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,99.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169525,"{'14': 92.7, '36': 28.9, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024215,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001207335,"{'25F': 5.7, '45': 5.7, '20': 5.5, '25A': 5.5, '01': 5.3}",2,5.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340305,"{'06E': 83.5, '06B-III': 82.4, '06B-I': 55.6, '06A-III': 54.1, '06A-II': 53.5}",1,83.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340255,"{'22F': 96.4, '22A': 73.2, '06B-II': 42.8, '06A-II': 42.7, '06A': 42.6}",1,96.4,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020875,"{'03': 95.2, '01': 17.3, '36': 16.5, '09N': 15.8, '20': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052445,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259385,"{'11A': 99.0, '11D': 96.6, '11F': 39.8, '11C': 36.2, '11B': 34.8}",1,99.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000279755,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001122205,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325845,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.4, '06B-II': 34.7, '06A-V': 34.5}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313725,"{'04': 98.9, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,98.9,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232745,"{'19F-I': 95.4, '19F': 95.1, '19F-III': 93.5, '19F-II': 92.4, '19F-IV': 88.4}",1,95.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246655,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256035,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314895,"{'28F': 93.7, '28A': 88.7, '23F': 48.0, '16F': 44.0, '06A-IV': 41.8}",1,93.7,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021022315,"{'02': 56.6, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,56.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032405,"{'11D': 99.8, '11A': 97.0, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,99.8,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027625,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320605,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287855,"{'21': 95.5, '22F': 38.4, '06A-II': 34.6, '06A-VI': 34.5, '06A-III': 33.9}",1,95.5,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278775,"{'05': 95.3, '45': 22.6, '36': 21.7, '20': 20.0, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281525,"{'23F': 96.7, '23A': 63.4, '23B': 47.6, '28A': 47.4, '06A-V': 46.5}",1,96.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001089445,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338545,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213315,"{'18C': 88.5, '18B': 88.4, '18F': 77.8, '18A': 61.5, '16F': 37.6}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275615,"{'15C': 89.6, '15B': 89.5, '15A': 62.5, '15F': 49.3, '23A': 31.0}",1,89.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264235,"{'04': 99.7, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018855,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289775,"{'19A': 88.7, '19A-III': 88.5, '19A-II': 78.8, '19A-I': 78.0, '19AF': 59.6}",1,88.7,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272175,"{'04': 99.8, '45': 33.6, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316385,"{'14': 93.2, '36': 27.3, '09L': 25.9, '09N': 25.4, '15B': 24.2}",1,93.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336865,"{'05': 95.3, '45': 22.5, '36': 21.9, '20': 20.1, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000006885,"{'04': 99.8, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265535,"{'19AF': 96.9, '19A-II': 62.8, '19A-I': 62.1, '19A': 51.8, '19A-III': 51.6}",1,96.9,19A_19AF,19A_19AF,,[[7]],"{'wzy': [2, 97.62]}",{'wzy': 2},19A_19AF,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001109965,"{'15C': 95.5, '15B': 95.4, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.5,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310415,"{'28F': 93.9, '28A': 88.9, '23F': 48.2, '16F': 44.2, '06A-IV': 42.0}",1,93.9,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344315,"{'06A': 90.4, '06A-III': 89.4, '06A-II': 89.3, '06A-VI': 89.3, '06B-II': 89.3}",1,90.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220825,"{'35A': 94.4, '35C': 89.7, '42': 89.1, '33A': 46.3, '33F': 45.9}",1,94.4,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219265,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001860965,"{'22F': 98.6, '22A': 73.1, '06A': 42.5, '06B': 41.9, '06A-I': 41.6}",1,98.6,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304515,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.6, '19A-III': 87.4, '19AF': 61.9}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 92.87]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317845,"{'35B': 99.1, '33F': 33.4, '35C': 33.2, '34': 33.0, '35A': 32.8}",1,99.1,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288355,"{'05': 95.0, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282285,"{'09A': 95.3, '09V': 95.1, '09N': 38.9, '09L': 36.9, '06A-IV': 26.4}",1,95.3,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001198675,"{'19F-I': 95.3, '19F': 95.0, '19F-III': 93.5, '19F-II': 92.2, '19F-IV': 88.2}",1,95.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309135,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585565,"{'12F': 96.9, '44': 93.6, '12B': 92.9, '12A': 80.6, '46': 77.5}",1,96.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278335,"{'16F': 73.0, '28F': 44.4, '28A': 41.6, '18F': 35.4, '18A': 34.9}",1,73.0,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273175,"{'09L': 99.1, '09N': 89.4, '36': 32.3, '09A': 31.5, '09V': 31.5}",1,99.1,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001197995,"{'03': 95.2, '36': 17.3, '20': 15.7, '01': 14.5, '14': 14.0}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223015,"{'05': 95.3, '45': 22.3, '36': 21.7, '20': 20.3, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318525,"{'08': 99.2, '06A-II': 25.6, '06A-VI': 25.5, '06B-II': 25.3, '06A-III': 24.6}",1,99.2,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254475,"{'19B': 99.8, '19C': 70.3, '19F-IV': 54.2, '19F-II': 54.0, '19F-I': 53.5}",1,99.8,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170345,"{'14': 91.8, '36': 28.4, '09L': 25.0, '15B': 24.2, '15C': 24.1}",1,91.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338685,"{'19A-II': 98.1, '19A-I': 95.6, '19A': 84.1, '19A-III': 83.9, '19AF': 61.8}",1,98.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 92.87]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221555,"{'07A': 97.5, '07F': 97.3, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,97.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_902653005,"{'01': 99.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295295,"{'01': 99.2, '19F': 32.0, '19F-I': 31.5, '19F-III': 31.3, '19F-II': 31.0}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168025,"{'09A': 99.7, '09V': 99.5, '09N': 37.1, '09L': 35.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338055,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001106505,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311295,"{'23F': 96.7, '23A': 63.7, '23B': 48.0, '28A': 47.6, '06B-II': 46.0}",1,96.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237695,"{'14': 92.6, '36': 29.0, '09L': 25.7, '09N': 24.7, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227965,"{'18C': 88.3, '18B': 88.2, '18F': 77.6, '18A': 61.3, '16F': 37.6}",1,88.3,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189335,"{'17F': 99.4, '06B': 44.2, '06D': 43.5, '06B-I': 43.1, '06A-I': 43.0}",1,99.4,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001097885,"{'36': 8.9, '23B1': 5.6, '20': 4.7, '45': 4.2, '22F': 3.3}",1,8.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001101885,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308115,"{'14': 95.0, '36': 28.4, '09L': 25.4, '09N': 24.5, '15B': 24.2}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001340815,"{'16F': 98.0, '28F': 42.8, '19F-IV': 41.2, '18F': 41.0, '19F-II': 40.8}",1,98.0,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027695,"{'09N': 100.0, '09L': 89.1, '09A': 32.7, '09V': 32.7, '36': 32.1}",1,100.0,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255065,"{'06E': 99.2, '06B-III': 98.6, '06A-III': 46.2, '06B-I': 46.1, '06A-IV': 45.3}",1,99.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001126565,"{'15C': 87.3, '15B': 87.2, '15A': 64.1, '15F': 49.5, '23A': 30.2}",1,87.3,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900035035,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_003351525,"{'01': 99.3, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001171545,"{'06E': 100.0, '06B-III': 99.2, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214105,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020665,"{'04': 99.7, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065285,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306505,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297985,"{'24F2': 99.7, '24B': 88.5, '24F': 87.0, '24A': 71.0, '07B': 56.8}",1,99.7,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249635,"{'07A': 97.5, '07F': 97.3, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,97.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263905,"{'08': 99.7, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.7,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242455,"{'15A': 98.3, '15F': 73.0, '15C': 61.8, '15B': 61.7, '23F': 32.3}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238615,"{'07A': 99.6, '07F': 99.4, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.6,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250825,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 32.7}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310565,"{'09A': 95.9, '09V': 95.7, '09N': 38.8, '09L': 37.4, '11F': 26.6}",1,95.9,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900038665,"{'18C': 99.8, '18B': 99.7, '18F': 75.8, '18A': 62.2, '16F': 39.3}",1,99.8,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332955,"{'09A': 99.4, '09V': 99.2, '09N': 38.6, '09L': 36.6, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253865,"{'19A-I': 99.1, '19A-II': 97.1, '19A': 87.7, '19A-III': 87.5, '19AF': 61.7}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227905,"{'06A-II': 95.6, '06A-VI': 95.6, '06B-II': 89.5, '06A-V': 89.1, '06A-III': 88.5}",1,95.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334125,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312795,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256495,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.5, '46': 81.4}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217215,"{'14': 91.4, '19F-IV': 25.9, '09L': 25.0, '09N': 24.7, '36': 24.4}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021365,"{'18C': 99.5, '18B': 99.4, '18F': 75.5, '18A': 62.5, '16F': 39.0}",1,99.5,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268215,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.5, '19F-IV': 36.3, '19F': 35.1}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244235,"{'09A': 99.7, '09V': 99.5, '09N': 38.2, '09L': 36.8, '06A-IV': 27.4}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001091545,"{'18C': 88.6, '18B': 88.5, '18F': 78.1, '18A': 61.1, '16F': 37.9}",1,88.6,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001161605,"{'22F': 86.4, '22A': 71.4, '06A': 39.6, '06A-III': 39.5, '06A-I': 39.4}",1,86.4,,22F,,,{},{},22F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286515,"{'06C': 87.7, '06C-I': 87.7, '06D': 86.4, '06A': 77.2, '06B-I': 76.7}",1,87.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 89.0']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001909965,"{'03': 95.2, '36': 17.4, '20': 15.7, '09N': 15.4, '01': 15.2}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303995,"{'19F': 94.8, '19F-I': 94.3, '19F-III': 93.2, '19F-II': 91.9, '19F-IV': 88.1}",1,94.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001108765,"{'22F': 98.9, '22A': 73.2, '06A': 42.5, '06B': 42.0, '06A-II': 41.8}",1,98.9,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313645,"{'35B': 99.0, '33F': 33.4, '35C': 33.2, '34': 33.0, '35A': 32.8}",1,99.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325075,"{'06E': 96.9, '06B-III': 96.1, '06B-I': 46.5, '06A-III': 45.9, '06A-IV': 45.2}",1,96.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 96.61]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226515,"{'34': 98.7, '33F2': 35.2, '35B': 33.6, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001166885,"{'14': 95.1, '36': 26.2, '09L': 24.6, '15B': 24.3, '15C': 24.2}",1,95.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900041755,"{'09N': 99.7, '09L': 88.7, '09A': 32.7, '09V': 32.7, '36': 32.4}",1,99.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190545,"{'23F': 99.2, '23A': 65.4, '23B': 49.0, '28A': 48.1, '06A-IV': 47.1}",1,99.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326285,"{'14': 94.1, '36': 25.9, '09L': 25.0, '09N': 24.5, '15B': 24.2}",1,94.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338585,"{'12F': 96.4, '44': 93.4, '12B': 93.3, '12A': 84.8, '46': 81.7}",1,96.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022245,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001144965,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332855,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322285,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001153345,"{'10A': 99.3, '10B': 67.0, '10C': 27.7, '10F': 18.1, '06B-I': 15.1}",1,99.3,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323235,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217155,"{'23F': 96.7, '23A': 63.7, '23B': 48.0, '28A': 47.7, '28F': 46.0}",1,96.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309635,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253225,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250475,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001086085,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220165,"{'34': 93.0, '33F2': 34.7, '35B': 32.3, '33F': 29.0, '33C': 28.0}",1,93.0,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001142825,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253155,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254075,"{'23F': 97.7, '23A': 63.2, '23B': 48.4, '28A': 48.3, '06A-IV': 47.0}",1,97.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305045,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290245,"{'14': 93.9, '36': 26.4, '09L': 25.5, '09N': 24.8, '15B': 24.3}",1,93.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268825,"{'16F': 71.9, '28F': 43.4, '28A': 40.9, '18F': 33.9, '18A': 33.7}",1,71.9,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222645,"{'01': 99.1, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001860905,"{'22F': 98.5, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,98.5,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311845,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255155,"{'07C': 96.4, '07B': 77.1, '40': 74.4, '24F': 47.8, '24B': 47.7}",1,96.4,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001159925,"{'06E': 100.0, '06B-III': 99.3, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336705,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238005,"{'09A': 98.1, '09V': 97.9, '09N': 39.5, '09L': 37.6, '11F': 26.6}",1,98.1,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240575,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305085,"{'18A': 99.7, '18B': 53.8, '18C': 53.8, '18F': 53.6, '19F-IV': 37.3}",1,99.7,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325405,"{'04': 98.3, '45': 34.9, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_009720845,"{'15A': 98.4, '15F': 76.9, '15C': 66.3, '15B': 66.2, '23F': 38.5}",1,98.4,15F_15A,15F_15A,,"[[11], [12], [15], [17]]","{'glf': 1.7, 'rmlB': 76.19, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15F_15A,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274625,"{'04': 98.3, '45': 34.3, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192375,"{'23B': 99.1, '23B1': 64.6, '23F': 45.6, '23A': 39.8, '06A-IV': 36.3}",1,99.1,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274815,"{'34': 98.7, '33F2': 35.2, '35B': 33.5, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019399345,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314075,"{'34': 98.6, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.6,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001142845,"{'19A': 99.8, '19A-III': 99.6, '19A-I': 86.1, '19A-II': 83.5, '19AF': 57.1}",1,99.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267045,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333595,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320535,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318205,"{'06E': 99.8, '06B-III': 99.0, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316685,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284085,"{'19A': 99.8, '19A-III': 99.6, '19A-I': 86.0, '19A-II': 83.5, '19AF': 57.2}",1,99.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231435,"{'22F': 96.4, '22A': 73.4, '06A': 42.6, '06A-II': 42.3, '06A-VI': 42.2}",1,96.4,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233565,"{'14': 91.4, '19F-IV': 25.9, '36': 25.4, '09L': 25.2, '09N': 24.5}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270295,"{'16F': 71.6, '28F': 43.2, '28A': 40.6, '18F': 33.6, '18A': 33.5}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334385,"{'14': 91.8, '36': 27.9, '09L': 25.6, '09N': 24.5, '15B': 23.7}",1,91.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192995,"{'21': 95.7, '22F': 37.2, '06A-II': 32.3, '06A-VI': 32.2, '22A': 31.8}",1,95.7,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245825,"{'03': 98.7, '01': 18.0, '09N': 15.7, '20': 15.6, '09L': 15.5}",1,98.7,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301295,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001170205,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.5}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267725,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189625,"{'06B-I': 99.5, '06A-III': 97.3, '06B-II': 89.9, '06A': 89.7, '06A-V': 88.0}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240415,"{'03': 95.0, '01': 17.3, '36': 17.1, '20': 15.9, '09N': 15.7}",1,95.0,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311205,"{'19A-II': 98.1, '19A-I': 95.6, '19A': 84.1, '19A-III': 83.9, '19AF': 61.7}",1,98.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001105665,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.1}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224855,"{'19A-I': 98.5, '19A-II': 96.8, '19A': 87.1, '19A-III': 86.9, '19AF': 61.5}",1,98.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256985,"{'19A': 98.9, '19A-III': 98.7, '19A-I': 85.8, '19A-II': 83.5, '19AF': 57.0}",1,98.9,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324495,"{'15C': 95.2, '15B': 95.1, '15A': 60.8, '15F': 47.3, '23A': 34.0}",1,95.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230555,"{'17F': 99.7, '06B': 44.5, '06D': 43.7, '06A-I': 43.4, '22F': 43.1}",1,99.7,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019399365,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052895,"{'45': 91.9, '04': 38.8, '06A-II': 27.1, '06A-VI': 27.0, '06C': 26.6}",1,91.9,,45,,,{},{},45,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001093085,"{'13': 83.6, '36': 25.5, '14': 25.3, '09L': 24.6, '09N': 24.4}",1,83.6,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022855,"{'08': 99.5, '06A-II': 24.5, '06A-VI': 24.4, '02': 24.2, '06B-II': 23.9}",1,99.5,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229235,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_003351645,"{'19F-II': 99.0, '19F': 95.2, '19F-III': 93.8, '19F-I': 93.5, '19F-IV': 93.1}",1,99.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057665,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191765,"{'11D': 99.9, '11A': 97.1, '11F': 41.9, '11C': 35.8, '11B': 34.3}",1,99.9,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900195035,"{'21': 100.0, '22F': 36.1, '06A-IV': 34.1, '06A-II': 33.4, '06A-VI': 33.3}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001093965,"{'03': 95.2, '36': 16.9, '01': 16.5, '20': 15.6, '09N': 14.5}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002889675,"{'23F': 93.9, '23A': 63.4, '28A': 48.4, '23B': 46.9, '06A-III': 46.3}",1,93.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055785,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167035,"{'09A': 99.2, '09V': 99.0, '09N': 37.4, '09L': 36.0, '11F': 26.5}",1,99.2,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255545,"{'23F': 92.4, '23A': 61.1, '28A': 48.1, '23B': 46.6, '06A-IV': 46.4}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258705,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020685,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001120565,"{'36': 10.6, '06A-IV': 7.1, '01': 6.9, '20': 6.2, '06B-I': 5.9}",1,10.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269695,"{'06A-III': 85.9, '06A-II': 85.6, '06A-VI': 85.6, '06A-V': 84.9, '06B-I': 84.5}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252315,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264435,"{'35F': 99.0, '47F': 74.5, '34': 26.6, '35B': 26.2, '29': 22.3}",1,99.0,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277545,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001174125,"{'23B': 99.4, '23B1': 53.1, '23F': 46.0, '23A': 39.9, '06A-IV': 36.8}",1,99.4,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001106945,"{'19F-I': 95.9, '19F': 95.6, '19F-III': 94.0, '19F-II': 92.8, '19F-IV': 88.8}",1,95.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222425,"{'06A-V': 92.3, '06A-I': 92.0, '06A-III': 89.9, '06B': 88.8, '06B-I': 88.5}",1,92.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032915,"{'01': 99.8, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.3}",1,99.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257795,"{'23A': 96.6, '23F': 64.0, '23B': 42.0, '19F-II': 37.9, '15B': 37.2}",1,96.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346215,"{'09A': 99.7, '09V': 99.5, '09N': 38.2, '09L': 36.4, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262345,"{'14': 93.7, '36': 26.0, '09L': 25.3, '09N': 24.1, '15B': 24.0}",1,93.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001088825,"{'36': 10.1, '06A-IV': 7.3, '20': 7.0, '01': 6.3, '06B-I': 6.1}",1,10.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288155,"{'36': 9.5, '01': 7.2, '45': 6.1, '22F': 6.0, '20': 5.8}",1,9.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217955,"{'19A-II': 99.0, '19A-I': 97.1, '19A': 85.7, '19A-III': 85.5, '19AF': 62.0}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262805,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.5, '46': 81.4}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315325,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285605,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.8, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215245,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310925,"{'03': 97.4, '01': 17.9, '09N': 15.4, '20': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293445,"{'14': 95.0, '36': 26.4, '09L': 25.5, '09N': 24.7, '15B': 24.3}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227125,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001166005,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257015,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237815,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001127585,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192825,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001120765,"{'06A-II': 97.9, '06A-VI': 97.9, '06B-II': 90.4, '06A-V': 89.6, '06A-III': 89.2}",1,97.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001870645,"{'19F-II': 98.7, '19F': 94.5, '19F-III': 93.6, '19F-I': 93.2, '19F-IV': 92.4}",1,98.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001157625,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294115,"{'19A': 79.6, '19A-III': 79.5, '19A-II': 70.0, '19A-I': 67.4, '19AF': 50.2}",1,79.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262855,"{'19F': 97.4, '19F-I': 96.0, '19F-III': 95.2, '19F-II': 95.1, '19F-IV': 90.6}",1,97.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001105865,"{'23F': 92.4, '23A': 61.1, '28A': 47.7, '23B': 46.6, '06A-IV': 46.4}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229825,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.4, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227755,"{'17A': 99.4, '41F': 46.5, '22F': 39.5, '06D': 38.8, '06B-I': 38.7}",1,99.4,,17A,,,{},{},17A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242915,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.5, '23B': 48.2, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314625,"{'06A-I': 99.9, '06B': 94.4, '06A-V': 89.5, '06A': 87.0, '06A-III': 86.2}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030045,"{'03': 95.2, '01': 17.4, '36': 16.9, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001147505,"{'22F': 86.5, '22A': 71.4, '06A': 39.6, '06A-III': 39.5, '06A-I': 39.4}",1,86.5,,22F,,,{},{},22F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229495,"{'15C': 87.5, '15B': 87.4, '15A': 64.3, '15F': 49.7, '23A': 30.0}",1,87.5,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246465,"{'05': 95.1, '45': 22.3, '36': 21.8, '20': 20.4, '12A': 19.8}",1,95.1,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292125,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251935,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314455,"{'16F': 71.7, '28F': 43.2, '28A': 40.7, '18F': 33.7, '18A': 33.6}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275885,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278925,"{'04': 99.8, '45': 34.0, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193735,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053825,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346455,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303845,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277165,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.5, '46': 81.4}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049045,"{'15C': 94.0, '15B': 93.8, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,94.0,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001100885,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321555,"{'18C': 99.8, '18B': 99.7, '18F': 75.7, '18A': 62.4, '16F': 39.3}",1,99.8,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001147225,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310375,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315435,"{'01': 99.5, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001172745,"{'06A-I': 98.5, '06B': 94.5, '06A-V': 89.4, '06A': 87.5, '06A-III': 85.9}",1,98.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001119565,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050675,"{'16F': 99.8, '28F': 42.4, '19F-IV': 41.0, '18A': 40.9, '18F': 40.7}",1,99.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192485,"{'21': 99.9, '22F': 34.5, '06A-IV': 32.8, '06A-II': 32.1, '06A-VI': 32.0}",1,99.9,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191245,"{'35B': 99.9, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.9,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027095,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265715,"{'13': 98.7, '09N': 29.1, '09L': 28.6, '20': 28.2, '36': 27.9}",1,98.7,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223515,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.0, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021022835,"{'02': 57.6, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024975,"{'09N': 99.9, '09L': 88.9, '09A': 32.8, '09V': 32.8, '36': 32.1}",1,99.9,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347275,"{'11F': 61.8, '11D': 38.4, '11A': 36.8, '09V': 25.4, '09A': 25.3}",1,61.8,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332735,"{'35B': 99.0, '33F': 33.4, '35C': 33.2, '34': 33.0, '35A': 32.8}",1,99.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001301475,"{'15A': 98.4, '15F': 73.7, '15C': 62.1, '15B': 62.0, '23F': 31.7}",1,98.4,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324415,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258185,"{'13': 83.6, '36': 31.3, '14': 27.1, '15B': 26.6, '15C': 26.2}",1,83.6,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300435,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337895,"{'08': 99.4, '06A-II': 24.6, '06A-VI': 24.5, '02': 24.1, '06B-II': 24.0}",1,99.4,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001106485,"{'37': 57.3, '36': 12.5, '20': 7.7, '45': 6.7, '06B-I': 6.4}",1,57.3,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063425,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167405,"{'09A': 98.6, '09V': 98.4, '09N': 36.0, '09L': 34.6, '11F': 26.6}",1,98.6,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001860995,"{'22F': 99.0, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191295,"{'19A-II': 99.6, '19A-I': 96.2, '19A': 85.0, '19A-III': 84.8, '19AF': 61.7}",1,99.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334695,"{'09N': 97.7, '09L': 87.5, '09A': 32.6, '09V': 32.6, '36': 29.3}",1,97.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247825,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317385,"{'09A': 95.7, '09V': 95.5, '09N': 38.7, '09L': 37.5, '11F': 26.7}",1,95.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290975,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338965,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019725,"{'12F': 96.7, '44': 93.4, '12B': 92.7, '12A': 80.4, '46': 77.3}",1,96.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001162685,"{'25F': 5.0, '45': 5.0, '25A': 4.9, '22F': 4.8, '01': 4.2}",2,5.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305655,"{'08': 99.3, '06A-II': 26.5, '06A-VI': 26.4, '06B-II': 25.8, '06A-V': 25.4}",1,99.3,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273555,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000233125,"{'15C': 93.7, '15B': 93.6, '15A': 62.1, '15F': 48.6, '14': 32.9}",1,93.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026395,"{'14': 92.4, '36': 28.9, '09L': 25.6, '09N': 24.5, '15B': 24.0}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029525,"{'19A': 99.4, '19A-III': 99.2, '19A-I': 86.1, '19A-II': 83.9, '19AF': 57.2}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248185,"{'06A-II': 95.5, '06A-VI': 95.5, '06B-II': 89.4, '06A-V': 89.0, '06A-III': 88.4}",1,95.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001095365,"{'21': 92.2, '22F': 34.9, '06A-IV': 34.3, '06A-II': 34.0, '06A-VI': 34.0}",1,92.2,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001174665,"{'19F-I': 95.3, '19F': 95.0, '19F-III': 93.5, '19F-II': 92.2, '19F-IV': 88.2}",1,95.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001167625,"{'28F': 98.5, '28A': 92.1, '23F': 47.6, '16F': 46.0, '06B-I': 42.6}",1,98.5,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275495,"{'09L': 99.4, '09N': 90.1, '36': 32.5, '09A': 31.3, '09V': 31.3}",1,99.4,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282535,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001105445,"{'06A-III': 99.8, '06B-I': 98.2, '06B-II': 91.1, '06A': 90.8, '06A-V': 90.2}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001093005,"{'15C': 96.3, '15B': 96.1, '15A': 61.5, '15F': 47.8, '23A': 34.7}",1,96.3,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001141585,"{'33B': 89.8, '33D': 89.7, '35B': 32.7, '33F2': 30.3, '22F': 27.7}",1,89.8,,"Mixed serotypes- {'33B', '33D'}",,,{},{},"Mixed serotypes- {'33B', '33D'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049205,"{'13': 83.3, '36': 26.8, '14': 25.1, '09N': 22.9, '09L': 22.8}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192355,"{'18C': 99.7, '18B': 99.6, '18F': 75.6, '18A': 62.1, '16F': 39.1}",1,99.7,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900460125,"{'20': 99.3, '13': 26.1, '09L': 25.4, '36': 24.9, '09N': 24.7}",1,99.3,,20,,,{},{},20,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293285,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.7, '19A-III': 87.5, '19AF': 61.8}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336355,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312915,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246525,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 61.9}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 92.87]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001123125,"{'23F': 94.6, '23A': 63.7, '28A': 47.7, '23B': 47.0, '06A': 46.4}",1,94.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001102365,"{'23B': 99.4, '23B1': 53.1, '23F': 46.0, '23A': 39.9, '06A-IV': 36.8}",1,99.4,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229575,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261195,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001156485,"{'31': 99.2, '41A': 56.7, '41F': 48.4, '06A-II': 35.9, '06A-VI': 35.9}",1,99.2,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328405,"{'19A': 99.5, '19A-III': 99.3, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297125,"{'03': 97.4, '01': 17.9, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224475,"{'35B': 99.2, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.2,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280575,"{'16F': 71.5, '28F': 43.0, '28A': 40.5, '18A': 33.5, '18F': 33.5}",1,71.5,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221165,"{'15C': 87.6, '15B': 87.4, '15A': 64.3, '15F': 49.8, '23A': 29.9}",1,87.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315575,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300515,"{'05': 95.3, '45': 22.5, '36': 22.0, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001334575,"{'32A': 97.5, '32F': 97.4, '06A-II': 40.5, '06A-VI': 40.4, '06B-II': 39.9}",1,97.5,,32F/32A,,,{},{},32F/32A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258895,"{'38': 97.7, '25F': 84.3, '25A': 83.3, '36': 15.6, '01': 7.7}",1,97.7,25F_25A_38,25F_25A_38,,"[[0], [19]]","{'wcyD': ['b: 80.0'], 'wcyV': 100.0}","{'wcyD': 0, 'wcyV': 'detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167705,"{'09A': 99.6, '09V': 99.4, '09N': 37.4, '09L': 36.0, '11F': 26.6}",1,99.6,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001197875,"{'14': 89.7, '36': 28.9, '09L': 23.1, '19F-II': 22.2, '09N': 21.9}",1,89.7,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344955,"{'06A': 89.7, '06A-III': 89.3, '06B-I': 88.0, '06B-II': 87.8, '06A-II': 87.3}",1,89.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214815,"{'35F': 99.0, '47F': 74.5, '34': 26.6, '35B': 26.2, '36': 23.2}",1,99.0,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330415,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296885,"{'01': 99.2, '19F': 32.1, '19F-I': 31.7, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001158705,"{'23B': 99.0, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.3}",1,99.0,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338185,"{'33D': 80.6, '33B': 76.6, '06A-I': 36.6, '35B': 36.1, '06B': 36.0}",1,80.6,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030275,"{'22F': 93.8, '22A': 70.2, '06A-II': 45.3, '06A-VI': 45.2, '06B-I': 45.2}",1,93.8,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325435,"{'40': 99.2, '07B': 93.5, '07C': 75.2, '24F2': 48.2, '24F': 47.9}",1,99.2,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213205,"{'17F': 82.5, '06A-III': 43.3, '06B-I': 43.3, '06C': 42.2, '06A-I': 42.2}",1,82.5,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254035,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001172665,"{'06E': 77.8, '06B-III': 76.7, '06D': 59.6, '06B-I': 58.7, '06A-III': 57.9}",1,77.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194505,"{'21': 99.8, '22F': 35.9, '06A-IV': 33.9, '06A-II': 33.2, '06A-VI': 33.1}",1,99.8,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259485,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332385,"{'01': 7.5, '45': 6.5, '25F': 5.8, '25A': 5.6, '22F': 5.3}",5,7.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287355,"{'10A': 93.9, '10B': 64.7, '10C': 29.0, '10F': 19.4, '47A': 16.3}",1,93.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000334535,"{'01': 99.8, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238395,"{'36': 8.2, '20': 6.6, '01': 6.4, '45': 6.4, '06A-IV': 6.1}",1,8.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325415,"{'23F': 96.5, '23A': 63.8, '23B': 47.9, '28A': 47.6, '06B-II': 46.1}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322305,"{'19A': 99.6, '19A-III': 99.4, '19A-I': 85.8, '19A-II': 83.3, '19AF': 57.0}",1,99.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274205,"{'06A-II': 95.1, '06A-VI': 95.1, '06B-II': 89.4, '06A-V': 88.9, '06A-III': 88.3}",1,95.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331655,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255325,"{'23B': 81.3, '23B1': 65.9, '06A-IV': 36.4, '06B-II': 34.7, '06A-V': 34.5}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275765,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033875,"{'19A-II': 99.0, '19A-I': 97.1, '19A': 87.5, '19A-III': 87.3, '19AF': 62.0}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000688895,"{'12F': 96.2, '44': 93.1, '12B': 92.8, '12A': 80.7, '46': 77.6}",1,96.2,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001162865,"{'06A-II': 87.3, '06A-VI': 87.3, '06A': 86.0, '06A-IV': 85.2, '06A-V': 85.0}",1,87.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033915,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281035,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043685,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900046625,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336925,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276785,"{'21': 99.3, '22F': 35.9, '06A-IV': 30.9, '06B': 30.2, '06A': 30.1}",1,99.3,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304655,"{'06A-I': 98.4, '06B': 96.3, '06A-V': 89.9, '06A': 87.8, '06B-II': 86.7}",1,98.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301345,"{'04': 98.3, '45': 34.9, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901271015,"{'13': 83.3, '36': 28.8, '09N': 26.0, '09L': 25.7, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900092095,"{'15C': 93.9, '15B': 93.8, '15A': 62.1, '15F': 48.6, '23A': 32.9}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001148725,"{'40': 99.6, '07B': 93.9, '07C': 75.4, '24F2': 48.2, '24F': 47.9}",1,99.6,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001167325,"{'37': 98.8, '33F': 77.0, '33A': 75.7, '33F2': 70.6, '35B': 31.8}",1,98.8,,37,,,{},{},37,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171355,"{'14': 91.8, '36': 28.4, '09L': 24.6, '15B': 24.0, '15C': 23.9}",1,91.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238925,"{'06A-I': 98.6, '06B': 94.4, '06A-V': 89.0, '06A': 87.7, '06A-III': 85.6}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215695,"{'23F': 92.4, '23A': 61.1, '28A': 48.1, '23B': 46.6, '06A-IV': 46.6}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001128925,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337275,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259455,"{'19A': 99.5, '19A-III': 99.3, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,99.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001586085,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308895,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245145,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231975,"{'17F': 82.4, '06A-I': 42.1, '06B': 41.7, '06A': 41.2, '06A-III': 40.5}",1,82.4,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019397245,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284255,"{'14': 94.3, '36': 25.8, '09L': 25.2, '09N': 24.6, '15B': 24.3}",1,94.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001168205,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342255,"{'35C': 98.5, '42': 97.9, '35A': 85.9, '33A': 45.5, '33F': 45.3}",1,98.5,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192925,"{'21': 99.3, '22F': 34.8, '06A-IV': 32.1, '06A-II': 31.4, '06A-VI': 31.3}",1,99.3,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216565,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 61.8}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 93.64]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229735,"{'14': 92.4, '36': 28.9, '09L': 25.6, '09N': 24.7, '15B': 24.1}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028275,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019435,"{'09A': 99.7, '09V': 99.5, '09N': 38.2, '09L': 36.8, '06A-IV': 27.4}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269985,"{'13': 83.2, '36': 28.7, '09N': 25.8, '09L': 25.7, '14': 25.7}",1,83.2,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002835485,"{'19F-I': 97.5, '19F': 96.8, '19F-III': 96.8, '19F-II': 94.8, '19F-IV': 90.3}",1,97.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233675,"{'06A-I': 98.3, '06B': 94.0, '06A-V': 87.9, '06A': 87.4, '06A-III': 84.1}",1,98.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001088425,"{'25F': 5.7, '45': 5.6, '25A': 5.5, '22F': 5.1, '20': 5.0}",1,5.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001127165,"{'14': 94.1, '36': 26.2, '09L': 25.0, '09N': 24.4, '15B': 24.3}",1,94.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213505,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294425,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247095,"{'01': 99.1, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306015,"{'04': 97.7, '45': 33.6, '12F': 23.6, '44': 23.4, '12A': 22.4}",1,97.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033475,"{'03': 95.2, '01': 17.7, '36': 17.4, '20': 15.9, '09L': 15.6}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306845,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001144165,"{'23F': 93.8, '23A': 63.3, '28A': 48.3, '23B': 47.0, '06A-III': 46.4}",1,93.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001348255,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213405,"{'09A': 99.4, '09V': 99.2, '09N': 37.6, '09L': 36.9, '06A-IV': 27.3}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900037485,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293505,"{'13': 83.3, '36': 28.9, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327595,"{'33F': 100.0, '33A': 99.9, '33F2': 70.9, '35C': 42.9, '42': 41.9}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223845,"{'39': 97.6, '29': 28.6, '34': 22.6, '43': 19.3, '33C': 18.6}",1,97.6,,39,,,{},{},39,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251595,"{'19F-I': 97.8, '19F': 97.1, '19F-III': 96.6, '19F-II': 95.1, '19F-IV': 90.2}",1,97.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302655,"{'21': 100.0, '22F': 36.1, '06A-IV': 32.8, '06A-II': 32.1, '06A-VI': 32.0}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323415,"{'06C-I': 92.9, '06C': 92.8, '06D': 84.9, '06B-I': 77.8, '06A-III': 77.3}",1,92.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217675,"{'10B': 93.7, '10A': 69.8, '10F': 20.0, '10C': 18.7, '22F': 13.6}",1,93.7,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169695,"{'14': 91.8, '36': 27.9, '09L': 25.6, '09N': 24.5, '15B': 23.7}",1,91.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344295,"{'10A': 99.3, '10B': 67.0, '10C': 27.7, '10F': 18.1, '06B-I': 15.2}",1,99.3,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242285,"{'21': 99.9, '22F': 36.0, '06A-IV': 32.7, '06A-II': 32.0, '06A-VI': 31.9}",1,99.9,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900040635,"{'04': 100.0, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,100.0,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019399635,"{'41A': 85.1, '41F': 61.4, '31': 46.4, '22F': 35.5, '06B': 34.0}",1,85.1,,41A,,,{},{},41A,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306065,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306025,"{'06E': 99.6, '06B-III': 99.3, '06B-I': 46.9, '06A-III': 46.7, '06A-II': 45.7}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303195,"{'19A': 92.4, '19A-III': 92.2, '19A-II': 83.1, '19A-I': 81.1, '19AF': 56.1}",1,92.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170845,"{'14': 92.4, '36': 28.9, '09L': 25.1, '09N': 24.3, '15B': 24.2}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225865,"{'19F': 97.4, '19F-I': 96.4, '19F-III': 95.6, '19F-II': 95.5, '19F-IV': 91.0}",1,97.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228515,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.0, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243555,"{'06B-III': 90.0, '06E': 89.5, '06B-I': 50.9, '06A-III': 50.4, '06A-II': 49.4}",1,90.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238185,"{'01': 99.1, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055045,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001112505,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001149525,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233725,"{'01': 99.1, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320905,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314845,"{'01': 99.6, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.6,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243125,"{'09A': 99.4, '09V': 99.2, '09N': 38.3, '09L': 36.5, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287255,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021845,"{'14': 92.4, '36': 28.9, '09L': 25.6, '09N': 24.5, '15B': 24.0}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000019985,"{'14': 91.8, '36': 27.8, '09L': 25.6, '09N': 24.5, '15B': 23.7}",1,91.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245655,"{'06A': 90.1, '06A-III': 89.5, '06B-II': 89.5, '06A-II': 89.4, '06A-VI': 89.4}",1,90.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252125,"{'09N': 100.0, '09L': 89.1, '09A': 32.7, '09V': 32.7, '36': 32.4}",1,100.0,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223585,"{'06A-III': 94.8, '06B-I': 93.4, '06A': 90.3, '06A-IV': 89.5, '06B-II': 89.4}",1,94.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900060945,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001166365,"{'24F2': 77.3, '24F': 76.7, '24B': 75.4, '24A': 61.0, '07C': 51.2}",1,77.3,,24F/24B,,,{},{},24F/24B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001204335,"{'05': 95.2, '36': 20.7, '12A': 19.7, '46': 19.6, '45': 19.4}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290825,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264145,"{'10A': 99.1, '10B': 66.8, '10C': 27.7, '10F': 18.1, '22F': 15.5}",1,99.1,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256225,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213575,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340275,"{'02': 92.6, '22F': 40.1, '06B-I': 38.9, '06A-III': 38.8, '06A-II': 38.6}",1,92.6,,2,,,{},{},2,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294375,"{'14': 99.9, '09L': 27.2, '36': 26.0, '09N': 25.0, '15B': 24.3}",1,99.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288885,"{'34': 98.6, '33F2': 35.4, '35B': 33.7, '33F': 30.0, '33C': 28.7}",1,98.6,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315135,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167145,"{'09A': 99.6, '09V': 99.4, '09N': 37.1, '09L': 35.9, '11F': 26.6}",1,99.6,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236535,"{'19A-II': 97.7, '19A-I': 95.4, '19A': 83.7, '19A-III': 83.5, '19AF': 61.0}",1,97.7,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216935,"{'14': 91.3, '19F-IV': 25.9, '09L': 25.0, '09N': 24.7, '36': 24.6}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319755,"{'01': 99.5, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248635,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308095,"{'12F': 95.8, '12B': 93.2, '44': 92.8, '12A': 84.7, '46': 81.6}",1,95.8,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001146405,"{'19F-I': 95.3, '19F': 94.8, '19F-III': 94.6, '19F-II': 91.1, '19F-IV': 86.7}",1,95.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900475515,"{'02': 57.6, '06C': 23.4, '06B-I': 23.4, '06C-I': 23.4, '06A-II': 23.1}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001136245,"{'06E': 100.0, '06B-III': 98.9, '06B-I': 46.6, '06A-III': 46.1, '06A-II': 45.1}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339175,"{'06A-II': 87.2, '06A-VI': 87.2, '06A': 85.9, '06A-IV': 85.1, '06A-V': 84.9}",1,87.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301815,"{'14': 90.8, '36': 27.3, '19F-II': 26.2, '19F-I': 25.3, '09L': 25.2}",1,90.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254105,"{'17F': 99.8, '06B': 44.5, '06B-I': 43.9, '06A-III': 43.8, '06D': 43.7}",1,99.8,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285875,"{'14': 91.3, '36': 26.7, '09L': 26.6, '09N': 26.3, '15B': 23.3}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051295,"{'01': 99.2, '19F': 32.1, '19F-I': 31.7, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_909594705,"{'14': 92.7, '36': 28.9, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232005,"{'19A': 99.6, '19A-III': 99.4, '19A-I': 85.8, '19A-II': 83.3, '19AF': 56.9}",1,99.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244705,"{'14': 92.3, '09L': 22.2, '09N': 21.1, '15B': 20.7, '15C': 20.6}",1,92.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001208845,"{'03': 95.2, '36': 17.1, '20': 15.7, '01': 14.8, '09L': 14.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054145,"{'06A': 93.5, '06A-III': 91.5, '06B-I': 91.4, '06B-II': 91.2, '06A-V': 90.6}",1,93.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900037465,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330915,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327715,"{'23B1': 99.3, '23B': 56.1, '19A-II': 36.1, '19A-I': 35.9, '19AF': 31.6}",1,99.3,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223615,"{'10A': 99.2, '10B': 67.1, '10C': 27.7, '10F': 18.1, '22F': 15.2}",1,99.2,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043075,"{'09A': 99.7, '09V': 99.5, '09N': 38.1, '09L': 36.7, '35B': 26.7}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053885,"{'06A-II': 92.3, '06A-VI': 92.3, '06B-II': 89.6, '06A-V': 89.3, '06A-III': 88.2}",1,92.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 84.81']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302715,"{'04': 97.7, '45': 33.6, '12F': 23.6, '44': 23.4, '12A': 22.4}",1,97.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307355,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169805,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300165,"{'15C': 88.3, '15B': 88.2, '15A': 61.3, '15F': 48.1, '23A': 31.5}",1,88.3,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192865,"{'21': 95.8, '22F': 36.0, '06A-II': 34.0, '06A-VI': 33.9, '06A-III': 33.4}",1,95.8,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287565,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256415,"{'19F': 97.1, '19F-I': 96.1, '19F-III': 95.3, '19F-II': 95.2, '19F-IV': 90.7}",1,97.1,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189725,"{'22F': 98.5, '22A': 73.3, '06A': 42.5, '06B': 42.0, '06A-I': 41.8}",1,98.5,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001132045,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232685,"{'19F-I': 94.9, '19F': 94.6, '19F-III': 93.0, '19F-II': 91.9, '19F-IV': 87.9}",1,94.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267695,"{'23B': 80.5, '23B1': 64.6, '06B-II': 33.5, '06A-IV': 33.4, '06A-V': 33.3}",1,80.5,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274335,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347475,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313575,"{'01': 99.8, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.3}",1,99.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268025,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326005,"{'09A': 99.4, '09V': 99.2, '09N': 38.5, '09L': 36.5, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239395,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323095,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314635,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335935,"{'15C': 84.8, '15B': 84.7, '15A': 60.6, '15F': 47.4, '23A': 31.4}",1,84.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295935,"{'06C-I': 85.6, '06C': 85.5, '06D': 84.2, '06A-I': 79.8, '06B': 79.7}",1,85.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.0]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261995,"{'07A': 99.5, '07F': 99.3, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189295,"{'06C-I': 99.1, '06C': 98.9, '06D': 84.5, '06A-II': 78.8, '06A-VI': 78.8}",1,99.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001118325,"{'33B': 89.8, '33D': 89.7, '35B': 34.1, '33F2': 30.0, '22F': 26.4}",1,89.8,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240205,"{'22F': 99.0, '22A': 73.3, '06A': 42.5, '06B': 42.0, '06A-II': 41.8}",1,99.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168415,"{'09A': 99.7, '09V': 99.5, '09N': 38.1, '09L': 36.7, '35B': 26.7}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001156725,"{'06A-II': 87.2, '06A-VI': 87.2, '06A': 85.9, '06A-IV': 85.1, '06A-V': 84.9}",1,87.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189315,"{'21': 100.0, '22F': 34.9, '06A-IV': 32.3, '06A-II': 31.6, '06A-VI': 31.5}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239495,"{'14': 99.5, '09L': 26.8, '36': 26.1, '09N': 25.0, '15B': 24.3}",1,99.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170045,"{'14': 92.7, '36': 28.2, '09L': 25.1, '09N': 24.3, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311565,"{'18C': 88.5, '18B': 88.4, '18F': 77.8, '18A': 61.5, '16F': 37.6}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323865,"{'07A': 97.9, '07F': 97.7, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,97.9,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226285,"{'05': 95.0, '45': 22.3, '36': 21.4, '20': 20.1, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314385,"{'09A': 96.0, '09V': 95.8, '09N': 38.7, '09L': 37.5, '11F': 26.7}",1,96.0,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236095,"{'19F': 97.4, '19F-I': 96.4, '19F-III': 95.6, '19F-II': 95.5, '19F-IV': 91.0}",1,97.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170855,"{'14': 92.6, '36': 28.1, '09L': 25.0, '15B': 24.2, '15C': 24.1}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221665,"{'20': 99.5, '13': 26.0, '09L': 25.3, '09N': 24.3, '47F': 24.3}",1,99.5,,20,,,{},{},20,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347015,"{'36': 6.9, '20': 4.7, '25F': 4.4, '25A': 4.3, '45': 3.7}",1,6.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167595,"{'14': 91.4, '36': 26.0, '09L': 25.7, '09N': 25.1, '15B': 23.4}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263435,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309755,"{'06B-III': 89.9, '06E': 89.0, '06A-II': 54.4, '06A-VI': 54.4, '06B-I': 53.8}",1,89.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001095845,"{'06E': 100.0, '06B-III': 97.1, '06B-I': 44.7, '06A-III': 44.2, '06B-II': 43.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023805,"{'07A': 99.6, '07F': 99.4, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.6,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001329275,"{'06E': 99.5, '06B-III': 96.8, '06B-I': 44.6, '06A-III': 44.1, '06A-II': 43.1}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 96.61]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168995,"{'09A': 99.7, '09V': 99.5, '09N': 37.9, '09L': 36.7, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277155,"{'23F': 77.9, '23A': 58.0, '23B': 52.1, '28A': 39.2, '28F': 36.6}",1,77.9,,23F,,,{},{},23F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001088745,"{'06C-I': 92.5, '06C': 92.4, '06D': 82.2, '06B-I': 77.3, '06A-III': 76.7}",1,92.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 88.3']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247205,"{'21': 100.0, '22F': 36.0, '06A-IV': 33.0, '06A-II': 32.3, '06A-VI': 32.2}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190245,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252185,"{'23F': 94.4, '23A': 63.0, '06A-IV': 48.6, '28A': 48.5, '23B': 47.7}",1,94.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_909594865,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001162625,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297885,"{'19A-II': 99.0, '19A-I': 97.1, '19A': 85.7, '19A-III': 85.5, '19AF': 62.0}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226315,"{'15A': 99.6, '15F': 73.9, '15C': 62.3, '15B': 62.2, '23F': 31.3}",1,99.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327785,"{'19F-I': 95.9, '19F': 95.6, '19F-III': 94.1, '19F-II': 92.8, '19F-IV': 88.9}",1,95.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216945,"{'08': 98.7, '06A-II': 24.2, '06A-VI': 24.1, '02': 23.6, '06B-II': 23.6}",1,98.7,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321805,"{'03': 95.2, '01': 17.4, '36': 16.6, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307255,"{'15C': 95.2, '15B': 95.1, '15A': 60.8, '15F': 47.3, '23A': 34.0}",1,95.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236075,"{'04': 99.8, '45': 33.4, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238755,"{'14': 94.2, '36': 25.8, '09L': 25.2, '09N': 24.6, '15B': 24.3}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316975,"{'18C': 99.5, '18B': 99.4, '18F': 76.0, '18A': 63.2, '16F': 39.5}",1,99.5,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001120465,"{'23A': 96.6, '23F': 67.7, '23B': 45.9, '19F-II': 39.4, '15B': 38.5}",1,96.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235715,"{'18C': 96.7, '18B': 96.6, '18F': 74.8, '18A': 62.1, '16F': 38.8}",1,96.7,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001150245,"{'09L': 96.9, '09N': 87.2, '09A': 31.0, '09V': 31.0, '36': 26.5}",1,96.9,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320875,"{'19F': 93.9, '19F-I': 93.7, '19F-III': 92.5, '19F-IV': 91.4, '19F-II': 91.3}",1,93.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323555,"{'12B': 97.5, '12F': 91.6, '12A': 89.6, '44': 88.9, '46': 87.2}",1,97.5,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[4]],"{'wciI': [1, 99.3]}",{'wciI': 1},12A/12B/44/46,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269325,"{'19F': 97.2, '19F-I': 96.2, '19F-III': 95.4, '19F-II': 95.3, '19F-IV': 90.8}",1,97.2,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220075,"{'23F': 93.6, '23A': 63.1, '28A': 48.1, '23B': 46.6, '06A-III': 46.4}",1,93.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022805,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.2}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001114345,"{'06E': 99.2, '06B-III': 97.4, '06A-II': 47.5, '06A-IV': 47.5, '06A-VI': 47.5}",1,99.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287975,"{'07C': 94.0, '07B': 77.1, '40': 76.7, '24B': 48.6, '24F': 47.6}",1,94.0,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229395,"{'35B': 99.2, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.2,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215165,"{'19F-I': 97.8, '19F': 97.1, '19F-III': 96.6, '19F-II': 95.1, '19F-IV': 90.2}",1,97.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318365,"{'34': 98.7, '33F2': 35.2, '35B': 33.3, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907172075,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274185,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293435,"{'16F': 97.9, '28F': 42.8, '18A': 41.8, '19F-IV': 41.3, '18F': 41.1}",1,97.9,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317765,"{'10B': 99.8, '10A': 65.5, '10F': 20.1, '10C': 18.8, '22F': 14.1}",1,99.8,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318535,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021885,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001201675,"{'10A': 99.3, '10B': 67.0, '10C': 27.7, '10F': 18.1, '06B-I': 15.2}",1,99.3,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233285,"{'18C': 93.5, '18B': 93.4, '18F': 75.4, '18A': 62.8, '16F': 39.6}",1,93.5,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242425,"{'06A-II': 97.9, '06A-VI': 97.9, '06B-II': 90.4, '06A-V': 89.6, '06A-III': 89.2}",1,97.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900459895,"{'10F': 99.8, '10C': 82.2, '10B': 21.7, '10A': 18.7, '22F': 14.5}",1,99.8,,10F,,,{},{},10F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312875,"{'14': 92.3, '36': 28.9, '09L': 25.5, '09N': 24.4, '15B': 24.0}",1,92.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900034985,"{'03': 95.2, '01': 17.7, '20': 17.1, '36': 15.6, '09L': 15.4}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001334595,"{'36': 11.2, '20': 7.7, '45': 6.8, '01': 5.8, '23B1': 5.7}",1,11.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243545,"{'21': 92.5, '22F': 36.2, '06A-IV': 34.3, '06A-III': 33.5, '06A-II': 33.3}",1,92.5,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194465,"{'28F': 96.4, '28A': 90.9, '16F': 47.2, '23F': 46.5, '06A-IV': 43.4}",1,96.4,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234045,"{'19A': 98.7, '19A-III': 98.5, '19A-I': 85.4, '19A-II': 83.3, '19AF': 56.8}",1,98.7,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227225,"{'03': 97.1, '01': 17.7, '20': 15.5, '09N': 15.3, '09L': 15.1}",1,97.1,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273145,"{'13': 83.3, '36': 28.8, '09N': 26.0, '09L': 25.7, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246115,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001148445,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315855,"{'35B': 99.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279725,"{'05': 95.2, '45': 22.4, '36': 21.7, '20': 20.0, '12A': 19.8}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339405,"{'18F': 99.9, '18B': 71.4, '18C': 71.4, '18A': 60.1, '16F': 41.4}",1,99.9,,18F,,,{},{},18F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018535,"{'03': 94.5, '01': 17.3, '36': 17.1, '20': 15.9, '09N': 15.5}",1,94.5,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263585,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275175,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.7, '06B-II': 35.1, '06A-V': 34.9}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001196875,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001128245,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001130765,"{'14': 89.9, '36': 29.6, '09L': 23.3, '09N': 22.2, '19F-II': 22.2}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308585,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268385,"{'13': 98.9, '09N': 29.1, '20': 28.9, '09L': 28.7, '36': 28.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296745,"{'15A': 99.6, '15F': 73.9, '15C': 62.3, '15B': 62.2, '23F': 31.3}",1,99.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001095285,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297515,"{'06A-II': 95.1, '06A-VI': 95.1, '06B-II': 89.4, '06A-V': 88.9, '06A-III': 88.3}",1,95.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300015,"{'33F2': 99.5, '33F': 74.4, '33A': 70.1, '34': 42.1, '35B': 32.5}",1,99.5,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302645,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001133665,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296335,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342145,"{'31': 99.4, '41A': 57.2, '41F': 48.9, '22F': 36.3, '06A-II': 36.3}",1,99.4,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315765,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235355,"{'23B1': 99.9, '23B': 55.8, '19A-II': 36.2, '19A-I': 35.9, '19AF': 31.7}",1,99.9,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001116285,"{'20': 6.9, '45': 6.8, '01': 5.8, '25F': 5.6, '25A': 5.4}",1,6.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047615,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.7, '36': 23.2}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266005,"{'09N': 97.7, '09L': 87.5, '09A': 32.6, '09V': 32.6, '36': 31.4}",1,97.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290285,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236955,"{'19F-I': 97.6, '19F': 96.6, '19F-III': 96.1, '19F-II': 94.6, '19F-IV': 89.4}",1,97.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237875,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246045,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398535,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168065,"{'13': 98.7, '20': 29.3, '36': 28.3, '09L': 27.6, '09N': 27.5}",1,98.7,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322775,"{'14': 93.5, '36': 25.7, '09L': 25.0, '09N': 24.4, '15B': 23.8}",1,93.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049085,"{'06D': 87.0, '06C': 85.2, '06C-I': 85.2, '06A-I': 77.6, '06B': 77.3}",1,87.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030695,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270985,"{'14': 91.6, '36': 26.7, '09L': 26.6, '09N': 26.2, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328805,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234055,"{'10A': 99.2, '10B': 66.9, '10C': 27.7, '10F': 18.1, '22F': 15.5}",1,99.2,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321475,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260585,"{'20': 82.0, '47F': 25.9, '35A': 24.6, '09L': 24.5, '36': 24.2}",1,82.0,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295165,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219515,"{'15A': 98.3, '15F': 72.9, '15C': 61.6, '15B': 61.5, '23F': 32.0}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280805,"{'12A': 93.6, '12B': 92.8, '46': 91.2, '12F': 86.9, '44': 84.2}",1,93.6,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[4]],"{'wciI': [1, 93.86]}",{'wciI': 1},12A/12B/44/46,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312025,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.9, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278075,"{'09N': 99.7, '09L': 88.7, '09A': 32.7, '09V': 32.7, '36': 31.8}",1,99.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225635,"{'18C': 99.7, '18B': 99.6, '18F': 75.6, '18A': 62.3, '16F': 39.2}",1,99.7,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291105,"{'02': 93.2, '22F': 40.3, '06B-I': 39.0, '06A-III': 38.9, '06A-II': 38.7}",1,93.2,,2,,,{},{},2,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314055,"{'09A': 93.0, '09V': 92.8, '09N': 39.6, '09L': 38.3, '08': 24.4}",1,93.0,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340765,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219385,"{'06C-I': 93.3, '06C': 93.1, '06D': 87.1, '06B-I': 78.0, '06A-III': 77.4}",1,93.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326655,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001206075,"{'33B': 89.8, '33D': 89.7, '35B': 34.5, '33F2': 30.3, '22F': 28.3}",1,89.8,,"Mixed serotypes- {'33B', '33D'}",,,{},{},"Mixed serotypes- {'33B', '33D'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297145,"{'01': 99.3, '19F': 32.2, '19F-I': 31.7, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002081065,"{'07A': 98.3, '07F': 98.1, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,98.3,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001143745,"{'06A': 90.4, '06A-III': 89.3, '06A-II': 89.2, '06A-VI': 89.2, '06B-II': 89.2}",1,90.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277415,"{'15C': 88.2, '15B': 88.1, '15A': 61.2, '15F': 48.2, '23A': 31.5}",1,88.2,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189535,"{'06B-I': 99.2, '06A-III': 97.0, '06B-II': 89.6, '06A': 89.4, '06A-V': 87.7}",1,99.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900061175,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296975,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288315,"{'04': 98.1, '45': 34.7, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.1,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324675,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270385,"{'04': 98.3, '45': 34.3, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017455,"{'05': 95.3, '45': 22.4, '36': 21.8, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227105,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277615,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019399585,"{'34': 93.0, '33F2': 34.9, '35B': 32.1, '33F': 29.0, '33C': 28.0}",1,93.0,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286135,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001153865,"{'45': 6.7, '25F': 5.5, '20': 5.4, '36': 5.4, '25A': 5.3}",2,6.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001094045,"{'23B': 99.4, '23B1': 53.1, '23F': 46.0, '23A': 39.9, '06A-IV': 36.8}",1,99.4,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001135765,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316265,"{'14': 93.4, '36': 27.3, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284795,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001336355,"{'11F': 61.5, '11D': 38.4, '11A': 36.8, '09V': 25.2, '09A': 25.1}",1,61.5,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900048885,"{'12B': 98.1, '12F': 91.8, '12A': 89.1, '44': 88.8, '46': 86.7}",1,98.1,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[4]],"{'wciI': [1, 99.3]}",{'wciI': 1},12A/12B/44/46,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028975,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317955,"{'20': 78.9, '47F': 28.0, '09L': 25.8, '13': 25.2, '09N': 25.1}",1,78.9,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303215,"{'15F': 90.8, '15A': 87.2, '15B': 60.4, '15C': 60.0, '23F': 46.5}",1,90.8,15F_15A,15F_15A,,"[[10], [12], [14], [16]]","{'glf': 100.0, 'rmlB': 94.91, 'rmlD': 100.0, 'wcjE': 100.0}","{'glf': 'detected', 'rmlB': 'detected', 'rmlD': 'detected', 'wcjE': 'detected'}",15F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239135,"{'15C': 87.6, '15B': 87.5, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001111705,"{'10B': 99.2, '10A': 65.3, '10F': 20.0, '10C': 18.8, '22F': 13.9}",1,99.2,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270155,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300295,"{'06A': 100.0, '06A-IV': 99.6, '06B-II': 95.4, '06A-V': 93.7, '06A-III': 91.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585965,"{'12F': 96.9, '44': 93.6, '12B': 92.9, '12A': 80.6, '46': 77.5}",1,96.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254395,"{'39': 97.9, '29': 28.6, '34': 22.6, '43': 19.3, '33C': 18.6}",1,97.9,,39,,,{},{},39,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302285,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001093065,"{'06A-I': 98.3, '06B': 94.3, '06A-V': 89.2, '06A': 87.4, '06A-III': 85.7}",1,98.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231705,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300015,"{'06A-I': 98.5, '06B': 94.5, '06A-V': 89.3, '06A': 87.6, '06A-III': 85.8}",1,98.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001155885,"{'48': 98.6, '24A': 46.7, '24B': 39.3, '24F': 38.9, '24F2': 37.3}",1,98.6,,48,,,{},{},48,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001094545,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336495,"{'19F-I': 99.7, '19F': 96.7, '19F-III': 96.7, '19F-II': 93.9, '19F-IV': 89.3}",1,99.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275235,"{'01': 98.8, '19F': 32.2, '19F-I': 31.7, '19F-III': 31.5, '19F-II': 31.2}",1,98.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322525,"{'03': 94.9, '01': 18.1, '20': 17.3, '09N': 15.9, '36': 15.5}",1,94.9,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051905,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333655,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001153725,"{'06A': 100.0, '06A-IV': 99.6, '06B-II': 95.4, '06A-V': 93.7, '06A-III': 91.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293375,"{'16F': 71.5, '28F': 43.1, '28A': 40.6, '18F': 33.6, '18A': 32.9}",1,71.5,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281615,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001208605,"{'06E': 100.0, '06B-III': 97.4, '06B-I': 44.7, '06A-III': 44.2, '06B-II': 43.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333385,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267235,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275785,"{'14': 91.6, '36': 26.7, '09L': 26.6, '09N': 26.3, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333835,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279115,"{'14': 92.5, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001163865,"{'13': 98.9, '09L': 28.1, '20': 28.0, '09N': 27.8, '14': 26.8}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001140385,"{'36': 10.6, '06A-IV': 7.0, '20': 5.9, '06B-I': 5.8, '06C': 5.7}",1,10.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001108225,"{'03': 95.2, '36': 17.2, '20': 16.0, '09L': 14.7, '09N': 14.3}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001123405,"{'36': 12.6, '20': 8.1, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",1,12.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024985,"{'19A': 99.1, '19A-III': 98.9, '19A-I': 86.0, '19A-II': 83.7, '19AF': 57.1}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225295,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324285,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344995,"{'36': 11.5, '06A-IV': 6.7, '20': 6.6, '45': 5.6, '23B1': 5.6}",2,11.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340855,"{'36': 10.8, '45': 6.8, '06A-IV': 6.7, '23B1': 6.6, '20': 6.0}",1,10.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021021975,"{'02': 57.6, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001127085,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304335,"{'12F': 96.4, '44': 93.4, '12B': 93.3, '12A': 84.8, '46': 81.7}",1,96.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055985,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256685,"{'04': 99.2, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001090425,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191675,"{'15B': 99.5, '15C': 99.4, '15A': 62.6, '15F': 48.2, '23A': 32.7}",1,99.5,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229955,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300675,"{'12F': 95.9, '12B': 93.3, '44': 92.9, '12A': 84.8, '46': 81.7}",1,95.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341935,"{'19F-I': 95.2, '19F': 95.0, '19F-III': 93.5, '19F-II': 92.1, '19F-IV': 88.1}",1,95.2,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305975,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.6, '19A-III': 87.4, '19AF': 61.9}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 92.87]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275925,"{'01': 7.3, '45': 6.2, '25F': 5.8, '25A': 5.6, '22F': 5.0}",3,7.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278315,"{'06E': 96.8, '06B-III': 96.6, '06B-I': 47.8, '06A-III': 47.3, '06A-II': 46.8}",1,96.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341155,"{'15C': 87.8, '15B': 87.7, '15A': 64.6, '15F': 50.0, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244965,"{'12F': 96.4, '44': 93.4, '12B': 93.3, '12A': 84.8, '46': 81.7}",1,96.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229445,"{'15C': 90.7, '15B': 90.6, '15A': 63.0, '15F': 48.8, '23A': 31.1}",1,90.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337525,"{'15A': 98.1, '15F': 72.7, '15C': 61.6, '15B': 61.5, '23F': 32.2}",1,98.1,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340035,"{'16F': 97.7, '28F': 42.7, '19F-IV': 42.5, '19F-II': 41.7, '18F': 41.5}",1,97.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305885,"{'04': 99.8, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327225,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168085,"{'09A': 99.7, '09V': 99.5, '09N': 37.3, '09L': 35.9, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001115625,"{'19F-I': 95.3, '19F': 95.0, '19F-III': 93.5, '19F-II': 92.2, '19F-IV': 88.2}",1,95.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324325,"{'35B': 99.4, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171205,"{'14': 92.2, '36': 28.9, '09L': 25.5, '09N': 24.3, '15B': 23.9}",1,92.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304215,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252925,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220135,"{'15C': 87.7, '15B': 87.6, '15A': 60.9, '15F': 48.0, '23A': 31.3}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244455,"{'19F': 97.4, '19F-I': 96.4, '19F-III': 95.6, '19F-II': 95.5, '19F-IV': 91.0}",1,97.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192395,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 25.3, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300235,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295355,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.5, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001108705,"{'36': 12.5, '20': 9.1, '06A-IV': 7.5, '06C': 6.3, '45': 6.3}",1,12.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314685,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272865,"{'23B': 88.1, '23B1': 61.3, '23F': 38.5, '28A': 33.3, '23A': 33.0}",1,88.1,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223535,"{'14': 91.4, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900062955,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017295,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193555,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043165,"{'03': 95.8, '20': 17.9, '01': 17.7, '36': 16.4, '09L': 16.3}",1,95.8,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001131905,"{'31': 99.5, '41A': 57.3, '41F': 48.9, '06A-II': 35.8, '06A-VI': 35.8}",1,99.5,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224705,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304785,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264445,"{'21': 100.0, '22F': 36.1, '06A-IV': 32.4, '06A-II': 31.7, '06A-VI': 31.6}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247785,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171275,"{'14': 92.2, '36': 28.2, '09L': 24.6, '15B': 23.9, '15C': 23.8}",1,92.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001146605,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_008423515,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324025,"{'03': 97.4, '01': 17.8, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341245,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001131825,"{'10B': 99.2, '10A': 65.3, '10F': 20.0, '10C': 18.8, '22F': 14.1}",1,99.2,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023685,"{'12F': 96.7, '44': 93.4, '12B': 92.7, '12A': 80.4, '46': 77.3}",1,96.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023745,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.5, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297735,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225125,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.7, '19A-III': 87.5, '19AF': 61.8}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001137445,"{'19F': 95.5, '19F-I': 95.5, '19F-III': 93.9, '19F-II': 92.4, '19F-IV': 88.5}",1,95.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320665,"{'20': 78.9, '47F': 28.0, '09L': 25.8, '09N': 25.3, '13': 25.2}",1,78.9,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242895,"{'18A': 99.5, '18B': 53.6, '18C': 53.6, '18F': 53.3, '19F-IV': 37.3}",1,99.5,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020139315,"{'15A': 98.5, '15F': 73.7, '15C': 62.0, '15B': 61.9, '23F': 31.9}",1,98.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193895,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.7, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215495,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000231985,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230235,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.6}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001133485,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234135,"{'01': 99.0, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193685,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.1, '36': 22.8}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247085,"{'01': 99.2, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214155,"{'24F2': 99.7, '24B': 88.5, '24F': 87.0, '24A': 71.0, '07B': 56.8}",1,99.7,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029585,"{'15C': 93.9, '15B': 93.8, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232805,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290705,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295425,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224455,"{'14': 92.7, '36': 28.7, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001158965,"{'34': 97.9, '33F2': 35.2, '35B': 32.6, '33F': 29.7, '33C': 28.4}",1,97.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054525,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233645,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001336755,"{'06E': 77.8, '06B-III': 76.7, '06D': 59.6, '06B-I': 58.7, '06A-III': 57.9}",1,77.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020139835,"{'35B': 99.6, '33F': 33.6, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.6,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254005,"{'04': 99.8, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268405,"{'06B-III': 77.4, '06E': 76.8, '06A-II': 65.8, '06A-VI': 65.8, '06B-II': 61.8}",1,77.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024755,"{'04': 99.8, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339335,"{'34': 93.3, '33F2': 35.3, '35B': 31.8, '33F': 29.3, '33C': 28.8}",1,93.3,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341515,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019399565,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.3, '06A-III': 46.8, '06A-II': 45.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215445,"{'10A': 98.9, '10B': 67.2, '10C': 27.3, '10F': 18.1, '22F': 15.2}",1,98.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337555,"{'03': 95.2, '01': 17.5, '09L': 15.5, '09N': 15.1, '14': 13.9}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260265,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244105,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247745,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341895,"{'03': 95.1, '01': 17.0, '09N': 15.4, '09L': 15.3, '20': 15.1}",1,95.1,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002358035,"{'23F': 92.4, '23A': 61.3, '28A': 47.9, '23B': 46.6, '06A-IV': 46.4}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325515,"{'15C': 87.7, '15B': 87.6, '15A': 60.9, '15F': 48.0, '23A': 31.3}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001152245,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052995,"{'19A': 98.9, '19A-III': 98.7, '19A-I': 85.8, '19A-II': 83.5, '19AF': 56.8}",1,98.9,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278115,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001106605,"{'18C': 88.6, '18B': 88.5, '18F': 78.1, '18A': 61.2, '16F': 37.9}",1,88.6,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336755,"{'15A': 98.2, '15F': 73.4, '15C': 61.9, '15B': 61.8, '23F': 31.9}",1,98.2,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001086545,"{'19B': 91.7, '19C': 70.5, '19F-II': 49.3, '19F-IV': 49.3, '19F-I': 48.5}",1,91.7,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326045,"{'13': 83.3, '36': 28.9, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249085,"{'35F': 91.1, '47F': 67.7, '35B': 25.9, '29': 25.7, '34': 25.3}",1,91.1,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001203295,"{'06E': 100.0, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218705,"{'14': 93.4, '36': 27.2, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342495,"{'15C': 89.6, '15B': 89.5, '15A': 62.5, '15F': 49.3, '23A': 31.0}",1,89.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025195,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032945,"{'15C': 93.5, '15B': 93.4, '15A': 61.7, '15F': 48.3, '23A': 32.9}",1,93.5,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056045,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_909594815,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050515,"{'16F': 98.5, '28F': 42.9, '18A': 41.8, '19F-IV': 41.5, '19F-II': 41.1}",1,98.5,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001330455,"{'06E': 100.0, '06B-III': 99.0, '06B-I': 46.3, '06A-III': 45.8, '06A-II': 44.8}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308915,"{'03': 95.2, '01': 18.2, '36': 17.4, '20': 16.1, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031965,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331865,"{'12B': 97.3, '12F': 91.4, '12A': 89.4, '44': 88.7, '46': 87.0}",1,97.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[4]],"{'wciI': [1, 99.3]}",{'wciI': 1},12A/12B/44/46,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264875,"{'35B': 99.1, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.1,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055095,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000014365,"{'02': 99.8, '06A-II': 40.6, '06A-VI': 40.5, '06B-II': 40.4, '06B-I': 39.9}",1,99.8,,2,,,{},{},2,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266405,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002224185,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.8, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266585,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001345475,"{'34': 92.9, '33F2': 34.7, '35B': 30.5, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338735,"{'06A-V': 99.7, '06B-II': 94.8, '06A': 91.8, '06A-II': 90.2, '06A-VI': 90.2}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233835,"{'23F': 99.0, '23A': 64.8, '23B': 47.6, '28A': 47.5, '06A-V': 45.8}",1,99.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189285,"{'19F-II': 99.3, '19F': 95.1, '19F-III': 94.1, '19F-I': 93.8, '19F-IV': 93.0}",1,99.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054785,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900188605,"{'06B-I': 99.6, '06A-III': 97.5, '06B-II': 90.2, '06A': 89.8, '06A-V': 88.3}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238465,"{'22F': 99.1, '22A': 73.4, '06A': 42.5, '06B': 42.0, '06A-II': 41.8}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002081195,"{'14': 100.0, '36': 26.8, '09L': 24.3, '15B': 24.3, '15C': 24.2}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001340675,"{'36': 12.8, '20': 7.8, '06A-IV': 7.5, '23B1': 7.2, '06C': 6.1}",1,12.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223125,"{'10A': 93.9, '10B': 64.7, '10C': 29.0, '10F': 19.4, '22F': 16.4}",1,93.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213715,"{'05': 95.3, '45': 22.5, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308565,"{'12F': 96.9, '44': 93.6, '12B': 92.9, '12A': 80.6, '46': 77.5}",1,96.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219475,"{'06C-I': 89.1, '06C': 89.0, '06D': 86.9, '06A-I': 77.7, '06B': 77.4}",1,89.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244875,"{'20': 82.1, '47F': 25.9, '35A': 24.6, '09L': 24.5, '36': 24.2}",1,82.1,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339155,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260765,"{'09N': 99.6, '09L': 89.1, '09A': 32.7, '09V': 32.7, '36': 29.4}",1,99.6,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222855,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171065,"{'14': 92.5, '36': 28.8, '09L': 25.7, '09N': 24.6, '15B': 24.1}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001204035,"{'14': 89.9, '36': 29.2, '09L': 23.5, '09N': 22.7, '19F-II': 22.2}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019397745,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001198655,"{'36': 11.5, '20': 8.0, '06A-IV': 7.5, '45': 6.4, '06B-I': 6.4}",1,11.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291845,"{'15C': 95.4, '15B': 95.2, '15A': 60.8, '15F': 47.3, '23A': 34.0}",1,95.4,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194135,"{'15A': 98.5, '15F': 73.1, '15C': 60.8, '15B': 60.7, '23F': 30.4}",1,98.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338795,"{'09A': 99.3, '09V': 99.1, '09N': 38.4, '09L': 36.4, '11F': 27.1}",1,99.3,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230735,"{'06A': 99.9, '06A-IV': 99.6, '06B-II': 95.4, '06A-V': 93.7, '06A-III': 91.7}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001165365,"{'16F': 95.7, '19F-II': 42.6, '19F-IV': 42.6, '28F': 42.4, '19F': 41.6}",1,95.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235285,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.2, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263975,"{'15C': 87.8, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269345,"{'15C': 87.7, '15B': 87.6, '15A': 60.9, '15F': 48.0, '23A': 31.3}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338075,"{'08': 99.8, '06A-II': 24.5, '02': 24.4, '06A-VI': 24.4, '06B-II': 23.9}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019455,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251285,"{'13': 83.3, '36': 28.8, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254675,"{'08': 99.7, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.7,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168885,"{'14': 93.4, '36': 27.2, '09L': 25.8, '09N': 24.9, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272135,"{'15C': 95.7, '15B': 95.6, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043785,"{'01': 98.9, '19F': 33.1, '19F-I': 33.0, '19F-III': 32.6, '19F-II': 32.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340135,"{'19A': 99.2, '19A-III': 99.0, '19A-I': 86.1, '19A-II': 83.8, '19AF': 57.2}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284075,"{'06A-V': 93.0, '06A-III': 90.0, '06A-II': 89.6, '06A-VI': 89.6, '06B-I': 89.2}",1,93.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327435,"{'19F-I': 95.9, '19F': 95.6, '19F-III': 94.1, '19F-II': 92.8, '19F-IV': 88.9}",1,95.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000252105,"{'33F': 99.6, '33A': 97.1, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.6,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327325,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900061085,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900188955,"{'06B-I': 99.0, '06A-III': 96.9, '06A': 89.8, '06B-II': 89.7, '06A-V': 87.8}",1,99.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001111245,"{'11D': 99.7, '11A': 96.9, '11F': 41.7, '11C': 35.8, '11B': 34.3}",1,99.7,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001144425,"{'15C': 96.0, '15B': 95.8, '15A': 61.5, '15F': 47.8, '23A': 34.5}",1,96.0,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000348705,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329685,"{'14': 92.6, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338555,"{'12F': 95.8, '12B': 93.2, '44': 92.8, '12A': 84.7, '46': 81.6}",1,95.8,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326855,"{'36': 11.1, '23B1': 7.1, '45': 6.7, '06A-IV': 6.7, '20': 6.4}",1,11.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267285,"{'03': 95.5, '20': 17.6, '01': 17.2, '36': 16.3, '09L': 16.0}",1,95.5,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261845,"{'03': 95.2, '01': 17.3, '36': 17.1, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277025,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244485,"{'04': 99.8, '45': 33.4, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239625,"{'18C': 97.2, '18B': 97.1, '18F': 75.3, '18A': 61.9, '16F': 38.8}",1,97.2,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225615,"{'13': 83.4, '36': 32.3, '14': 27.2, '15B': 26.4, '15C': 26.0}",1,83.4,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031115,"{'14': 99.9, '09L': 27.1, '36': 26.1, '09N': 24.9, '15B': 24.3}",1,99.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323175,"{'01': 98.8, '19F': 32.7, '19F-I': 32.2, '19F-III': 32.0, '19F-II': 31.7}",1,98.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_909594565,"{'14': 92.5, '36': 29.0, '09L': 25.6, '09N': 24.7, '15B': 24.2}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303765,"{'23F': 96.7, '23A': 63.8, '06A-IV': 50.8, '23B': 50.3, '06B-II': 48.5}",1,96.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278395,"{'19A': 88.7, '19A-III': 88.5, '19A-II': 78.8, '19A-I': 78.0, '19AF': 59.6}",1,88.7,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263285,"{'19F-II': 99.4, '19F': 95.2, '19F-III': 94.2, '19F-I': 93.9, '19F-IV': 93.1}",1,99.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277135,"{'38': 90.7, '25F': 86.8, '25A': 85.8, '36': 15.7, '22F': 7.3}",1,90.7,25F_25A_38,25F_25A_38,,"[[0], [18]]","{'wcyD': ['b: 22.59'], 'wcyV': 4.69}","{'wcyD': 0, 'wcyV': 'not_detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277795,"{'06A-III': 94.8, '06B-I': 93.4, '06A': 90.3, '06A-IV': 89.5, '06B-II': 89.4}",1,94.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233985,"{'19A-II': 99.0, '19A-I': 97.1, '19A': 85.7, '19A-III': 85.5, '19AF': 62.0}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236935,"{'13': 99.0, '09N': 29.1, '20': 28.9, '09L': 28.7, '36': 28.0}",1,99.0,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001152525,"{'15B': 99.6, '15C': 99.4, '15A': 62.7, '15F': 48.3, '23A': 32.7}",1,99.6,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278805,"{'06A-II': 85.5, '06A-VI': 85.5, '06A-III': 85.4, '06A-V': 84.8, '06A': 84.0}",1,85.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_015839415,"{'24F2': 99.7, '24B': 88.5, '24F': 87.0, '24A': 71.0, '07B': 56.8}",1,99.7,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000211095,"{'01': 99.8, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.3}",1,99.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001343495,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028195,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049575,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229715,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335995,"{'23F': 92.5, '23A': 61.2, '28A': 48.1, '23B': 46.7, '06A-IV': 46.5}",1,92.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001170745,"{'07A': 97.9, '07F': 97.7, '19F-II': 36.7, '19F': 35.0, '19F-I': 34.9}",1,97.9,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247755,"{'23F': 98.7, '23A': 64.5, '23B': 47.3, '28A': 47.2, '06A-V': 45.5}",1,98.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261745,"{'09A': 99.4, '09V': 99.2, '09N': 37.6, '09L': 37.2, '06A-IV': 27.5}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169335,"{'14': 92.7, '36': 29.0, '09L': 25.7, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001144905,"{'36': 10.6, '06A-IV': 7.1, '20': 6.5, '45': 5.9, '06B-I': 5.9}",1,10.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222795,"{'31': 99.7, '41A': 57.2, '41F': 48.9, '22F': 36.3, '06A-II': 36.3}",1,99.7,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323625,"{'06C-I': 99.6, '06C': 99.4, '06D': 84.2, '06A-II': 79.5, '06A-VI': 79.5}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318515,"{'18C': 99.1, '18B': 99.0, '18F': 75.8, '18A': 62.6, '16F': 39.3}",1,99.1,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231075,"{'35A': 94.3, '35C': 89.6, '42': 89.0, '33A': 46.4, '33F': 45.9}",1,94.3,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266835,"{'18A': 99.9, '18B': 54.0, '18C': 54.0, '18F': 53.7, '19F-IV': 37.3}",1,99.9,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319895,"{'15C': 85.6, '15B': 85.5, '15A': 61.1, '15F': 47.9, '23A': 31.4}",1,85.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001114045,"{'16F': 95.7, '19F-II': 42.6, '19F-IV': 42.6, '28F': 42.4, '19F': 41.6}",1,95.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900062185,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310325,"{'14': 99.7, '09L': 26.6, '36': 25.7, '09N': 24.8, '15B': 24.2}",1,99.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292395,"{'35A': 93.8, '35C': 87.5, '42': 86.7, '33A': 45.8, '33F': 45.8}",1,93.8,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259075,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.5, '46': 81.4}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247885,"{'18C': 88.0, '18B': 87.9, '18F': 77.3, '18A': 61.4, '16F': 37.5}",1,88.0,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319265,"{'19F-I': 97.6, '19F-II': 94.9, '19F-III': 94.9, '19F': 94.7, '19F-IV': 90.3}",1,97.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296555,"{'19A-I': 99.0, '19A-II': 97.3, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 94.79]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239525,"{'13': 98.9, '20': 29.0, '09L': 28.6, '09N': 28.2, '36': 28.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259465,"{'01': 98.8, '19F': 32.0, '19F-I': 31.5, '19F-III': 31.3, '19F-II': 31.0}",1,98.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001115345,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '06A-IV': 48.5, '23B': 47.8}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056025,"{'35B': 99.6, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.6,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303225,"{'35C': 99.5, '42': 98.5, '35A': 85.9, '33A': 45.5, '33F': 45.1}",1,99.5,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001135565,"{'21': 97.5, '22F': 36.8, '06A-II': 32.6, '06A-VI': 32.5, '06A-III': 31.8}",1,97.5,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286435,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335895,"{'02': 92.4, '22F': 40.0, '06B-I': 38.6, '06A-II': 38.5, '06A-III': 38.5}",1,92.4,,2,,,{},{},2,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025135,"{'15C': 93.9, '15B': 93.8, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219435,"{'18C': 99.5, '18B': 99.4, '18F': 75.4, '18A': 62.9, '16F': 39.2}",1,99.5,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302295,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256795,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001194115,"{'18C': 88.6, '18B': 88.5, '18F': 78.1, '18A': 60.0, '16F': 37.9}",1,88.6,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252155,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171985,"{'14': 92.7, '36': 28.4, '09L': 25.6, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019670875,"{'13': 98.7, '20': 28.6, '09L': 28.4, '09N': 28.1, '14': 26.9}",1,98.7,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338045,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333135,"{'15C': 87.0, '15B': 86.9, '15A': 64.2, '15F': 49.5, '23A': 30.2}",1,87.0,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321135,"{'15C': 87.6, '15B': 87.5, '15A': 64.4, '15F': 49.8, '23A': 30.0}",1,87.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282985,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-I': 41.8}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001171865,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215055,"{'19F-I': 99.6, '19F': 96.6, '19F-III': 96.6, '19F-II': 93.8, '19F-IV': 89.2}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028625,"{'09N': 99.4, '09L': 88.6, '09A': 32.7, '09V': 32.7, '36': 32.2}",1,99.4,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290265,"{'14': 93.7, '36': 24.4, '09L': 23.4, '15B': 22.8, '15C': 22.3}",1,93.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285475,"{'03': 95.2, '01': 18.2, '36': 17.4, '20': 16.1, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020140065,"{'35B': 99.9, '33F': 33.6, '35C': 33.4, '34': 33.2, '35A': 33.0}",1,99.9,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251065,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222585,"{'15C': 87.6, '15B': 87.5, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224225,"{'08': 99.7, '02': 24.4, '06A-II': 24.3, '06A-VI': 24.2, '06B-II': 23.5}",1,99.7,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001152125,"{'20': 5.4, '22F': 5.0, '45': 4.7, '25A': 4.1, '25F': 4.1}",1,5.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344095,"{'35F': 99.3, '47F': 74.7, '34': 26.7, '35B': 25.9, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241605,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285155,"{'06A-V': 96.9, '06A-IV': 94.3, '06A': 93.8, '06B-II': 92.4, '06A-II': 89.6}",1,96.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216975,"{'10A': 99.3, '10B': 67.0, '10C': 27.7, '10F': 18.1, '22F': 15.4}",1,99.3,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001982725,"{'03': 94.8, '01': 17.4, '36': 17.0, '20': 15.9, '09N': 15.8}",1,94.8,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229675,"{'14': 96.7, '36': 25.9, '09L': 25.4, '09N': 24.5, '15B': 24.3}",1,96.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191375,"{'21': 100.0, '22F': 36.0, '06A-IV': 32.8, '06A-II': 32.1, '06A-VI': 32.0}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001151345,"{'31': 99.2, '41A': 56.7, '41F': 48.4, '06A-II': 35.9, '06A-VI': 35.9}",1,99.2,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307165,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001157665,"{'36': 13.1, '20': 8.0, '06A-IV': 7.6, '01': 6.8, '45': 6.3}",2,13.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244865,"{'34': 98.6, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.6,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266275,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255475,"{'16F': 71.7, '28F': 43.2, '28A': 40.7, '18F': 33.7, '18A': 33.6}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342775,"{'21': 92.2, '22F': 34.9, '06A-IV': 34.3, '06A-II': 34.0, '06A-VI': 34.0}",1,92.2,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237425,"{'23F': 91.3, '23A': 59.9, '06A-IV': 46.9, '28A': 46.8, '23B': 46.2}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001100525,"{'36': 10.2, '06A-IV': 7.1, '01': 5.9, '20': 5.9, '45': 5.9}",1,10.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223605,"{'10B': 93.7, '10A': 69.9, '10F': 20.0, '10C': 18.7, '22F': 14.2}",1,93.7,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019457135,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279945,"{'09A': 95.8, '09V': 95.6, '09N': 39.0, '09L': 37.0, '06A-IV': 26.4}",1,95.8,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001174025,"{'03': 95.2, '36': 17.1, '01': 16.9, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235885,"{'12F': 96.4, '44': 93.4, '12B': 93.3, '12A': 84.8, '46': 81.7}",1,96.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026065,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216435,"{'11D': 80.2, '11A': 78.9, '11F': 45.2, '11B': 34.8, '11C': 31.1}",1,80.2,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214195,"{'07C': 94.0, '07B': 77.1, '40': 76.7, '24B': 48.6, '24F': 47.6}",1,94.0,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900042925,"{'12F': 96.7, '44': 93.4, '12B': 92.7, '12A': 80.4, '46': 77.3}",1,96.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281185,"{'35B': 99.8, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292295,"{'14': 92.8, '36': 30.1, '09L': 25.8, '09N': 24.7, '15B': 24.3}",1,92.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297635,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276285,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.6, '19A-III': 87.4, '19AF': 61.9}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 92.87]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258395,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900034115,"{'09A': 99.7, '09V': 99.5, '09N': 38.2, '09L': 36.8, '35B': 26.7}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900038115,"{'19A': 99.4, '19A-III': 99.2, '19A-I': 86.1, '19A-II': 83.6, '19AF': 57.2}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255145,"{'14': 92.6, '36': 29.0, '09L': 25.7, '09N': 24.6, '15B': 24.1}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218565,"{'01': 99.5, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338815,"{'06D': 95.4, '06C': 87.5, '06C-I': 87.5, '06B-I': 75.6, '06A-III': 75.2}",1,95.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 89.0']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249225,"{'06A-II': 95.6, '06A-VI': 95.6, '06B-II': 89.7, '06A-V': 89.1, '06A-III': 88.5}",1,95.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228785,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221215,"{'35B': 99.4, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290045,"{'14': 93.4, '36': 27.3, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316455,"{'46': 98.7, '12A': 96.4, '12B': 84.2, '44': 82.2, '12F': 82.0}",1,98.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[4]],"{'wciI': [1, 100.0]}",{'wciI': 1},12A/12B/44/46,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251975,"{'24F': 97.0, '24B': 89.7, '24F2': 86.4, '24A': 63.0, '07C': 52.0}",1,97.0,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288225,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001110505,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001340255,"{'36': 11.8, '20': 8.1, '01': 7.6, '06A-IV': 7.5, '45': 6.5}",2,11.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239885,"{'19F-III': 98.1, '19F': 97.7, '19F-I': 97.7, '19F-II': 93.5, '19F-IV': 88.9}",1,98.1,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226085,"{'06C-I': 85.6, '06C': 85.5, '06D': 84.2, '06A-I': 79.8, '06B': 79.7}",1,85.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 94.1]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234995,"{'09A': 99.6, '09V': 99.4, '09N': 37.8, '09L': 36.7, '06A-IV': 27.6}",1,99.6,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001119925,"{'36': 9.1, '06A-IV': 5.9, '20': 4.8, '06B-I': 4.7, '06C': 4.5}",1,9.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001191875,"{'16F': 98.2, '28F': 43.0, '19F-IV': 41.3, '18F': 41.1, '18A': 40.9}",1,98.2,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047045,"{'15C': 95.7, '15B': 95.6, '15A': 61.2, '15F': 47.6, '23A': 34.6}",1,95.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254765,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_006376375,"{'06A-II': 81.8, '06A-VI': 81.8, '06A-V': 78.9, '06B-II': 78.9, '06A-III': 78.4}",1,81.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056395,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900061745,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244715,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311985,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001210445,"{'23A': 97.5, '23F': 68.8, '23B': 40.1, '19F-II': 39.1, '15B': 38.8}",1,97.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190015,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273855,"{'19A-I': 99.0, '19A-II': 97.3, '19A': 87.6, '19A-III': 87.4, '19AF': 61.7}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 93.49]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241485,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001201775,"{'21': 92.2, '22F': 34.5, '06A-IV': 34.3, '06A-II': 34.0, '06A-VI': 34.0}",1,92.2,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277725,"{'06C-I': 89.3, '06C': 89.2, '06D': 87.0, '06A-I': 77.8, '06B': 77.5}",1,89.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900044115,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193365,"{'06C-I': 99.8, '06C': 99.6, '06D': 84.6, '06A-II': 79.5, '06A-VI': 79.5}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335065,"{'28A': 94.6, '28F': 87.4, '23F': 51.8, '16F': 41.6, '06A-IV': 40.4}",1,94.6,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304675,"{'14': 100.0, '09L': 27.2, '36': 26.1, '09N': 25.0, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001137585,"{'09L': 99.3, '09N': 89.6, '36': 32.6, '09A': 31.4, '09V': 31.4}",1,99.3,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287085,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194875,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001144845,"{'35B': 97.1, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,97.1,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218925,"{'23F': 92.4, '23A': 61.1, '28A': 48.1, '23B': 46.6, '06A-IV': 46.6}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295045,"{'06E': 96.8, '06B-III': 96.0, '06B-I': 46.5, '06A-III': 45.9, '06A-IV': 45.2}",1,96.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 96.61]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001343455,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_012584355,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001092905,"{'06A-III': 99.7, '06B-I': 98.1, '06B-II': 91.2, '06A': 90.8, '06A-V': 90.2}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288365,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900036555,"{'03': 94.5, '01': 17.3, '36': 17.1, '20': 15.9, '09N': 15.7}",1,94.5,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236825,"{'07C': 99.4, '07B': 73.0, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.4,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215375,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191025,"{'33D': 90.0, '33B': 89.0, '35B': 33.6, '33F2': 29.8, '22F': 26.6}",1,90.0,,33D,,,{},{},33D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310695,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246125,"{'01': 99.4, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063185,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024625,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.0, '19A-II': 83.9, '19AF': 57.1}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900059325,"{'33F': 100.0, '33A': 97.5, '33F2': 70.9, '35C': 42.8, '42': 41.8}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191505,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294775,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303935,"{'15C': 87.7, '15B': 87.6, '15A': 60.9, '15F': 48.0, '23A': 31.3}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278485,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332445,"{'06D': 87.1, '06C': 85.0, '06C-I': 85.0, '06A-I': 77.7, '06B': 77.4}",1,87.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244465,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314855,"{'06A-V': 99.9, '06B-II': 95.0, '06A-IV': 92.6, '06A': 91.9, '06A-II': 90.8}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280305,"{'07A': 98.1, '07F': 97.9, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,98.1,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223135,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330125,"{'14': 94.8, '36': 26.2, '09L': 25.3, '09N': 24.4, '15B': 24.1}",1,94.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001173425,"{'22A': 94.2, '22F': 77.4, '06A-IV': 45.5, '06A-II': 43.8, '06B-I': 43.8}",1,94.2,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230035,"{'21': 92.6, '22F': 36.2, '06A-IV': 34.3, '06A-III': 33.5, '06A-II': 33.3}",1,92.6,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298515,"{'19F-I': 95.9, '19F': 95.6, '19F-III': 94.0, '19F-II': 92.8, '19F-IV': 88.8}",1,95.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050725,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001143685,"{'03': 95.2, '36': 16.8, '20': 15.7, '01': 14.5, '14': 14.1}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001098205,"{'04': 97.7, '45': 32.5, '12F': 23.6, '44': 23.4, '12A': 22.4}",1,97.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019446445,"{'29': 99.0, '39': 21.1, '35F': 19.4, '22F': 14.7, '35B': 13.9}",1,99.0,,29,,,{},{},29,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272515,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270835,"{'19F-I': 91.8, '19F': 91.1, '19F-III': 90.5, '19F-II': 88.7, '19F-IV': 88.3}",1,91.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284865,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168355,"{'19F-II': 99.5, '19F': 95.3, '19F-III': 94.3, '19F-I': 94.0, '19F-IV': 93.2}",1,99.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001200755,"{'10B': 99.5, '10A': 65.3, '10F': 20.1, '10C': 18.8, '47A': 12.6}",1,99.5,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232205,"{'23F': 96.8, '23A': 63.8, '23B': 48.0, '28A': 47.6, '06B-II': 46.0}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260865,"{'14': 94.2, '36': 26.3, '09L': 25.4, '09N': 24.6, '15B': 24.3}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301975,"{'14': 93.8, '36': 26.1, '09L': 25.1, '09N': 24.1, '15B': 23.9}",1,93.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001148245,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264885,"{'05': 95.3, '45': 22.6, '36': 21.5, '20': 20.3, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063355,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '19A': 44.5, '19A-III': 44.5}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294125,"{'14': 92.1, '36': 28.8, '09L': 25.6, '09N': 24.5, '15B': 24.0}",1,92.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267925,"{'48': 99.3, '24A': 46.8, '24B': 39.4, '24F': 38.9, '24F2': 37.4}",1,99.3,,48,,,{},{},48,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001719975,"{'09A': 95.8, '09V': 95.6, '09N': 39.0, '09L': 37.0, '06A-IV': 26.4}",1,95.8,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019675,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.5, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231935,"{'01': 7.3, '45': 6.3, '25F': 5.8, '25A': 5.6, '22F': 5.0}",3,7.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900060295,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214475,"{'23F': 96.4, '23A': 63.2, '23B': 47.7, '06A-IV': 47.7, '28A': 47.2}",1,96.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213025,"{'15C': 89.6, '15B': 89.5, '15A': 62.5, '15F': 49.3, '23A': 31.0}",1,89.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230785,"{'23F': 92.1, '23A': 61.1, '28A': 47.9, '23B': 46.6, '06A-IV': 46.3}",1,92.1,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231155,"{'04': 99.8, '45': 33.7, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056755,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323815,"{'15C': 89.4, '15B': 89.3, '15A': 61.8, '15F': 48.5, '23A': 31.7}",1,89.4,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241715,"{'04': 99.2, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168315,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194745,"{'23B': 99.4, '23B1': 64.6, '23F': 45.7, '23A': 39.9, '06A-IV': 36.8}",1,99.4,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001166085,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327475,"{'18C': 99.4, '18B': 99.3, '18F': 75.3, '18A': 62.0, '16F': 39.1}",1,99.4,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190295,"{'06B-I': 99.1, '06A-III': 97.0, '06A': 89.8, '06B-II': 89.7, '06A-V': 87.8}",1,99.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278185,"{'14': 92.7, '36': 28.8, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326085,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.7, '06B-II': 35.1, '06A-V': 34.9}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235275,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900044675,"{'15C': 86.7, '15B': 86.6, '15A': 66.3, '15F': 51.3, '23A': 28.3}",1,86.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001719945,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327345,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215535,"{'07A': 98.3, '07F': 98.1, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,98.3,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342955,"{'33F2': 99.5, '33F': 74.4, '33A': 70.1, '34': 42.1, '35B': 32.5}",1,99.5,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246145,"{'36': 10.8, '23B1': 6.8, '45': 6.7, '06A-IV': 6.7, '20': 6.0}",1,10.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001118465,"{'33C': 98.7, '34': 29.9, '35B': 24.6, '33F2': 23.8, '33F': 23.0}",1,98.7,,33C,,,{},{},33C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033035,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001138185,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254885,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.0, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333885,"{'16F': 71.5, '28F': 43.1, '28A': 40.6, '18F': 33.6, '18A': 32.9}",1,71.5,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313445,"{'09L': 98.2, '09N': 89.4, '36': 31.4, '09A': 31.3, '09V': 31.3}",1,98.2,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253045,"{'20': 78.7, '47F': 28.0, '09L': 25.8, '13': 25.2, '09N': 25.1}",1,78.7,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001194865,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_015839035,"{'24F2': 99.7, '24B': 88.5, '24F': 87.0, '24A': 71.0, '07B': 56.8}",1,99.7,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001207115,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001116665,"{'23F': 97.2, '23A': 64.4, '23B': 48.5, '28A': 47.9, '06A-III': 47.1}",1,97.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294925,"{'16F': 99.8, '28F': 42.4, '19F-IV': 41.0, '18A': 40.9, '18F': 40.6}",1,99.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221515,"{'06A-II': 95.4, '06A-VI': 95.4, '06B-II': 89.4, '06A-V': 89.0, '06A-III': 88.3}",1,95.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235535,"{'03': 95.2, '01': 17.3, '36': 17.0, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001089205,"{'06A': 90.1, '06A-III': 90.0, '06A-II': 89.9, '06A-VI': 89.9, '06B-II': 89.9}",1,90.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274135,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327465,"{'14': 94.9, '36': 27.7, '09L': 25.4, '09N': 24.4, '15B': 24.1}",1,94.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275935,"{'06A-II': 86.9, '06A-VI': 86.9, '06A-III': 86.6, '06B-I': 85.5, '06A': 85.2}",1,86.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001136225,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320715,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276165,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214755,"{'06E': 99.6, '06B-III': 99.2, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063385,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001089705,"{'21': 92.2, '22F': 34.4, '06A-IV': 34.3, '06A-II': 34.0, '06A-VI': 34.0}",1,92.2,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251265,"{'13': 83.8, '36': 32.2, '14': 27.2, '15B': 26.7, '15C': 26.3}",1,83.8,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321405,"{'20': 82.0, '47F': 25.9, '35A': 24.6, '09L': 24.5, '36': 23.5}",1,82.0,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900692715,"{'04': 99.2, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001169365,"{'14': 94.1, '36': 25.5, '15B': 24.2, '15C': 24.1, '09L': 23.7}",1,94.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269625,"{'03': 95.0, '36': 16.9, '01': 16.8, '20': 15.8, '09N': 15.6}",1,95.0,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028225,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017395,"{'23F': 96.9, '23A': 63.9, '06A-IV': 48.8, '23B': 48.4, '28A': 47.6}",1,96.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274295,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303835,"{'09A': 99.4, '09V': 99.2, '09N': 37.6, '09L': 36.9, '06A-IV': 27.3}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000233325,"{'06A-II': 97.8, '06A-VI': 97.8, '06B-II': 90.3, '06A-V': 89.4, '06A-III': 89.0}",1,97.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900692965,"{'38': 97.7, '25F': 84.4, '25A': 83.4, '36': 13.1, '20': 7.5}",1,97.7,25F_25A_38,25F_25A_38,,"[[0], [19]]","{'wcyD': ['b: 80.0'], 'wcyV': 100.0}","{'wcyD': 0, 'wcyV': 'detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213585,"{'06B-III': 77.1, '06E': 76.5, '06A-II': 65.8, '06A-VI': 65.8, '06B-II': 61.8}",1,77.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287045,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250055,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001115445,"{'19F-I': 92.8, '19F': 92.5, '19F-III': 91.0, '19F-II': 89.7, '19F-IV': 85.7}",1,92.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333415,"{'09A': 96.0, '09V': 95.8, '09N': 38.7, '09L': 37.5, '11F': 26.7}",1,96.0,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017205,"{'07A': 99.6, '07F': 99.4, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.6,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001144925,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295495,"{'16F': 95.5, '19F-II': 42.4, '19F-IV': 42.4, '28F': 42.1, '19F': 41.4}",1,95.5,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268645,"{'09A': 99.7, '09V': 99.5, '09N': 38.2, '09L': 36.8, '06A-IV': 27.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001123525,"{'01': 5.6, '22F': 4.9, '25F': 4.5, '25A': 4.4, '38': 3.6}",1,5.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279215,"{'19F-IV': 73.7, '19F-II': 73.5, '19F': 72.5, '19F-I': 71.8, '19F-III': 71.4}",1,73.7,,19F,,,{},{},19F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001143465,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001128285,"{'20': 86.6, '36': 27.8, '13': 25.6, '09L': 25.3, '47F': 24.6}",1,86.6,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335945,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900046955,"{'33F': 100.0, '33A': 97.5, '33F2': 70.9, '35C': 42.8, '42': 41.8}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900195115,"{'33F2': 100.0, '33F': 74.7, '33A': 70.3, '34': 41.7, '35B': 32.5}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250635,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001097225,"{'36': 12.1, '20': 8.1, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",2,12.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346635,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055475,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340355,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310885,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169295,"{'14': 92.7, '36': 28.8, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225385,"{'23F': 96.3, '23A': 63.8, '06A-IV': 50.4, '23B': 50.3, '06B-II': 48.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254225,"{'06C-I': 92.6, '06C': 92.5, '06D': 85.8, '06B-I': 77.9, '06A-III': 77.4}",1,92.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231495,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265805,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262485,"{'09L': 99.5, '09N': 89.5, '36': 32.9, '09A': 31.4, '09V': 31.4}",1,99.5,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001102945,"{'36': 10.2, '20': 6.2, '06A-IV': 6.1, '06B-I': 4.9, '06A-III': 4.6}",1,10.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056905,"{'09A': 98.9, '09V': 98.7, '09N': 36.4, '09L': 35.0, '11F': 27.1}",1,98.9,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251245,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262865,"{'16F': 71.9, '28F': 43.8, '28A': 41.0, '18F': 34.1, '18A': 33.9}",1,71.9,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243455,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296015,"{'15C': 90.7, '15B': 90.6, '15A': 63.0, '15F': 48.8, '23A': 31.1}",1,90.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232985,"{'20': 84.6, '47F': 26.6, '35A': 24.9, '09L': 24.8, '09N': 23.7}",1,84.6,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239915,"{'11D': 80.2, '11A': 78.9, '11F': 45.3, '11B': 34.7, '11C': 31.0}",1,80.2,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001133285,"{'20': 5.4, '22F': 4.8, '45': 4.7, '25A': 4.3, '25F': 4.3}",1,5.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001088265,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033535,"{'23F': 97.8, '23A': 63.3, '23B': 48.4, '28A': 48.3, '06A-IV': 47.0}",1,97.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189775,"{'06B-I': 99.5, '06A-III': 97.3, '06B-II': 89.9, '06A': 89.7, '06A-V': 88.0}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286485,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028285,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325675,"{'03': 95.2, '01': 18.2, '36': 17.4, '20': 16.1, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289025,"{'09A': 95.9, '09V': 95.7, '09N': 38.4, '09L': 37.3, '11F': 26.6}",1,95.9,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290895,"{'11B': 99.6, '11C': 89.3, '11A': 31.4, '11D': 31.1, '11F': 25.7}",1,99.6,,11B/11C,,,{},{},11B/11C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254435,"{'23A': 95.1, '23F': 68.0, '23B': 43.2, '19F-II': 40.0, '15B': 39.1}",1,95.1,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272455,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311855,"{'19F-I': 95.5, '19F': 95.2, '19F-III': 93.6, '19F-II': 92.4, '19F-IV': 88.4}",1,95.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339715,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222015,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.3, '20': 7.7}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193575,"{'15C': 93.8, '15B': 93.7, '15A': 62.0, '15F': 48.6, '23A': 32.9}",1,93.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278025,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.1, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257825,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306405,"{'06E': 100.0, '06B-III': 95.9, '06B-I': 43.8, '06A-III': 43.3, '06A-I': 42.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257065,"{'15C': 87.7, '15B': 87.6, '15A': 60.9, '15F': 48.0, '23A': 31.3}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288025,"{'10B': 93.7, '10A': 69.8, '10F': 20.0, '10C': 18.7, '22F': 14.2}",1,93.7,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001124125,"{'45': 6.7, '25F': 5.5, '20': 5.4, '36': 5.4, '25A': 5.3}",3,6.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278055,"{'06E': 99.8, '06B-III': 99.3, '06B-I': 46.7, '06A-III': 46.2, '06A-II': 45.3}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900036115,"{'01': 98.9, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001301675,"{'06C-I': 89.1, '06C': 89.0, '06D': 86.9, '06A-I': 77.7, '06B': 77.4}",1,89.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321665,"{'24F2': 99.4, '24B': 88.3, '24F': 86.8, '24A': 71.3, '07B': 55.1}",1,99.4,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001149325,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250655,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001140265,"{'01': 6.8, '45': 5.9, '25F': 5.6, '20': 5.5, '25A': 5.5}",3,6.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057905,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283815,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224265,"{'23F': 78.0, '23A': 57.7, '23B': 51.5, '28A': 38.9, '28F': 36.3}",1,78.0,,23F,,,{},{},23F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339335,"{'06A-V': 92.9, '06A-II': 92.3, '06A-VI': 92.3, '06A-III': 89.8, '06A': 88.8}",1,92.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266875,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310535,"{'06E': 98.7, '06B-III': 96.0, '06B-I': 46.0, '06A-III': 45.5, '06A-II': 44.9}",1,98.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001203275,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001128665,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001159305,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.1}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220375,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001123245,"{'14': 94.4, '15B': 24.2, '15C': 24.1, '09L': 23.4, '09N': 22.5}",1,94.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292545,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.9, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_902652995,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_012911685,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.5, '46': 81.4}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270555,"{'03': 94.8, '01': 17.4, '36': 16.0, '09N': 15.8, '20': 15.8}",1,94.8,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338535,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239405,"{'09A': 99.2, '09V': 99.0, '09N': 38.3, '09L': 36.8, '11F': 27.1}",1,99.2,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320635,"{'18A': 99.8, '18B': 53.9, '18C': 53.9, '18F': 53.5, '19F-IV': 37.1}",1,99.8,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246685,"{'14': 94.2, '36': 26.2, '09L': 25.5, '09N': 24.4, '15B': 24.3}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907172195,"{'07C': 99.4, '07B': 73.0, '40': 70.8, '24B': 48.8, '24F': 48.6}",1,99.4,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242825,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282485,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232165,"{'14': 95.0, '36': 29.4, '09L': 25.5, '09N': 24.7, '15B': 24.3}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277485,"{'04': 99.2, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311675,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244375,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305875,"{'33F': 99.7, '33A': 97.2, '33F2': 70.6, '35C': 42.8, '42': 41.8}",1,99.7,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300995,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282115,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235005,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229405,"{'06E': 100.0, '06B-III': 94.6, '06A-I': 49.9, '06B': 48.8, '06B-II': 43.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052405,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256165,"{'19F': 94.9, '19F-I': 94.4, '19F-III': 93.3, '19F-II': 92.0, '19F-IV': 88.3}",1,94.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295405,"{'19B': 92.9, '19C': 71.8, '19F-IV': 51.1, '19F-II': 51.0, '19F-I': 50.1}",1,92.9,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347155,"{'14': 94.1, '36': 25.5, '09L': 25.1, '09N': 24.3, '15B': 24.2}",1,94.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253735,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.9, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239335,"{'19A': 99.1, '19A-III': 98.9, '19A-I': 86.0, '19A-II': 83.7, '19AF': 57.0}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329135,"{'16F': 95.7, '18F': 40.7, '18A': 40.5, '28F': 40.3, '19F-IV': 39.2}",1,95.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291755,"{'20': 84.6, '47F': 26.5, '35A': 24.9, '09L': 24.7, '36': 24.6}",1,84.6,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322715,"{'11D': 96.5, '11A': 95.3, '11F': 43.3, '11C': 36.2, '11B': 34.8}",1,96.5,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001083945,"{'10A': 99.4, '10B': 67.1, '10C': 27.7, '10F': 18.1, '22F': 14.0}",1,99.4,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344795,"{'06E': 100.0, '06B-III': 97.3, '06B-I': 44.6, '06A-III': 44.1, '06B-II': 43.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243935,"{'05': 95.0, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_902652935,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001340275,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169955,"{'14': 92.3, '36': 29.0, '09L': 25.6, '09N': 24.5, '15B': 24.2}",1,92.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900064615,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028535,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293595,"{'13': 98.2, '36': 31.5, '09L': 29.5, '09N': 29.3, '20': 28.7}",1,98.2,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289785,"{'03': 95.2, '01': 17.5, '09L': 15.5, '09N': 15.1, '14': 13.9}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585205,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263915,"{'19F-I': 96.4, '19F': 96.1, '19F-III': 94.5, '19F-II': 93.3, '19F-IV': 89.2}",1,96.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308725,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336125,"{'01': 99.4, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230095,"{'19F-II': 95.5, '19F-IV': 94.3, '19F': 92.3, '19F-I': 91.0, '19F-III': 90.3}",1,95.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065105,"{'01': 98.9, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330775,"{'09A': 99.4, '09V': 99.2, '09N': 37.6, '09L': 36.9, '06A-IV': 27.3}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030205,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001153085,"{'36': 10.6, '06A-IV': 7.2, '01': 6.5, '20': 6.5, '45': 6.5}",1,10.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298835,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001110525,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326485,"{'02': 92.4, '22F': 40.0, '06B-I': 38.7, '06A-III': 38.6, '06A-II': 38.5}",1,92.4,,2,,,{},{},2,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171675,"{'14': 91.9, '36': 28.6, '09L': 24.7, '15B': 23.9, '09N': 23.8}",1,91.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222445,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019457055,"{'09N': 99.7, '09L': 89.0, '09A': 32.7, '09V': 32.7, '36': 32.4}",1,99.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283345,"{'01': 99.1, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330875,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001604825,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232475,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215095,"{'01': 99.0, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325815,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270685,"{'04': 99.2, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321075,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332275,"{'07A': 91.2, '07F': 91.0, '19F-II': 39.3, '19F': 37.8, '19F-IV': 37.8}",1,91.2,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900459845,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282675,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268605,"{'06A-III': 94.8, '06B-I': 93.4, '06A': 90.3, '06A-IV': 89.5, '06B-II': 89.4}",1,94.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284035,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267965,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332085,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020625,"{'18C': 99.8, '18B': 99.7, '18F': 75.8, '18A': 62.2, '16F': 39.3}",1,99.8,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268515,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319975,"{'35B': 99.1, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.1,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261225,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330725,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001119645,"{'15A': 97.4, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.2}",1,97.4,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222555,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001168905,"{'19F-I': 95.3, '19F': 95.0, '19F-III': 93.5, '19F-II': 92.2, '19F-IV': 88.2}",1,95.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248825,"{'07A': 99.6, '07F': 99.4, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.6,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000495335,"{'06B-I': 99.4, '06A-III': 97.2, '06B-II': 89.8, '06A': 89.5, '06A-V': 87.9}",1,99.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241955,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262935,"{'03': 97.4, '01': 17.7, '20': 15.5, '09N': 15.3, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257475,"{'40': 99.6, '07B': 93.9, '07C': 75.4, '24F2': 48.2, '24F': 47.9}",1,99.6,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020785,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272565,"{'23A': 97.5, '23F': 68.9, '23B': 40.1, '19F-II': 39.2, '15B': 38.6}",1,97.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900058665,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033785,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263255,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.7, '06B-II': 35.1, '06A-V': 34.9}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277345,"{'13': 98.9, '20': 28.9, '09L': 28.7, '09N': 28.5, '36': 28.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233905,"{'09A': 98.3, '09V': 98.1, '09N': 38.1, '09L': 36.4, '11F': 26.6}",1,98.3,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001135545,"{'06E': 100.0, '06B-III': 98.6, '06B-I': 46.1, '06A-III': 45.6, '06B-II': 44.8}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191405,"{'15B': 99.8, '15C': 99.6, '15A': 62.7, '15F': 48.3, '23A': 32.9}",1,99.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214725,"{'10B': 93.7, '10A': 69.9, '10F': 20.0, '10C': 18.7, '22F': 14.2}",1,93.7,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290635,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001173285,"{'09V': 99.6, '09A': 99.3, '09N': 37.3, '09L': 35.4, '11F': 25.8}",1,99.6,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190625,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001096705,"{'34': 92.9, '33F2': 34.7, '35B': 31.7, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325295,"{'14': 95.0, '36': 28.4, '09L': 25.5, '09N': 24.5, '15B': 24.2}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001334195,"{'20': 5.3, '36': 5.3, '45': 4.5, '06C-I': 3.9, '06C': 3.8}",2,5.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257895,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232205,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266975,"{'15C': 87.5, '15B': 87.4, '15A': 64.4, '15F': 49.8, '23A': 30.0}",1,87.5,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028805,"{'03': 95.2, '01': 17.1, '36': 17.1, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223825,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314435,"{'09N': 98.3, '09L': 87.4, '09A': 31.4, '09V': 31.4, '36': 30.2}",1,98.3,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265465,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237125,"{'15C': 87.8, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001113385,"{'14': 89.9, '36': 29.3, '09L': 24.2, '09N': 22.9, '19F-II': 22.2}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282615,"{'03': 94.7, '01': 17.3, '36': 17.1, '20': 15.9, '09N': 15.7}",1,94.7,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001206555,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251695,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316575,"{'06A-II': 95.1, '06A-VI': 95.1, '06B-II': 88.5, '06A-V': 88.1, '06A-III': 87.5}",1,95.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020115,"{'06A-II': 98.9, '06A-VI': 98.9, '06B-II': 90.7, '06A-V': 89.9, '06A-III': 88.5}",1,98.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221695,"{'16F': 71.4, '28F': 43.1, '28A': 40.6, '18F': 33.5, '18A': 32.5}",1,71.4,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324035,"{'10F': 98.2, '10C': 80.9, '10B': 22.4, '10A': 19.2, '22F': 15.7}",1,98.2,,10F,,,{},{},10F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217385,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319135,"{'06A-V': 97.2, '06A-IV': 94.6, '06A': 94.1, '06B-II': 92.7, '06A-II': 89.9}",1,97.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001087705,"{'06C-I': 88.8, '06C': 88.7, '06D': 86.7, '06A-I': 77.8, '06B': 77.5}",1,88.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 94.1]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315625,"{'16F': 71.7, '28F': 43.2, '28A': 40.7, '18F': 33.7, '18A': 33.6}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001302115,"{'07A': 99.5, '07F': 99.3, '19F-II': 36.7, '19F-IV': 36.1, '19F': 35.2}",1,99.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257765,"{'09A': 96.0, '09V': 95.8, '09N': 38.5, '09L': 37.4, '11F': 26.7}",1,96.0,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251485,"{'14': 94.5, '36': 28.5, '09L': 25.6, '09N': 24.8, '15B': 24.2}",1,94.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001124205,"{'19F-I': 95.4, '19F': 95.2, '19F-III': 93.7, '19F-II': 92.3, '19F-IV': 88.3}",1,95.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312595,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194225,"{'06C-I': 97.4, '06C': 97.3, '06D': 84.2, '06A-II': 77.2, '06A-VI': 77.2}",1,97.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286975,"{'19A-I': 99.2, '19A-II': 97.5, '19A': 87.8, '19A-III': 87.6, '19AF': 61.8}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279895,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001336495,"{'36': 12.1, '20': 7.9, '06A-IV': 6.9, '23B1': 5.6, '45': 5.5}",1,12.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291385,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315605,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 89.6, '06A': 87.7, '06A-III': 86.1}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900042845,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285425,"{'19A': 94.6, '19A-III': 94.4, '19A-II': 85.5, '19A-I': 83.4, '19AF': 57.4}",1,94.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215975,"{'09A': 98.3, '09V': 98.1, '09N': 38.1, '09L': 36.5, '11F': 26.6}",1,98.3,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325215,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001204785,"{'19F-I': 95.3, '19F': 95.0, '19F-III': 93.5, '19F-II': 92.2, '19F-IV': 88.2}",1,95.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226425,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 45.9, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001127305,"{'06E': 100.0, '06B-III': 95.3, '06A-I': 42.6, '06B-I': 42.6, '06B': 42.2}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900195075,"{'24F2': 99.9, '24B': 88.7, '24F': 87.2, '24A': 67.4, '07C': 53.9}",1,99.9,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267345,"{'19F-II': 99.3, '19F': 95.5, '19F-III': 94.1, '19F-I': 93.8, '19F-IV': 93.0}",1,99.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306075,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251835,"{'05': 95.3, '45': 22.5, '36': 21.9, '20': 20.1, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223195,"{'15A': 98.1, '15F': 72.7, '15C': 61.6, '15B': 61.5, '23F': 32.0}",1,98.1,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232025,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255315,"{'31': 99.3, '41A': 57.2, '41F': 49.3, '06A-II': 36.5, '06A-VI': 36.5}",1,99.3,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234545,"{'13': 98.9, '09N': 29.1, '20': 28.9, '09L': 28.7, '36': 27.9}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249335,"{'06D': 87.8, '06C-I': 85.6, '06C': 85.4, '06A': 79.0, '06B-II': 78.5}",1,87.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 86.1']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049875,"{'35B': 99.8, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250715,"{'05': 95.2, '45': 22.2, '36': 21.7, '20': 19.9, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001124785,"{'38': 88.0, '25F': 84.2, '25A': 83.4, '36': 11.8, '20': 7.9}",1,88.0,25F_25A_38,25F_25A_38,,"[[0], [18]]","{'wcyD': ['b: 22.59'], 'wcyV': 4.69}","{'wcyD': 0, 'wcyV': 'not_detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300905,"{'05': 95.3, '45': 22.5, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245635,"{'17F': 99.8, '06B-I': 44.6, '06B': 44.5, '06A-III': 44.5, '06D': 43.7}",1,99.8,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216955,"{'14': 94.2, '36': 26.4, '09L': 25.5, '09N': 24.7, '15B': 24.3}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001146425,"{'06A': 90.4, '06A-III': 89.4, '06A-II': 89.3, '06A-VI': 89.3, '06B-II': 89.3}",1,90.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278975,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215865,"{'23F': 96.5, '23A': 63.8, '23B': 47.9, '28A': 47.6, '06B-II': 46.1}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001090985,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288545,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191235,"{'06C-I': 98.0, '06C': 97.8, '06D': 84.6, '06A-II': 77.7, '06A-VI': 77.7}",1,98.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001896085,"{'19A': 99.2, '19A-III': 99.0, '19A-I': 86.1, '19A-II': 83.8, '19AF': 57.2}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236605,"{'13': 84.2, '09L': 27.6, '14': 27.1, '09N': 27.0, '36': 25.2}",1,84.2,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269295,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.5, '46': 81.4}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900042885,"{'22F': 98.9, '22A': 73.2, '06A': 42.4, '06B': 41.9, '06A-II': 41.7}",1,98.9,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291405,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296475,"{'10A': 99.1, '10B': 66.8, '10C': 27.7, '10F': 18.1, '22F': 15.5}",1,99.1,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295275,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327975,"{'19F-IV': 72.8, '19F-II': 72.6, '19F': 71.6, '19F-I': 70.9, '19F-III': 70.5}",1,72.8,,19F,,,{},{},19F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274355,"{'19F': 97.4, '19F-I': 96.4, '19F-III': 95.6, '19F-II': 95.5, '19F-IV': 91.0}",1,97.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001171965,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344435,"{'14': 89.9, '36': 28.2, '09L': 22.9, '19F-II': 22.2, '09N': 21.8}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270065,"{'19F-II': 99.0, '19F': 95.2, '19F-III': 93.8, '19F-I': 93.5, '19F-IV': 92.9}",1,99.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239975,"{'13': 98.9, '09N': 29.1, '20': 28.9, '09L': 28.7, '36': 27.9}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001122745,"{'14': 94.2, '36': 25.0, '15B': 24.3, '15C': 24.2, '09L': 23.5}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329795,"{'23F': 96.7, '23A': 63.6, '23B': 48.0, '28A': 47.6, '06B-II': 46.0}",1,96.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057225,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230575,"{'14': 92.7, '36': 28.7, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_012911635,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900059825,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191915,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295915,"{'19A-I': 99.2, '19A-II': 97.5, '19A': 87.8, '19A-III': 87.6, '19AF': 61.8}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900037135,"{'22F': 99.0, '22A': 73.3, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001091905,"{'36': 10.6, '06A-IV': 7.1, '20': 6.2, '06B-I': 5.9, '06C': 5.8}",1,10.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167335,"{'09A': 99.3, '09V': 99.1, '09N': 37.2, '09L': 35.9, '11F': 26.6}",1,99.3,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229605,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.0, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285205,"{'04': 99.0, '45': 33.5, '12F': 23.4, '44': 23.2, '12A': 22.3}",1,99.0,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019399445,"{'23F': 88.7, '23A': 58.0, '28A': 45.5, '06A-IV': 44.4, '23B': 44.1}",1,88.7,,23F,,,{},{},23F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028515,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263005,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.7, '06A-III': 46.2, '06A-II': 45.2}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233165,"{'15C': 87.6, '15B': 87.4, '15A': 64.4, '15F': 49.8, '23A': 30.0}",1,87.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227455,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273335,"{'06A': 91.2, '06A-IV': 90.2, '06B-II': 89.1, '06A-III': 87.6, '06A-V': 87.6}",1,91.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019397445,"{'03': 94.8, '01': 16.7, '36': 16.6, '20': 16.5, '09N': 15.5}",1,94.8,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307445,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.6}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259225,"{'15A': 98.3, '15F': 72.9, '15C': 61.6, '15B': 61.5, '23F': 32.2}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023525,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255055,"{'34': 92.8, '33F2': 34.7, '35B': 32.0, '33F': 29.0, '33C': 28.0}",1,92.8,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242505,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.0, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244725,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230885,"{'06A': 99.9, '06A-IV': 98.8, '06B-II': 94.6, '06A-V': 92.9, '06A-III': 91.1}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907166975,"{'14': 92.8, '36': 26.9, '09L': 24.4, '15B': 24.1, '15C': 24.0}",1,92.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255345,"{'14': 91.6, '09L': 26.7, '36': 26.6, '09N': 26.3, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001208085,"{'09L': 94.8, '09N': 86.0, '09A': 31.0, '09V': 31.0, '36': 26.4}",1,94.8,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226945,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.4, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274105,"{'23F': 96.2, '23A': 63.7, '06A-IV': 51.0, '23B': 50.2, '06A-V': 48.7}",1,96.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900036655,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231985,"{'06E': 99.9, '06B-III': 98.4, '06B-I': 45.9, '06A-III': 45.4, '06B-II': 44.6}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001126205,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283645,"{'09A': 96.0, '09V': 95.8, '09N': 38.6, '09L': 37.5, '11F': 26.7}",1,96.0,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274045,"{'15A': 98.3, '15F': 72.9, '15C': 61.6, '15B': 61.5, '23F': 32.2}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234695,"{'14': 93.3, '36': 27.3, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001094785,"{'36': 10.3, '06A-IV': 6.7, '20': 5.7, '45': 5.7, '23B1': 5.6}",1,10.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340845,"{'09A': 95.7, '09V': 95.5, '09N': 38.8, '09L': 37.4, '11F': 26.6}",1,95.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287265,"{'07A': 97.5, '07F': 97.3, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,97.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225695,"{'14': 91.3, '19F-IV': 25.9, '09L': 25.1, '09N': 24.9, '36': 24.4}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253595,"{'19A-II': 99.0, '19A-I': 97.1, '19A': 85.7, '19A-III': 85.5, '19AF': 62.0}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001910385,"{'03': 95.2, '36': 17.3, '01': 15.9, '20': 15.7, '09N': 15.6}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001340995,"{'23F': 96.8, '23A': 66.4, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001123705,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238875,"{'04': 99.8, '45': 33.7, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276425,"{'11B': 100.0, '11C': 89.6, '11A': 31.5, '11D': 31.2, '11F': 25.7}",1,100.0,,11B/11C,,,{},{},11B/11C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326015,"{'14': 94.1, '36': 25.7, '09L': 25.0, '09N': 24.3, '15B': 24.3}",1,94.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326315,"{'14': 92.7, '36': 29.0, '09L': 25.9, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319025,"{'37': 98.8, '33F': 77.5, '33A': 75.9, '33F2': 71.0, '35B': 32.3}",1,98.8,,37,,,{},{},37,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297075,"{'01': 99.3, '19F': 32.2, '19F-I': 31.7, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319885,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.0, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001125905,"{'03': 94.8, '36': 17.0, '01': 16.1, '20': 15.9, '09N': 14.2}",1,94.8,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306685,"{'38': 99.3, '25F': 84.5, '25A': 83.5, '36': 10.5, '01': 7.9}",1,99.3,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322015,"{'09A': 95.9, '09V': 95.7, '09N': 38.7, '09L': 37.6, '11F': 26.7}",1,95.9,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285725,"{'28F': 98.6, '28A': 92.2, '23F': 47.6, '16F': 46.0, '06B-I': 43.2}",1,98.6,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000468315,"{'06A-V': 84.4, '06A-III': 83.7, '06B-II': 83.4, '06A': 83.1, '06B-I': 83.0}",1,84.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 57.49']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239695,"{'03': 95.2, '01': 16.7, '36': 16.5, '09N': 15.8, '20': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018475,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001121825,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244545,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282235,"{'05': 95.2, '45': 22.2, '36': 21.6, '12A': 19.7, '20': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229135,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332175,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585105,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307245,"{'07B': 99.7, '40': 92.7, '07C': 77.0, '24F2': 47.9, '24F': 47.5}",1,99.7,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256995,"{'08': 99.5, '06A-II': 24.4, '06A-VI': 24.3, '02': 24.1, '06B-II': 23.8}",1,99.5,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213545,"{'04': 99.7, '45': 33.4, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050935,"{'01': 98.5, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,98.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244775,"{'10A': 93.9, '10B': 64.7, '10C': 29.0, '10F': 19.4, '22F': 16.4}",1,93.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907172035,"{'14': 92.7, '36': 28.9, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333845,"{'19A-I': 99.2, '19A-II': 97.5, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218965,"{'14': 94.0, '36': 26.4, '09L': 25.3, '09N': 24.7, '15B': 24.3}",1,94.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307625,"{'24F2': 99.7, '24B': 88.5, '24F': 87.0, '24A': 71.2, '07B': 55.3}",1,99.7,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288815,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001101385,"{'14': 99.8, '09L': 26.6, '36': 25.8, '09N': 24.3, '15B': 24.1}",1,99.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276295,"{'23F': 92.4, '23A': 61.1, '28A': 48.1, '23B': 46.6, '06A-IV': 46.6}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232605,"{'14': 91.4, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279255,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001334815,"{'34': 92.9, '33F2': 34.7, '35B': 31.8, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317835,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246795,"{'34': 93.0, '33F2': 34.8, '35B': 32.3, '33F': 29.0, '33C': 28.4}",1,93.0,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001098765,"{'06E': 100.0, '06B-III': 97.6, '06B-I': 44.9, '06A-III': 44.4, '06B-II': 43.8}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019705,"{'04': 99.8, '45': 33.4, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341055,"{'16F': 71.7, '28F': 43.2, '28A': 40.7, '18F': 33.7, '18A': 33.6}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322095,"{'19F': 94.9, '19F-I': 94.4, '19F-III': 93.3, '19F-II': 92.0, '19F-IV': 88.3}",1,94.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169245,"{'14': 92.7, '36': 28.8, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258295,"{'34': 98.7, '33F2': 35.2, '35B': 33.6, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307135,"{'19F': 100.0, '19F-III': 97.5, '19F-I': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,100.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294895,"{'11D': 99.8, '11A': 97.0, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,99.8,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226545,"{'03': 96.4, '01': 17.6, '20': 15.4, '09N': 15.2, '09L': 15.0}",1,96.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001145745,"{'37': 51.6, '36': 11.0, '20': 7.9, '45': 6.5, '23B1': 5.6}",1,51.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001152165,"{'14': 90.0, '36': 29.3, '09L': 23.2, '09N': 22.3, '19F-II': 22.2}",1,90.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324975,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244605,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319355,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231215,"{'35B': 99.8, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243095,"{'13': 84.0, '09L': 27.8, '09N': 27.7, '14': 27.0, '19B': 24.0}",1,84.0,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001099565,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.5}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214715,"{'19AF': 96.7, '19A-II': 63.0, '19A-I': 62.3, '19A': 51.8, '19A-III': 51.6}",1,96.7,19A_19AF,19A_19AF,,[[7]],"{'wzy': [2, 97.62]}",{'wzy': 2},19A_19AF,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001156185,"{'15C': 95.7, '15B': 95.6, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167185,"{'14': 93.1, '36': 27.2, '09L': 25.3, '09N': 24.8, '15B': 24.2}",1,93.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285905,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900059045,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001205995,"{'34': 93.3, '33F2': 35.3, '35B': 31.7, '33F': 29.3, '33C': 28.8}",1,93.3,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245985,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224545,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241635,"{'19F-III': 100.0, '19F': 98.0, '19F-I': 97.3, '19F-II': 94.8, '19F-IV': 89.5}",1,100.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255675,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.4}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272395,"{'23A': 95.1, '23F': 68.0, '23B': 43.2, '19F-II': 40.0, '15B': 39.1}",1,95.1,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258685,"{'06C-I': 92.7, '06C': 92.6, '06D': 84.5, '06B-I': 77.7, '06A-III': 77.2}",1,92.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315105,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232415,"{'16F': 73.0, '28F': 44.4, '28A': 41.6, '18F': 35.3, '18A': 35.1}",1,73.0,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243625,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.0, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275735,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346235,"{'35A': 99.9, '35C': 85.2, '42': 84.6, '33A': 42.9, '33F': 42.6}",1,99.9,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900046815,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029695,"{'22F': 98.9, '22A': 73.2, '06A': 42.4, '06B': 41.9, '06A-II': 41.7}",1,98.9,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214645,"{'06C-I': 87.8, '06C': 87.7, '06D': 87.1, '06A-I': 77.9, '06B': 77.6}",1,87.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263155,"{'21': 91.6, '22F': 36.8, '06A-IV': 31.6, '06A-II': 31.2, '06A-VI': 31.2}",1,91.6,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331235,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022985,"{'06A-III': 99.9, '06B-I': 98.3, '06B-II': 91.3, '06A': 90.9, '06A-V': 90.4}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224045,"{'15A': 98.3, '15F': 73.0, '15C': 61.8, '15B': 61.7, '23F': 32.3}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001135665,"{'23F': 94.6, '23A': 63.7, '23B': 47.9, '28A': 47.7, '06B-II': 47.1}",1,94.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228525,"{'16F': 71.9, '28F': 43.4, '28A': 40.9, '18F': 33.9, '18A': 33.7}",1,71.9,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236225,"{'01': 99.4, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232015,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282515,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259285,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336325,"{'20': 78.7, '47F': 28.0, '09L': 25.8, '09N': 25.3, '13': 25.2}",1,78.7,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023295,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282545,"{'19F-II': 99.5, '19F': 95.3, '19F-III': 94.3, '19F-I': 94.0, '19F-IV': 93.2}",1,99.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260035,"{'01': 7.1, '45': 5.9, '25F': 5.7, '20': 5.5, '25A': 5.5}",3,7.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261765,"{'06A-II': 93.9, '06A-VI': 93.9, '06B-II': 88.2, '06A-V': 87.7, '06A-III': 87.1}",1,93.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214795,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300485,"{'09A': 96.0, '09V': 95.8, '09N': 38.7, '09L': 37.5, '11F': 26.7}",1,96.0,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267795,"{'23B1': 99.9, '23B': 55.8, '19A-II': 36.2, '19A-I': 35.9, '19AF': 31.7}",1,99.9,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301035,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329755,"{'23B1': 99.9, '23B': 55.8, '19A-II': 36.1, '19A-I': 35.8, '19AF': 31.3}",1,99.9,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221015,"{'35A': 94.4, '35C': 89.7, '42': 89.1, '33A': 46.3, '33F': 45.9}",1,94.4,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316655,"{'13': 98.9, '20': 28.7, '09L': 28.6, '09N': 28.2, '14': 27.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190485,"{'23B': 99.1, '23B1': 64.6, '23F': 45.4, '23A': 39.6, '06A-IV': 36.3}",1,99.1,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296595,"{'10A': 96.6, '10B': 65.5, '10C': 27.8, '10F': 18.2, '22F': 16.9}",1,96.6,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297945,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170775,"{'14': 92.5, '36': 28.3, '09L': 24.8, '15B': 24.2, '15C': 24.1}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232365,"{'19A': 93.4, '19A-III': 93.2, '19A-II': 81.8, '19A-I': 80.0, '19AF': 55.9}",1,93.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250155,"{'13': 83.7, '36': 32.6, '14': 27.2, '15B': 26.7, '15C': 26.3}",1,83.7,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001329135,"{'06E': 100.0, '06B-III': 97.3, '06B-I': 44.6, '06A-III': 44.1, '06B-II': 43.3}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282765,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 96.61]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279095,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342855,"{'06A-II': 87.3, '06A-VI': 87.3, '06A': 86.0, '06A-IV': 85.2, '06A-V': 85.0}",1,87.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251795,"{'01': 99.1, '19F': 32.0, '19F-I': 31.5, '19F-III': 31.3, '19F-II': 31.0}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261455,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001168145,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224645,"{'12F': 96.4, '44': 93.4, '12B': 93.3, '12A': 84.8, '46': 81.7}",1,96.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306895,"{'14': 91.4, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223325,"{'23F': 97.0, '23A': 63.9, '23B': 48.0, '28A': 47.7, '28F': 46.0}",1,97.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001161805,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261345,"{'06A-V': 92.3, '06A-I': 92.0, '06A-III': 89.9, '06B': 88.8, '06B-I': 88.5}",1,92.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346975,"{'09L': 98.0, '09N': 88.1, '36': 32.2, '09A': 31.4, '09V': 31.4}",1,98.0,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282965,"{'01': 99.1, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001170385,"{'45': 6.8, '25F': 5.6, '01': 5.5, '25A': 5.4, '20': 5.2}",2,6.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295175,"{'08': 97.4, '06A-IV': 25.0, '02': 24.4, '06A-II': 23.9, '06A-VI': 23.9}",1,97.4,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022145,"{'07A': 99.5, '07F': 99.3, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019457395,"{'15A': 99.6, '15F': 73.9, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,99.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901343005,"{'03': 95.2, '36': 17.4, '01': 16.8, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330485,"{'15A': 97.8, '15F': 72.4, '15C': 61.6, '15B': 61.5, '23F': 31.7}",1,97.8,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337615,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217445,"{'35B': 99.9, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.9,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232175,"{'13': 83.3, '36': 28.1, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001174925,"{'06A': 100.0, '06A-IV': 99.2, '06B-II': 95.0, '06A-V': 93.3, '06A-III': 91.3}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028385,"{'06C-I': 87.4, '06C': 87.3, '06D': 84.7, '06A': 77.0, '06A-IV': 74.9}",1,87.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223335,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247345,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052015,"{'23F': 93.9, '23A': 63.4, '28A': 48.5, '23B': 46.9, '06A-III': 46.1}",1,93.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261885,"{'14': 94.1, '36': 25.9, '09L': 25.3, '09N': 24.7, '15B': 24.3}",1,94.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019456935,"{'15C': 93.9, '15B': 93.8, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235445,"{'29': 59.6, '35B': 37.6, '35F': 26.8, '33B': 23.1, '33D': 22.9}",1,59.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316705,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339225,"{'12F': 96.4, '44': 93.4, '12B': 93.3, '12A': 84.8, '46': 81.7}",1,96.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001136305,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299885,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337845,"{'19A-I': 99.2, '19A-II': 97.5, '19A': 87.8, '19A-III': 87.6, '19AF': 61.8}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001326615,"{'03': 95.2, '36': 16.8, '20': 15.6, '01': 14.2, '14': 14.2}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050765,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025365,"{'09N': 99.9, '09L': 88.8, '09A': 32.7, '09V': 32.7, '36': 31.9}",1,99.9,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194635,"{'21': 99.8, '22F': 35.8, '06A-IV': 33.6, '06A-II': 32.9, '06A-VI': 32.8}",1,99.8,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274985,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222505,"{'01': 99.0, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001113225,"{'03': 95.1, '09L': 15.1, '09N': 15.1, '20': 15.1, '01': 14.6}",1,95.1,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001158045,"{'14': 95.1, '36': 26.4, '09L': 25.4, '09N': 24.4, '15B': 24.3}",1,95.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900088875,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282255,"{'15A': 98.4, '15F': 73.6, '15C': 62.1, '15B': 62.0, '23F': 31.7}",1,98.4,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269485,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001125425,"{'16F': 99.7, '28F': 42.4, '19F-IV': 41.1, '18A': 40.8, '18F': 40.6}",1,99.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327025,"{'17F': 82.3, '06A-III': 42.9, '06B-I': 42.6, '06A-I': 42.0, '06B': 41.6}",1,82.3,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_016653535,"{'10A': 23.2, '10B': 17.3, '22F': 14.9, '35B': 13.9, '06B-I': 13.2}",1,23.2,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033825,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232725,"{'06A-II': 95.4, '06A-VI': 95.4, '06B-II': 88.3, '06A-III': 87.7, '06A-V': 87.5}",1,95.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 90.38]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032245,"{'04': 100.0, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,100.0,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028345,"{'04': 99.8, '45': 33.4, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272445,"{'04': 99.3, '45': 33.6, '12F': 23.4, '44': 23.2, '12A': 22.3}",1,99.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313355,"{'03': 97.0, '01': 17.8, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.0,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294715,"{'18C': 88.5, '18B': 88.4, '18F': 77.8, '18A': 61.5, '16F': 37.6}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251635,"{'03': 97.4, '01': 17.7, '20': 15.5, '09N': 15.3, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001133365,"{'23B1': 78.7, '23B': 66.6, '06B-III': 29.6, '06A-II': 28.6, '06A-VI': 28.5}",1,78.7,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268615,"{'15C': 94.9, '15B': 94.8, '15A': 60.7, '15F': 47.0, '23A': 34.7}",1,94.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001101425,"{'10F': 98.2, '10C': 80.9, '10B': 22.4, '10A': 19.2, '20': 14.1}",1,98.2,,10F,,,{},{},10F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001124845,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340595,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 32.7}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000412955,"{'45': 6.4, '20': 5.8, '25F': 5.8, '25A': 5.6, '01': 5.3}",3,6.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297235,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900459835,"{'11D': 99.4, '11A': 97.1, '11F': 41.9, '11C': 35.8, '11B': 34.5}",1,99.4,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168615,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.93]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252785,"{'05': 95.2, '45': 22.3, '36': 21.7, '20': 20.3, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001153625,"{'25F': 7.0, '25A': 6.8, '45': 6.7, '38': 4.8, '35B': 4.4}",2,7.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900058135,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229265,"{'22A': 94.2, '22F': 77.6, '06A-IV': 45.8, '06A-II': 44.1, '06B-I': 44.1}",1,94.2,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276095,"{'23F': 92.4, '23A': 61.1, '28A': 48.1, '23B': 46.6, '06A-IV': 46.6}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001126685,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250075,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.5, '46': 81.4}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337725,"{'03': 95.2, '01': 17.5, '09L': 15.5, '09N': 15.1, '14': 13.9}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900042965,"{'18C': 99.8, '18B': 99.7, '18F': 75.7, '18A': 62.3, '16F': 39.2}",1,99.8,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283955,"{'06C-I': 89.1, '06C': 89.0, '06D': 86.8, '06A-I': 77.9, '06B': 77.6}",1,89.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 94.1]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262275,"{'20': 84.7, '47F': 26.6, '35A': 24.9, '09L': 24.8, '09N': 23.8}",1,84.7,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585925,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276515,"{'14': 94.2, '36': 26.4, '09L': 25.5, '09N': 24.7, '15B': 24.3}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291345,"{'14': 91.8, '36': 27.9, '09L': 25.6, '09N': 24.5, '15B': 23.7}",1,91.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900039995,"{'23F': 99.2, '23A': 65.4, '23B': 49.0, '28A': 48.1, '06A-IV': 47.3}",1,99.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020139415,"{'15A': 94.5, '15F': 70.8, '15C': 58.1, '15B': 58.0, '23F': 27.7}",1,94.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340385,"{'14': 93.9, '36': 26.0, '09L': 25.3, '09N': 24.1, '15B': 24.0}",1,93.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001164365,"{'23F': 93.8, '23A': 63.4, '28A': 48.4, '23B': 47.0, '06A-III': 46.3}",1,93.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264395,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030645,"{'12F': 96.7, '44': 93.4, '12B': 92.7, '12A': 80.4, '46': 77.3}",1,96.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311325,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900088865,"{'15C': 93.9, '15B': 93.8, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001130385,"{'03': 94.7, '36': 17.1, '01': 16.9, '20': 15.9, '09N': 15.7}",1,94.7,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001120325,"{'23A': 97.4, '23F': 68.8, '23B': 40.1, '19F-II': 39.2, '15B': 38.8}",1,97.4,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265785,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900060585,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334215,"{'01': 98.6, '19F': 32.0, '19F-I': 31.5, '19F-III': 31.3, '19F-II': 31.0}",1,98.6,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001334415,"{'10A': 99.3, '10B': 67.0, '10C': 27.7, '10F': 18.1, '06B-I': 15.2}",1,99.3,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236655,"{'15C': 95.7, '15B': 95.5, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300895,"{'06A-III': 94.6, '06B-I': 93.2, '06A': 90.1, '06A-IV': 89.3, '06B-II': 89.2}",1,94.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299785,"{'13': 98.9, '09L': 28.8, '09N': 28.4, '20': 27.4, '14': 27.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265385,"{'06A-II': 95.6, '06A-VI': 95.6, '06B-II': 89.5, '06A-V': 89.1, '06A-III': 88.5}",1,95.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001128525,"{'14': 77.2, '15B': 32.7, '15C': 32.6, '36': 28.6, '09L': 24.8}",1,77.2,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229985,"{'38': 97.7, '25F': 84.4, '25A': 83.4, '36': 15.7, '01': 7.7}",1,97.7,25F_25A_38,25F_25A_38,,"[[0], [19]]","{'wcyD': ['b: 80.0'], 'wcyV': 100.0}","{'wcyD': 0, 'wcyV': 'detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340715,"{'29': 59.6, '35B': 37.8, '35F': 26.5, '22F': 23.4, '33B': 23.1}",1,59.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340215,"{'15A': 99.7, '15F': 74.1, '15C': 61.9, '15B': 61.8, '23F': 31.6}",1,99.7,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900692575,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214635,"{'05': 95.2, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246195,"{'08': 99.5, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.5,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001128005,"{'14': 94.6, '36': 25.8, '15B': 24.2, '15C': 24.1, '09L': 23.9}",1,94.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
PHESPD0080,"{'47F': 100.0, '35F': 81.7, '20': 24.6, '34': 22.8, '09L': 21.6}",1,100.0,,47F,,,{},{},47F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001348455,"{'36': 13.5, '20': 8.8, '23B1': 8.1, '06A-IV': 7.1, '01': 6.5}",1,13.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288835,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305585,"{'38': 97.7, '25F': 84.1, '25A': 83.1, '36': 13.1, '20': 7.5}",1,97.7,25F_25A_38,25F_25A_38,,"[[0], [19]]","{'wcyD': ['b: 80.0'], 'wcyV': 100.0}","{'wcyD': 0, 'wcyV': 'detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318105,"{'06A-V': 97.2, '06A-IV': 94.6, '06A': 94.1, '06B-II': 92.7, '06A-II': 89.9}",1,97.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001099445,"{'01': 5.1, '36': 5.0, '25F': 4.9, '45': 4.9, '20': 4.8}",1,5.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292085,"{'23B1': 100.0, '23B': 58.5, '19A-II': 36.2, '19A-I': 35.9, '19AF': 31.3}",1,100.0,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315455,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264005,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.6, '19A-III': 87.4, '19AF': 61.9}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338785,"{'12F': 96.4, '44': 93.4, '12B': 93.3, '12A': 84.8, '46': 81.7}",1,96.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001206015,"{'19B': 95.8, '19C': 70.1, '19F-II': 53.9, '19F-I': 53.1, '19F': 53.0}",1,95.8,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294315,"{'12F': 96.9, '44': 93.6, '12B': 92.9, '12A': 80.6, '46': 77.5}",1,96.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249185,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290785,"{'03': 95.2, '01': 17.5, '09L': 15.5, '09N': 15.1, '14': 13.9}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340235,"{'16F': 95.7, '19F-II': 42.6, '19F-IV': 42.6, '28F': 42.4, '19F': 41.6}",1,95.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316315,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000468275,"{'15A': 95.1, '15F': 71.4, '15C': 60.2, '15B': 60.1, '23F': 31.9}",1,95.1,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286995,"{'14': 96.8, '36': 25.0, '09L': 24.4, '15B': 23.7, '09N': 23.6}",1,96.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284855,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325625,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
PHESPD0033,"{'19C': 100.0, '19B': 82.4, '19F-IV': 51.0, '19F-II': 50.5, '19F': 49.6}",1,100.0,,19C,,,{},{},19C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302375,"{'11A': 99.7, '11D': 96.6, '11F': 40.0, '11C': 36.0, '11B': 34.5}",1,99.7,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901271005,"{'06B-I': 99.7, '06A-III': 97.6, '06B-II': 90.3, '06A': 89.8, '06A-V': 88.4}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229045,"{'14': 92.7, '36': 28.8, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224765,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '28F': 45.8}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332255,"{'15A': 98.2, '15F': 72.9, '15C': 61.6, '15B': 61.5, '23F': 32.2}",1,98.2,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325705,"{'16F': 71.9, '28F': 43.8, '28A': 41.0, '18F': 34.1, '18A': 34.0}",1,71.9,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270045,"{'15A': 93.1, '15F': 69.1, '15C': 57.0, '15B': 56.9, '23F': 30.1}",1,93.1,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232045,"{'31': 99.4, '41A': 56.9, '41F': 49.0, '06A-II': 36.2, '06A-VI': 36.2}",1,99.4,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277675,"{'08': 99.5, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.5,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001094365,"{'36': 11.2, '20': 6.8, '06A-IV': 6.8, '45': 5.8, '23B1': 5.4}",1,11.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001132985,"{'06C-I': 89.1, '06C': 89.0, '06D': 86.9, '06A-I': 77.7, '06B': 77.4}",1,89.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244405,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302165,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001095085,"{'35F': 99.0, '47F': 74.4, '34': 26.7, '35B': 25.8, '29': 22.5}",1,99.0,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302325,"{'01': 98.8, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,98.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244695,"{'06C': 84.8, '06C-I': 84.8, '06D': 84.4, '06A-I': 79.8, '06B': 79.7}",1,84.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 89.8']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000251985,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257935,"{'19A-II': 96.7, '19A-I': 95.7, '19A': 84.2, '19A-III': 84.0, '19AF': 62.0}",1,96.7,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248885,"{'04': 99.8, '45': 33.8, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341275,"{'46': 98.7, '12A': 96.4, '12B': 84.3, '44': 82.3, '12F': 82.1}",1,98.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[4]],"{'wciI': [1, 100.0]}",{'wciI': 1},12A/12B/44/46,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338465,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020255,"{'19A': 99.6, '19A-III': 99.4, '19A-I': 85.8, '19A-II': 83.3, '19AF': 57.0}",1,99.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001935995,"{'03': 95.5, '20': 16.9, '01': 16.7, '36': 16.0, '09N': 15.8}",1,95.5,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001122145,"{'10B': 99.5, '10A': 65.3, '10F': 20.1, '10C': 18.8, '35B': 12.6}",1,99.5,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340195,"{'12F': 96.9, '44': 93.6, '12B': 92.9, '12A': 80.6, '46': 77.5}",1,96.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217805,"{'19F': 94.8, '19F-I': 94.3, '19F-III': 93.2, '19F-II': 91.9, '19F-IV': 88.2}",1,94.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288345,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249765,"{'06A-II': 85.6, '06A-VI': 85.6, '06A-III': 85.5, '06A-V': 84.9, '06B-I': 84.1}",1,85.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001125045,"{'06E': 100.0, '06B-III': 97.6, '06B-I': 44.9, '06A-III': 44.4, '06B-II': 43.8}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001343115,"{'46': 98.7, '12A': 96.4, '12B': 84.3, '44': 82.3, '12F': 82.1}",1,98.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[4]],"{'wciI': [1, 100.0]}",{'wciI': 1},12A/12B/44/46,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229855,"{'23F': 96.7, '23A': 63.8, '06A-IV': 50.8, '23B': 50.3, '06B-II': 48.5}",1,96.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298795,"{'01': 99.3, '19F': 32.2, '19F-I': 31.7, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289235,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225665,"{'35B': 92.5, '34': 33.8, '33F': 33.4, '35C': 32.4, '33D': 32.1}",1,92.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296485,"{'25F': 95.4, '25A': 94.6, '38': 80.8, '36': 8.5, '20': 7.8}",1,95.4,25F_25A_38,25F_25A_38,,"[[8], [18]]","{'wcyD': ['a', 100.0], 'wcyV': 0.12}","{'wcyD': 'a', 'wcyV': 'not_detected'}",25F/25A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237345,"{'33D': 80.6, '33B': 76.6, '06A-I': 36.6, '06B': 36.0, '35B': 36.0}",1,80.6,,"Mixed serotypes- {'33B', '33D'}",,,{},{},"Mixed serotypes- {'33B', '33D'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001091705,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319075,"{'14': 99.8, '09L': 27.0, '36': 25.9, '09N': 24.8, '15B': 24.1}",1,99.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001141145,"{'33C': 98.7, '34': 29.9, '35B': 26.2, '33F2': 23.8, '33F': 23.0}",1,98.7,,33C,,,{},{},33C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286375,"{'06B-III': 91.9, '06E': 91.6, '06B-I': 57.4, '06A-III': 56.1, '06A-II': 51.8}",1,91.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000278765,"{'23F': 97.0, '23A': 63.9, '23B': 48.0, '28A': 47.7, '28F': 46.0}",1,97.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326115,"{'14': 92.6, '36': 29.0, '09L': 25.9, '09N': 24.7, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001212165,"{'01': 6.6, '25F': 5.7, '45': 5.7, '25A': 5.5, '22F': 5.1}",2,6.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020835,"{'03': 95.3, '20': 17.6, '01': 17.2, '36': 16.3, '09L': 16.1}",1,95.3,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280405,"{'14': 91.0, '19F-IV': 25.9, '36': 25.4, '09L': 25.0, '09N': 24.7}",1,91.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023285,"{'09A': 99.4, '09V': 99.2, '09N': 38.7, '09L': 36.8, '11F': 26.3}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001194785,"{'36': 12.3, '20': 8.0, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",2,12.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252225,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272165,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241815,"{'23B': 88.7, '23B1': 62.4, '23F': 38.7, '06A-IV': 33.9, '23A': 33.2}",1,88.7,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030575,"{'19A-II': 100.0, '19A-I': 96.6, '19A': 85.0, '19A-III': 84.8, '19AF': 62.1}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900059865,"{'03': 95.2, '36': 17.4, '01': 16.6, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294935,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320845,"{'35A': 92.3, '35C': 89.9, '42': 89.3, '33A': 45.0, '33F': 44.4}",1,92.3,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274485,"{'29': 59.6, '35B': 37.4, '35F': 26.8, '22F': 23.1, '33B': 23.1}",1,59.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337495,"{'28F': 98.2, '28A': 91.8, '23F': 47.5, '16F': 46.0, '06B-I': 42.5}",1,98.2,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900040065,"{'22F': 99.1, '22A': 73.4, '06A-IV': 43.5, '06A': 42.6, '06B': 42.1}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
PHESPD0217,"{'41F': 94.4, '41A': 70.1, '31': 48.0, '17A': 44.8, '22F': 44.1}",1,94.4,,41F,,,{},{},41F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297825,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171995,"{'14': 92.5, '36': 28.2, '09L': 25.5, '09N': 24.5, '15B': 24.2}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001170445,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001328975,"{'19F-I': 74.1, '19F': 73.5, '19F-III': 73.1, '19F-II': 70.7, '19F-IV': 67.1}",1,74.1,,19F,,,{},{},19F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347455,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027205,"{'14': 99.9, '09L': 27.5, '36': 26.0, '09N': 24.7, '15B': 24.3}",1,99.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192635,"{'23B': 99.5, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.8}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327525,"{'18A': 100.0, '18B': 54.0, '18C': 54.0, '18F': 53.7, '19F-IV': 37.3}",1,100.0,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328565,"{'01': 99.3, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264555,"{'35B': 98.9, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,98.9,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215555,"{'06E': 100.0, '06B-III': 99.3, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289335,"{'06E': 99.4, '06B-III': 99.1, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.3}",1,99.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310495,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315895,"{'03': 95.7, '20': 17.9, '01': 17.8, '09L': 16.4, '36': 16.4}",1,95.7,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_003609935,"{'19F-I': 95.3, '19F': 95.1, '19F-III': 93.5, '19F-II': 92.2, '19F-IV': 88.2}",1,95.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230815,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001107305,"{'06A': 100.0, '06A-IV': 99.6, '06B-II': 95.4, '06A-V': 93.7, '06A-III': 91.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229345,"{'34': 90.3, '33F2': 35.5, '35B': 34.9, '33F': 32.1, '33C': 31.6}",1,90.3,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326055,"{'02': 93.2, '22F': 40.3, '06B-I': 39.0, '06A-III': 38.9, '06A-II': 38.7}",1,93.2,,2,,,{},{},2,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398165,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329905,"{'14': 95.0, '36': 26.4, '09L': 25.5, '09N': 24.4, '15B': 24.3}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001094825,"{'13': 98.9, '09L': 28.2, '20': 28.0, '09N': 27.7, '14': 26.7}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248125,"{'14': 92.6, '09L': 22.6, '09N': 21.5, '15B': 20.8, '15C': 20.7}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001910185,"{'03': 94.8, '36': 17.3, '01': 15.9, '20': 15.9, '09N': 15.5}",1,94.8,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001697045,"{'22F': 96.4, '22A': 73.4, '06A': 42.6, '06A-II': 42.3, '06A-VI': 42.2}",1,96.4,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001119465,"{'19F': 100.0, '19F-III': 97.5, '19F-I': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,100.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298255,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270035,"{'13': 98.9, '09N': 29.0, '09L': 28.7, '20': 28.7, '36': 28.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304155,"{'05': 95.0, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222985,"{'35F': 90.2, '47F': 67.9, '35B': 27.4, '34': 25.3, '29': 23.7}",1,90.2,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285115,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001134705,"{'20': 5.5, '45': 4.9, '22F': 4.8, '01': 4.1, '25A': 4.1}",1,5.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001198615,"{'20': 5.2, '45': 4.9, '25F': 4.6, '25A': 4.5, '22F': 4.1}",1,5.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001092525,"{'06C-I': 88.9, '06C': 88.8, '06D': 86.8, '06A-I': 77.9, '06B': 77.6}",1,88.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 94.1]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001119425,"{'36': 10.7, '20': 5.9, '06B-I': 5.5, '06C': 5.4, '06C-I': 5.4}",1,10.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028905,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001403995,"{'23F': 94.5, '23A': 63.5, '06A-IV': 53.2, '06B-II': 51.6, '23B': 50.8}",1,94.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259315,"{'09A': 99.4, '09V': 99.2, '09N': 38.6, '09L': 36.8, '11F': 26.6}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243985,"{'14': 93.6, '36': 25.7, '09L': 25.0, '09N': 24.4, '15B': 23.8}",1,93.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001301715,"{'07A': 99.5, '07F': 99.3, '19F-II': 36.7, '19F-IV': 36.1, '19F': 35.2}",1,99.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315945,"{'06E': 95.1, '06B-III': 95.1, '06A-III': 50.7, '06B-I': 50.7, '06A-II': 49.7}",1,95.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293145,"{'10A': 98.9, '10B': 66.5, '10C': 27.7, '10F': 18.1, '22F': 15.5}",1,98.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292725,"{'07A': 99.6, '07F': 99.4, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.6,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315555,"{'18A': 100.0, '18B': 54.0, '18C': 54.0, '18F': 53.7, '19F-IV': 37.3}",1,100.0,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261065,"{'22F': 98.9, '22A': 73.2, '06A': 42.4, '06B': 41.9, '06A-I': 41.6}",1,98.9,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333585,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255185,"{'35F': 99.5, '47F': 74.8, '34': 26.7, '35B': 26.5, '29': 22.5}",1,99.5,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313635,"{'06E': 99.8, '06B-III': 95.7, '06B-I': 43.6, '06A-III': 43.1, '06A-I': 42.4}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259305,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219805,"{'12F': 95.9, '12B': 93.3, '44': 92.9, '12A': 84.8, '46': 81.7}",1,95.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265025,"{'23F': 96.7, '23A': 63.7, '23B': 47.8, '28A': 47.4, '06B-II': 45.8}",1,96.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265415,"{'15A': 98.3, '15F': 72.9, '15C': 61.6, '15B': 61.5, '23F': 32.2}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300865,"{'13': 83.3, '36': 28.9, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001086165,"{'07A': 99.5, '07F': 99.3, '19F-II': 36.7, '19F-IV': 36.1, '19F': 35.2}",1,99.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171555,"{'14': 92.5, '36': 29.0, '09L': 25.2, '09N': 24.5, '15B': 24.2}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313585,"{'06C': 86.9, '06C-I': 86.9, '06D': 84.7, '06A': 76.8, '06B-I': 74.1}",1,86.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029445,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001114465,"{'15A': 98.5, '15F': 73.7, '15C': 62.0, '15B': 61.9, '23F': 31.9}",1,98.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265245,"{'05': 95.3, '45': 22.3, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002081205,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227195,"{'10A': 94.2, '10B': 64.8, '10C': 29.3, '10F': 19.7, '47A': 16.8}",1,94.2,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321415,"{'09N': 97.7, '09L': 87.5, '09A': 32.6, '09V': 32.6, '36': 31.3}",1,97.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189605,"{'23F': 99.3, '23A': 65.5, '23B': 49.1, '28A': 48.2, '06A-IV': 47.1}",1,99.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398425,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281725,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334115,"{'14': 92.8, '36': 27.3, '09L': 25.8, '09N': 25.5, '15B': 24.3}",1,92.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001343375,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328755,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301175,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243175,"{'06A-II': 95.5, '06A-VI': 95.5, '06B-II': 89.3, '06A-V': 88.9, '06A-III': 88.4}",1,95.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001090705,"{'06E': 99.9, '06B-III': 94.9, '06A-I': 42.6, '06B-I': 42.4, '06B': 42.2}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002889955,"{'23F': 94.6, '23A': 63.7, '28A': 47.7, '23B': 47.0, '06A': 46.4}",1,94.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001169685,"{'48': 98.6, '24A': 46.7, '24B': 39.3, '24F': 38.9, '24F2': 37.3}",1,98.6,,48,,,{},{},48,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234445,"{'18C': 99.5, '18B': 99.4, '18F': 76.0, '18A': 62.9, '16F': 39.5}",1,99.5,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001139105,"{'45': 6.6, '25F': 6.3, '25A': 6.1, '38': 4.5, '35B': 4.1}",2,6.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315755,"{'23B': 88.1, '23B1': 61.3, '23F': 38.5, '28A': 33.3, '23A': 33.0}",1,88.1,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277355,"{'35F': 99.2, '47F': 74.5, '34': 27.1, '35B': 26.5, '36': 24.1}",1,99.2,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254275,"{'15C': 95.3, '15B': 95.2, '15A': 60.8, '15F': 47.3, '23A': 34.0}",1,95.3,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001150205,"{'06E': 100.0, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245705,"{'08': 99.7, '06A-II': 24.6, '06A-VI': 24.5, '02': 24.3, '06B-II': 24.0}",1,99.7,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254505,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900062055,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266595,"{'06E': 78.9, '06B-III': 75.8, '06A-IV': 30.8, '06A-V': 30.7, '06A-III': 30.6}",1,78.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001129565,"{'16F': 91.2, '28F': 37.1, '18F': 34.5, '28A': 34.5, '19F-IV': 34.3}",1,91.2,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001164565,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244085,"{'03': 94.9, '01': 17.9, '20': 16.8, '09N': 15.8, '36': 15.6}",1,94.9,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218115,"{'19AF': 97.1, '19A-II': 61.5, '19A-I': 60.9, '19A': 52.1, '19A-III': 51.9}",1,97.1,19A_19AF,19A_19AF,,[[7]],"{'wzy': [2, 92.87]}",{'wzy': 2},19A_19AF,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292535,"{'14': 92.8, '36': 30.1, '09L': 25.8, '09N': 24.7, '15B': 24.3}",1,92.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267995,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231885,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398225,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002081295,"{'06A-II': 88.0, '06A-VI': 88.0, '06A': 87.1, '06A-III': 86.7, '06A-V': 86.4}",1,88.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001093605,"{'36': 11.1, '06A-IV': 7.7, '20': 6.9, '06C': 6.4, '06B-I': 6.4}",1,11.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261805,"{'03': 75.1, '20': 7.9, '01': 7.1, '36': 7.1, '22F': 6.8}",1,75.1,,3,,,{},{},3,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299755,"{'03': 95.2, '36': 17.4, '01': 16.8, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047975,"{'24F2': 99.7, '24B': 88.5, '24F': 87.0, '24A': 71.0, '07B': 56.8}",1,99.7,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338175,"{'23F': 94.5, '23A': 63.5, '06A-IV': 53.2, '06B-II': 51.6, '23B': 50.8}",1,94.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247245,"{'23F': 96.7, '23A': 63.9, '23B': 47.9, '28A': 47.5, '28F': 45.8}",1,96.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260455,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276175,"{'06A-I': 99.2, '06B': 94.9, '06A': 87.7, '06A-V': 86.7, '06A-III': 82.9}",1,99.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025375,"{'03': 94.9, '01': 17.1, '36': 17.1, '20': 15.9, '09N': 15.8}",1,94.9,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266765,"{'01': 99.1, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236855,"{'03': 97.4, '01': 17.9, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023175,"{'19A-II': 100.0, '19A-I': 96.6, '19A': 85.0, '19A-III': 84.8, '19AF': 62.1}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261525,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222535,"{'07B': 99.9, '40': 92.9, '07C': 77.2, '24F2': 48.1, '24F': 47.7}",1,99.9,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230605,"{'08': 99.6, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.6,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050965,"{'06A': 94.2, '06A-III': 93.3, '06A-V': 92.8, '06B-I': 92.0, '06B-II': 91.8}",1,94.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251605,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277755,"{'14': 91.4, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.3}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269255,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021305,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290725,"{'14': 93.4, '36': 27.3, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309525,"{'14': 92.3, '36': 28.8, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272745,"{'15A': 98.1, '15F': 73.5, '15C': 62.1, '15B': 62.0, '23F': 31.7}",1,98.1,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001301755,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308705,"{'23A': 94.8, '23F': 67.7, '23B': 42.9, '19F-II': 40.0, '15B': 39.1}",1,94.8,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231895,"{'20': 81.9, '47F': 25.8, '35A': 24.6, '09L': 24.4, '36': 24.1}",1,81.9,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253585,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334815,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900459585,"{'06E': 99.5, '06B-III': 99.2, '06B-I': 46.8, '06A-III': 46.6, '06A-II': 45.6}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214825,"{'06A-II': 95.5, '06A-VI': 95.5, '06B-II': 89.5, '06A-V': 89.1, '06A-III': 88.4}",1,95.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047815,"{'18C': 99.7, '18B': 99.6, '18F': 75.6, '18A': 62.4, '16F': 39.2}",1,99.7,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333145,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001329775,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258965,"{'14': 91.3, '19F-IV': 25.9, '09L': 25.2, '36': 25.0, '09N': 24.7}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_003492495,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001136405,"{'36': 10.3, '06A-IV': 6.7, '01': 6.5, '45': 6.2, '20': 5.6}",1,10.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296775,"{'01': 99.3, '19F': 32.2, '19F-I': 31.7, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001127625,"{'23B1': 87.0, '23B': 56.6, '19A-II': 36.4, '19A-I': 35.8, '19AF': 32.1}",1,87.0,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001142185,"{'23B1': 98.8, '23B': 55.9, '19A-II': 36.0, '19A-I': 35.7, '19AF': 31.5}",1,98.8,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300965,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263605,"{'01': 99.2, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001200235,"{'19B': 91.7, '19C': 70.5, '19F-II': 49.3, '19F-IV': 49.3, '19F-I': 48.5}",1,91.7,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250685,"{'34': 98.7, '33F2': 35.2, '35B': 33.5, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280645,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214625,"{'19F-I': 97.7, '19F': 97.0, '19F-III': 96.5, '19F-II': 95.0, '19F-IV': 90.1}",1,97.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309295,"{'19F-I': 97.9, '19F': 97.4, '19F-III': 96.7, '19F-II': 95.4, '19F-IV': 90.5}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220595,"{'15A': 98.5, '15F': 73.7, '15C': 62.0, '15B': 61.9, '23F': 31.8}",1,98.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254945,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247705,"{'14': 99.8, '09L': 27.2, '36': 26.0, '09N': 25.0, '15B': 24.3}",1,99.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001202475,"{'03': 95.2, '36': 17.0, '20': 15.7, '01': 14.6, '14': 14.1}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290355,"{'39': 96.3, '29': 27.5, '43': 19.3, '33C': 18.9, '34': 18.7}",1,96.3,,39,,,{},{},39,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220755,"{'03': 75.1, '20': 7.9, '36': 7.1, '01': 7.0, '22F': 6.8}",1,75.1,,3,,,{},{},3,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001149805,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315695,"{'09A': 95.9, '09V': 95.7, '09N': 38.8, '09L': 37.4, '11F': 26.6}",1,95.9,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298725,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292105,"{'03': 95.2, '01': 17.5, '09L': 15.5, '09N': 15.1, '14': 13.9}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330525,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900476465,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001150045,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311975,"{'06A-III': 88.9, '06B-I': 87.8, '06A-II': 87.4, '06A-VI': 87.4, '06A-V': 87.3}",1,88.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288015,"{'21': 100.0, '22F': 36.1, '06A-IV': 33.6, '06A-II': 32.9, '06A-VI': 32.8}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023515,"{'09N': 99.9, '09L': 88.9, '09A': 32.7, '09V': 32.7, '36': 31.9}",1,99.9,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247605,"{'17F': 82.5, '06A-III': 43.7, '06B-I': 43.7, '06C': 42.9, '06C-I': 42.9}",1,82.5,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001164025,"{'09A': 95.9, '09V': 95.7, '09N': 37.4, '09L': 36.5, '11F': 26.7}",1,95.9,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241765,"{'23F': 95.7, '23A': 62.6, '28A': 48.3, '23B': 47.5, '28F': 46.6}",1,95.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001118525,"{'34': 92.9, '33F2': 34.7, '35B': 31.8, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018545,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055545,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227815,"{'06C-I': 100.0, '06C': 99.8, '06D': 84.6, '06A-II': 79.6, '06A-VI': 79.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256715,"{'05': 95.0, '45': 22.4, '36': 21.6, '20': 20.4, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051135,"{'19F': 96.6, '19F-III': 96.4, '19F-I': 95.9, '19F-II': 92.8, '19F-IV': 88.5}",1,96.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333225,"{'15C': 87.9, '15B': 87.7, '15A': 64.6, '15F': 50.0, '23A': 30.2}",1,87.9,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001170225,"{'23A': 99.2, '23F': 67.3, '23B': 43.6, '19F-II': 37.4, '19F-IV': 37.0}",1,99.2,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001156305,"{'36': 10.6, '06A-IV': 7.1, '06B-I': 5.9, '06C': 5.8, '06C-I': 5.8}",1,10.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020755,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279575,"{'15C': 95.7, '15B': 95.6, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337325,"{'03': 95.2, '01': 17.5, '09L': 15.5, '09N': 15.1, '14': 13.9}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218875,"{'06C-I': 87.9, '06C': 87.8, '06D': 87.2, '06A-I': 78.0, '06B': 77.7}",1,87.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333345,"{'09A': 99.4, '09V': 99.2, '09N': 38.6, '09L': 36.6, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900089065,"{'19A': 99.9, '19A-III': 99.7, '19A-I': 86.1, '19A-II': 83.6, '19AF': 57.2}",1,99.9,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283865,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170055,"{'14': 92.7, '36': 28.2, '09L': 24.5, '15B': 24.2, '15C': 24.1}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247765,"{'01': 99.0, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290385,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001150425,"{'03': 95.2, '36': 17.0, '01': 16.9, '09N': 15.8, '20': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347215,"{'14': 93.9, '36': 24.8, '09L': 24.2, '15B': 23.4, '09N': 23.3}",1,93.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230305,"{'01': 99.1, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335515,"{'06A': 90.4, '06A-III': 89.3, '06A-II': 89.2, '06A-VI': 89.2, '06B-II': 89.2}",1,90.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221605,"{'14': 94.9, '36': 27.6, '09L': 25.3, '09N': 24.3, '15B': 24.1}",1,94.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289935,"{'35B': 99.4, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329525,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214215,"{'11A': 97.7, '11D': 95.3, '11F': 39.3, '11C': 36.5, '11B': 35.0}",1,97.7,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304685,"{'16F': 95.4, '28F': 41.8, '18F': 41.6, '28A': 40.1, '18A': 39.9}",1,95.4,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285225,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277695,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298995,"{'01': 99.3, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297025,"{'10A': 97.2, '10B': 66.3, '10C': 27.2, '10F': 17.8, '22F': 14.7}",1,97.2,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298845,"{'11A': 99.8, '11D': 96.7, '11F': 40.0, '11C': 36.0, '11B': 34.5}",1,99.8,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001113405,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001999365,"{'05': 100.0, '45': 22.0, '04': 20.2, '36': 18.0, '20': 17.3}",1,100.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285945,"{'06A': 92.4, '06A-V': 90.2, '06B-II': 88.8, '06A-III': 88.6, '06A-IV': 87.3}",1,92.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001200575,"{'15C': 95.2, '15B': 95.1, '15A': 60.9, '15F': 47.3, '23A': 34.5}",1,95.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001092825,"{'33B': 89.8, '33D': 89.7, '35B': 33.8, '33F2': 30.3, '22F': 26.4}",1,89.8,,"Mixed serotypes- {'33B', '33D'}",,,{},{},"Mixed serotypes- {'33B', '33D'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001133425,"{'01': 6.9, '45': 6.4, '25F': 5.6, '36': 5.6, '20': 5.4}",2,6.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319165,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019446845,"{'20': 5.5, '01': 4.2, '45': 4.2, '25A': 3.5, '25F': 3.5}",1,5.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283295,"{'01': 99.1, '19F': 32.0, '19F-I': 31.5, '19F-III': 31.3, '19F-II': 31.0}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167515,"{'14': 93.0, '36': 27.1, '09L': 25.1, '15B': 24.3, '15C': 24.2}",1,93.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171155,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001119525,"{'11F': 61.8, '11D': 38.4, '11A': 36.8, '09V': 25.4, '09A': 25.3}",1,61.8,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001165345,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 89.5, '06A': 87.7, '06A-III': 86.0}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265215,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226905,"{'23F': 91.3, '23A': 59.9, '06A-IV': 46.9, '28A': 46.8, '23B': 46.2}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240805,"{'09A': 99.2, '09V': 99.0, '09N': 38.0, '09L': 36.8, '11F': 27.1}",1,99.2,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296465,"{'05': 95.0, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_902652905,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273955,"{'06A-II': 85.8, '06A-VI': 85.8, '06A-III': 85.6, '06A-V': 85.3, '06B-I': 84.2}",1,85.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322945,"{'38': 98.8, '25F': 84.4, '25A': 83.4, '36': 11.1, '01': 7.8}",1,98.8,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001113305,"{'01': 6.6, '36': 6.5, '06A-IV': 6.2, '20': 6.1, '45': 6.1}",2,6.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232585,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241985,"{'04': 99.2, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312015,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300875,"{'09N': 99.8, '09L': 88.8, '09A': 32.7, '09V': 32.7, '36': 29.3}",1,99.8,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249855,"{'18A': 100.0, '18B': 54.0, '18C': 54.0, '18F': 53.7, '19F-IV': 37.3}",1,100.0,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247915,"{'06B-I': 77.4, '06A-III': 75.2, '06B-II': 68.0, '06C': 67.1, '06A-V': 67.1}",1,77.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 0.44']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017005,"{'07A': 99.6, '07F': 99.4, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.6,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001163805,"{'10B': 91.4, '10A': 73.4, '10F': 20.1, '10C': 18.8, '22F': 14.0}",1,91.4,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320115,"{'04': 99.8, '45': 33.8, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268245,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054065,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310825,"{'35B': 99.4, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194955,"{'10A': 93.9, '10B': 64.7, '10C': 29.0, '10F': 19.4, '47A': 16.3}",1,93.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293515,"{'03': 95.2, '01': 17.6, '36': 17.3, '20': 15.9, '09N': 15.6}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220785,"{'23F': 94.1, '23A': 63.4, '28A': 47.7, '23B': 47.1, '06A': 46.9}",1,94.1,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248055,"{'06A-II': 85.6, '06A-VI': 85.6, '06A-III': 85.5, '06A-V': 84.9, '06B-I': 84.1}",1,85.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337405,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278125,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237725,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312565,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302415,"{'06E': 99.5, '06B-III': 99.1, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024045,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270855,"{'01': 99.2, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266085,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001142765,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269575,"{'17F': 99.6, '06B': 44.3, '06B-I': 44.1, '06A-III': 44.0, '06D': 43.7}",1,99.6,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024775,"{'09N': 99.7, '09L': 88.8, '09A': 32.7, '09V': 32.7, '36': 32.3}",1,99.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299895,"{'13': 83.3, '36': 28.9, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001091405,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338695,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190125,"{'22F': 94.0, '22A': 70.2, '06A-II': 44.8, '06A-VI': 44.7, '06B-I': 44.7}",1,94.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309055,"{'18C': 99.7, '18B': 99.6, '18F': 75.6, '18A': 62.4, '16F': 39.2}",1,99.7,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217595,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001087085,"{'18C': 97.4, '18B': 97.3, '18F': 75.5, '18A': 61.8, '16F': 38.8}",1,97.4,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239655,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000251765,"{'19A': 93.4, '19A-III': 93.2, '19A-II': 81.8, '19A-I': 80.0, '19AF': 55.9}",1,93.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001099845,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309965,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331845,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318035,"{'20': 78.9, '47F': 28.0, '09L': 25.8, '13': 25.2, '09N': 25.1}",1,78.9,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001135985,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001910075,"{'03': 95.2, '36': 17.1, '01': 16.4, '20': 15.7, '09N': 15.6}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323385,"{'19F-I': 97.5, '19F': 96.8, '19F-III': 96.4, '19F-II': 94.8, '19F-IV': 89.9}",1,97.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219675,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001205375,"{'45': 6.8, '20': 5.7, '25F': 5.7, '25A': 5.5, '36': 5.2}",3,6.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310555,"{'18C': 88.4, '18B': 88.3, '18F': 77.7, '18A': 61.9, '16F': 37.8}",1,88.4,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030545,"{'09N': 99.8, '09L': 89.0, '09A': 32.7, '09V': 32.7, '36': 31.7}",1,99.8,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193675,"{'23B': 99.5, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.8}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282865,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055385,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318415,"{'18C': 88.4, '18B': 88.3, '18F': 77.7, '18A': 61.9, '16F': 37.8}",1,88.4,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190285,"{'06B-I': 99.3, '06A-III': 97.1, '06B-II': 89.7, '06A': 89.5, '06A-V': 87.8}",1,99.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288895,"{'06C-I': 89.1, '06C': 89.0, '06D': 86.9, '06A-I': 77.7, '06B': 77.4}",1,89.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341875,"{'06A-II': 95.1, '06A-VI': 95.1, '06B-II': 89.0, '06A-V': 88.6, '06A-III': 87.9}",1,95.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001109005,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001169025,"{'09N': 99.9, '09L': 89.0, '09A': 32.7, '09V': 32.7, '36': 32.4}",1,99.9,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240975,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001096145,"{'36': 9.3, '06A-IV': 8.9, '06B-I': 7.8, '20': 7.6, '06C': 7.5}",1,9.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191535,"{'15C': 93.9, '15B': 93.8, '15A': 62.1, '15F': 48.6, '23A': 32.9}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218045,"{'06E': 99.5, '06B-III': 98.8, '06B-I': 46.1, '06A-III': 45.8, '06A-IV': 45.2}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 96.61]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242375,"{'04': 99.7, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001142465,"{'01': 5.2, '45': 4.2, '25A': 3.3, '25F': 3.3, '20': 3.1}",2,5.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298975,"{'10A': 96.9, '10B': 65.8, '10C': 27.8, '10F': 18.2, '22F': 16.9}",1,96.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027615,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.4}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297365,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312535,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306365,"{'19A': 99.5, '19A-III': 99.3, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214835,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001193875,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001120945,"{'33B': 89.8, '33D': 89.7, '35B': 34.0, '33F2': 30.3, '22F': 27.9}",1,89.8,,"Mixed serotypes- {'33B', '33D'}",,,{},{},"Mixed serotypes- {'33B', '33D'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218225,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020725,"{'03': 95.2, '36': 17.1, '01': 16.1, '20': 15.9, '09N': 15.5}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_003967155,"{'12F': 96.1, '44': 93.0, '12B': 92.7, '12A': 85.1, '46': 82.0}",1,96.1,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311375,"{'06E': 99.4, '06B-III': 99.0, '06B-I': 46.6, '06A-III': 46.1, '06A-II': 45.1}",1,99.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278615,"{'09A': 93.0, '09V': 92.8, '09N': 39.6, '09L': 38.3, '08': 24.4}",1,93.0,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280795,"{'22A': 93.6, '22F': 77.3, '06A-II': 44.4, '06A-VI': 44.3, '06B-I': 43.9}",1,93.6,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297355,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234235,"{'07C': 98.5, '07B': 76.7, '40': 76.1, '24B': 48.6, '24F': 48.3}",1,98.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346595,"{'06E': 100.0, '06B-III': 97.6, '06B-I': 44.9, '06A-III': 44.4, '06B-II': 43.8}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286465,"{'06A-I': 98.1, '06B': 96.0, '06A-V': 89.6, '06A': 87.5, '06B-II': 86.4}",1,98.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234815,"{'19F-III': 99.3, '19F': 97.6, '19F-I': 96.9, '19F-II': 94.7, '19F-IV': 89.4}",1,99.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001140165,"{'25F': 6.9, '36': 6.9, '25A': 6.7, '45': 6.7, '01': 6.4}",2,6.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250595,"{'35F': 99.5, '47F': 74.8, '34': 26.7, '35B': 26.4, '29': 22.5}",1,99.5,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001083025,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '06A-IV': 48.5, '23B': 47.8}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311475,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900088715,"{'19A': 99.8, '19A-III': 99.6, '19A-I': 86.0, '19A-II': 83.5, '19AF': 57.0}",1,99.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001202755,"{'14': 89.8, '36': 29.2, '09L': 23.2, '09N': 22.2, '19F-II': 22.2}",1,89.8,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247545,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312175,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001146865,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001097965,"{'37': 98.8, '33F': 77.0, '33A': 75.7, '33F2': 70.6, '35B': 30.9}",1,98.8,,37,,,{},{},37,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001138865,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305005,"{'14': 92.7, '36': 28.8, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291015,"{'23F': 97.0, '23A': 63.9, '28A': 47.7, '28F': 46.0, '06A': 45.0}",1,97.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273545,"{'34': 98.7, '33F2': 35.2, '35B': 33.5, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332115,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232695,"{'06A-II': 85.5, '06A-VI': 85.5, '06A-III': 85.4, '06A-V': 84.9, '06B-I': 84.0}",1,85.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326215,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340485,"{'34': 93.0, '33F2': 34.7, '35B': 32.3, '33F': 29.0, '33C': 28.0}",1,93.0,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047915,"{'04': 99.8, '45': 33.4, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243835,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029515,"{'09A': 99.7, '09V': 99.5, '09N': 38.1, '09L': 36.7, '35B': 26.7}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216655,"{'33A': 100.0, '33F': 100.0, '33F2': 70.9, '35C': 43.0, '42': 42.0}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240105,"{'14': 92.6, '36': 26.8, '09L': 25.5, '09N': 24.7, '15B': 24.1}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001345635,"{'20': 85.9, '36': 27.3, '13': 25.6, '09L': 24.6, '47F': 24.6}",1,85.9,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303265,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275005,"{'19A-II': 99.0, '19A-I': 97.1, '19A': 85.7, '19A-III': 85.5, '19AF': 62.0}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022825,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239005,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029745,"{'08': 99.7, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.7,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252325,"{'38': 98.8, '25F': 84.4, '25A': 83.4, '36': 11.8, '20': 8.2}",1,98.8,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342915,"{'23F': 95.9, '23A': 64.5, '23B': 47.8, '28A': 46.9, '28F': 46.2}",1,95.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314185,"{'09N': 97.2, '09L': 87.4, '09A': 32.5, '09V': 32.5, '36': 31.3}",1,97.2,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292835,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279585,"{'34': 92.9, '33F2': 34.5, '35B': 31.9, '33F': 28.9, '33C': 27.9}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335555,"{'15C': 93.9, '15B': 93.8, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279635,"{'06A-II': 95.5, '06A-VI': 95.5, '06B-II': 89.5, '06A-V': 89.1, '06A-III': 88.4}",1,95.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293105,"{'16F': 71.4, '28F': 43.1, '28A': 40.6, '18F': 33.6, '18A': 32.9}",1,71.4,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001174185,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001156945,"{'10B': 99.5, '10A': 65.3, '10F': 20.1, '10C': 18.8, '22F': 13.1}",1,99.5,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266985,"{'05': 95.0, '45': 22.5, '36': 21.8, '20': 20.4, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030505,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279785,"{'14': 95.1, '36': 28.7, '09L': 25.4, '09N': 24.8, '15B': 24.3}",1,95.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250315,"{'36': 10.2, '45': 7.3, '01': 6.8, '23B1': 6.5, '20': 6.3}",1,10.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900064645,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900064855,"{'23B': 99.5, '23B1': 64.6, '23F': 45.7, '23A': 39.9, '06A-IV': 36.6}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001101605,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331775,"{'05': 95.1, '45': 22.4, '36': 21.8, '20': 20.4, '12A': 19.8}",1,95.1,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293575,"{'09N': 99.9, '09L': 89.0, '09A': 32.7, '09V': 32.7, '36': 32.3}",1,99.9,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001166785,"{'36': 12.5, '20': 7.9, '06A-IV': 7.2, '06C': 5.8, '06B-I': 5.8}",2,12.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019397305,"{'19F': 95.7, '19F-I': 95.7, '19F-III': 94.2, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284185,"{'21': 99.9, '22F': 36.0, '06A': 29.9, '06B': 29.9, '06A-I': 29.9}",1,99.9,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900040665,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311815,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001135945,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290325,"{'03': 95.2, '36': 17.4, '01': 16.8, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263195,"{'14': 91.3, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017015,"{'23B': 99.6, '23B1': 64.7, '23F': 45.8, '23A': 40.0, '06A-IV': 36.9}",1,99.6,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313885,"{'03': 94.6, '01': 17.9, '36': 17.2, '09N': 15.9, '20': 15.8}",1,94.6,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168345,"{'09A': 99.7, '09V': 99.5, '09N': 38.2, '09L': 36.8, '06A-IV': 27.4}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222405,"{'10A': 94.2, '10B': 64.8, '10C': 29.2, '10F': 19.6, '47A': 16.7}",1,94.2,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001171325,"{'23F': 93.9, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,93.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251035,"{'23F': 96.7, '23A': 63.8, '06A-IV': 50.7, '23B': 50.2, '06B-II': 48.4}",1,96.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319615,"{'15C': 87.3, '15B': 87.2, '15A': 64.2, '15F': 49.6, '23A': 30.2}",1,87.3,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264045,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001094725,"{'10A': 99.4, '10B': 67.1, '10C': 27.7, '10F': 18.1, '22F': 15.1}",1,99.4,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333035,"{'15C': 89.7, '15B': 89.5, '15A': 62.5, '15F': 49.3, '23A': 31.0}",1,89.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270265,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344395,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168145,"{'14': 93.4, '36': 27.3, '09L': 25.8, '09N': 25.2, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243765,"{'08': 97.9, '02': 24.4, '06A-IV': 23.3, '22F': 23.2, '06A': 22.9}",1,97.9,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321155,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281775,"{'09A': 95.8, '09V': 95.6, '09N': 38.9, '09L': 36.9, '06A-IV': 26.4}",1,95.8,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246215,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190935,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231785,"{'09A': 99.7, '09V': 99.5, '09N': 38.6, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000252045,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283115,"{'34': 98.6, '33F2': 35.2, '35B': 33.5, '33F': 29.8, '33C': 28.5}",1,98.6,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001329075,"{'19F-I': 95.5, '19F': 95.2, '19F-III': 93.7, '19F-II': 92.4, '19F-IV': 88.4}",1,95.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270485,"{'06E': 100.0, '06B-III': 97.9, '06B-I': 45.5, '06A-III': 45.0, '06A-II': 44.0}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234825,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001133545,"{'09A': 95.3, '09V': 95.1, '09N': 37.5, '09L': 36.3, '11F': 26.6}",1,95.3,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001154365,"{'19B': 91.7, '19C': 70.5, '19F-II': 49.3, '19F-IV': 49.3, '19F-I': 48.5}",1,91.7,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900188675,"{'38': 87.6, '25F': 84.1, '25A': 83.3, '36': 8.8, '01': 5.5}",1,87.6,25F_25A_38,25F_25A_38,,"[[0], [18]]","{'wcyD': ['b: 22.59'], 'wcyV': 4.69}","{'wcyD': 0, 'wcyV': 'not_detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398045,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248435,"{'19A': 92.4, '19A-III': 92.2, '19A-II': 83.1, '19A-I': 81.1, '19AF': 56.1}",1,92.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323165,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 89.4, '06A': 87.7, '06A-III': 85.9}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050775,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274535,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 96.61]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223065,"{'31': 99.4, '41A': 56.9, '41F': 49.0, '06A-II': 36.1, '06A-VI': 36.1}",1,99.4,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336515,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335045,"{'07A': 91.1, '07F': 90.9, '19F-II': 39.3, '19F': 37.8, '19F-IV': 37.8}",1,91.1,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310665,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020865,"{'17F': 98.7, '06B': 44.1, '06B-I': 44.0, '06A-III': 43.9, '06D': 43.6}",1,98.7,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245805,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291805,"{'12F': 96.9, '44': 93.6, '12B': 92.9, '12A': 80.6, '46': 77.5}",1,96.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255335,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290835,"{'23F': 97.0, '23A': 63.9, '28A': 47.7, '28F': 46.0, '06A': 45.0}",1,97.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225515,"{'15C': 87.7, '15B': 87.5, '15A': 64.4, '15F': 49.8, '23A': 30.1}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260425,"{'03': 97.4, '01': 17.8, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901905315,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001326775,"{'03': 94.6, '36': 17.0, '20': 15.9, '01': 15.7, '14': 14.1}",1,94.6,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190455,"{'06A-IV': 99.9, '06A': 99.7, '06B-II': 95.1, '06A-V': 93.5, '06A-III': 91.3}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001143585,"{'36': 12.0, '20': 7.8, '06A-IV': 7.2, '06C': 5.8, '06C-I': 5.8}",1,12.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900058415,"{'19A': 99.8, '19A-III': 99.6, '19A-I': 86.0, '19A-II': 83.5, '19AF': 57.0}",1,99.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318545,"{'16F': 71.3, '28F': 42.9, '28A': 40.4, '18F': 33.7, '18A': 33.1}",1,71.3,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171615,"{'14': 92.6, '36': 28.4, '09L': 24.9, '15B': 24.2, '15C': 24.1}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278015,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226455,"{'22A': 94.2, '22F': 77.6, '06A-IV': 45.7, '06A-II': 44.0, '06B-I': 44.0}",1,94.2,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027045,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260305,"{'06A-III': 76.7, '06B-I': 75.4, '06A': 75.0, '06B-II': 74.3, '06A-V': 74.0}",1,76.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225975,"{'01': 7.1, '45': 5.9, '25F': 5.7, '20': 5.5, '25A': 5.5}",6,7.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255915,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907172095,"{'14': 92.6, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001154985,"{'18C': 88.6, '18B': 88.5, '18F': 78.1, '18A': 60.8, '16F': 37.9}",1,88.6,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289955,"{'19AF': 96.9, '19A-II': 63.0, '19A-I': 62.3, '19A': 51.8, '19A-III': 51.6}",1,96.9,19A_19AF,19A_19AF,,[[7]],"{'wzy': [2, 97.62]}",{'wzy': 2},19A_19AF,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053525,"{'01': 99.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337355,"{'28F': 98.6, '28A': 92.2, '23F': 47.6, '16F': 46.0, '06B-I': 42.6}",1,98.6,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001166865,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001094685,"{'35B': 90.3, '34': 33.5, '33F': 32.9, '35C': 31.9, '35A': 31.6}",1,90.3,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254355,"{'11D': 79.5, '11A': 78.2, '11F': 44.1, '11B': 33.4, '11C': 30.1}",1,79.5,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303125,"{'06C-I': 89.3, '06C': 89.2, '06D': 87.0, '06A-I': 77.7, '06B': 77.5}",1,89.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001113285,"{'06E': 100.0, '06B-III': 97.6, '06B-I': 44.9, '06A-III': 44.4, '06B-II': 43.8}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900058545,"{'09A': 99.4, '09V': 99.2, '09N': 37.3, '09L': 36.5, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019397885,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001138605,"{'45': 6.2, '25F': 5.1, '36': 5.0, '25A': 4.9, '20': 4.8}",2,6.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254465,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.7, '19A-III': 87.5, '19AF': 61.8}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193615,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052805,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325925,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225725,"{'15A': 98.1, '15F': 72.7, '15C': 61.6, '15B': 61.5, '23F': 32.0}",1,98.1,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303455,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.7, '06B-II': 35.0, '06A-V': 34.8}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030515,"{'16F': 96.7, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053975,"{'07A': 99.7, '07F': 99.5, '19A': 51.4, '19A-III': 51.2, '19A-II': 43.4}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000279855,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247375,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057975,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320915,"{'01': 98.7, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.7,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329225,"{'13': 98.9, '09N': 29.1, '20': 28.9, '09L': 28.7, '36': 28.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273535,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288975,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228625,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221315,"{'23F': 96.6, '23A': 63.6, '23B': 47.8, '28A': 47.3, '06B-II': 46.1}",1,96.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214545,"{'23F': 97.0, '23A': 63.9, '23B': 47.9, '28A': 47.7, '28F': 46.0}",1,97.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001168505,"{'36': 13.0, '20': 8.1, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",2,13.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327195,"{'25F': 95.3, '25A': 94.5, '38': 80.8, '36': 8.5, '20': 7.8}",1,95.3,25F_25A_38,25F_25A_38,,"[[8], [18]]","{'wcyD': ['a', 100.0], 'wcyV': 0.12}","{'wcyD': 'a', 'wcyV': 'not_detected'}",25F/25A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227715,"{'09A': 99.0, '09V': 98.8, '09N': 38.0, '09L': 36.1, '06A-IV': 27.1}",1,99.0,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318595,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001174825,"{'36': 10.6, '06A-IV': 7.1, '20': 6.2, '06B-I': 5.9, '06C': 5.8}",1,10.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065625,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249375,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299275,"{'06A-II': 92.4, '06A-VI': 92.4, '06B-II': 89.6, '06A-V': 89.3, '06A-III': 88.3}",1,92.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 81.42']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001343175,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316055,"{'07C': 93.9, '07B': 77.0, '40': 76.7, '24B': 48.6, '24F': 47.6}",1,93.9,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192685,"{'34': 92.6, '33F2': 34.5, '35B': 30.4, '33F': 28.7, '33C': 27.7}",1,92.6,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316375,"{'19F': 97.3, '19F-I': 96.3, '19F-III': 95.5, '19F-II': 95.4, '19F-IV': 90.9}",1,97.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325525,"{'09A': 99.4, '09V': 99.2, '09N': 38.5, '09L': 36.5, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325895,"{'06A-III': 94.7, '06B-I': 93.3, '06A': 90.2, '06A-IV': 89.4, '06B-II': 89.3}",1,94.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224605,"{'09A': 99.4, '09V': 99.2, '09N': 37.6, '09L': 36.9, '06A-IV': 27.3}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284095,"{'14': 91.4, '19F-IV': 25.9, '36': 25.1, '09L': 24.8, '09N': 24.6}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001164785,"{'06A-III': 88.6, '06B-I': 86.3, '06A': 83.1, '06A-II': 83.0, '06A-VI': 83.0}",1,88.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224035,"{'11D': 80.2, '11A': 78.9, '11F': 45.1, '11B': 34.6, '11C': 31.0}",1,80.2,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189355,"{'06A': 99.7, '06A-IV': 99.7, '06B-II': 94.9, '06A-V': 93.3, '06A-III': 91.2}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001134785,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230615,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335315,"{'06E': 83.2, '06B-III': 82.1, '06B-I': 55.3, '06A-III': 53.8, '06A-II': 53.2}",1,83.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330305,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259835,"{'05': 95.3, '45': 22.5, '36': 21.2, '12A': 19.8, '46': 19.7}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299355,"{'01': 99.3, '19F': 32.2, '19F-I': 31.7, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282045,"{'23A': 99.6, '23F': 67.2, '23B': 43.5, '19F-II': 37.8, '15B': 37.2}",1,99.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021022725,"{'02': 57.6, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024575,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328085,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.9, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289125,"{'16F': 94.8, '28F': 41.8, '18F': 41.5, '28A': 40.1, '18A': 39.6}",1,94.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347735,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333715,"{'34': 94.6, '33F2': 35.4, '35B': 32.9, '33F': 29.4, '33C': 28.4}",1,94.6,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000334555,"{'01': 99.8, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261055,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192405,"{'34': 92.5, '33F2': 34.5, '35B': 31.5, '33F': 28.7, '33C': 27.7}",1,92.5,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259425,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266355,"{'19F': 93.9, '19F-I': 93.7, '19F-III': 92.5, '19F-IV': 91.4, '19F-II': 91.3}",1,93.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333565,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.8, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287755,"{'27': 99.6, '06B-I': 42.1, '06A-III': 41.8, '06C': 41.2, '22F': 41.2}",1,99.6,,27,,,{},{},27,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001336135,"{'21': 93.2, '22F': 38.3, '06A-II': 31.4, '06A-IV': 31.4, '06A-VI': 31.3}",1,93.2,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001103725,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248105,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001145165,"{'45': 6.8, '25F': 6.5, '36': 6.5, '25A': 6.4, '01': 6.2}",2,6.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585765,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339465,"{'28A': 98.0, '28F': 91.8, '23F': 49.4, '16F': 43.6, '06A-IV': 39.7}",1,98.0,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329115,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222915,"{'01': 98.9, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001088945,"{'19F': 94.7, '19F-I': 94.2, '19F-III': 93.1, '19F-II': 91.8, '19F-IV': 88.1}",1,94.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340695,"{'06A': 95.5, '06A-III': 93.7, '06B-II': 93.4, '06B-I': 92.8, '06A-IV': 92.0}",1,95.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283205,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278905,"{'23F': 96.2, '23A': 63.0, '23B': 47.5, '06A-IV': 47.5, '28A': 47.2}",1,96.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001206775,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292285,"{'03': 97.4, '01': 18.0, '20': 17.0, '36': 16.1, '09L': 15.4}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276465,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 32.7}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237785,"{'14': 99.3, '09L': 26.8, '36': 25.8, '09N': 24.7, '15B': 24.0}",1,99.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900062015,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273275,"{'01': 7.5, '45': 6.4, '25F': 5.9, '25A': 5.7, '22F': 5.4}",5,7.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234855,"{'15C': 87.9, '15B': 87.7, '15A': 64.6, '15F': 50.0, '23A': 30.2}",1,87.9,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021022635,"{'02': 57.6, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286165,"{'19AF': 100.0, '19A-II': 61.8, '19A-I': 61.1, '19A': 53.2, '19A-III': 53.0}",1,100.0,19A_19AF,19A_19AF,,[[7]],"{'wzy': [2, 100.0]}",{'wzy': 2},19A_19AF,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235055,"{'06A-II': 95.0, '06A-VI': 95.0, '06B-II': 89.0, '06A-V': 88.6, '06A-III': 87.9}",1,95.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339585,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052795,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000233225,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333915,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255455,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237965,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334435,"{'19F-I': 91.9, '19F': 91.3, '19F-III': 90.9, '19F-II': 89.3, '19F-IV': 86.3}",1,91.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297375,"{'21': 98.6, '22F': 36.4, '06A-IV': 33.1, '06A-II': 32.6, '06A-VI': 32.5}",1,98.6,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298435,"{'18A': 100.0, '18B': 54.0, '18C': 54.0, '18F': 53.7, '19F-IV': 37.3}",1,100.0,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193415,"{'19A': 99.7, '19A-III': 99.5, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,99.7,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216875,"{'03': 75.1, '20': 7.9, '01': 7.1, '36': 7.1, '22F': 6.8}",1,75.1,,3,,,{},{},3,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247655,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228495,"{'06A': 89.6, '06A-III': 89.2, '06B-I': 88.7, '06A-II': 86.7, '06A-VI': 86.7}",1,89.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238825,"{'11A': 99.3, '11D': 96.9, '11F': 40.1, '11C': 36.1, '11B': 34.6}",1,99.3,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297915,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278785,"{'05': 95.3, '45': 22.5, '36': 21.6, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267945,"{'10A': 98.4, '10B': 67.5, '10C': 27.9, '10F': 18.3, '22F': 15.8}",1,98.4,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219045,"{'18C': 88.5, '18B': 88.4, '18F': 77.8, '18A': 61.5, '16F': 37.6}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313245,"{'06B-I': 99.7, '06A-III': 97.6, '06B-II': 90.3, '06A': 89.8, '06A-V': 88.4}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299735,"{'09A': 95.9, '09V': 95.7, '09N': 38.4, '09L': 37.4, '11F': 26.7}",1,95.9,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323685,"{'04': 99.6, '45': 34.0, '12F': 23.3, '44': 23.1, '12A': 22.2}",1,99.6,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229655,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900036955,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028215,"{'09A': 99.7, '09V': 99.5, '09N': 38.0, '09L': 36.7, '35B': 26.7}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001121465,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001115745,"{'13': 98.9, '20': 28.1, '09L': 27.9, '09N': 27.4, '14': 26.8}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326365,"{'15C': 86.6, '15B': 86.4, '15A': 66.1, '15F': 51.2, '23A': 28.4}",1,86.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270085,"{'08': 99.6, '06A-IV': 27.3, '06A-II': 26.6, '06A-VI': 26.5, '06B-II': 26.0}",1,99.6,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330835,"{'10F': 98.0, '10C': 80.7, '10B': 22.2, '10A': 19.1, '22F': 15.7}",1,98.0,,10F,,,{},{},10F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338095,"{'19F': 94.7, '19F-I': 94.2, '19F-III': 93.1, '19F-II': 91.8, '19F-IV': 88.1}",1,94.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001208225,"{'36': 10.6, '06A-IV': 7.1, '20': 6.4, '06B-I': 5.9, '06C': 5.8}",1,10.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293355,"{'06E': 99.8, '06B-III': 99.3, '06B-I': 46.7, '06A-III': 46.2, '06A-II': 45.2}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220705,"{'06A': 90.1, '06A-III': 89.5, '06B-II': 89.5, '06A-II': 89.4, '06A-VI': 89.4}",1,90.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288755,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328535,"{'23B1': 98.7, '23B': 59.0, '19A-II': 36.7, '19A-I': 35.5, '19AF': 32.0}",1,98.7,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900323485,"{'22F': 96.9, '22A': 73.3, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,96.9,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341275,"{'14': 93.4, '36': 27.3, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001089245,"{'15B': 99.8, '15C': 99.6, '15A': 62.7, '15F': 48.3, '23A': 32.9}",1,99.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001121305,"{'32A': 97.5, '32F': 97.4, '06A-II': 40.2, '06A-VI': 40.1, '06B-II': 39.4}",1,97.5,,32F/32A,,,{},{},32F/32A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030585,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032885,"{'09N': 99.9, '09L': 88.9, '09A': 32.7, '09V': 32.7, '36': 32.3}",1,99.9,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266625,"{'23F': 91.3, '23A': 59.9, '06A-IV': 46.9, '28A': 46.8, '23B': 46.2}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221965,"{'06E': 98.5, '06B-III': 98.3, '06B-I': 48.1, '06A-III': 47.7, '06A-IV': 46.7}",1,98.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330505,"{'04': 98.2, '45': 34.1, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260855,"{'19A': 99.1, '19A-III': 98.9, '19A-I': 86.0, '19A-II': 83.7, '19AF': 57.2}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027345,"{'33F2': 99.6, '33F': 74.6, '33A': 70.3, '34': 41.9, '35B': 32.5}",1,99.6,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230075,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001149245,"{'19F-I': 95.4, '19F': 95.2, '19F-III': 93.7, '19F-II': 92.3, '19F-IV': 88.3}",1,95.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315005,"{'36': 10.0, '01': 6.6, '45': 6.2, '20': 6.0, '25F': 5.9}",1,10.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232485,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170605,"{'14': 92.5, '36': 27.5, '09L': 25.2, '09N': 24.2, '15B': 24.2}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228345,"{'14': 92.5, '36': 28.9, '09L': 25.7, '09N': 24.6, '15B': 24.1}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240285,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285815,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218655,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315595,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.7, '36': 23.2}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249165,"{'23F': 96.1, '23A': 63.2, '06A-IV': 48.5, '23B': 48.4, '28A': 46.9}",1,96.1,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001157505,"{'36': 10.3, '01': 7.1, '06A-IV': 6.7, '45': 6.3, '20': 5.7}",1,10.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283555,"{'03': 97.4, '01': 17.7, '20': 15.5, '09N': 15.3, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259895,"{'14': 93.9, '36': 26.0, '09L': 25.3, '09N': 24.1, '15B': 24.0}",1,93.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270285,"{'13': 99.0, '09N': 29.1, '09L': 28.7, '20': 28.4, '36': 28.1}",1,99.0,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338435,"{'16F': 71.7, '28F': 43.2, '28A': 40.7, '18F': 33.7, '18A': 33.6}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238015,"{'16F': 71.4, '28F': 43.1, '28A': 40.6, '18F': 33.5, '18A': 32.5}",1,71.4,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258925,"{'18A': 100.0, '18B': 54.0, '18C': 54.0, '18F': 53.7, '19F-IV': 37.3}",1,100.0,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236475,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252255,"{'09A': 99.4, '09V': 99.2, '09N': 38.6, '09L': 36.6, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248695,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276385,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260385,"{'17F': 82.3, '06A-I': 42.2, '06B': 41.8, '06A': 41.2, '06A-III': 40.5}",1,82.3,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047825,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275725,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.4}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000411735,"{'25F': 5.7, '25A': 5.5, '20': 5.2, '38': 4.8, '01': 4.6}",4,5.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001197835,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001124005,"{'11D': 99.9, '11A': 97.1, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,99.9,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262095,"{'23F': 97.0, '23A': 63.9, '23B': 48.0, '28A': 47.7, '06B-II': 46.1}",1,97.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001141345,"{'06A-III': 98.5, '06B-I': 96.9, '06A': 90.6, '06B-II': 90.4, '06A-V': 89.5}",1,98.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330905,"{'16F': 96.7, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295945,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171435,"{'14': 92.3, '36': 28.7, '09L': 25.3, '09N': 24.1, '15B': 23.9}",1,92.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341195,"{'09A': 96.0, '09V': 95.8, '09N': 38.5, '09L': 37.3, '11F': 26.7}",1,96.0,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021805,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190905,"{'06D': 87.1, '06C': 85.1, '06C-I': 85.1, '06A-I': 75.9, '06B': 75.8}",1,87.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 89.8']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312715,"{'14': 93.3, '36': 27.3, '09L': 25.9, '09N': 25.2, '15B': 24.3}",1,93.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327665,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900064115,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308025,"{'15A': 98.5, '15F': 73.1, '15C': 61.8, '15B': 61.7, '23F': 32.2}",1,98.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056425,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001154565,"{'36': 5.7, '23B1': 4.8, '20': 4.7, '25A': 4.2, '25F': 4.2}",1,5.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241665,"{'05': 95.2, '45': 22.2, '36': 21.6, '20': 19.9, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231255,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229385,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 85.0, '46': 81.9}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000170135,"{'19F': 100.0, '19F-III': 97.5, '19F-I': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,100.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264605,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335935,"{'03': 95.1, '20': 15.1, '09L': 14.3, '09N': 14.0, '01': 13.8}",1,95.1,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030595,"{'12F': 96.2, '12B': 93.1, '44': 92.9, '12A': 80.2, '46': 77.1}",1,96.2,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241155,"{'35B': 99.8, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900036225,"{'14': 93.4, '36': 27.3, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281575,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323605,"{'20': 84.5, '47F': 26.4, '35A': 24.9, '09L': 24.6, '09N': 23.7}",1,84.5,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282295,"{'06A-V': 92.7, '06A-III': 89.4, '06A-II': 89.3, '06A-VI': 89.3, '06A': 89.0}",1,92.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213415,"{'25F': 99.9, '25A': 98.9, '38': 80.9, '36': 9.0, '01': 7.5}",1,99.9,25F_25A_38,25F_25A_38,,"[[8], [18]]","{'wcyD': ['a', 100.0], 'wcyV': 0.12}","{'wcyD': 'a', 'wcyV': 'not_detected'}",25F/25A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243215,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001201215,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047875,"{'15C': 93.9, '15B': 93.8, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001168965,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001172885,"{'22F': 4.7, '01': 4.5, '12A': 4.5, '46': 4.5, '25F': 4.1}",1,4.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276905,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232545,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001103425,"{'15C': 87.6, '15B': 87.4, '15A': 64.3, '15F': 49.7, '23A': 30.2}",1,87.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332495,"{'07C': 93.7, '07B': 76.9, '40': 76.4, '24B': 48.4, '24F': 47.4}",1,93.7,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216315,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255805,"{'18C': 88.3, '18B': 88.2, '18F': 77.8, '18A': 61.4, '16F': 37.6}",1,88.3,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229965,"{'36': 11.9, '20': 7.5, '06A-IV': 7.5, '01': 7.4, '45': 6.6}",1,11.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315715,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.7}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325865,"{'15C': 90.8, '15B': 90.6, '15A': 63.0, '15F': 48.8, '23A': 31.1}",1,90.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269265,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056775,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001197155,"{'46': 98.7, '12A': 96.4, '12B': 84.3, '44': 82.3, '12F': 82.1}",1,98.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[4]],"{'wciI': [1, 100.0]}",{'wciI': 1},12A/12B/44/46,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241585,"{'21': 96.8, '22F': 37.3, '06A-IV': 33.1, '06A-II': 32.8, '06A-VI': 32.7}",1,96.8,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900188585,"{'17F': 99.6, '06B': 44.3, '06D': 43.7, '06A-I': 43.7, '06B-I': 42.6}",1,99.6,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001202195,"{'09L': 96.9, '09N': 87.4, '09A': 31.0, '09V': 31.0, '36': 26.4}",1,96.9,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339775,"{'15B': 99.7, '15C': 99.6, '15A': 62.7, '15F': 48.3, '23A': 33.1}",1,99.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310675,"{'14': 93.4, '36': 27.3, '09L': 26.6, '09N': 25.4, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285345,"{'14': 93.3, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,93.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900037175,"{'12F': 96.7, '44': 93.4, '12B': 92.7, '12A': 80.4, '46': 77.3}",1,96.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065365,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315315,"{'06A-II': 85.3, '06A-VI': 85.3, '06A-III': 85.2, '06A-V': 84.6, '06A': 83.8}",1,85.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001135885,"{'06E': 100.0, '06B-III': 98.6, '06B-I': 46.2, '06A-III': 45.7, '06A-II': 44.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313845,"{'19F': 97.3, '19F-I': 96.3, '19F-III': 95.5, '19F-II': 95.4, '19F-IV': 90.9}",1,97.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270955,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.7, '06B-II': 35.1, '06A-V': 34.9}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301905,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194125,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267705,"{'12F': 96.4, '44': 93.4, '12B': 93.3, '12A': 84.8, '46': 81.7}",1,96.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321085,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001142485,"{'03': 95.2, '36': 17.2, '20': 15.6, '01': 15.1, '09N': 15.0}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028455,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339135,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.6, '06A-IV': 46.3}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001328915,"{'06E': 100.0, '06B-III': 99.0, '06B-I': 46.4, '06A-III': 45.9, '06A-II': 44.9}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020825,"{'23F': 97.8, '23A': 63.3, '23B': 48.3, '28A': 48.3, '06A-IV': 47.0}",1,97.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288865,"{'14': 91.6, '36': 27.9, '09L': 25.6, '09N': 24.5, '15B': 23.7}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019039075,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001326575,"{'12F': 97.2, '44': 93.6, '12B': 92.4, '12A': 85.4, '46': 82.3}",1,97.2,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285335,"{'15B': 99.5, '15C': 99.2, '15A': 62.7, '15F': 48.3, '23A': 32.7}",1,99.5,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900060075,"{'23A': 97.3, '23F': 68.8, '23B': 40.1, '19F-II': 39.2, '15B': 38.7}",1,97.3,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291565,"{'28F': 95.2, '28A': 88.4, '23F': 51.1, '06B-II': 49.0, '06A-IV': 48.6}",1,95.2,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292895,"{'06E': 99.8, '06B-III': 99.3, '06B-I': 46.7, '06A-III': 46.2, '06A-II': 45.2}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339625,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230475,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327925,"{'35A': 94.4, '35C': 89.7, '42': 89.1, '33A': 46.3, '33F': 45.9}",1,94.4,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000251845,"{'15C': 95.7, '15B': 95.6, '15A': 61.1, '15F': 47.5, '23A': 34.7}",1,95.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001157645,"{'06E': 100.0, '06B-III': 99.1, '06B-I': 46.7, '06A-III': 46.2, '06A-II': 45.2}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019825,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001128045,"{'17F': 93.5, '06A-III': 45.5, '06B-I': 45.3, '06A-IV': 45.2, '06A': 44.5}",1,93.5,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019397555,"{'06C-I': 88.1, '06C': 88.0, '06D': 84.7, '06A': 77.0, '06A-IV': 75.6}",1,88.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281385,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001130665,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264695,"{'10A': 99.4, '10B': 67.1, '10C': 27.7, '10F': 18.1, '22F': 15.5}",1,99.4,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001147465,"{'36': 10.5, '20': 7.4, '06A-IV': 6.8, '06B-I': 5.7, '23B1': 5.4}",1,10.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001158205,"{'36': 10.4, '06A-IV': 6.9, '20': 5.8, '06B-I': 5.7, '06C': 5.5}",1,10.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316985,"{'15C': 87.9, '15B': 87.7, '15A': 64.6, '15F': 50.0, '23A': 30.2}",1,87.9,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258305,"{'19F': 97.4, '19F-I': 96.4, '19F-III': 95.6, '19F-II': 95.5, '19F-IV': 91.0}",1,97.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398865,"{'34': 92.9, '33F2': 34.6, '35B': 32.2, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171815,"{'14': 91.9, '36': 28.5, '09L': 25.0, '15B': 23.9, '15C': 23.8}",1,91.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001105605,"{'15A': 98.4, '15F': 73.6, '15C': 62.1, '15B': 62.0, '23F': 31.7}",1,98.4,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290675,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338375,"{'46': 98.7, '12A': 96.4, '12B': 84.3, '44': 82.3, '12F': 82.1}",1,98.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[4]],"{'wciI': [1, 100.0]}",{'wciI': 1},12A/12B/44/46,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900062175,"{'23B1': 98.6, '23B': 58.4, '19A-II': 35.8, '19A-I': 35.6, '19AF': 31.4}",1,98.6,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322135,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291145,"{'14': 93.4, '36': 27.3, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001201975,"{'14': 89.7, '36': 29.3, '09L': 22.8, '19F-II': 22.2, '09N': 21.7}",1,89.7,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325615,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.7, '06B-II': 35.1, '06A-V': 34.9}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001118045,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307975,"{'14': 99.7, '09L': 26.9, '36': 26.1, '09N': 24.6, '15B': 24.2}",1,99.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021075,"{'12F': 96.7, '44': 93.4, '12B': 92.7, '12A': 80.4, '46': 77.3}",1,96.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247565,"{'36': 12.0, '06A-IV': 7.8, '20': 7.6, '01': 6.8, '06B-I': 6.5}",1,12.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001160025,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251705,"{'15C': 94.7, '15B': 94.6, '15A': 60.4, '15F': 46.8, '23A': 34.6}",1,94.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001141465,"{'02': 83.9, '22F': 30.5, '06A-I': 29.9, '06A-III': 29.6, '06A-II': 29.2}",1,83.9,,2,,,{},{},2,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322685,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233195,"{'34': 93.0, '33F2': 34.7, '35B': 32.2, '33F': 29.0, '33C': 28.0}",1,93.0,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001117105,"{'37': 97.5, '33F': 76.9, '33A': 75.6, '33F2': 70.4, '35B': 31.6}",1,97.5,,37,,,{},{},37,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344875,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259615,"{'06E': 94.3, '06B-III': 93.7, '06B-I': 48.4, '06A-III': 48.0, '06A-IV': 46.8}",1,94.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324375,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334515,"{'14': 92.7, '36': 29.0, '09L': 25.9, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338615,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001199475,"{'14': 94.6, '36': 25.7, '15B': 24.2, '09L': 24.1, '15C': 24.1}",1,94.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277065,"{'19F-II': 99.3, '19F': 95.1, '19F-III': 94.1, '19F-I': 93.8, '19F-IV': 93.3}",1,99.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001192975,"{'06A-II': 87.3, '06A-VI': 87.3, '06A': 86.0, '06A-IV': 85.2, '06A-V': 85.0}",1,87.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288585,"{'09A': 95.9, '09V': 95.7, '09N': 38.8, '09L': 37.4, '11F': 26.6}",1,95.9,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028955,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262425,"{'06A-III': 94.8, '06B-I': 93.4, '06A': 90.3, '06A-IV': 89.5, '06B-II': 89.4}",1,94.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299025,"{'06A-II': 95.1, '06A-VI': 95.1, '06B-II': 89.4, '06A-V': 88.9, '06A-III': 88.3}",1,95.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900046525,"{'04': 99.8, '45': 33.4, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237095,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019399755,"{'06A-I': 98.2, '06B': 94.2, '06A-V': 89.2, '06A': 87.2, '06A-III': 85.7}",1,98.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217555,"{'18C': 88.5, '18B': 88.4, '18F': 77.8, '18A': 62.1, '16F': 37.6}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261245,"{'14': 87.0, '36': 27.3, '19F-I': 27.2, '19F': 27.0, '19F-III': 26.2}",1,87.0,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260025,"{'06A-II': 85.8, '06A-VI': 85.8, '06A-III': 85.7, '06A-V': 85.1, '06B-I': 84.3}",1,85.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337495,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257405,"{'05': 95.2, '45': 22.3, '36': 21.8, '20': 20.2, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294295,"{'03': 97.4, '01': 17.8, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213565,"{'14': 100.0, '09L': 26.9, '36': 26.0, '09N': 25.0, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170515,"{'14': 92.7, '36': 28.9, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224565,"{'06A-II': 92.8, '06A-VI': 92.8, '06B-II': 90.0, '06A-V': 89.7, '06A-III': 88.5}",1,92.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 84.81']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020140275,"{'35B': 99.8, '33F': 33.6, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338235,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057015,"{'19A': 93.4, '19A-III': 93.2, '19A-II': 81.8, '19A-I': 80.0, '19AF': 55.9}",1,93.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240855,"{'14': 99.8, '09L': 27.1, '36': 25.7, '09N': 24.9, '15B': 24.3}",1,99.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001111065,"{'35F': 99.1, '47F': 74.5, '34': 26.7, '35B': 26.2, '29': 22.5}",1,99.1,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323055,"{'19A': 99.1, '19A-III': 98.9, '19A-I': 86.0, '19A-II': 83.7, '19AF': 57.0}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218385,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335515,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346675,"{'15C': 87.8, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338505,"{'35B': 99.3, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.3,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313485,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314555,"{'16F': 71.3, '28F': 42.9, '28A': 40.4, '18F': 33.7, '18A': 33.1}",1,71.3,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001162125,"{'06A': 90.4, '06A-III': 89.4, '06A-II': 89.3, '06A-VI': 89.3, '06B-II': 89.3}",1,90.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266455,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246295,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307365,"{'33F': 100.0, '33A': 99.9, '33F2': 70.9, '35C': 43.0, '42': 42.0}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325285,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312215,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299425,"{'06A-I': 99.2, '06B': 94.9, '06A': 87.7, '06A-V': 86.7, '06A-III': 82.9}",1,99.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276305,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342975,"{'22A': 94.2, '22F': 77.6, '06A-IV': 45.8, '06A-II': 44.1, '06B-I': 44.1}",1,94.2,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294665,"{'04': 99.8, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256505,"{'15C': 90.7, '15B': 90.5, '15A': 63.0, '15F': 48.8, '23A': 31.1}",1,90.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232925,"{'18C': 99.4, '18B': 99.3, '18F': 75.3, '18A': 62.3, '16F': 39.1}",1,99.4,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341865,"{'15A': 99.2, '15F': 73.7, '15C': 61.8, '15B': 61.7, '23F': 31.5}",1,99.2,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326565,"{'06A': 96.6, '06B': 87.6, '06A-IV': 86.8, '06A-I': 86.5, '06B-II': 86.3}",1,96.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260375,"{'15A': 98.3, '15F': 73.0, '15C': 61.8, '15B': 61.7, '23F': 32.3}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283365,"{'17F': 99.6, '06B': 44.3, '06B-I': 44.2, '06A-III': 44.1, '06D': 43.7}",1,99.6,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001340015,"{'19F-I': 95.5, '19F': 95.2, '19F-III': 93.7, '19F-II': 92.4, '19F-IV': 88.4}",1,95.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249915,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335795,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001089165,"{'04': 98.3, '45': 32.3, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245375,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276085,"{'09N': 98.2, '09L': 87.4, '09A': 32.7, '09V': 32.7, '36': 31.0}",1,98.2,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323295,"{'23B': 87.8, '23B1': 61.0, '23F': 38.5, '28A': 33.3, '23A': 33.0}",1,87.8,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318985,"{'06A-II': 95.2, '06A-VI': 95.2, '06B-II': 89.1, '06A-V': 88.7, '06A-III': 88.1}",1,95.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279445,"{'34': 93.7, '33F2': 35.3, '35B': 32.7, '33F': 29.5, '33C': 28.8}",1,93.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001101045,"{'06A': 89.7, '06A-III': 89.3, '06B-I': 88.0, '06B-II': 87.8, '06A-II': 87.3}",1,89.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023025,"{'19A-II': 100.0, '19A-I': 96.6, '19A': 85.0, '19A-III': 84.8, '19AF': 62.1}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900061805,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268845,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287675,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253245,"{'06A': 95.5, '06A-III': 93.7, '06B-II': 93.4, '06B-I': 92.8, '06A-IV': 92.0}",1,95.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001139305,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316075,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311445,"{'06A': 83.2, '06A-IV': 82.1, '06A-V': 81.6, '06B-II': 81.5, '06B-I': 81.3}",1,83.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 83.83']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245265,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001085785,"{'36': 12.4, '20': 7.9, '06A-IV': 7.6, '06C': 6.2, '06C-I': 6.2}",2,12.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292435,"{'03': 95.2, '01': 17.8, '36': 17.4, '20': 16.1, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900034455,"{'14': 93.0, '36': 27.3, '09L': 25.8, '09N': 25.3, '15B': 24.3}",1,93.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057365,"{'21': 100.0, '22F': 36.1, '06A-IV': 34.1, '06A-II': 33.4, '06A-VI': 33.3}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055695,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303325,"{'01': 98.7, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.7,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275425,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001133085,"{'04': 98.3, '45': 31.6, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001343635,"{'06A-III': 98.5, '06B-I': 96.9, '06A': 90.6, '06B-II': 90.4, '06A-V': 89.5}",1,98.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217205,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316465,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001143945,"{'06E': 100.0, '06B-III': 98.0, '06B-I': 45.6, '06A-III': 45.1, '06A-II': 44.1}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028475,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251815,"{'15A': 98.5, '15F': 73.1, '15C': 61.8, '15B': 61.7, '23F': 32.2}",1,98.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315175,"{'14': 93.4, '36': 27.3, '09L': 25.9, '09N': 25.3, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237645,"{'14': 100.0, '09L': 26.9, '36': 26.0, '09N': 25.0, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316405,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336305,"{'35B': 99.3, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.3,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268225,"{'01': 99.1, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.3}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243685,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297455,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020140155,"{'35B': 99.8, '33F': 33.5, '35C': 33.4, '34': 33.1, '35A': 33.0}",1,99.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341335,"{'19F': 94.7, '19F-I': 94.2, '19F-III': 93.1, '19F-II': 91.8, '19F-IV': 88.1}",1,94.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018885,"{'14': 99.9, '09L': 27.2, '36': 26.0, '09N': 24.4, '15B': 24.3}",1,99.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191725,"{'19A-II': 100.0, '19A-I': 96.6, '19A': 85.0, '19A-III': 84.8, '19AF': 62.1}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227325,"{'03': 95.2, '36': 17.1, '01': 16.7, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215015,"{'05': 95.0, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001098125,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340295,"{'01': 99.0, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192805,"{'11D': 99.5, '11A': 96.7, '11F': 41.8, '11C': 35.8, '11B': 34.3}",1,99.5,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023645,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219375,"{'16F': 71.4, '28F': 43.1, '28A': 40.6, '18F': 33.5, '18A': 32.7}",1,71.4,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001094865,"{'36': 12.0, '20': 7.4, '45': 6.3, '06A-IV': 6.0, '22F': 5.3}",1,12.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291355,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001158425,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276875,"{'06A-II': 85.5, '06A-VI': 85.5, '06A-III': 85.2, '06A-V': 84.7, '06B-I': 83.9}",1,85.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043715,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268785,"{'13': 98.9, '20': 29.0, '09L': 28.6, '09N': 28.2, '36': 28.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023505,"{'23B': 99.4, '23B1': 64.6, '23F': 45.7, '23A': 39.9, '06A-IV': 36.8}",1,99.4,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274005,"{'13': 83.7, '36': 32.6, '14': 27.2, '15B': 26.7, '15C': 26.3}",1,83.7,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308515,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252775,"{'08': 99.4, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.2, '06B-II': 24.1}",1,99.4,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261935,"{'23F': 99.3, '23A': 65.2, '23B': 47.9, '28A': 47.8, '06A-V': 45.8}",1,99.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001169525,"{'13': 83.6, '09N': 25.7, '36': 25.7, '09L': 25.5, '14': 25.3}",1,83.6,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001141025,"{'36': 7.9, '20': 6.8, '45': 4.2, '25F': 4.1, '06C-I': 4.1}",1,7.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001100685,"{'34': 92.9, '33F2': 34.7, '35B': 31.5, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194145,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001102025,"{'25F': 7.0, '25A': 6.8, '45': 6.8, '36': 6.7, '20': 5.4}",2,7.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001084485,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001170405,"{'19B': 95.7, '19C': 70.0, '19F-II': 53.9, '19F-I': 53.1, '19F': 53.0}",1,95.7,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001122705,"{'19F-I': 95.4, '19F': 95.2, '19F-III': 93.7, '19F-II': 92.3, '19F-IV': 88.3}",1,95.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304295,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219325,"{'13': 98.9, '09N': 29.1, '20': 28.9, '09L': 28.7, '36': 28.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240425,"{'15C': 87.4, '15B': 87.3, '15A': 64.2, '15F': 49.7, '23A': 30.0}",1,87.4,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346615,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305815,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335415,"{'01': 98.5, '19F': 32.0, '19F-I': 31.5, '19F-III': 31.3, '19F-II': 31.0}",1,98.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244115,"{'34': 98.6, '33F2': 35.2, '35B': 33.7, '33F': 29.7, '33C': 28.4}",1,98.6,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335295,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001149125,"{'06C': 85.6, '06C-I': 85.6, '06D': 84.7, '06A': 77.0, '06A-IV': 73.3}",1,85.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194795,"{'06C-I': 89.1, '06C': 89.0, '06D': 86.9, '06A-I': 77.7, '06B': 77.4}",1,89.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230175,"{'23F': 92.2, '23A': 61.1, '28A': 47.9, '23B': 46.3, '06A-IV': 46.1}",1,92.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280165,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002081405,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001171265,"{'11F': 61.8, '11D': 38.4, '11A': 36.8, '09V': 25.4, '09A': 25.3}",1,61.8,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024195,"{'06B-I': 99.6, '06A-III': 97.5, '06B-II': 90.1, '06A': 89.8, '06A-V': 88.2}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259475,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.0, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337255,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297385,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021625,"{'09A': 99.7, '09V': 99.5, '09N': 38.0, '09L': 36.7, '06A-IV': 27.4}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216645,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329935,"{'15A': 98.3, '15F': 72.9, '15C': 61.6, '15B': 61.5, '23F': 32.2}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001137125,"{'19F': 95.9, '19F-I': 95.6, '19F-III': 94.4, '19F-II': 92.5, '19F-IV': 88.5}",1,95.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341135,"{'04': 98.1, '45': 34.8, '12F': 23.8, '44': 23.4, '12A': 22.5}",1,98.1,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315995,"{'48': 99.3, '24A': 46.8, '24B': 39.4, '24F': 38.9, '24F2': 37.4}",1,99.3,,48,,,{},{},48,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213675,"{'23F': 96.8, '23A': 63.9, '06A-IV': 48.1, '23B': 48.0, '28A': 47.7}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265545,"{'14': 95.0, '36': 28.1, '09L': 25.5, '09N': 24.4, '15B': 24.2}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190225,"{'06A': 99.8, '06A-IV': 99.4, '06B-II': 95.2, '06A-V': 93.5, '06A-III': 91.4}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192295,"{'23F': 99.2, '23A': 65.4, '23B': 49.0, '28A': 48.1, '06A-IV': 47.2}",1,99.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224625,"{'01': 99.3, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278255,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232885,"{'14': 92.3, '36': 28.6, '09L': 25.8, '09N': 24.7, '15B': 24.1}",1,92.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001130785,"{'06E': 100.0, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214015,"{'09A': 99.4, '09V': 99.2, '09N': 37.6, '09L': 36.9, '06A-IV': 27.3}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001193915,"{'14': 89.9, '36': 28.3, '09L': 23.1, '19F-II': 22.2, '09N': 21.9}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335655,"{'35F': 80.2, '47F': 56.8, '35B': 25.5, '34': 21.0, '36': 18.7}",1,80.2,,35F,,,{},{},35F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268535,"{'19F': 93.9, '19F-I': 93.7, '19F-III': 92.5, '19F-IV': 91.4, '19F-II': 91.3}",1,93.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263115,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.8, '24F': 48.6}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317165,"{'33D': 80.4, '33B': 75.9, '35B': 35.5, '06A-I': 35.3, '06B': 34.7}",1,80.4,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169675,"{'14': 91.8, '36': 27.9, '09L': 25.6, '09N': 24.5, '15B': 23.7}",1,91.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338705,"{'15A': 97.2, '15F': 75.0, '15C': 61.6, '15B': 61.5, '23F': 31.7}",1,97.2,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001299975,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001097425,"{'06C': 85.6, '06C-I': 85.6, '06D': 84.7, '06A': 77.0, '06A-IV': 73.3}",1,85.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001334655,"{'35F': 99.0, '47F': 74.4, '34': 26.7, '35B': 24.8, '29': 22.5}",1,99.0,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313175,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243245,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332065,"{'35B': 99.4, '33F': 33.6, '35C': 33.4, '34': 33.1, '35A': 33.0}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276245,"{'36': 8.2, '01': 6.6, '20': 6.6, '45': 6.2, '06A-IV': 6.1}",1,8.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280615,"{'23F': 96.7, '23A': 63.8, '23B': 50.3, '06A-IV': 49.9, '28A': 47.6}",1,96.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001128445,"{'23A': 96.6, '23F': 67.7, '23B': 45.9, '19F-II': 39.4, '15B': 38.5}",1,96.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256265,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030325,"{'15C': 94.0, '15B': 93.8, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,94.0,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021021855,"{'02': 57.6, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213245,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325455,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290805,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289665,"{'03': 95.2, '01': 18.3, '36': 17.3, '20': 16.1, '09L': 15.6}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273845,"{'08': 99.8, '02': 24.4, '06A-II': 24.3, '06A-VI': 24.2, '06B-II': 23.7}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292795,"{'01': 7.2, '45': 6.5, '25F': 6.0, '25A': 5.8, '22F': 5.0}",3,7.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190885,"{'06C-I': 88.9, '06C': 88.8, '06D': 86.7, '06A-I': 77.4, '06B': 77.1}",1,88.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001159565,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286335,"{'09A': 95.9, '09V': 95.7, '09N': 38.8, '09L': 37.4, '11F': 26.6}",1,95.9,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309305,"{'23F': 81.0, '23A': 51.2, '28F': 46.4, '28A': 44.6, '06A-IV': 40.6}",1,81.0,,23F,,,{},{},23F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268235,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190645,"{'06C-I': 99.7, '06C': 99.5, '06D': 84.5, '06A-II': 79.5, '06A-VI': 79.5}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274505,"{'23F': 96.7, '23A': 63.8, '06A-IV': 50.8, '23B': 50.3, '06B-II': 48.5}",1,96.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023945,"{'33F2': 99.7, '33F': 74.7, '33A': 70.3, '34': 41.7, '35B': 32.5}",1,99.7,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191875,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '19F-IV': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276575,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001086585,"{'07A': 99.6, '07F': 99.4, '19F-II': 36.7, '19F-IV': 36.1, '19F': 35.2}",1,99.6,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239505,"{'06A-II': 91.4, '06A-VI': 91.4, '06A-V': 90.1, '06B-II': 89.7, '06A-III': 89.6}",1,91.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001982685,"{'18C': 93.3, '18B': 93.2, '18F': 75.2, '18A': 62.4, '16F': 39.6}",1,93.3,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001157425,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900016935,"{'14': 100.0, '09L': 27.2, '36': 25.9, '09N': 24.9, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332895,"{'04': 99.8, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313205,"{'14': 91.6, '36': 27.8, '09L': 25.2, '09N': 24.3, '15B': 23.7}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291715,"{'03': 95.2, '01': 17.5, '09L': 15.5, '09N': 15.1, '14': 13.9}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900034025,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.4, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221675,"{'33F2': 99.5, '33F': 74.4, '33A': 70.1, '34': 42.1, '35B': 32.4}",1,99.5,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237895,"{'14': 91.3, '19F-IV': 25.9, '36': 25.1, '09L': 24.8, '09N': 24.7}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330515,"{'05': 95.3, '36': 22.5, '45': 22.5, '20': 20.9, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239575,"{'23F': 78.0, '23A': 57.7, '23B': 51.2, '28A': 38.9, '28F': 36.3}",1,78.0,,23F,,,{},{},23F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217855,"{'03': 75.1, '20': 7.7, '36': 6.9, '22F': 6.8, '06A-IV': 6.5}",1,75.1,,3,,,{},{},3,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241335,"{'28F': 95.2, '28A': 88.4, '23F': 51.1, '06B-II': 49.0, '06A-IV': 48.6}",1,95.2,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324905,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334595,"{'08': 99.1, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.1,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217135,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189825,"{'19A': 99.4, '19A-III': 99.2, '19A-I': 86.1, '19A-II': 83.9, '19AF': 57.1}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001143205,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276765,"{'06B-I': 98.5, '06A-III': 96.4, '06A': 89.8, '06B-II': 89.4, '06A-V': 87.5}",1,98.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337075,"{'07A': 91.1, '07F': 90.9, '19F-II': 39.3, '19F': 37.8, '19F-IV': 37.8}",1,91.1,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055835,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235195,"{'34': 95.7, '33F2': 35.6, '35B': 34.2, '33F': 30.4, '35C': 29.1}",1,95.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250875,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001348155,"{'34': 92.8, '33F2': 34.7, '35B': 31.2, '33F': 29.0, '33C': 28.1}",1,92.8,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239935,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252575,"{'14': 95.0, '36': 28.4, '09L': 25.5, '09N': 24.5, '15B': 24.2}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240085,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265615,"{'03': 75.1, '20': 7.7, '01': 7.0, '36': 6.9, '22F': 6.8}",1,75.1,,3,,,{},{},3,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000251285,"{'19A': 99.8, '19A-III': 99.6, '19A-I': 86.0, '19A-II': 83.5, '19AF': 57.0}",1,99.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321605,"{'06A': 83.3, '06A-IV': 82.2, '06A-V': 81.8, '06B-II': 81.7, '06B-I': 81.5}",1,83.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 83.83']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168125,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287435,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.8, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051545,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258265,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001199455,"{'06A-IV': 2.2, '09L': 1.9, '45': 1.8, '25F': 1.7, '38': 1.7}",1,2.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228035,"{'16F': 99.5, '28F': 42.4, '19F-IV': 40.9, '18A': 40.7, '18F': 40.5}",1,99.5,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277955,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001120205,"{'35F': 80.2, '47F': 56.8, '35B': 25.6, '34': 21.0, '36': 18.2}",1,80.2,,35F,,,{},{},35F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324345,"{'23A': 95.1, '23F': 68.0, '23B': 43.2, '19F-II': 40.0, '15B': 39.1}",1,95.1,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341425,"{'03': 95.2, '01': 17.5, '09L': 15.5, '09N': 15.1, '14': 13.9}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301285,"{'15A': 99.6, '15F': 74.0, '15C': 61.8, '15B': 61.7, '23F': 31.7}",1,99.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311935,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304235,"{'01': 99.1, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900059875,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001130145,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277475,"{'05': 95.2, '45': 22.2, '36': 21.9, '20': 20.3, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309865,"{'15C': 95.9, '15B': 95.8, '15A': 61.4, '15F': 47.7, '23A': 34.8}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019457355,"{'06A': 100.0, '06A-IV': 99.6, '06B-II': 95.4, '06A-V': 93.7, '06A-III': 91.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246835,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023765,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288905,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.8, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239165,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265995,"{'02': 92.4, '22F': 40.0, '06B-I': 38.7, '06A-III': 38.6, '06A-II': 38.5}",1,92.4,,2,,,{},{},2,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246415,"{'35B': 99.1, '33F': 33.4, '35C': 33.2, '34': 33.0, '35A': 32.8}",1,99.1,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900034075,"{'12F': 96.7, '44': 93.4, '12B': 92.7, '12A': 80.4, '46': 77.3}",1,96.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302585,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.6, '19A-III': 87.4, '19AF': 61.9}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 92.87]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002889615,"{'19B': 91.7, '19C': 70.5, '19F-II': 49.3, '19F-IV': 49.3, '19F-I': 48.5}",1,91.7,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329835,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.6, '19A-III': 87.4, '19AF': 61.9}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190635,"{'06C-I': 100.0, '06C': 99.8, '06D': 84.6, '06A-II': 79.6, '06A-VI': 79.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333405,"{'11D': 95.9, '11A': 94.7, '11F': 43.3, '11C': 36.2, '11B': 34.8}",1,95.9,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302435,"{'06A-III': 94.8, '06B-I': 93.4, '06A': 90.3, '06A-IV': 89.5, '06B-II': 89.4}",1,94.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241245,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246345,"{'15A': 98.5, '15F': 73.1, '15C': 61.8, '15B': 61.7, '23F': 32.2}",1,98.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222105,"{'06E': 100.0, '06B-III': 99.2, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001343595,"{'06C': 85.6, '06C-I': 85.6, '06D': 84.7, '06A': 77.0, '06A-IV': 73.3}",1,85.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241525,"{'15C': 87.8, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242785,"{'14': 93.4, '36': 27.3, '09L': 25.9, '09N': 25.3, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259735,"{'06C-I': 89.2, '06C': 89.1, '06D': 86.9, '06A-I': 78.0, '06B': 77.7}",1,89.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 94.1]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308255,"{'06A-I': 99.2, '06B': 94.9, '06A': 87.7, '06A-V': 86.0, '06A-III': 82.1}",1,99.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279745,"{'18A': 98.8, '18B': 54.0, '18C': 54.0, '18F': 53.8, '19F-II': 37.0}",1,98.8,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001138845,"{'15C': 87.8, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276335,"{'35B': 99.7, '33F': 33.7, '35C': 33.5, '34': 33.2, '35A': 33.1}",1,99.7,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225835,"{'06B-I': 89.4, '06B-II': 89.2, '06A-III': 88.9, '06A-II': 88.1, '06A-VI': 88.1}",1,89.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310805,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292495,"{'21': 100.0, '22F': 36.1, '06A-IV': 32.9, '06A-II': 32.2, '06A-VI': 32.1}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332105,"{'11A': 99.3, '11D': 96.9, '11F': 40.1, '11C': 36.2, '11B': 34.8}",1,99.3,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261545,"{'19F': 97.3, '19F-I': 96.3, '19F-III': 95.5, '19F-II': 95.4, '19F-IV': 90.9}",1,97.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001130805,"{'35B': 99.9, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.9,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900036535,"{'03': 95.2, '01': 17.4, '36': 16.6, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001106565,"{'14': 89.9, '36': 29.4, '09L': 23.4, '09N': 22.3, '19F-II': 22.2}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900195015,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001139905,"{'17F': 93.5, '06A-III': 45.6, '06B-I': 45.4, '06A-IV': 45.3, '06A': 44.5}",1,93.5,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019815,"{'04': 99.8, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001168425,"{'20': 5.4, '45': 5.0, '25F': 4.7, '22F': 4.6, '25A': 4.6}",1,5.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321505,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.5, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026085,"{'22F': 92.5, '22A': 74.2, '06A-IV': 45.1, '06A-II': 44.7, '06A-VI': 44.6}",1,92.5,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305355,"{'23F': 97.0, '23A': 63.9, '28A': 47.7, '28F': 46.0, '06A': 45.0}",1,97.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001164265,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337985,"{'14': 94.3, '36': 26.0, '09L': 25.3, '09N': 24.7, '15B': 24.3}",1,94.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335815,"{'02': 93.2, '06B-I': 39.0, '06A-III': 38.9, '06A-II': 38.7, '06A-VI': 38.6}",1,93.2,,2,,,{},{},2,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900693115,"{'42': 100.0, '35C': 98.8, '35A': 85.2, '33A': 44.6, '33F': 44.1}",1,100.0,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308965,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001084285,"{'23B1': 98.8, '23B': 55.9, '19A-II': 36.0, '19A-I': 35.7, '19AF': 31.5}",1,98.8,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237945,"{'18C': 99.5, '18B': 99.4, '18F': 76.0, '18A': 63.2, '16F': 39.5}",1,99.5,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327045,"{'05': 95.0, '45': 22.5, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308625,"{'35B': 99.3, '33F': 33.7, '35C': 33.2, '34': 33.1, '35A': 32.8}",1,99.3,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219845,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900459635,"{'24F2': 99.8, '24B': 88.7, '24F': 87.2, '24A': 67.3, '07C': 53.9}",1,99.8,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266855,"{'06A-II': 97.9, '06A-VI': 97.9, '06B-II': 90.4, '06A-V': 89.6, '06A-III': 89.2}",1,97.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311135,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171585,"{'14': 91.3, '36': 27.9, '09L': 24.7, '15B': 24.0, '09N': 23.9}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320255,"{'35A': 94.4, '35C': 89.7, '42': 89.1, '33A': 46.3, '33F': 45.9}",1,94.4,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289575,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020575,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214235,"{'06A-II': 95.4, '06A-VI': 95.4, '06B-II': 89.4, '06A-V': 89.0, '06A-III': 88.3}",1,95.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585725,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258795,"{'07A': 98.9, '07F': 98.7, '19F-II': 37.0, '19F-IV': 36.3, '19F-I': 35.8}",1,98.9,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001157025,"{'10A': 99.8, '10B': 66.7, '10C': 27.4, '10F': 17.8, '22F': 15.1}",1,99.8,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286555,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313275,"{'03': 97.4, '01': 17.9, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000180495,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218375,"{'14': 93.4, '36': 27.3, '09L': 25.9, '09N': 25.3, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292005,"{'06E': 69.6, '06B-III': 68.4, '06A-I': 66.3, '06B': 65.3, '06C': 60.3}",1,69.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025295,"{'23F': 99.4, '23A': 65.2, '23B': 47.9, '28A': 47.8, '06A-V': 45.8}",1,99.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346315,"{'21': 92.2, '22F': 34.5, '06A-IV': 34.3, '06A-II': 34.0, '06A-VI': 34.0}",1,92.2,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000279655,"{'04': 99.6, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.6,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288095,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262465,"{'34': 98.7, '33F2': 35.2, '35B': 33.5, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001145145,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243055,"{'14': 92.7, '36': 27.1, '09L': 25.7, '09N': 25.2, '15B': 24.1}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001172765,"{'09L': 97.3, '09N': 87.9, '09A': 31.0, '09V': 31.0, '36': 26.8}",1,97.3,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329315,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334065,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_004291255,"{'19F-II': 98.7, '19F': 94.5, '19F-III': 93.6, '19F-I': 93.2, '19F-IV': 92.4}",1,98.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219955,"{'19F-I': 98.0, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278715,"{'14': 91.3, '19F-IV': 25.9, '09L': 25.2, '09N': 24.7, '36': 24.4}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320275,"{'14': 91.4, '19F-IV': 25.9, '09L': 25.2, '36': 25.1, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001142985,"{'19B': 91.4, '19C': 70.2, '19F-II': 49.3, '19F-IV': 49.3, '19F-I': 48.5}",1,91.4,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027305,"{'03': 95.8, '01': 17.7, '20': 17.5, '36': 16.1, '09L': 16.0}",1,95.8,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019399465,"{'14': 100.0, '36': 26.8, '09L': 25.8, '09N': 24.4, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001336015,"{'09A': 95.9, '09V': 95.7, '09N': 37.0, '09L': 36.3, '11F': 26.7}",1,95.9,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001126425,"{'23B1': 78.7, '23B': 66.6, '06B-III': 29.7, '06A-II': 28.6, '06A-VI': 28.5}",1,78.7,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250415,"{'01': 99.1, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223685,"{'05': 95.2, '45': 22.2, '36': 21.6, '20': 20.3, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190705,"{'03': 95.2, '01': 17.2, '36': 17.1, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289515,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001909925,"{'03': 95.2, '36': 16.9, '20': 15.8, '01': 15.3, '09N': 15.2}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001909365,"{'03': 95.0, '20': 16.9, '01': 16.7, '36': 16.2, '09L': 15.8}",1,95.0,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313295,"{'01': 99.9, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.3}",1,99.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020140215,"{'35B': 99.8, '33F': 33.5, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319345,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001133045,"{'28F': 98.6, '28A': 92.2, '23F': 47.6, '16F': 46.0, '06B-I': 41.9}",1,98.6,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194105,"{'15C': 95.7, '15B': 95.6, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900048105,"{'01': 99.0, '07F': 52.3, '07A': 51.9, '19F-II': 36.9, '19F': 36.0}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267905,"{'04': 99.2, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001169925,"{'15C': 87.6, '15B': 87.5, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344175,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320685,"{'23F': 78.0, '23A': 57.7, '23B': 51.5, '28A': 38.9, '28F': 36.3}",1,78.0,,23F,,,{},{},23F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243385,"{'19F-II': 97.4, '19F': 93.8, '19F-IV': 93.3, '19F-I': 92.5, '19F-III': 92.1}",1,97.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900692815,"{'13': 99.0, '09N': 28.8, '09L': 28.5, '20': 28.4, '36': 28.0}",1,99.0,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218545,"{'23F': 94.0, '23A': 63.5, '28A': 48.3, '23B': 47.0, '06A-III': 46.2}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001094445,"{'32A': 97.5, '32F': 97.4, '06A-II': 40.7, '06A-VI': 40.6, '06B-II': 39.9}",1,97.5,,32F/32A,,,{},{},32F/32A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021022435,"{'02': 57.6, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001195785,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001160565,"{'09L': 96.4, '09N': 87.4, '36': 31.8, '09A': 31.4, '09V': 31.4}",1,96.4,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274835,"{'18F': 76.1, '18B': 69.3, '18C': 69.3, '18A': 58.3, '16F': 42.9}",1,76.1,,"Mixed serotypes- {'18F', '18C/18B'}",,,{},{},"Mixed serotypes- {'18F', '18C/18B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242665,"{'19A': 99.4, '19A-III': 99.2, '19A-I': 86.1, '19A-II': 83.6, '19AF': 57.2}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325645,"{'13': 83.3, '36': 28.9, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001165685,"{'35B': 42.5, '33B': 40.2, '33D': 36.1, '34': 31.3, '33F': 29.7}",1,42.5,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309685,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900060615,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900046535,"{'09A': 99.7, '09V': 99.5, '09N': 38.5, '09L': 36.7, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304765,"{'14': 92.7, '36': 28.8, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274495,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189215,"{'06C-I': 97.8, '06C': 97.7, '06D': 84.4, '06A-II': 77.6, '06A-VI': 77.6}",1,97.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019457415,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286915,"{'09A': 96.0, '09V': 95.8, '09N': 38.9, '09L': 37.4, '11F': 26.7}",1,96.0,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261585,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024895,"{'04': 99.8, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287655,"{'18A': 100.0, '18B': 54.1, '18C': 54.1, '18F': 53.8, '19F-IV': 37.4}",1,100.0,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219625,"{'06D': 93.9, '06C-I': 85.6, '06C': 85.5, '06A-III': 79.4, '06B-I': 79.4}",1,93.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 89.0']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248075,"{'35A': 92.2, '35C': 89.5, '42': 88.9, '33A': 44.6, '33F': 44.3}",1,92.2,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290935,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001135685,"{'34': 92.5, '33F2': 34.6, '35B': 31.5, '33F': 28.8, '33C': 27.8}",1,92.5,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255755,"{'29': 59.6, '35B': 37.7, '35F': 26.5, '22F': 23.4, '33B': 23.1}",1,59.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334175,"{'04': 99.3, '45': 33.5, '12A': 26.5, '46': 26.4, '12F': 23.1}",1,99.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325505,"{'15C': 95.3, '15B': 95.2, '15A': 60.8, '15F': 47.3, '23A': 34.0}",1,95.3,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322335,"{'09A': 99.6, '09V': 99.4, '09N': 38.0, '09L': 36.7, '06A-IV': 27.4}",1,99.6,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309905,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190215,"{'06B-I': 99.5, '06A-III': 97.4, '06B-II': 90.1, '06A': 89.8, '06A-V': 88.2}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900016955,"{'14': 92.7, '36': 28.8, '09L': 25.6, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342625,"{'10B': 93.7, '10A': 69.8, '10F': 20.0, '10C': 18.7, '22F': 14.0}",1,93.7,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226435,"{'23F': 94.1, '23A': 63.4, '28A': 47.7, '23B': 47.1, '06A': 46.9}",1,94.1,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280095,"{'19F': 97.4, '19F-I': 96.4, '19F-III': 95.6, '19F-II': 95.5, '19F-IV': 91.0}",1,97.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261355,"{'04': 98.3, '45': 34.9, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001107485,"{'23A': 96.6, '23F': 67.7, '23B': 45.9, '19F-II': 39.4, '15B': 38.5}",1,96.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346915,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322615,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053265,"{'13': 98.9, '09N': 29.1, '20': 28.9, '09L': 28.7, '36': 28.1}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251235,"{'06B-I': 99.7, '06A-III': 97.6, '06B-II': 90.3, '06A': 89.8, '06A-V': 88.4}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213385,"{'01': 99.6, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.6,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289525,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342335,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239285,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001152005,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260835,"{'20': 82.1, '47F': 25.9, '35A': 24.6, '09L': 24.5, '36': 24.1}",1,82.1,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194275,"{'34': 92.7, '33F2': 34.6, '35B': 31.9, '33F': 28.8, '33C': 27.7}",1,92.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001586065,"{'12F': 96.9, '44': 93.6, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,96.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001950975,"{'02': 57.6, '06C': 23.4, '06B-I': 23.4, '06C-I': 23.4, '06A-II': 23.1}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052755,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230185,"{'22A': 94.2, '22F': 77.6, '06A-IV': 45.8, '06A-II': 44.1, '06B-I': 44.1}",1,94.2,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288135,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900195005,"{'10A': 93.9, '10B': 64.7, '10C': 29.0, '10F': 19.4, '47A': 16.3}",1,93.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023205,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001168625,"{'45': 6.7, '25F': 6.6, '25A': 6.4, '36': 6.4, '20': 5.0}",3,6.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031735,"{'09N': 99.7, '09L': 88.8, '09A': 32.7, '09V': 32.7, '36': 32.0}",1,99.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001091505,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900459615,"{'23F': 96.3, '23A': 65.1, '23B': 48.7, '06A-IV': 48.6, '28A': 47.0}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334625,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001102525,"{'20': 86.5, '36': 27.7, '13': 25.6, '09L': 24.6, '47F': 24.6}",1,86.5,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001345495,"{'35B': 95.2, '33F': 33.9, '35C': 33.6, '35A': 33.2, '34': 33.1}",1,95.2,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028885,"{'01': 99.8, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.3}",1,99.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234835,"{'48': 99.3, '24A': 46.8, '24B': 39.4, '24F': 38.9, '24F2': 37.4}",1,99.3,,48,,,{},{},48,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312435,"{'15A': 98.3, '15F': 73.5, '15C': 61.8, '15B': 61.7, '23F': 31.6}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248985,"{'03': 95.6, '36': 17.1, '01': 16.2, '20': 15.8, '09L': 15.4}",1,95.6,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307585,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000252245,"{'06E': 99.5, '06B-III': 99.1, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065855,"{'18F': 99.6, '18B': 71.2, '18C': 71.2, '18A': 60.1, '16F': 41.4}",1,99.6,,18F,,,{},{},18F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246535,"{'01': 99.1, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217835,"{'03': 95.2, '01': 17.6, '36': 16.6, '20': 15.9, '09L': 15.6}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024655,"{'07A': 99.6, '07F': 99.4, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.6,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019735,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314015,"{'03': 95.2, '01': 18.2, '36': 17.4, '20': 16.1, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001131865,"{'06E': 99.7, '06B-III': 98.3, '06B-I': 45.6, '06A-III': 45.1, '06A-II': 44.2}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019397905,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398845,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001084145,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308935,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333355,"{'15C': 95.1, '15B': 95.0, '15A': 60.6, '15F': 47.1, '23A': 34.0}",1,95.1,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030105,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221445,"{'14': 92.5, '36': 28.9, '09L': 25.7, '09N': 24.6, '15B': 24.1}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238685,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238065,"{'07C': 99.4, '07B': 73.0, '40': 70.8, '24B': 48.8, '24F': 48.6}",1,99.4,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338485,"{'23A': 95.1, '23F': 68.0, '23B': 43.2, '19F-II': 40.0, '15B': 39.1}",1,95.1,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168495,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228615,"{'01': 7.2, '45': 6.5, '25F': 5.8, '36': 5.8, '23B1': 5.8}",3,7.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252015,"{'11D': 96.5, '11A': 95.3, '11F': 43.3, '11C': 36.2, '11B': 34.8}",1,96.5,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229015,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312145,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323655,"{'07C': 94.0, '07B': 77.1, '40': 76.7, '24B': 48.6, '24F': 47.6}",1,94.0,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001096265,"{'06E': 100.0, '06B-III': 97.5, '06B-I': 44.8, '06A-III': 44.3, '06B-II': 43.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315125,"{'23A': 99.4, '23F': 67.1, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.4,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023835,"{'19A-II': 100.0, '19A-I': 96.6, '19A': 85.0, '19A-III': 84.8, '19AF': 62.1}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000269665,"{'04': 99.8, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256235,"{'09N': 68.6, '09L': 68.2, '09A': 32.0, '09V': 31.8, '36': 26.2}",1,68.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054005,"{'15C': 93.8, '15B': 93.7, '15A': 62.0, '15F': 48.6, '14': 33.0}",1,93.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057185,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298895,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001198515,"{'36': 10.6, '06A-IV': 7.1, '20': 6.2, '06B-I': 5.9, '06C': 5.8}",1,10.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001200035,"{'19F-I': 95.5, '19F': 95.2, '19F-III': 93.7, '19F-II': 92.5, '19F-IV': 88.5}",1,95.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306175,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025115,"{'19A-I': 99.7, '19A-II': 97.5, '19A': 87.7, '19A-III': 87.5, '19AF': 61.8}",1,99.7,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251995,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.0, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342635,"{'09N': 96.9, '09L': 87.0, '09A': 32.4, '09V': 32.4, '36': 30.5}",1,96.9,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190105,"{'06D': 92.7, '06C-I': 85.0, '06C': 84.9, '06A-III': 78.4, '06B-I': 77.7}",1,92.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 89.0']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001144625,"{'14': 94.2, '36': 25.8, '15B': 24.3, '15C': 24.2, '09L': 23.9}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019399125,"{'34': 93.0, '33F2': 34.8, '35B': 32.1, '33F': 29.0, '33C': 28.0}",1,93.0,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_909594555,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001121145,"{'23F': 94.6, '23A': 63.7, '28A': 47.7, '23B': 47.0, '06A': 46.4}",1,94.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222305,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019399525,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342035,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300635,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001089285,"{'11D': 99.9, '11A': 97.1, '11F': 42.0, '11C': 35.8, '11B': 34.3}",1,99.9,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239725,"{'06A-II': 95.6, '06A-VI': 95.6, '06B-II': 89.5, '06A-V': 89.1, '06A-III': 88.5}",1,95.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299685,"{'18A': 100.0, '18B': 54.0, '18C': 54.0, '18F': 53.7, '19F-IV': 37.3}",1,100.0,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000468435,"{'09A': 99.6, '09V': 99.4, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.6,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050105,"{'01': 99.1, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900064875,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242655,"{'20': 82.1, '47F': 25.8, '35A': 24.6, '09L': 24.4, '36': 24.1}",1,82.1,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275325,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192125,"{'21': 100.0, '22F': 34.9, '06A-IV': 33.1, '06A-II': 32.4, '06A-VI': 32.3}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295575,"{'01': 99.2, '19F': 32.0, '19F-I': 31.5, '19F-III': 31.3, '19F-II': 31.0}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900034125,"{'09A': 99.7, '09V': 99.5, '09N': 38.2, '09L': 36.8, '06A-IV': 27.4}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280495,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020140245,"{'35B': 99.7, '33F': 33.4, '35C': 33.2, '34': 33.0, '35A': 32.8}",1,99.7,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900459565,"{'17F': 99.8, '06B': 44.5, '06B-I': 44.0, '06A-III': 43.9, '06D': 43.7}",1,99.8,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333185,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244265,"{'14': 99.4, '09L': 26.9, '36': 25.8, '09N': 24.8, '15B': 24.1}",1,99.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019885,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057845,"{'19A': 93.4, '19A-III': 93.2, '19A-II': 81.8, '19A-I': 80.0, '19AF': 55.9}",1,93.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171235,"{'14': 91.5, '36': 28.2, '09L': 24.6, '15B': 23.9, '15C': 23.8}",1,91.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001126225,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001168605,"{'31': 99.2, '41A': 56.7, '41F': 48.4, '06A-II': 35.9, '06A-VI': 35.9}",1,99.2,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251495,"{'31': 99.7, '41A': 57.2, '41F': 49.3, '06A-II': 36.5, '06A-VI': 36.5}",1,99.7,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234025,"{'06A-II': 85.5, '06A-VI': 85.5, '06A-III': 85.4, '06A-V': 84.9, '06B-I': 84.0}",1,85.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001108805,"{'14': 94.7, '36': 25.9, '09L': 24.0, '15B': 23.9, '15C': 23.8}",1,94.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307345,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303655,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901212905,"{'01': 98.8, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,98.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260615,"{'19F-I': 97.9, '19F-II': 95.2, '19F-III': 95.1, '19F': 95.0, '19F-IV': 90.6}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308925,"{'06C-I': 92.3, '06C': 92.2, '06D': 82.2, '06B-I': 77.2, '06A-III': 76.5}",1,92.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 88.3']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001330415,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286955,"{'23F': 97.0, '23A': 63.9, '28A': 47.7, '28F': 46.0, '23B': 45.7}",1,97.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258935,"{'12F': 96.4, '44': 93.4, '12B': 93.3, '12A': 84.8, '46': 81.7}",1,96.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189945,"{'33F': 100.0, '33A': 97.5, '33F2': 70.9, '35C': 42.8, '42': 41.8}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227955,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001114625,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001333995,"{'01': 6.8, '45': 5.9, '25F': 5.7, '20': 5.5, '25A': 5.5}",2,6.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316995,"{'34': 93.5, '33F2': 35.3, '35B': 32.5, '33F': 29.3, '33C': 28.6}",1,93.5,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024675,"{'09A': 99.7, '09V': 99.5, '09N': 38.1, '09L': 36.7, '35B': 26.7}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272665,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001111625,"{'14': 94.1, '36': 26.1, '09L': 24.5, '15B': 24.3, '15C': 24.2}",1,94.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280355,"{'14': 94.0, '36': 25.9, '09L': 25.3, '09N': 24.4, '15B': 24.1}",1,94.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322935,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227155,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001199975,"{'06A-III': 99.8, '06B-I': 98.2, '06B-II': 91.1, '06A': 90.8, '06A-V': 90.2}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001167225,"{'35F': 80.2, '47F': 56.8, '35B': 26.9, '34': 21.0, '36': 18.7}",1,80.2,,35F,,,{},{},35F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325885,"{'34': 98.7, '33F2': 35.2, '35B': 33.5, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246505,"{'20': 82.2, '47F': 25.9, '35A': 24.6, '09L': 24.5, '36': 24.2}",1,82.2,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320435,"{'19F-I': 97.8, '19F': 97.1, '19F-III': 96.6, '19F-II': 95.1, '19F-IV': 90.2}",1,97.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327585,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191145,"{'23B': 99.0, '23B1': 64.3, '23F': 45.6, '23A': 39.9, '06A-IV': 36.3}",1,99.0,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900016975,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218865,"{'13': 98.9, '09N': 29.1, '20': 28.9, '09L': 28.7, '36': 28.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056075,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001095805,"{'04': 97.5, '45': 33.5, '12F': 23.6, '44': 23.4, '12A': 22.4}",1,97.5,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340455,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254185,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313595,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_003994915,"{'03': 95.2, '01': 17.5, '09L': 15.5, '09N': 15.1, '14': 13.9}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246515,"{'14': 91.2, '19F-IV': 25.9, '36': 25.0, '09L': 24.8, '09N': 24.7}",1,91.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341465,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001140185,"{'14': 89.9, '36': 29.2, '09L': 24.1, '09N': 22.9, '19F-II': 22.2}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190325,"{'22F': 94.0, '22A': 70.2, '06A-II': 45.3, '06A-VI': 45.2, '06B-I': 45.2}",1,94.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292595,"{'07C': 99.1, '07B': 72.9, '40': 70.7, '24B': 48.7, '24F': 48.5}",1,99.1,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231285,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001115585,"{'06E': 100.0, '06B-III': 97.3, '06B-I': 44.8, '06A-III': 44.3, '06B-II': 43.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332875,"{'14': 90.8, '36': 27.3, '19F-II': 26.2, '19F-I': 25.3, '09L': 25.2}",1,90.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050485,"{'01': 93.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,93.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291235,"{'14': 93.4, '36': 27.5, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900088755,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259005,"{'19F': 95.5, '19F-I': 94.5, '19F-III': 93.7, '19F-II': 93.6, '19F-IV': 89.1}",1,95.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001145465,"{'34': 92.9, '33F2': 34.6, '35B': 32.0, '33F': 28.9, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240705,"{'21': 100.0, '22F': 36.0, '06A-IV': 32.8, '06A-II': 32.1, '06A-VI': 32.0}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340585,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017165,"{'23F': 99.2, '23A': 65.4, '23B': 49.0, '28A': 48.1, '06A-IV': 47.3}",1,99.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001131045,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290375,"{'29': 99.2, '39': 20.9, '35F': 19.4, '22F': 16.7, '35B': 16.2}",1,99.2,,29,,,{},{},29,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279855,"{'18C': 99.8, '18B': 99.7, '18F': 75.7, '18A': 62.6, '16F': 39.2}",1,99.8,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258715,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.6, '19A-III': 87.4, '19AF': 61.9}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 92.87]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001122645,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043875,"{'19A': 93.0, '19A-III': 92.8, '19A-II': 81.4, '19A-I': 79.6, '19AF': 55.5}",1,93.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191385,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275255,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335795,"{'14': 94.1, '36': 26.3, '09L': 24.5, '15B': 24.0, '15C': 23.9}",1,94.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317855,"{'10A': 97.4, '10B': 66.3, '10C': 27.2, '10F': 17.8, '22F': 14.7}",1,97.4,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291555,"{'24F2': 99.7, '24B': 88.5, '24F': 87.0, '24A': 71.0, '07B': 56.8}",1,99.7,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278415,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065595,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001094125,"{'19F-I': 95.4, '19F': 95.1, '19F-III': 93.6, '19F-II': 92.3, '19F-IV': 88.3}",1,95.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001147945,"{'14': 89.9, '36': 28.2, '09L': 23.2, '19F-II': 22.2, '09N': 22.0}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299805,"{'16F': 71.3, '28F': 42.9, '28A': 40.4, '18F': 33.7, '18A': 33.1}",1,71.3,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269855,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342255,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289045,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001169245,"{'06D': 95.4, '06C': 87.5, '06C-I': 87.5, '06B-I': 75.6, '06A-III': 75.2}",1,95.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 89.0']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233025,"{'01': 99.0, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000252265,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303095,"{'15F': 90.8, '15A': 87.2, '15B': 60.4, '15C': 60.0, '23F': 46.6}",1,90.8,15F_15A,15F_15A,,"[[10], [12], [14], [16]]","{'glf': 100.0, 'rmlB': 94.91, 'rmlD': 100.0, 'wcjE': 100.0}","{'glf': 'detected', 'rmlB': 'detected', 'rmlD': 'detected', 'wcjE': 'detected'}",15F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222265,"{'01': 99.2, '19F': 32.2, '19F-I': 31.7, '19F-III': 31.5, '19F-II': 31.2}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028665,"{'15C': 93.9, '15B': 93.8, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267895,"{'15C': 90.8, '15B': 90.6, '15A': 63.0, '15F': 48.8, '23A': 31.1}",1,90.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220645,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276135,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219875,"{'06E': 99.9, '06B-III': 99.3, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024285,"{'06B-I': 98.8, '06A-III': 96.7, '06B-II': 89.9, '06A': 89.8, '06A-V': 88.0}",1,98.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229275,"{'39': 97.9, '29': 28.6, '34': 22.6, '43': 19.3, '33C': 18.6}",1,97.9,,39,,,{},{},39,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258345,"{'06A-III': 94.7, '06B-I': 93.3, '06A': 90.2, '06A-IV': 89.4, '06B-II': 89.3}",1,94.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347675,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000251485,"{'06A-II': 97.9, '06A-VI': 97.9, '06B-II': 90.4, '06A-V': 89.6, '06A-III': 89.2}",1,97.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273015,"{'01': 99.2, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253875,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020705,"{'06B-I': 99.7, '06A-III': 97.6, '06B-II': 90.3, '06A': 89.8, '06A-V': 88.4}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306345,"{'23A': 99.5, '23F': 67.1, '23B': 43.5, '19F-II': 37.7, '15B': 37.2}",1,99.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001168345,"{'36': 12.4, '20': 8.2, '06A-IV': 7.6, '06C': 6.3, '06B-I': 6.3}",1,12.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331565,"{'19F-I': 97.8, '19F': 97.1, '19F-III': 96.6, '19F-II': 95.1, '19F-IV': 90.2}",1,97.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335455,"{'17F': 99.7, '06B': 44.4, '06B-I': 43.8, '06A-III': 43.7, '06D': 43.6}",1,99.7,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227945,"{'14': 92.7, '36': 28.9, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900088785,"{'15C': 93.9, '15B': 93.8, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284195,"{'06A-II': 94.5, '06A-VI': 94.5, '06B-II': 88.4, '06A-V': 88.0, '06A': 87.5}",1,94.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019457255,"{'24F2': 99.8, '24B': 88.6, '24F': 87.1, '24A': 71.3, '07B': 55.3}",1,99.8,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308765,"{'39': 97.9, '29': 28.6, '34': 22.6, '43': 19.3, '33C': 18.6}",1,97.9,,39,,,{},{},39,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242805,"{'03': 97.4, '01': 17.9, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298905,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194425,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329885,"{'20': 91.3, '09L': 24.9, '13': 24.7, '09N': 23.9, '47F': 23.4}",1,91.3,,20,,,{},{},20,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001199515,"{'06C': 85.2, '06C-I': 85.2, '06D': 84.2, '06A': 76.9, '06A-IV': 73.3}",1,85.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168015,"{'09A': 99.7, '09V': 99.5, '09N': 37.3, '09L': 35.9, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244665,"{'15B': 99.8, '15C': 99.6, '15A': 62.7, '15F': 48.3, '23A': 32.9}",1,99.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256095,"{'04': 98.3, '45': 34.2, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293935,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265005,"{'06A-III': 94.8, '06B-I': 93.4, '06A': 90.3, '06A-IV': 89.5, '06B-II': 89.4}",1,94.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900693085,"{'15C': 90.5, '15B': 90.4, '15A': 62.8, '15F': 48.7, '23A': 31.1}",1,90.5,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257255,"{'17F': 98.5, '06B': 43.9, '06A-III': 43.7, '06D': 43.4, '06B-I': 43.3}",1,98.5,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298125,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234685,"{'22F': 96.4, '22A': 73.4, '06A': 42.6, '06A-II': 42.3, '06A-VI': 42.2}",1,96.4,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290305,"{'14': 91.4, '19F-IV': 25.9, '36': 25.4, '09L': 25.1, '09N': 24.6}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275145,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019399485,"{'14': 100.0, '36': 26.7, '09L': 25.8, '09N': 24.4, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242775,"{'14': 99.9, '09L': 27.4, '36': 25.7, '09N': 24.6, '15B': 24.3}",1,99.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052585,"{'18F': 99.6, '18B': 71.2, '18C': 71.2, '18A': 60.2, '16F': 41.4}",1,99.6,,18F,,,{},{},18F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295905,"{'06A-I': 98.5, '06B': 94.5, '06A-V': 89.5, '06A': 87.6, '06A-III': 86.0}",1,98.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047865,"{'03': 95.2, '36': 17.1, '01': 17.0, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001145305,"{'19A': 99.7, '19A-III': 99.5, '19A-I': 85.9, '19A-II': 83.4, '19AF': 57.0}",1,99.7,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227495,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255935,"{'23F': 91.2, '23A': 59.8, '06A-IV': 46.9, '28A': 46.8, '23B': 46.2}",1,91.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303885,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234735,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.2, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001108145,"{'14': 95.1, '36': 26.3, '09L': 25.3, '09N': 24.5, '15B': 24.3}",1,95.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307565,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330345,"{'08': 98.0, '02': 24.4, '06A-II': 24.2, '06A-VI': 24.1, '06B-II': 23.7}",1,98.0,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242075,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336425,"{'35B': 99.2, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.2,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232545,"{'06A-I': 100.0, '06B': 94.5, '06A-V': 89.6, '06A': 87.1, '06A-III': 86.3}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281325,"{'14': 94.1, '36': 26.1, '09L': 25.5, '09N': 24.5, '15B': 24.3}",1,94.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256645,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.0, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279165,"{'34': 93.5, '33F2': 35.3, '35B': 32.4, '33F': 29.3, '33C': 28.6}",1,93.5,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316155,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_012584345,"{'03': 94.3, '36': 17.4, '01': 17.0, '20': 15.9, '09N': 15.8}",1,94.3,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338315,"{'35B': 99.5, '33F': 33.6, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346355,"{'21': 97.5, '22F': 35.6, '06A-II': 32.6, '06A-VI': 32.5, '06A-III': 31.8}",1,97.5,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260685,"{'22A': 94.2, '22F': 77.5, '06A-IV': 45.6, '06A-II': 43.9, '06A-VI': 43.8}",1,94.2,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298175,"{'15C': 90.7, '15B': 90.6, '15A': 63.0, '15F': 48.8, '23A': 31.1}",1,90.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056985,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 89.6, '19A-III': 89.4, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192065,"{'08': 99.7, '06A-II': 24.6, '06A-VI': 24.5, '02': 24.4, '06B-II': 24.0}",1,99.7,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292345,"{'07C': 94.0, '07B': 77.1, '40': 76.7, '24B': 48.6, '24F': 47.6}",1,94.0,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331575,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189135,"{'19A-II': 99.8, '19A-I': 96.4, '19A': 84.8, '19A-III': 84.6, '19AF': 62.0}",1,99.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310815,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296345,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001102625,"{'04': 98.3, '45': 33.2, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289065,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001122445,"{'06E': 100.0, '06B-III': 97.5, '06B-I': 44.8, '06A-III': 44.3, '06B-II': 43.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284295,"{'35B': 99.4, '33F': 33.4, '35C': 33.2, '34': 33.0, '35A': 32.8}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328715,"{'19A': 92.4, '19A-III': 92.2, '19A-II': 83.8, '19A-I': 81.8, '19AF': 56.1}",1,92.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001132685,"{'06A': 99.3, '06A-IV': 98.6, '06B-II': 94.4, '06A-V': 92.7, '06A-III': 90.7}",1,99.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225435,"{'13': 98.9, '09N': 29.1, '20': 28.9, '09L': 28.7, '36': 28.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273325,"{'15C': 93.7, '15B': 93.6, '15A': 62.0, '15F': 48.5, '14': 33.0}",1,93.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001861025,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280695,"{'01': 99.1, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226055,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320755,"{'15A': 99.6, '15F': 73.9, '15C': 62.3, '15B': 62.2, '23F': 31.3}",1,99.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001170005,"{'23F': 94.6, '23A': 63.7, '28A': 47.7, '23B': 47.0, '06A': 46.4}",1,94.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242005,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 32.7}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217035,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293395,"{'10A': 99.2, '10B': 67.1, '10C': 27.7, '10F': 18.1, '22F': 15.3}",1,99.2,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001208725,"{'06D': 98.7, '06C': 84.0, '06C-I': 84.0, '06A-III': 77.2, '06B-I': 77.1}",1,98.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 89.0']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001097105,"{'35F': 99.3, '47F': 74.7, '34': 26.7, '35B': 26.1, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261615,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306435,"{'46': 98.7, '12A': 96.4, '12B': 84.2, '44': 82.2, '12F': 82.0}",1,98.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[4]],"{'wciI': [1, 100.0]}",{'wciI': 1},12A/12B/44/46,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241945,"{'14': 99.8, '09L': 26.2, '36': 25.9, '09N': 24.4, '15B': 24.1}",1,99.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265905,"{'09N': 99.8, '09L': 89.0, '09A': 32.7, '09V': 32.7, '36': 32.3}",1,99.8,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000468455,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001161705,"{'18C': 88.6, '18B': 88.5, '18F': 78.1, '18A': 61.3, '16F': 37.9}",1,88.6,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243515,"{'09A': 99.4, '09V': 99.2, '09N': 38.5, '09L': 36.5, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323395,"{'36': 11.1, '45': 6.7, '06A-IV': 6.7, '23B1': 6.6, '20': 6.4}",1,11.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268305,"{'03': 95.2, '01': 17.6, '36': 17.4, '20': 16.1, '09L': 15.6}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001093125,"{'06C-I': 89.1, '06C': 89.0, '06D': 86.9, '06A-I': 77.7, '06B': 77.4}",1,89.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001110885,"{'03': 95.1, '01': 16.1, '20': 15.2, '09N': 15.1, '09L': 14.9}",1,95.1,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283795,"{'23F': 92.4, '23A': 61.3, '28A': 48.1, '23B': 46.7, '06A-IV': 46.4}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169235,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265585,"{'09L': 98.6, '09N': 89.1, '36': 32.2, '09A': 31.6, '09V': 31.6}",1,98.6,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051465,"{'19A': 99.0, '19A-III': 98.8, '19A-I': 85.9, '19A-II': 83.6, '19AF': 57.2}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338635,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901343155,"{'06B-I': 93.6, '06A-III': 93.3, '06A-II': 92.6, '06A-VI': 92.6, '06A-V': 90.9}",1,93.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328795,"{'21': 91.7, '22F': 36.8, '06A-IV': 31.6, '06A-II': 31.2, '06A-VI': 31.2}",1,91.7,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270245,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307105,"{'19F': 97.4, '19F-I': 96.4, '19F-III': 95.6, '19F-II': 95.5, '19F-IV': 91.0}",1,97.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222315,"{'20': 84.7, '47F': 26.6, '35A': 24.9, '09L': 24.5, '09N': 23.7}",1,84.7,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171885,"{'14': 92.1, '36': 28.1, '09L': 24.7, '15B': 24.2, '15C': 24.1}",1,92.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001092065,"{'14': 89.9, '36': 29.4, '09L': 24.0, '09N': 23.2, '19F-II': 22.2}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303405,"{'28A': 92.6, '28F': 92.5, '23F': 50.4, '16F': 45.0, '06A-IV': 39.9}",1,92.6,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001172685,"{'22F': 86.3, '22A': 71.2, '06A-IV': 39.7, '06A': 39.6, '06A-III': 39.6}",1,86.3,,22F,,,{},{},22F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226325,"{'14': 92.7, '36': 28.8, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257665,"{'19A-I': 99.2, '19A-II': 97.5, '19A': 87.8, '19A-III': 87.6, '19AF': 62.0}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301655,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047145,"{'22F': 99.1, '22A': 73.4, '06A-IV': 43.5, '06A': 42.6, '06B': 42.1}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218735,"{'01': 7.0, '45': 5.9, '25F': 5.7, '20': 5.5, '25A': 5.5}",4,7.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274085,"{'23B': 88.1, '23B1': 61.3, '23F': 38.5, '28A': 33.3, '23A': 33.0}",1,88.1,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334725,"{'09A': 95.9, '09V': 95.7, '09N': 38.7, '09L': 37.5, '11F': 26.7}",1,95.9,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253835,"{'19B': 92.8, '19C': 71.8, '19F-IV': 50.8, '19F-II': 50.7, '19F-I': 49.8}",1,92.8,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056345,"{'09N': 99.8, '09L': 88.8, '09A': 32.7, '09V': 32.7, '36': 32.2}",1,99.8,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213455,"{'09A': 99.7, '09V': 99.5, '09N': 38.2, '09L': 36.8, '06A-IV': 27.4}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030615,"{'04': 99.7, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319315,"{'04': 99.2, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303795,"{'05': 95.0, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250695,"{'10A': 99.6, '10B': 66.4, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,99.6,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281375,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249345,"{'06E': 99.9, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308325,"{'35B': 99.8, '33F': 33.6, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900035385,"{'14': 100.0, '09L': 26.2, '36': 25.9, '09N': 24.9, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000180515,"{'03': 90.7, '36': 19.5, '20': 18.1, '01': 18.0, '09L': 16.5}",1,90.7,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297855,"{'06A-I': 98.1, '06B': 95.1, '06A': 88.3, '06A-V': 84.9, '06A-III': 83.1}",1,98.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001136925,"{'14': 94.1, '36': 26.2, '15B': 24.3, '09L': 24.2, '15C': 24.2}",1,94.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302315,"{'19A': 92.4, '19A-III': 92.2, '19A-II': 83.1, '19A-I': 81.1, '19AF': 56.1}",1,92.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192445,"{'09N': 99.1, '09L': 87.9, '09A': 32.7, '09V': 32.7, '36': 31.5}",1,99.1,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259575,"{'06E': 100.0, '06B-III': 97.9, '06B-I': 45.6, '06A-III': 45.1, '06A-II': 44.1}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900693025,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282715,"{'23B': 99.5, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.6}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001102285,"{'36': 10.6, '06A-IV': 7.1, '06B-I': 5.9, '06C': 5.8, '06C-I': 5.8}",1,10.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001146965,"{'18C': 88.6, '18B': 88.5, '18F': 78.1, '18A': 60.5, '16F': 37.9}",1,88.6,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001135625,"{'35F': 91.0, '47F': 67.6, '29': 25.7, '34': 25.3, '35B': 24.1}",1,91.0,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290445,"{'14': 92.8, '36': 30.1, '09L': 25.8, '09N': 24.5, '15B': 24.3}",1,92.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320935,"{'20': 81.9, '47F': 25.9, '09L': 24.5, '35A': 24.5, '36': 24.1}",1,81.9,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264785,"{'22F': 98.9, '22A': 73.2, '06A-IV': 43.5, '06A': 42.6, '06B': 42.1}",1,98.9,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290905,"{'19AF': 96.9, '19A-II': 63.0, '19A-I': 62.3, '19A': 51.8, '19A-III': 51.6}",1,96.9,19A_19AF,19A_19AF,,[[7]],"{'wzy': [2, 97.62]}",{'wzy': 2},19A_19AF,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021022165,"{'02': 57.6, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331015,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001137865,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318055,"{'19F-I': 97.7, '19F-II': 95.0, '19F-III': 94.9, '19F': 94.8, '19F-IV': 90.4}",1,97.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317605,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.2, '20': 7.6}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246455,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065845,"{'10B': 93.5, '10A': 69.7, '10F': 20.0, '10C': 18.7, '47A': 12.6}",1,93.5,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237675,"{'06A-II': 95.6, '06A-VI': 95.6, '06B-II': 89.4, '06A-V': 89.0, '06A-III': 88.5}",1,95.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055735,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265015,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022545,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330205,"{'04': 99.2, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247575,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227445,"{'14': 100.0, '09L': 26.4, '36': 25.8, '09N': 24.5, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290175,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236145,"{'18C': 99.3, '18B': 99.2, '18F': 76.0, '18A': 62.8, '16F': 39.3}",1,99.3,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246605,"{'17F': 82.5, '06A-I': 42.1, '06B': 41.7, '06A': 41.2, '06A-III': 40.5}",1,82.5,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001909905,"{'03': 95.2, '36': 17.2, '20': 15.6, '01': 15.2, '09N': 15.0}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342555,"{'23B': 81.1, '23B1': 65.0, '06B-II': 34.7, '06A-V': 34.5, '06A-IV': 34.1}",1,81.1,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313535,"{'35B': 99.8, '33F': 33.6, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226685,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265395,"{'07A': 99.5, '07F': 99.3, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900692655,"{'10B': 93.7, '10A': 69.8, '10F': 20.0, '10C': 18.7, '22F': 13.6}",1,93.7,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001124905,"{'14': 94.1, '36': 24.8, '15B': 24.3, '15C': 24.2, '09L': 23.5}",1,94.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339065,"{'15A': 98.2, '15F': 72.8, '15C': 61.6, '15B': 61.5, '23F': 32.1}",1,98.2,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001169505,"{'36': 11.1, '06A-IV': 7.7, '20': 7.0, '06C': 6.4, '06B-I': 6.4}",1,11.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293235,"{'03': 97.4, '01': 17.9, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272415,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063235,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243615,"{'14': 92.7, '36': 28.8, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280765,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290875,"{'19A': 93.0, '19A-III': 92.8, '19A-II': 81.1, '19A-I': 80.3, '19AF': 58.1}",1,93.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216605,"{'14': 91.4, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318025,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299255,"{'19F-IV': 94.8, '19F-I': 92.6, '19F': 91.8, '19F-III': 91.7, '19F-II': 89.3}",1,94.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217705,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238195,"{'14': 100.0, '09L': 26.9, '36': 26.1, '09N': 25.0, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001166765,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282425,"{'34': 98.6, '33F2': 35.2, '35B': 33.5, '33F': 29.8, '33C': 28.5}",1,98.6,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256355,"{'10B': 93.7, '10A': 69.9, '10F': 20.0, '10C': 18.7, '22F': 14.2}",1,93.7,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167995,"{'14': 93.3, '36': 27.1, '09L': 24.9, '15B': 24.3, '15C': 24.2}",1,93.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001090605,"{'01': 7.2, '45': 6.2, '20': 5.9, '25F': 5.8, '25A': 5.6}",2,7.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264675,"{'14': 92.6, '36': 28.8, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292255,"{'24F': 96.9, '24B': 89.5, '24F2': 85.7, '24A': 67.2, '07C': 56.8}",1,96.9,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001119965,"{'09L': 97.8, '09N': 87.9, '36': 31.9, '09A': 31.4, '09V': 31.4}",1,97.8,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288495,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001091145,"{'06C-I': 88.7, '06C': 88.6, '06D': 86.7, '06A-I': 77.3, '06B': 77.0}",1,88.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320645,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020139915,"{'35B': 99.8, '33F': 33.6, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294095,"{'35B': 99.8, '33F': 33.6, '35C': 33.4, '34': 33.2, '35A': 33.0}",1,99.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282665,"{'34': 98.7, '33F2': 35.2, '35B': 33.6, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290585,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307765,"{'06A-II': 85.8, '06A-VI': 85.8, '06A-III': 85.7, '06A-V': 85.1, '06B-I': 84.3}",1,85.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001096805,"{'45': 6.7, '25F': 5.6, '20': 5.4, '25A': 5.4, '36': 5.4}",3,6.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291995,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283825,"{'01': 99.1, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322085,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001115365,"{'10A': 99.3, '10B': 67.0, '10C': 27.7, '10F': 18.1, '06B-I': 15.2}",1,99.3,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001134925,"{'40': 99.6, '07B': 93.9, '07C': 75.4, '24F2': 48.2, '24F': 47.9}",1,99.6,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322895,"{'24F': 97.1, '24B': 89.8, '24F2': 86.5, '24A': 63.0, '07C': 52.1}",1,97.1,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257235,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331375,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900034105,"{'20': 91.4, '09L': 25.1, '13': 24.9, '09N': 24.2, '47F': 23.6}",1,91.4,,20,,,{},{},20,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302735,"{'15A': 98.3, '15F': 72.9, '15C': 61.6, '15B': 61.5, '23F': 32.2}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235875,"{'14': 100.0, '09L': 27.2, '36': 26.1, '09N': 25.0, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308655,"{'23F': 96.9, '23A': 63.9, '28A': 47.7, '28F': 46.0, '23B': 45.7}",1,96.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021665,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001087865,"{'11D': 99.8, '11A': 97.0, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,99.8,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269705,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901905335,"{'09A': 98.3, '09V': 98.1, '09N': 37.9, '09L': 36.4, '11F': 26.6}",1,98.3,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001191935,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001170725,"{'22F': 4.9, '25F': 4.2, '25A': 4.1, '45': 3.5, '01': 3.4}",1,4.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317265,"{'18C': 99.8, '18B': 99.7, '18F': 75.7, '18A': 62.5, '16F': 39.2}",1,99.8,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322395,"{'14': 100.0, '09L': 27.2, '36': 25.8, '09N': 24.6, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001113565,"{'24A': 99.0, '24F2': 62.5, '24F': 60.0, '24B': 57.5, '48': 46.4}",1,99.0,,24A,,,{},{},24A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283695,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000334775,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_902652925,"{'01': 99.7, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.7,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317655,"{'06C-I': 92.1, '06C': 92.0, '06D': 84.9, '06B-I': 77.2, '06A-III': 76.5}",1,92.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251155,"{'03': 95.2, '01': 17.4, '36': 16.5, '20': 15.8, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298055,"{'23F': 96.5, '23A': 63.8, '23B': 47.9, '28A': 47.6, '06B-II': 46.1}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307705,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031925,"{'23F': 97.8, '23A': 63.3, '28A': 48.3, '23B': 48.1, '06A-IV': 46.8}",1,97.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256135,"{'23F': 96.8, '23A': 63.7, '23B': 48.0, '28A': 47.7, '06B-II': 46.1}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274925,"{'38': 98.8, '25F': 84.4, '25A': 83.4, '36': 11.8, '20': 8.2}",1,98.8,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030525,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171895,"{'14': 92.5, '36': 28.7, '09L': 25.2, '15B': 24.2, '09N': 24.1}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055035,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192845,"{'11D': 99.6, '11A': 96.8, '11F': 41.7, '11C': 35.9, '11B': 34.4}",1,99.6,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027165,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302115,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001084765,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235045,"{'23F': 91.1, '23A': 59.7, '06A-IV': 46.8, '28A': 46.6, '23B': 46.1}",1,91.1,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000251525,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001334695,"{'36': 14.0, '20': 8.9, '06A-IV': 8.5, '06B-I': 7.3, '06C': 7.2}",1,14.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246405,"{'08': 97.5, '06A-IV': 24.9, '02': 24.4, '06A-II': 23.9, '06A-VI': 23.8}",1,97.5,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213625,"{'14': 93.4, '36': 27.3, '09L': 25.7, '09N': 25.1, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900039315,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190505,"{'06C-I': 99.4, '06C': 99.2, '06D': 84.5, '06A-II': 79.2, '06A-VI': 79.2}",1,99.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001160985,"{'36': 12.5, '06A-IV': 7.0, '20': 6.4, '06C': 5.6, '06C-I': 5.6}",1,12.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338495,"{'45': 5.8, '25F': 5.7, '25A': 5.5, '20': 5.0, '22F': 4.9}",2,5.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344915,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001141785,"{'07A': 98.3, '07F': 98.1, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,98.3,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316305,"{'19B': 82.3, '19C': 66.8, '19F-IV': 39.5, '19F-II': 39.1, '19F-I': 38.5}",1,82.3,,19B,,,{},{},19B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298935,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340005,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334525,"{'19F-I': 92.4, '19F': 92.1, '19F-III': 90.7, '19F-II': 89.9, '19F-IV': 88.0}",1,92.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294675,"{'06E': 96.8, '06B-III': 96.0, '06B-I': 46.5, '06A-III': 45.9, '06A-IV': 45.2}",1,96.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 96.61]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019555,"{'18C': 99.8, '18B': 99.7, '18F': 75.7, '18A': 62.3, '16F': 39.2}",1,99.8,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267215,"{'01': 99.1, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001150105,"{'10A': 99.3, '10B': 67.0, '10C': 27.7, '10F': 18.1, '06B-I': 15.2}",1,99.3,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308745,"{'14': 93.0, '36': 27.3, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240765,"{'09A': 99.7, '09V': 99.5, '09N': 38.2, '09L': 36.8, '06A-IV': 27.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001326495,"{'17F': 99.5, '06B': 44.2, '06D': 43.6, '06A-I': 43.0, '06B-I': 42.9}",1,99.5,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236295,"{'23A': 99.7, '23F': 67.3, '23B': 42.8, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289375,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245685,"{'19F-II': 97.6, '19F': 93.5, '19F-I': 92.9, '19F-III': 92.5, '19F-IV': 91.9}",1,97.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001164925,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170765,"{'14': 91.8, '36': 28.0, '09L': 24.3, '15B': 23.6, '15C': 23.5}",1,91.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001148205,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
PHESPD0215,"{'41A': 99.6, '41F': 72.6, '31': 56.4, '22F': 44.0, '06A-II': 43.8}",1,99.6,,41A,,,{},{},41A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337775,"{'32A': 97.5, '32F': 97.4, '06A-II': 39.1, '06A-VI': 39.0, '06B-II': 38.5}",1,97.5,,32F/32A,,,{},{},32F/32A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346335,"{'14': 89.9, '36': 29.4, '09L': 23.5, '19F-II': 22.2, '09N': 22.1}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310595,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287585,"{'17F': 82.3, '06A-I': 42.2, '06B': 41.8, '06A': 41.2, '06A-III': 40.5}",1,82.3,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001141545,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218785,"{'23F': 78.4, '23A': 58.1, '23B': 52.1, '28A': 39.2, '28F': 36.6}",1,78.4,,23F,,,{},{},23F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001109465,"{'19F-I': 95.3, '19F': 95.0, '19F-III': 93.5, '19F-II': 92.2, '19F-IV': 88.2}",1,95.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226805,"{'21': 91.7, '22F': 36.7, '06A-IV': 31.6, '06A-II': 31.2, '06A-VI': 31.2}",1,91.7,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585245,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329175,"{'15C': 87.6, '15B': 87.4, '15A': 64.3, '15F': 49.7, '23A': 30.2}",1,87.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248965,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309985,"{'23F': 92.4, '23A': 61.3, '28A': 48.0, '23B': 46.8, '06A-IV': 46.6}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900059275,"{'22F': 99.0, '22A': 73.3, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306825,"{'33F': 100.0, '33A': 97.5, '33F2': 70.9, '35C': 42.8, '42': 41.8}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001204835,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310465,"{'14': 93.0, '36': 27.3, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001125225,"{'36': 11.5, '06A-IV': 6.7, '20': 6.4, '45': 5.7, '06B-I': 5.5}",1,11.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280055,"{'19F-I': 97.7, '19F': 97.0, '19F-III': 96.5, '19F-II': 95.0, '19F-IV': 90.1}",1,97.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019397625,"{'06A': 83.7, '06A-IV': 83.2, '06A-V': 82.6, '06B-I': 82.5, '06B-II': 82.5}",1,83.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 83.83']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001697015,"{'29': 59.6, '35B': 36.9, '35F': 26.5, '22F': 22.6, '33B': 22.5}",1,59.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269205,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 46.9, '06A-III': 46.6, '06A-II': 45.6}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231595,"{'05': 95.3, '45': 22.7, '36': 21.7, '20': 20.1, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900323495,"{'06C-I': 89.1, '06C': 89.0, '06D': 86.9, '06A-I': 77.7, '06B': 77.4}",1,89.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218095,"{'14': 93.4, '36': 27.3, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900064885,"{'15C': 95.4, '15B': 95.3, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.4,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240265,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049905,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338835,"{'16F': 71.7, '28F': 43.2, '28A': 40.7, '18F': 33.7, '18A': 33.6}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229745,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285255,"{'14': 91.5, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236185,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219285,"{'17F': 99.5, '06B': 44.2, '06B-I': 44.1, '06A-III': 44.0, '06D': 43.7}",1,99.5,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314615,"{'06A-I': 99.4, '06B': 95.1, '06A': 87.6, '06A-V': 86.9, '06A-III': 83.3}",1,99.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277265,"{'19F': 97.2, '19F-I': 96.2, '19F-III': 95.5, '19F-II': 95.3, '19F-IV': 90.8}",1,97.2,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342175,"{'06E': 98.6, '06B-III': 98.2, '06B-I': 45.8, '06A-III': 45.2, '06A-II': 44.7}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238745,"{'03': 97.4, '01': 17.8, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168635,"{'09A': 99.7, '09V': 99.5, '09N': 37.1, '09L': 35.2, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193455,"{'21': 99.8, '22F': 34.5, '06A-IV': 33.7, '06A-II': 33.0, '06A-VI': 32.9}",1,99.8,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001108965,"{'34': 92.5, '33F2': 34.6, '35B': 31.6, '33F': 28.8, '33C': 27.8}",1,92.5,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341975,"{'15C': 87.8, '15B': 87.6, '15A': 64.6, '15F': 50.0, '23A': 30.1}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296255,"{'23A': 99.4, '23F': 67.1, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.4,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900059735,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190765,"{'19A-II': 100.0, '19A-I': 96.6, '19A': 85.0, '19A-III': 84.8, '19AF': 62.1}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291255,"{'10C': 99.1, '10F': 80.5, '10A': 29.0, '10B': 20.3, '36': 15.3}",1,99.1,,10C,,,{},{},10C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028245,"{'12F': 96.7, '44': 93.4, '12B': 92.7, '12A': 80.4, '46': 77.3}",1,96.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289455,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273885,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313125,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.0, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001202155,"{'06A-II': 87.3, '06A-VI': 87.3, '06A': 86.0, '06A-IV': 85.2, '06A-V': 85.0}",1,87.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001136865,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051215,"{'19A': 99.2, '19A-III': 99.0, '19A-I': 86.1, '19A-II': 83.8, '19AF': 57.2}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315925,"{'14': 96.5, '36': 25.7, '09L': 25.5, '09N': 24.5, '15B': 24.3}",1,96.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226335,"{'11D': 80.2, '11A': 78.9, '11F': 45.2, '11B': 34.7, '11C': 31.0}",1,80.2,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001192595,"{'14': 94.5, '36': 26.1, '09L': 24.8, '09N': 24.2, '15B': 24.2}",1,94.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310195,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300985,"{'21': 99.8, '22F': 36.1, '06A-IV': 32.9, '06A-II': 32.2, '06A-VI': 32.1}",1,99.8,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279735,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.7, '23B': 48.3, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298765,"{'34': 98.3, '33F2': 35.4, '35B': 33.7, '33F': 30.0, '33C': 28.7}",1,98.3,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307335,"{'16F': 71.7, '28F': 43.2, '28A': 40.7, '18F': 33.7, '18A': 33.6}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025315,"{'14': 99.9, '09L': 26.3, '36': 26.0, '09N': 24.7, '15B': 24.3}",1,99.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001094885,"{'06A-III': 98.6, '06B-I': 97.0, '06A': 90.6, '06B-II': 90.5, '06A-V': 89.6}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167415,"{'14': 91.3, '36': 26.6, '09L': 25.2, '09N': 24.5, '15B': 23.4}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022935,"{'08': 99.8, '06A-II': 26.5, '06A-VI': 26.4, '06B-II': 25.8, '06A-V': 25.4}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298565,"{'14': 93.8, '36': 26.1, '09L': 25.3, '09N': 24.1, '15B': 24.0}",1,93.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240035,"{'23F': 78.4, '23A': 58.1, '23B': 52.1, '28A': 39.2, '28F': 36.6}",1,78.4,,23F,,,{},{},23F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001121485,"{'36': 10.8, '06A-IV': 6.6, '20': 5.8, '06B-I': 5.4, '06C': 5.3}",1,10.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295635,"{'14': 93.8, '36': 26.1, '09L': 25.3, '09N': 24.1, '15B': 24.0}",1,93.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333825,"{'28F': 95.1, '28A': 88.3, '23F': 51.1, '06B-II': 49.1, '06A-IV': 48.7}",1,95.1,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337115,"{'36': 9.1, '45': 5.6, '20': 5.3, '25F': 5.2, '25A': 5.1}",1,9.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001158785,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227405,"{'09N': 99.2, '09L': 88.8, '09A': 32.7, '09V': 32.7, '36': 32.1}",1,99.2,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266735,"{'07A': 99.6, '07F': 99.4, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.6,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260805,"{'23F': 92.4, '23A': 61.1, '28A': 48.1, '23B': 46.6, '06A-IV': 46.6}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052385,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900064965,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241555,"{'18C': 99.5, '18B': 99.4, '18F': 76.0, '18A': 63.2, '16F': 39.5}",1,99.5,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001135705,"{'22A': 94.2, '22F': 75.9, '06A-IV': 45.8, '06A-II': 44.1, '06B-I': 44.1}",1,94.2,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335925,"{'06E': 85.1, '06B-III': 84.5, '06B-I': 51.0, '06A-III': 50.4, '06A-V': 49.9}",1,85.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002014075,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331745,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057025,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001195425,"{'03': 95.2, '36': 16.7, '20': 15.7, '01': 14.7, '09L': 14.2}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326035,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228435,"{'35B': 99.2, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.2,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337455,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300615,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.0, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221855,"{'01': 99.2, '19F': 32.5, '19F-I': 32.1, '19F-III': 31.8, '19F-II': 31.5}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021705,"{'03': 95.2, '01': 17.3, '36': 17.1, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224785,"{'15A': 98.3, '15F': 72.9, '15C': 61.6, '15B': 61.5, '23F': 32.2}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306645,"{'03': 94.9, '01': 17.9, '36': 17.2, '09N': 15.9, '20': 15.8}",1,94.9,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223025,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001102045,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260465,"{'06A-III': 94.8, '06B-I': 93.4, '06A': 90.3, '06A-IV': 89.5, '06B-II': 89.4}",1,94.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324185,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216095,"{'01': 7.0, '45': 5.9, '25F': 5.7, '20': 5.5, '25A': 5.5}",4,7.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217265,"{'24F2': 99.7, '24B': 88.5, '24F': 87.0, '24A': 71.0, '07B': 56.8}",1,99.7,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275655,"{'21': 99.1, '22F': 35.1, '06A-IV': 30.9, '06B': 30.2, '06A': 30.1}",1,99.1,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248655,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.8, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054615,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.5, '46': 81.4}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255005,"{'01': 99.2, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283535,"{'33D': 80.3, '33B': 75.4, '06A-I': 36.8, '06B': 35.4, '06A-IV': 35.3}",1,80.3,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001149305,"{'11F': 61.7, '11D': 38.3, '11A': 36.8, '09A': 25.3, '09V': 25.3}",1,61.7,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265285,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019399025,"{'34': 93.0, '33F2': 34.8, '35B': 32.1, '33F': 29.0, '33C': 28.0}",1,93.0,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281175,"{'19F': 97.2, '19F-I': 96.2, '19F-III': 95.4, '19F-II': 95.3, '19F-IV': 90.8}",1,97.2,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344895,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247385,"{'12F': 96.4, '44': 93.4, '12B': 93.3, '12A': 84.8, '46': 81.7}",1,96.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293555,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216475,"{'23F': 93.8, '23A': 63.3, '28A': 48.3, '23B': 46.8, '06A-III': 46.3}",1,93.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251005,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299535,"{'10B': 99.3, '10A': 65.2, '10F': 20.1, '10C': 18.8, '22F': 14.0}",1,99.3,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249795,"{'28F': 95.1, '28A': 88.3, '23F': 51.1, '06A-IV': 50.9, '06B-II': 48.9}",1,95.1,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313345,"{'15C': 95.5, '15B': 95.4, '15A': 61.2, '15F': 47.6, '23A': 34.4}",1,95.5,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043765,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264385,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.6}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001326475,"{'17F': 99.1, '06B': 44.4, '06B-I': 43.7, '06D': 43.6, '06A-III': 43.6}",1,99.1,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295595,"{'06C-I': 92.9, '06C': 92.8, '06D': 84.9, '06B-I': 77.8, '06A-III': 77.3}",1,92.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243195,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001102505,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050085,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222955,"{'15C': 95.6, '15B': 95.5, '15A': 61.0, '15F': 47.4, '23A': 34.7}",1,95.6,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342925,"{'07A': 91.2, '07F': 91.0, '19F-II': 39.3, '19F': 37.8, '19F-IV': 37.8}",1,91.2,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279435,"{'04': 98.8, '45': 34.4, '12F': 23.7, '44': 23.5, '12A': 22.6}",1,98.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001124485,"{'34': 92.9, '33F2': 34.7, '35B': 30.4, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290575,"{'14': 99.9, '36': 26.8, '09L': 25.7, '09N': 24.3, '15B': 24.2}",1,99.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283125,"{'22F': 98.9, '22A': 73.2, '06A': 42.6, '06B': 42.1, '06A-I': 41.8}",1,98.9,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001106345,"{'06E': 100.0, '06B-III': 99.0, '06B-I': 46.7, '06A-III': 46.2, '06A-II': 45.2}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220955,"{'33D': 80.6, '33B': 76.6, '06A-I': 36.6, '35B': 36.2, '06B': 36.0}",1,80.6,,"Mixed serotypes- {'33B', '33D'}",,,{},{},"Mixed serotypes- {'33B', '33D'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900036145,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001584795,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235755,"{'16F': 71.3, '28F': 42.9, '28A': 40.4, '18F': 33.7, '18A': 33.1}",1,71.3,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170985,"{'14': 92.6, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282445,"{'14': 92.7, '36': 28.8, '09L': 25.6, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192495,"{'23B': 99.5, '23B1': 64.6, '23F': 45.7, '23A': 39.9, '06A-IV': 36.8}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258665,"{'11D': 96.4, '11A': 95.2, '11F': 43.3, '11C': 36.2, '11B': 34.8}",1,96.4,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000279875,"{'23A': 97.4, '23F': 68.7, '23B': 40.1, '19F-II': 39.3, '15B': 38.4}",1,97.4,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270895,"{'07C': 93.7, '07B': 76.8, '40': 76.5, '24B': 48.6, '24F': 47.6}",1,93.7,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001094065,"{'45': 5.5, '25F': 5.3, '22F': 5.1, '25A': 5.1, '20': 5.0}",2,5.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033975,"{'03': 95.2, '01': 17.1, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308845,"{'15C': 96.1, '15B': 95.9, '15A': 61.4, '15F': 47.7, '23A': 34.8}",1,96.1,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001119625,"{'45': 6.7, '25F': 5.5, '20': 5.4, '25A': 5.3, '36': 5.1}",2,6.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239675,"{'08': 98.0, '02': 24.4, '06A-II': 24.2, '06A-VI': 24.1, '06B-II': 23.7}",1,98.0,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243225,"{'35B': 92.6, '34': 33.8, '33F': 33.4, '35C': 32.4, '33D': 32.1}",1,92.6,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293785,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313185,"{'12F': 96.9, '44': 93.6, '12B': 92.9, '12A': 80.6, '46': 77.5}",1,96.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001158565,"{'36': 10.7, '20': 5.9, '45': 5.9, '22F': 5.7, '06B-I': 5.5}",1,10.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262405,"{'16F': 96.6, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.6,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189485,"{'14': 99.1, '36': 25.4, '09L': 24.8, '15B': 23.6, '15C': 23.5}",1,99.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306295,"{'23F': 97.0, '23A': 63.9, '28A': 47.7, '28F': 46.0, '06A': 45.0}",1,97.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047655,"{'06E': 99.9, '06B-III': 99.3, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331095,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001161065,"{'19F': 94.7, '19F-I': 94.2, '19F-III': 93.1, '19F-II': 91.8, '19F-IV': 88.1}",1,94.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057125,"{'23B': 99.4, '23B1': 64.6, '23F': 45.8, '23A': 40.0, '06A-IV': 36.7}",1,99.4,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256915,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030655,"{'09N': 100.0, '09L': 89.1, '09A': 32.7, '09V': 32.7, '36': 32.1}",1,100.0,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327515,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318135,"{'05': 95.3, '45': 22.5, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264375,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001135605,"{'36': 10.6, '06A-IV': 7.1, '06B-I': 5.9, '06C': 5.8, '06C-I': 5.8}",1,10.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307685,"{'23F': 92.4, '23A': 61.1, '28A': 48.1, '23B': 46.6, '06A-IV': 46.6}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900188965,"{'15C': 93.9, '15B': 93.8, '15A': 62.1, '15F': 48.6, '23A': 32.9}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025815,"{'07A': 99.6, '07F': 99.4, '19F-II': 36.3, '19F-IV': 35.7, '19F': 34.8}",1,99.6,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001123025,"{'20': 5.3, '45': 5.0, '25A': 4.3, '25F': 4.3, '01': 3.8}",1,5.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258845,"{'48': 99.3, '24A': 46.8, '24B': 39.4, '24F': 38.9, '24F2': 37.4}",1,99.3,,48,,,{},{},48,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900058205,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001200895,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310965,"{'15C': 87.5, '15B': 87.4, '15A': 64.4, '15F': 49.8, '23A': 30.0}",1,87.5,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028155,"{'23B': 99.5, '23B1': 64.6, '23F': 45.8, '23A': 40.0, '06A-IV': 36.9}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001113845,"{'45': 5.1, '01': 4.9, '22F': 3.8, '25F': 3.5, '25A': 3.4}",2,5.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324265,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339345,"{'15C': 94.7, '15B': 94.6, '15A': 60.5, '15F': 46.8, '23A': 34.7}",1,94.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331425,"{'12F': 96.9, '44': 93.6, '12B': 92.9, '12A': 80.6, '46': 77.5}",1,96.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001299735,"{'23A': 97.6, '23F': 68.9, '23B': 40.1, '19F-II': 39.3, '15B': 38.7}",1,97.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214885,"{'06A-II': 85.8, '06A-VI': 85.8, '06A-III': 85.7, '06A-V': 84.9, '06B-I': 84.3}",1,85.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258075,"{'20': 78.6, '47F': 28.0, '09L': 25.8, '09N': 25.3, '13': 25.2}",1,78.6,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225885,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239545,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169495,"{'14': 92.7, '36': 28.7, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264185,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339495,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907166965,"{'14': 93.3, '36': 27.2, '09L': 25.1, '09N': 24.4, '15B': 24.3}",1,93.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293985,"{'12F': 96.9, '44': 93.6, '12B': 92.9, '12A': 80.6, '46': 77.5}",1,96.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219465,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001110245,"{'14': 92.6, '36': 28.5, '09L': 25.2, '09N': 24.4, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305245,"{'09A': 99.4, '09V': 99.2, '09N': 37.6, '09L': 36.9, '06A-IV': 27.3}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213275,"{'23F': 93.9, '23A': 63.4, '28A': 48.4, '23B': 46.9, '06A-III': 46.4}",1,93.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001110985,"{'06E': 100.0, '06B-III': 97.4, '06B-I': 44.7, '06A-III': 44.2, '06B-II': 43.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025185,"{'14': 93.0, '36': 27.3, '09L': 25.8, '09N': 25.3, '15B': 24.3}",1,93.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294635,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017285,"{'19F-II': 99.8, '19F': 95.3, '19F-III': 94.3, '19F-I': 94.0, '19F-IV': 93.3}",1,99.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342415,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289635,"{'03': 95.2, '01': 16.0, '09L': 15.5, '09N': 15.1, '14': 13.9}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277775,"{'01': 99.3, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262955,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052395,"{'19A': 99.0, '19A-III': 98.8, '19A-I': 86.0, '19A-II': 84.2, '07A': 63.0}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001128225,"{'28F': 98.6, '28A': 92.2, '23F': 47.6, '16F': 46.0, '06B-I': 42.5}",1,98.6,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232865,"{'06B-I': 99.5, '06A-III': 97.3, '06B-II': 89.9, '06A': 89.6, '06A-V': 88.1}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217735,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242255,"{'19F': 95.1, '19F-I': 94.3, '19F-III': 93.5, '19F-II': 91.9, '19F-IV': 88.2}",1,95.1,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001192615,"{'15A': 97.3, '15F': 73.4, '15C': 61.6, '15B': 61.5, '23F': 31.1}",1,97.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900036455,"{'35B': 99.7, '33F': 33.4, '35C': 33.2, '34': 32.9, '35A': 32.8}",1,99.7,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213815,"{'01': 99.3, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001147405,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001118825,"{'20': 4.8, '22F': 4.4, '45': 3.9, '01': 3.4, '25A': 3.4}",1,4.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221785,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317445,"{'03': 95.2, '36': 17.4, '01': 16.8, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269445,"{'25F': 6.0, '25A': 5.8, '36': 5.7, '22F': 5.3, '38': 5.2}",3,6.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053545,"{'04': 99.6, '45': 33.4, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.6,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001106845,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167315,"{'09A': 99.4, '09V': 99.2, '09N': 36.3, '09L': 35.1, '06A-IV': 26.9}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310725,"{'15C': 87.7, '15B': 87.6, '15A': 60.9, '15F': 48.0, '23A': 31.3}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001679535,"{'01': 99.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263055,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322205,"{'06A-III': 88.6, '06B-I': 87.0, '06A': 86.5, '06A-V': 86.5, '06A-II': 86.1}",1,88.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900046965,"{'03': 95.2, '01': 17.3, '36': 17.0, '20': 15.8, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052045,"{'09A': 99.3, '09V': 99.1, '09N': 36.9, '09L': 35.6, '11F': 27.1}",1,99.3,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313525,"{'19A': 99.5, '19A-III': 99.3, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257725,"{'20': 84.6, '36': 26.7, '47F': 26.6, '35A': 24.9, '09L': 24.7}",1,84.6,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026325,"{'24F2': 99.8, '24B': 88.6, '24F': 87.1, '24A': 71.3, '07B': 55.3}",1,99.8,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021022055,"{'02': 57.6, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030365,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398285,"{'14': 100.0, '36': 26.8, '09L': 25.8, '09N': 24.4, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001194845,"{'10B': 99.5, '10A': 65.3, '10F': 20.1, '10C': 18.8, '47A': 12.6}",1,99.5,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249035,"{'08': 98.0, '02': 24.4, '06A-IV': 23.3, '22F': 23.2, '06A': 22.9}",1,98.0,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221805,"{'13': 98.9, '09N': 29.1, '20': 28.9, '09L': 28.6, '36': 28.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272055,"{'09A': 95.7, '09V': 95.5, '09N': 38.9, '09L': 36.9, '06A-IV': 26.4}",1,95.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334285,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001909525,"{'03': 95.2, '36': 17.3, '20': 15.7, '09N': 15.4, '09L': 15.2}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020139935,"{'35B': 99.9, '33F': 33.6, '35C': 33.4, '34': 33.2, '35A': 33.0}",1,99.9,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313905,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269925,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050385,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247515,"{'03': 98.7, '01': 18.0, '09N': 15.7, '20': 15.6, '09L': 15.5}",1,98.7,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218645,"{'16F': 71.5, '28F': 43.1, '28A': 40.6, '18F': 33.6, '18A': 32.9}",1,71.5,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245955,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001909565,"{'03': 95.2, '36': 17.3, '20': 15.9, '09N': 14.9, '01': 14.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318005,"{'14': 91.4, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.6}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291685,"{'40': 99.5, '07B': 93.8, '07C': 75.4, '24F2': 48.2, '24F': 47.8}",1,99.5,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316225,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290475,"{'07A': 98.1, '07F': 97.9, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,98.1,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222075,"{'34': 93.0, '33F2': 34.7, '35B': 32.1, '33F': 29.0, '33C': 28.0}",1,93.0,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276655,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280855,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224955,"{'06A': 89.3, '06A-II': 89.1, '06A-VI': 89.1, '06A-III': 88.5, '06B-II': 88.5}",1,89.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228885,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001104585,"{'03': 95.2, '01': 16.9, '36': 16.8, '20': 15.6, '09N': 15.2}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001301175,"{'11D': 99.8, '11A': 97.0, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,99.8,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024665,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241655,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052575,"{'16F': 98.2, '28F': 42.9, '19F-IV': 41.5, '18A': 41.2, '19F-II': 41.1}",1,98.2,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242235,"{'20': 99.5, '13': 26.0, '09L': 25.3, '09N': 24.3, '47F': 24.3}",1,99.5,,20,,,{},{},20,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029935,"{'04': 99.7, '45': 33.3, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302175,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001087045,"{'36': 10.9, '06A-IV': 6.7, '20': 6.4, '45': 6.2, '06B-I': 5.5}",1,10.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245865,"{'06C-I': 89.2, '06C': 89.1, '06D': 87.0, '06A-I': 77.7, '06B': 77.5}",1,89.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262595,"{'31': 99.4, '41A': 57.3, '41F': 48.8, '22F': 36.3, '06C-I': 36.1}",1,99.4,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282685,"{'14': 92.6, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001909725,"{'03': 94.5, '36': 17.1, '01': 16.0, '09N': 15.6, '20': 15.4}",1,94.5,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230925,"{'14': 91.6, '36': 28.5, '09L': 25.3, '09N': 24.2, '15B': 23.7}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021435,"{'01': 99.8, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.3}",1,99.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001123805,"{'01': 3.0, '36': 2.8, '22F': 2.4, '09L': 2.1, '25F': 2.1}",1,3.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255425,"{'36': 65.4, '09L': 27.4, '09N': 26.2, '14': 24.6, '19F-II': 23.3}",1,65.4,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001168945,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900046615,"{'08': 99.5, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.2, '06B-II': 24.1}",1,99.5,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341255,"{'38': 90.7, '25F': 86.8, '25A': 85.8, '36': 16.2, '20': 7.7}",1,90.7,25F_25A_38,25F_25A_38,,"[[0], [18]]","{'wcyD': ['b: 22.59'], 'wcyV': 4.69}","{'wcyD': 0, 'wcyV': 'not_detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218035,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001165765,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167905,"{'14': 93.4, '36': 27.1, '09L': 25.0, '15B': 24.3, '15C': 24.2}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287985,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001106585,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232425,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214775,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.8, '19F-II': 92.6, '19F-IV': 88.7}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194865,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000299015,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268145,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '35F': 28.6}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235765,"{'06A': 90.1, '06A-III': 89.5, '06B-II': 89.5, '06A-II': 89.4, '06A-VI': 89.4}",1,90.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305235,"{'22F': 96.4, '22A': 73.4, '06A': 42.6, '06A-II': 42.3, '06A-VI': 42.2}",1,96.4,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219655,"{'18C': 88.5, '18B': 88.4, '18F': 77.8, '18A': 61.5, '16F': 37.6}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000279675,"{'06A-II': 97.7, '06A-VI': 97.7, '06B-II': 90.2, '06A-V': 89.4, '06A-III': 89.0}",1,97.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312085,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001348055,"{'15C': 87.6, '15B': 87.5, '15A': 64.4, '15F': 49.8, '23A': 30.1}",1,87.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265895,"{'12F': 95.9, '12B': 93.3, '44': 92.9, '12A': 84.8, '46': 81.7}",1,95.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298305,"{'08': 97.8, '06A-II': 25.7, '06A-VI': 25.6, '06B-II': 25.0, '06A-V': 24.7}",1,97.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053085,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051625,"{'04': 98.3, '45': 32.6, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246285,"{'03': 97.4, '01': 17.8, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246975,"{'01': 99.3, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001106445,"{'33B': 89.8, '33D': 89.7, '35B': 34.3, '33F2': 30.0, '22F': 26.5}",1,89.8,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274635,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267985,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900038125,"{'19A': 99.0, '19A-III': 98.8, '19A-I': 85.9, '19A-II': 83.6, '19AF': 56.9}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900089105,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288395,"{'05': 95.0, '45': 22.6, '36': 21.8, '20': 20.4, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300355,"{'23F': 99.2, '23A': 65.4, '23B': 49.0, '28A': 48.1, '06A-IV': 47.3}",1,99.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032335,"{'03': 94.9, '01': 17.4, '36': 16.5, '09N': 15.8, '20': 15.8}",1,94.9,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001100905,"{'06E': 100.0, '06B-III': 95.4, '06B-I': 42.7, '06A-I': 42.6, '06B': 42.2}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001126525,"{'23A': 99.2, '23F': 67.3, '23B': 43.6, '19F-II': 37.4, '19F-IV': 37.0}",1,99.2,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053065,"{'35B': 99.4, '33F': 33.6, '35C': 33.3, '34': 33.1, '35A': 33.1}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001896065,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900058965,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.2}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333785,"{'33F': 100.0, '33A': 99.7, '33F2': 70.9, '35C': 42.8, '42': 41.8}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023605,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224995,"{'01': 7.1, '36': 7.0, '45': 6.6, '22F': 5.9, '38': 4.8}",3,7.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297115,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281045,"{'04': 98.3, '45': 33.9, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001150885,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337785,"{'35B': 99.2, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.2,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279315,"{'06A-II': 95.4, '06A-VI': 95.4, '06B-II': 89.3, '06A-V': 88.9, '06A-III': 88.3}",1,95.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001090945,"{'23F': 94.5, '23A': 63.6, '28A': 47.7, '23B': 46.9, '06A': 46.3}",1,94.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229185,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398085,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263995,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170795,"{'14': 92.4, '36': 28.4, '09L': 25.0, '09N': 24.5, '15B': 24.2}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253645,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030605,"{'20': 99.5, '13': 26.1, '09L': 25.5, '09N': 24.7, '36': 24.6}",1,99.5,,20,,,{},{},20,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270235,"{'35B': 99.6, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.6,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331455,"{'08': 99.4, '06A-II': 26.4, '06A-VI': 26.3, '06B-II': 25.7, '06A-V': 25.3}",1,99.4,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262775,"{'09A': 99.4, '09V': 99.2, '09N': 37.6, '09L': 36.9, '06A-IV': 27.3}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001092045,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253785,"{'09A': 99.7, '09V': 99.5, '09N': 38.2, '09L': 36.8, '06A-IV': 27.5}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001101545,"{'15B': 99.8, '15C': 99.7, '15A': 62.7, '15F': 48.3, '23A': 32.9}",1,99.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170075,"{'14': 92.6, '36': 27.6, '09L': 24.6, '15B': 24.2, '15C': 24.1}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280225,"{'14': 91.4, '19F-IV': 25.9, '36': 25.0, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265745,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263485,"{'19F': 97.3, '19F-I': 96.3, '19F-III': 95.5, '19F-II': 95.4, '19F-IV': 90.9}",1,97.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169715,"{'14': 92.5, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222615,"{'13': 83.3, '36': 28.8, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228745,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001086965,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063705,"{'01': 99.2, '19F': 32.1, '19F-I': 31.7, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256935,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299015,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001126605,"{'07A': 97.5, '07F': 97.3, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,97.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280565,"{'01': 99.3, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319685,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294565,"{'14': 90.9, '09L': 26.6, '36': 26.6, '09N': 26.3, '15B': 23.3}",1,90.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001148365,"{'23F': 93.9, '23A': 63.4, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,93.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001202275,"{'14': 95.0, '36': 26.1, '09L': 24.9, '15B': 24.3, '15C': 24.2}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284245,"{'35B': 99.4, '33F': 33.6, '35C': 33.4, '34': 33.2, '35A': 33.0}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284645,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221195,"{'01': 99.3, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236215,"{'14': 99.7, '09L': 26.9, '36': 25.7, '09N': 24.7, '15B': 24.0}",1,99.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327135,"{'19A': 99.0, '19A-III': 98.8, '19A-I': 85.9, '19A-II': 83.6, '19AF': 56.9}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291175,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276745,"{'23B': 82.5, '23B1': 62.8, '23F': 31.7, '28A': 28.6, '06B-III': 27.9}",1,82.5,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304935,"{'18C': 88.5, '18B': 88.4, '18F': 77.8, '18A': 61.5, '16F': 37.6}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336445,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337465,"{'05': 95.3, '45': 22.5, '36': 21.6, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297675,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330405,"{'19AF': 97.1, '19A-II': 61.5, '19A-I': 60.9, '19A': 52.1, '19A-III': 51.9}",1,97.1,19A_19AF,19A_19AF,,[[7]],"{'wzy': [2, 92.87]}",{'wzy': 2},19A_19AF,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281805,"{'19F-II': 99.2, '19F': 95.1, '19F-III': 94.2, '19F-I': 93.7, '19F-IV': 92.9}",1,99.2,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328145,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 94.0, '19F-II': 92.7, '19F-IV': 88.8}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000251405,"{'19F': 87.5, '19F-I': 87.4, '19F-III': 86.1, '19F-II': 84.8, '19F-IV': 82.3}",1,87.5,,19F,,,{},{},19F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246915,"{'04': 99.2, '45': 33.3, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167675,"{'09A': 99.3, '09V': 99.1, '09N': 37.7, '09L': 35.9, '11F': 26.6}",1,99.3,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308865,"{'35A': 92.7, '35C': 90.1, '42': 89.5, '33A': 45.3, '33F': 44.7}",1,92.7,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189795,"{'17F': 99.5, '06B': 44.3, '06B-I': 44.1, '06A-III': 44.0, '06D': 43.7}",1,99.5,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900061815,"{'23A': 99.2, '23F': 67.3, '23B': 43.6, '19F-II': 37.4, '19F-IV': 37.0}",1,99.2,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320595,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300395,"{'06A': 100.0, '06A-IV': 99.6, '06B-II': 95.4, '06A-V': 93.7, '06A-III': 91.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306125,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.4, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220065,"{'35C': 99.6, '42': 98.6, '35A': 85.6, '33A': 45.3, '33F': 44.9}",1,99.6,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241005,"{'23F': 78.4, '23A': 58.1, '23B': 52.1, '28A': 39.2, '28F': 36.6}",1,78.4,,23F,,,{},{},23F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024545,"{'23F': 99.2, '23A': 65.4, '23B': 49.0, '28A': 48.1, '06A-IV': 47.3}",1,99.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263745,"{'06B-III': 89.5, '06E': 89.0, '06A-II': 54.2, '06A-VI': 54.2, '06B-I': 53.6}",1,89.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268625,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237715,"{'07A': 99.4, '07F': 99.2, '19F-II': 36.7, '19F-IV': 36.1, '19F': 35.2}",1,99.4,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323065,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301045,"{'18C': 99.3, '18B': 99.2, '18F': 76.0, '18A': 63.2, '16F': 39.3}",1,99.3,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280845,"{'12F': 96.4, '44': 93.4, '12B': 93.3, '12A': 84.8, '46': 81.7}",1,96.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190275,"{'23F': 99.2, '23A': 65.4, '23B': 49.0, '28A': 48.1, '06A-IV': 47.3}",1,99.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019446755,"{'23A': 99.4, '23F': 67.0, '23B': 43.3, '19F-II': 37.5, '15B': 37.2}",1,99.4,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303515,"{'03': 95.2, '01': 17.8, '36': 17.4, '20': 16.1, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229865,"{'06A-I': 97.9, '06B': 93.9, '06A-V': 88.6, '06A': 86.8, '06A-III': 85.1}",1,97.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260415,"{'01': 98.7, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.7,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236415,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272635,"{'13': 83.6, '36': 32.4, '14': 27.1, '15B': 26.6, '15C': 26.2}",1,83.6,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270925,"{'06E': 99.9, '06B-III': 99.3, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224915,"{'06A-III': 94.8, '06B-I': 93.4, '06A': 90.3, '06A-IV': 89.5, '06B-II': 89.4}",1,94.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028415,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269115,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318335,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215435,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334185,"{'14': 91.8, '36': 27.9, '09L': 25.6, '09N': 24.5, '15B': 23.7}",1,91.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238705,"{'03': 97.0, '01': 17.8, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.0,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217725,"{'35F': 99.7, '47F': 74.5, '34': 26.7, '35B': 26.6, '36': 23.7}",1,99.7,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342575,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333475,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242335,"{'11D': 80.2, '11A': 78.9, '11F': 45.1, '11B': 34.6, '11C': 31.0}",1,80.2,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236565,"{'28F': 95.2, '28A': 88.4, '23F': 51.1, '06B-II': 49.1, '06A-IV': 48.7}",1,95.2,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286185,"{'06A-I': 98.5, '06B': 96.4, '06A-V': 89.9, '06A': 87.9, '06B-II': 86.7}",1,98.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263935,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063995,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001104305,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192765,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226915,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293525,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301135,"{'19A-I': 99.0, '19A-II': 97.3, '19A': 88.0, '19A-III': 87.8, '19AF': 61.8}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340805,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301995,"{'18C': 99.3, '18B': 99.2, '18F': 76.0, '18A': 62.9, '16F': 39.3}",1,99.3,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228555,"{'35B': 99.8, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001117045,"{'06E': 100.0, '06B-III': 98.6, '06B-I': 46.0, '06A-III': 45.5, '06A-II': 44.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001340095,"{'45': 5.4, '25F': 5.2, '25A': 5.1, '20': 5.0, '22F': 4.9}",2,5.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001105345,"{'20': 5.4, '22F': 4.9, '45': 4.9, '01': 4.1, '25A': 4.1}",1,5.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331405,"{'15C': 87.8, '15B': 87.7, '15A': 64.6, '15F': 50.0, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303075,"{'17F': 99.7, '06B': 44.4, '06B-I': 43.7, '06D': 43.6, '06A-III': 43.6}",1,99.7,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263035,"{'36': 9.9, '20': 6.9, '45': 6.5, '06A-IV': 6.1, '01': 5.8}",1,9.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268275,"{'23F': 97.4, '23A': 64.0, '06A-IV': 48.1, '23B': 47.7, '28A': 47.7}",1,97.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001172925,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 93.4, '19F-IV': 89.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217425,"{'01': 7.5, '25F': 6.0, '45': 5.9, '25A': 5.8, '06A-IV': 4.9}",3,7.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332215,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303385,"{'06E': 83.5, '06B-III': 82.4, '06B-I': 55.6, '06A-III': 54.1, '06A-II': 53.5}",1,83.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299605,"{'01': 99.3, '19F': 32.2, '19F-I': 31.7, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330005,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248935,"{'15C': 87.7, '15B': 87.5, '15A': 64.4, '15F': 49.8, '23A': 30.0}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309745,"{'16F': 71.8, '28F': 43.2, '28A': 40.7, '18F': 33.9, '18A': 33.7}",1,71.8,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171505,"{'14': 92.6, '36': 28.7, '09L': 24.9, '15B': 24.2, '15C': 24.1}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272265,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298315,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330275,"{'19A-I': 99.2, '19A-II': 97.5, '19A': 87.8, '19A-III': 87.6, '19AF': 61.8}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266015,"{'07C': 94.0, '07B': 77.1, '40': 76.7, '24B': 48.6, '24F': 47.6}",1,94.0,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900059625,"{'03': 95.0, '01': 17.1, '36': 17.1, '20': 15.9, '09N': 15.7}",1,95.0,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258805,"{'07B': 99.7, '40': 92.7, '07C': 77.0, '24F2': 47.9, '24F': 47.5}",1,99.7,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167095,"{'09A': 99.2, '09V': 99.0, '09N': 37.3, '09L': 36.0, '11F': 26.3}",1,99.2,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273165,"{'04': 98.3, '45': 34.7, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216695,"{'14': 93.5, '36': 26.0, '09L': 25.3, '09N': 24.1, '15B': 23.7}",1,93.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237055,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336525,"{'24F': 96.4, '24B': 89.2, '24F2': 85.5, '24A': 62.9, '07C': 51.6}",1,96.4,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341615,"{'05': 95.3, '45': 22.4, '36': 21.7, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000692035,"{'01': 7.1, '45': 6.5, '20': 5.9, '25F': 5.8, '25A': 5.6}",3,7.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270395,"{'06A-V': 93.0, '06A-III': 90.0, '06A-II': 89.6, '06A-VI': 89.6, '06B-I': 89.2}",1,93.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250625,"{'23F': 96.6, '23A': 63.9, '23B': 48.0, '28A': 47.6, '06A-V': 46.0}",1,96.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258455,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900016915,"{'09A': 99.6, '09V': 99.4, '09N': 38.6, '09L': 36.7, '11F': 26.5}",1,99.6,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001145925,"{'19F-I': 95.4, '19F': 95.1, '19F-III': 93.6, '19F-II': 92.3, '19F-IV': 88.3}",1,95.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249285,"{'05': 95.1, '45': 22.3, '36': 21.5, '20': 19.9, '12A': 19.8}",1,95.1,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214735,"{'05': 95.3, '45': 22.5, '36': 21.7, '20': 20.0, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323715,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269425,"{'37': 98.8, '33F': 75.6, '33A': 74.6, '33F2': 69.7, '35B': 32.1}",1,98.8,,37,,,{},{},37,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065485,"{'33F': 99.6, '33A': 97.1, '33F2': 70.5, '35C': 42.5, '42': 41.5}",1,99.6,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283585,"{'06A-II': 85.3, '06A-VI': 85.3, '06A-III': 85.2, '06A-V': 84.6, '06B-I': 83.8}",1,85.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304275,"{'19F': 97.4, '19F-I': 96.4, '19F-III': 95.6, '19F-II': 95.5, '19F-IV': 91.0}",1,97.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001115605,"{'34': 92.9, '33F2': 34.7, '35B': 30.0, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243505,"{'04': 99.2, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
PHESPD0023,"{'16A': 100.0, '19F-II': 43.0, '19F': 42.2, '19F-I': 41.6, '19F-III': 41.6}",1,100.0,,16A,,,{},{},16A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230775,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276635,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019399665,"{'23A': 96.6, '23F': 67.7, '23B': 45.9, '19F-II': 39.4, '15B': 38.5}",1,96.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245155,"{'06A-II': 95.4, '06A-VI': 95.4, '06B-II': 89.3, '06A-V': 88.9, '06A-III': 88.3}",1,95.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267745,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024075,"{'23B': 99.5, '23B1': 64.6, '23F': 45.8, '23A': 40.0, '06A-IV': 36.9}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194655,"{'21': 99.8, '22F': 36.1, '06A-IV': 32.8, '06A-II': 32.1, '06A-VI': 32.0}",1,99.8,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001345835,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229885,"{'14': 92.7, '36': 28.8, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238885,"{'15C': 87.8, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248675,"{'09N': 99.9, '09L': 89.1, '09A': 32.7, '09V': 32.7, '36': 32.1}",1,99.9,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329195,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341265,"{'33F': 100.0, '33A': 99.7, '33F2': 70.9, '35C': 42.8, '42': 41.8}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001113365,"{'09A': 2.7, '09V': 2.7, '36': 2.4, '22F': 2.2, '25A': 2.2}",1,2.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245215,"{'22A': 94.2, '22F': 77.7, '06A-IV': 45.8, '06A-II': 44.1, '06B-I': 44.1}",1,94.2,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309065,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001152645,"{'28A': 94.6, '28F': 87.4, '23F': 51.8, '16F': 41.6, '06A-IV': 39.9}",1,94.6,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292525,"{'03': 95.2, '01': 17.5, '09L': 15.5, '09N': 15.1, '14': 13.9}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250275,"{'14': 93.4, '36': 27.3, '09L': 25.9, '09N': 25.3, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220435,"{'19A': 99.7, '19A-III': 99.5, '19A-I': 85.9, '19A-II': 83.4, '19AF': 57.2}",1,99.7,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225815,"{'23F': 94.1, '23A': 63.4, '28A': 47.7, '23B': 47.1, '06A': 46.9}",1,94.1,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001132825,"{'23B1': 78.7, '23B': 66.6, '06B-III': 29.7, '06A-II': 28.6, '06A-VI': 28.5}",1,78.7,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300175,"{'10A': 99.9, '10B': 66.7, '10C': 27.4, '10F': 17.8, '22F': 15.4}",1,99.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019456955,"{'35B': 99.9, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.9,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293715,"{'07A': 98.6, '07F': 98.4, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,98.6,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001404075,"{'09A': 99.7, '09V': 99.5, '09N': 35.9, '09L': 34.7, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283755,"{'23F': 96.0, '23A': 66.2, '28A': 47.1, '06A': 45.7, '28F': 44.8}",1,96.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213005,"{'35B': 91.2, '33F': 32.1, '34': 31.4, '33B': 30.8, '33A': 30.4}",1,91.2,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318785,"{'06A-II': 95.5, '06A-VI': 95.5, '06B-II': 89.3, '06A-V': 88.9, '06A-III': 88.3}",1,95.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282245,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216325,"{'19F-I': 99.7, '19F': 96.7, '19F-III': 96.7, '19F-II': 93.9, '19F-IV': 89.3}",1,99.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001195005,"{'06E': 100.0, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021745,"{'07A': 99.3, '07F': 99.1, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.3,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253265,"{'23A': 97.5, '23F': 68.8, '23B': 40.1, '19F-II': 39.2, '15B': 38.8}",1,97.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313325,"{'14': 92.7, '36': 29.0, '09L': 25.7, '09N': 24.5, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001340695,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001125605,"{'06C': 85.6, '06C-I': 85.6, '06D': 84.7, '06A': 77.0, '06A-IV': 73.3}",1,85.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900036065,"{'18C': 99.9, '18B': 99.8, '18F': 75.7, '18A': 62.3, '16F': 39.2}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339155,"{'34': 92.9, '33F2': 34.7, '35B': 30.4, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052025,"{'35B': 88.8, '33F': 31.8, '34': 31.4, '33B': 30.8, '33A': 30.1}",1,88.8,,35B/35D,,,{},{},35B/35D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320865,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328855,"{'06A-I': 98.4, '06B': 94.4, '06A-V': 89.4, '06A': 87.5, '06A-III': 85.9}",1,98.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168055,"{'09A': 99.7, '09V': 99.5, '09N': 37.0, '09L': 35.5, '06A-IV': 26.9}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301145,"{'03': 94.7, '01': 17.8, '36': 17.4, '20': 16.1, '09N': 15.8}",1,94.7,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313465,"{'01': 99.4, '19F': 32.2, '19F-I': 31.7, '19F-III': 31.5, '19F-II': 31.2}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236345,"{'06B-I': 89.5, '06B-II': 89.3, '06A-III': 89.0, '06A-II': 88.2, '06A-VI': 88.2}",1,89.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230705,"{'08': 99.6, '02': 24.4, '06A-II': 24.4, '06A-VI': 24.3, '06B-II': 23.6}",1,99.6,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049595,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_012911665,"{'32F': 69.1, '32A': 67.6, '06A-II': 40.1, '06A-VI': 40.0, '06B-II': 39.5}",1,69.1,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330545,"{'15C': 95.4, '15B': 95.2, '15A': 60.8, '15F': 47.3, '23A': 34.0}",1,95.4,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168445,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259275,"{'04': 99.8, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313035,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.4}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329295,"{'14': 94.6, '36': 26.3, '09L': 25.3, '09N': 24.7, '15B': 24.3}",1,94.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335605,"{'06A': 93.5, '06A-III': 91.5, '06B-I': 91.4, '06B-II': 91.2, '06A-V': 90.7}",1,93.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252885,"{'15A': 98.3, '15F': 73.0, '15C': 61.8, '15B': 61.7, '23F': 32.3}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273875,"{'14': 94.2, '36': 26.4, '09L': 25.3, '09N': 24.4, '15B': 24.3}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326525,"{'13': 83.3, '36': 28.9, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264865,"{'23A': 97.6, '23F': 68.9, '23B': 40.1, '19F-II': 39.3, '15B': 38.7}",1,97.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168985,"{'09A': 99.4, '09V': 99.2, '09N': 37.8, '09L': 36.4, '11F': 26.6}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193915,"{'35B': 99.9, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.9,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001348175,"{'34': 92.7, '33F2': 34.6, '35B': 31.9, '33F': 28.9, '33C': 28.0}",1,92.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026705,"{'09N': 99.8, '09L': 88.9, '09A': 32.7, '09V': 32.7, '36': 32.4}",1,99.8,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227295,"{'04': 99.8, '45': 33.4, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287415,"{'23F': 96.1, '23A': 63.2, '06A-IV': 48.7, '23B': 48.3, '06A-V': 47.1}",1,96.1,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002081255,"{'06A': 90.1, '06A-III': 85.0, '06B-II': 84.9, '06B-I': 84.1, '06A-V': 83.9}",1,90.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 83.83']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272335,"{'20': 78.7, '47F': 28.0, '09L': 25.8, '13': 25.2, '09N': 25.1}",1,78.7,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333905,"{'17F': 99.1, '06B': 44.3, '06B-I': 43.7, '06A-III': 43.6, '06D': 43.5}",1,99.1,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245885,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268855,"{'23F': 94.0, '23A': 63.5, '28A': 48.3, '23B': 47.0, '06A-III': 46.2}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001106965,"{'15A': 97.4, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.2}",1,97.4,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289205,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900036995,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301635,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900036105,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.2}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220335,"{'21': 91.7, '22F': 36.8, '06A-IV': 31.6, '06A-II': 31.2, '06A-VI': 31.2}",1,91.7,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024685,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901212705,"{'15C': 87.7, '15B': 87.6, '15A': 64.6, '15F': 50.0, '23A': 30.1}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001157005,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001134905,"{'45': 5.6, '25F': 5.5, '20': 5.4, '25A': 5.4, '22F': 5.0}",2,5.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191905,"{'23F': 96.2, '23A': 62.9, '23B': 47.5, '28A': 47.2, '06A-IV': 46.9}",1,96.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027565,"{'06B-I': 98.9, '06A-III': 96.8, '06B-II': 89.9, '06A': 89.7, '06A-V': 88.0}",1,98.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001130445,"{'14': 89.9, '36': 28.5, '09L': 22.9, '19F-II': 22.2, '09N': 21.8}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001149845,"{'06A-IV': 2.2, '01': 0.9, '17F': 0.2, '32A': 0.1}",1,2.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283715,"{'14': 91.4, '19F-IV': 25.9, '36': 25.2, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324335,"{'21': 99.7, '22F': 36.2, '06A-II': 33.2, '06A-VI': 33.1, '06A-III': 32.7}",1,99.7,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262045,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001204595,"{'35B': 42.5, '33B': 40.2, '33D': 36.1, '34': 31.3, '33F': 29.7}",1,42.5,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326875,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296385,"{'19A': 92.5, '19A-III': 92.3, '19A-II': 83.2, '19A-I': 81.2, '19AF': 56.1}",1,92.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227605,"{'14': 91.4, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228635,"{'31': 99.7, '41A': 57.2, '41F': 49.0, '22F': 36.5, '06A-II': 36.5}",1,99.7,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223595,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001124645,"{'21': 92.2, '22F': 34.9, '06A-IV': 34.3, '06A-II': 34.0, '06A-VI': 34.0}",1,92.2,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001095825,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236845,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295105,"{'09A': 99.4, '09V': 99.2, '09N': 38.6, '09L': 36.7, '11F': 26.3}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269825,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309465,"{'23F': 96.0, '23A': 63.6, '28A': 47.3, '06A-IV': 46.4, '23B': 46.0}",1,96.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309225,"{'03': 95.2, '36': 17.4, '01': 16.8, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029475,"{'11D': 99.7, '11A': 96.9, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,99.7,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026125,"{'19A-I': 99.2, '19A-II': 97.5, '19A': 87.7, '19A-III': 87.5, '19AF': 62.0}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169165,"{'14': 92.6, '36': 26.9, '09L': 24.5, '15B': 24.2, '15C': 24.1}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230745,"{'14': 91.3, '19F-IV': 25.9, '36': 25.4, '09L': 24.7, '09N': 24.6}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330065,"{'04': 99.8, '45': 33.9, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001860825,"{'22F': 98.9, '22A': 73.2, '06A-II': 43.0, '06A-VI': 42.9, '06B-I': 42.8}",1,98.9,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231445,"{'21': 91.7, '22F': 36.7, '06A-IV': 31.6, '06A-II': 31.2, '06A-VI': 31.2}",1,91.7,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287615,"{'04': 99.2, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170955,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227525,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.4, '06B-II': 34.7, '06A-V': 34.5}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001860815,"{'22F': 98.1, '22A': 73.3, '06A': 42.5, '06B': 42.0, '06A-I': 41.7}",1,98.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279245,"{'05': 95.2, '45': 22.1, '36': 21.8, '20': 20.1, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168925,"{'09A': 99.6, '09V': 99.4, '09N': 38.6, '09L': 36.6, '11F': 26.5}",1,99.6,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318165,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338995,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282955,"{'06E': 97.8, '06B-III': 97.3, '06B-I': 48.1, '06A-III': 47.1, '06A-II': 46.5}",1,97.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239555,"{'06A-II': 85.5, '06A-VI': 85.5, '06A-III': 85.3, '06A-V': 84.8, '06B-I': 84.0}",1,85.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339735,"{'19F': 94.7, '19F-I': 94.2, '19F-III': 93.1, '19F-II': 91.8, '19F-IV': 88.1}",1,94.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300795,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 89.4, '06A': 87.7, '06A-III': 86.1}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341635,"{'23F': 94.6, '23A': 63.7, '28A': 47.8, '23B': 47.1, '06A': 46.5}",1,94.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192775,"{'15C': 93.8, '15B': 93.7, '15A': 62.0, '15F': 48.6, '23A': 32.9}",1,93.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001090645,"{'14': 94.1, '36': 26.2, '09L': 24.8, '09N': 24.2, '15B': 24.2}",1,94.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026565,"{'04': 99.6, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.6,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021022605,"{'02': 57.6, '06C': 23.4, '06B-I': 23.4, '06C-I': 23.4, '06A-II': 23.1}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001086865,"{'10A': 99.3, '10B': 67.0, '10C': 27.7, '10F': 18.1, '22F': 13.8}",1,99.3,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228445,"{'09L': 99.4, '09N': 90.1, '36': 32.5, '09A': 31.5, '09V': 31.5}",1,99.4,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002249685,"{'15C': 96.2, '15B': 96.1, '15A': 61.5, '15F': 47.8, '23A': 34.7}",1,96.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282415,"{'03': 95.2, '36': 17.4, '01': 16.6, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053295,"{'23F': 93.9, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.3}",1,93.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001167705,"{'15C': 87.4, '15B': 87.3, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.4,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169865,"{'14': 92.7, '36': 28.8, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190565,"{'16F': 96.7, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282155,"{'34': 98.6, '33F2': 35.2, '35B': 33.5, '33F': 29.8, '33C': 28.5}",1,98.6,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216365,"{'23F': 93.7, '23A': 63.2, '28A': 48.2, '23B': 47.0, '06A-III': 46.4}",1,93.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585145,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001088645,"{'15C': 95.7, '15B': 95.6, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237985,"{'19A-I': 99.7, '19A-II': 97.5, '19A': 87.7, '19A-III': 87.5, '19AF': 61.8}",1,99.7,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225575,"{'08': 99.0, '06A-II': 25.5, '06A-VI': 25.4, '06B-II': 25.2, '06C': 24.5}",1,99.0,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001637465,"{'05': 100.0, '45': 22.0, '04': 20.2, '36': 17.5, '20': 17.1}",1,100.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288255,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 89.6, '06A': 87.7, '06A-III': 86.1}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311055,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022255,"{'03': 95.5, '20': 17.2, '01': 16.9, '09L': 16.1, '36': 16.0}",1,95.5,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225115,"{'08': 99.6, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.6,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228685,"{'23F': 94.1, '23A': 63.4, '28A': 47.7, '23B': 47.1, '06A': 46.9}",1,94.1,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225745,"{'06A-II': 99.7, '06A-VI': 99.7, '06B-II': 91.6, '06A-V': 90.8, '06A-III': 89.3}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344275,"{'23F': 94.6, '23A': 63.7, '28A': 47.7, '23B': 47.0, '06A': 46.4}",1,94.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900061145,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253675,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001097085,"{'20': 5.5, '22F': 4.9, '01': 4.7, '25F': 4.5, '25A': 4.4}",1,5.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290515,"{'19F-I': 95.9, '19F': 95.6, '19F-III': 94.0, '19F-II': 92.8, '19F-IV': 88.8}",1,95.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255445,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.7, '19A-III': 87.5, '19AF': 61.8}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301065,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276405,"{'17F': 82.5, '06A-III': 43.1, '06B-I': 42.8, '06A-I': 42.2, '06B': 41.8}",1,82.5,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250975,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224445,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219035,"{'14': 91.4, '36': 26.7, '09L': 26.6, '09N': 26.3, '15B': 23.4}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214455,"{'38': 89.9, '25F': 86.1, '25A': 85.1, '36': 11.9, '20': 8.4}",1,89.9,25F_25A_38,25F_25A_38,,"[[0], [18]]","{'wcyD': ['b: 22.59'], 'wcyV': 4.69}","{'wcyD': 0, 'wcyV': 'not_detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324435,"{'11D': 96.5, '11A': 95.3, '11F': 43.3, '11C': 36.2, '11B': 34.8}",1,96.5,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278945,"{'24F': 97.0, '24B': 89.7, '24F2': 86.4, '24A': 62.9, '07C': 51.9}",1,97.0,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260445,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.0, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269035,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021022375,"{'02': 57.6, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028795,"{'12F': 96.7, '44': 93.4, '12B': 92.7, '12A': 80.4, '46': 77.3}",1,96.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240885,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231035,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230325,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233315,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024795,"{'08': 99.8, '06A-II': 24.6, '06A-VI': 24.5, '02': 24.4, '06B-II': 24.0}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053585,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193325,"{'10A': 94.2, '10B': 64.8, '10C': 29.3, '10F': 19.7, '47A': 16.8}",1,94.2,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265915,"{'03': 94.7, '01': 17.6, '36': 17.4, '20': 16.1, '09N': 15.7}",1,94.7,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020155,"{'08': 99.8, '06A-II': 26.5, '06A-VI': 26.4, '06B-II': 25.8, '06A-V': 25.4}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300835,"{'06E': 99.6, '06B-III': 99.2, '06B-I': 46.7, '06A-III': 46.2, '06A-II': 45.2}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334305,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.8, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340725,"{'06A': 90.0, '06A-III': 89.4, '06A-II': 89.1, '06A-VI': 89.1, '06B-II': 89.1}",1,90.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342285,"{'21': 92.0, '22F': 36.4, '06A-IV': 31.5, '06A-II': 31.1, '06A-VI': 31.1}",1,92.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289885,"{'01': 7.5, '45': 6.2, '25F': 5.8, '25A': 5.6, '22F': 5.0}",5,7.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313025,"{'06C-I': 92.1, '06C': 92.0, '06D': 84.9, '06B-I': 77.2, '06A-III': 76.5}",1,92.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286285,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167575,"{'09A': 99.2, '09V': 99.0, '09N': 36.6, '09L': 35.5, '11F': 26.6}",1,99.2,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900036055,"{'09A': 99.7, '09V': 99.5, '09N': 38.2, '09L': 36.8, '06A-IV': 27.3}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230685,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192575,"{'09N': 99.2, '09L': 88.3, '09A': 32.7, '09V': 32.7, '36': 31.2}",1,99.2,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292865,"{'20': 97.3, '13': 26.0, '09L': 25.3, '09N': 24.7, '36': 24.6}",1,97.3,,20,,,{},{},20,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001113625,"{'19F': 94.7, '19F-I': 94.2, '19F-III': 93.1, '19F-II': 91.8, '19F-IV': 88.1}",1,94.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295895,"{'01': 99.5, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033985,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327895,"{'19F': 94.8, '19F-I': 94.3, '19F-III': 93.2, '19F-II': 91.9, '19F-IV': 88.1}",1,94.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262285,"{'23F': 92.5, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304875,"{'06A-V': 93.2, '06A-III': 90.2, '06A-II': 89.8, '06A-VI': 89.8, '06B-I': 89.4}",1,93.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001125525,"{'35B': 99.7, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.7,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001202975,"{'34': 98.6, '33F2': 35.2, '35B': 33.4, '33F': 29.7, '33C': 28.4}",1,98.6,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263245,"{'09A': 99.4, '09V': 99.2, '09N': 38.5, '09L': 36.8, '11F': 27.0}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900046575,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284885,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900089045,"{'15C': 93.9, '15B': 93.8, '15A': 62.1, '15F': 48.6, '23A': 32.9}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312385,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001329895,"{'06E': 100.0, '06B-III': 96.2, '06B-I': 43.6, '06A-III': 43.1, '06A-I': 42.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244835,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258515,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022785,"{'23B': 99.5, '23B1': 64.6, '23F': 45.8, '23A': 40.0, '06A-IV': 36.9}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021605,"{'09A': 99.7, '09V': 99.5, '09N': 38.2, '09L': 36.7, '06A-IV': 27.2}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063675,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323515,"{'06C-I': 89.1, '06C': 89.0, '06D': 86.9, '06A-I': 77.7, '06B': 77.4}",1,89.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285195,"{'15B': 99.7, '15C': 99.4, '15A': 62.7, '15F': 48.3, '23A': 32.8}",1,99.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224655,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337975,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900062225,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000171655,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231265,"{'38': 99.3, '25F': 84.5, '25A': 83.5, '36': 10.5, '01': 7.8}",1,99.3,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189255,"{'19A-II': 100.0, '19A-I': 96.6, '19A': 85.0, '19A-III': 84.8, '19AF': 62.1}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001094845,"{'06A': 90.4, '06A-III': 89.4, '06A-II': 89.3, '06A-VI': 89.3, '06B-II': 89.3}",1,90.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306035,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029555,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.4, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301465,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001263055,"{'18C': 88.1, '18B': 88.0, '18F': 77.4, '18A': 61.4, '16F': 37.6}",1,88.1,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227585,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001100125,"{'18A': 98.1, '18B': 53.4, '18C': 53.4, '18F': 53.1, '19F-IV': 37.3}",1,98.1,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021025,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001089505,"{'33B': 89.8, '33D': 89.7, '35B': 32.8, '33F2': 30.3, '22F': 26.2}",1,89.8,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001107605,"{'23F': 96.8, '23A': 66.4, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287465,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222275,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001166925,"{'06C': 85.2, '06C-I': 85.2, '06D': 84.2, '06A': 76.9, '06A-IV': 73.3}",1,85.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265825,"{'09A': 95.8, '09V': 95.6, '09N': 39.1, '09L': 37.3, '06A-IV': 26.6}",1,95.8,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217545,"{'01': 99.1, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274745,"{'38': 97.6, '25F': 84.3, '25A': 83.3, '36': 13.1, '20': 7.4}",1,97.6,25F_25A_38,25F_25A_38,,"[[0], [19]]","{'wcyD': ['b: 80.0'], 'wcyV': 100.0}","{'wcyD': 0, 'wcyV': 'detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031275,"{'27': 99.4, '06B-I': 41.7, '06A-III': 41.4, '22F': 41.2, '06C': 40.7}",1,99.4,,27,,,{},{},27,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001326655,"{'03': 95.2, '36': 17.1, '20': 15.8, '01': 14.2, '14': 14.1}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339495,"{'20': 86.3, '36': 27.0, '13': 26.4, '09L': 25.7, '09N': 24.7}",1,86.3,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001206815,"{'06E': 100.0, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053865,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001098725,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A': 46.2}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251255,"{'40': 99.6, '07B': 93.9, '07C': 75.4, '24F2': 48.2, '24F': 47.9}",1,99.6,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291855,"{'19AF': 99.8, '19A-II': 62.0, '19A-I': 61.3, '19A': 53.1, '19A-III': 52.9}",1,99.8,19A_19AF,19A_19AF,,[[7]],"{'wzy': [2, 100.0]}",{'wzy': 2},19A_19AF,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262445,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267445,"{'19A': 93.4, '19A-III': 93.2, '19A-II': 81.8, '19A-I': 80.0, '19AF': 55.9}",1,93.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331435,"{'11D': 96.5, '11A': 95.3, '11F': 43.3, '11C': 36.2, '11B': 34.8}",1,96.5,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311585,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245745,"{'22F': 96.0, '22A': 73.3, '06A': 42.5, '06A-II': 42.2, '06A-VI': 42.1}",1,96.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342155,"{'36': 12.6, '20': 7.9, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",1,12.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024745,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001095785,"{'13': 98.9, '09L': 28.3, '20': 28.1, '09N': 27.9, '14': 26.8}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310245,"{'15A': 99.6, '15F': 73.9, '15C': 62.3, '15B': 62.2, '23F': 31.3}",1,99.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272305,"{'01': 99.0, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001343655,"{'06A-III': 99.8, '06B-I': 98.2, '06B-II': 91.1, '06A': 90.8, '06A-V': 90.2}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222695,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243865,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277405,"{'03': 95.8, '20': 17.9, '01': 17.7, '36': 16.3, '09L': 16.0}",1,95.8,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900060815,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235495,"{'14': 91.4, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287305,"{'06A': 83.5, '06A-IV': 83.1, '06A-V': 82.5, '06B-I': 82.4, '06B-II': 82.4}",1,83.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 83.83']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000251325,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900088835,"{'19A-II': 99.8, '19A-I': 96.4, '19A': 85.0, '19A-III': 84.8, '19AF': 62.1}",1,99.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001169485,"{'07B': 99.9, '40': 92.9, '07C': 77.2, '24F2': 48.0, '24F': 47.6}",1,99.9,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001145725,"{'06C-I': 89.0, '06C': 88.9, '06D': 86.9, '06A-I': 78.0, '06B': 77.7}",1,89.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 94.1]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027715,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024235,"{'23B': 99.5, '23B1': 64.6, '23F': 45.8, '23A': 40.0, '06A-IV': 36.9}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298285,"{'21': 91.7, '22F': 36.8, '06A-IV': 31.6, '06A-II': 31.2, '06A-VI': 31.2}",1,91.7,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248225,"{'23A': 99.1, '23F': 66.8, '23B': 43.5, '19F-II': 37.7, '15B': 37.2}",1,99.1,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021035,"{'24F': 97.0, '24B': 89.7, '24F2': 86.5, '24A': 63.0, '07C': 51.9}",1,97.0,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293215,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002076855,"{'19A': 88.8, '19A-III': 88.6, '19A-II': 81.9, '19A-I': 80.3, '19AF': 55.2}",1,88.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290195,"{'19A': 98.8, '19A-III': 98.6, '19A-I': 85.7, '19A-II': 83.4, '19AF': 56.7}",1,98.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241695,"{'24F2': 99.7, '24B': 88.5, '24F': 87.0, '24A': 71.0, '07B': 56.8}",1,99.7,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284305,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585855,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322705,"{'03': 95.2, '01': 17.4, '36': 17.1, '09N': 15.8, '20': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001118505,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262315,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193645,"{'21': 100.0, '22F': 36.1, '06A-IV': 32.9, '06A-II': 32.2, '06A-VI': 32.1}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277365,"{'23B1': 99.6, '23B': 56.3, '19A-II': 36.1, '19A-I': 35.9, '19AF': 31.7}",1,99.6,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001343955,"{'19F-I': 95.4, '19F': 95.1, '19F-III': 93.6, '19F-II': 92.3, '19F-IV': 88.3}",1,95.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020140055,"{'35B': 99.7, '33F': 33.4, '35C': 33.2, '34': 33.0, '35A': 32.8}",1,99.7,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900060835,"{'19A': 99.1, '19A-III': 98.9, '19A-I': 86.0, '19A-II': 83.7, '19AF': 57.1}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316795,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024305,"{'18C': 99.7, '18B': 99.6, '18F': 75.6, '18A': 62.4, '16F': 39.2}",1,99.7,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019399085,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001566235,"{'15C': 95.9, '15B': 95.8, '15A': 61.5, '15F': 47.8, '23A': 34.5}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347295,"{'14': 89.6, '36': 29.2, '09L': 23.2, '09N': 22.2, '19F-II': 22.2}",1,89.6,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290685,"{'07C': 99.1, '07B': 72.9, '40': 70.7, '24B': 48.7, '24F': 48.5}",1,99.1,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214955,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307315,"{'01': 99.3, '19F': 32.5, '19F-I': 32.1, '19F-III': 31.8, '19F-II': 31.5}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308075,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001145825,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001137005,"{'33B': 89.8, '33D': 89.7, '35B': 34.1, '33F2': 30.3, '22F': 26.3}",1,89.8,,"Mixed serotypes- {'33B', '33D'}",,,{},{},"Mixed serotypes- {'33B', '33D'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001084785,"{'16F': 99.7, '28F': 42.2, '19F-IV': 41.1, '18A': 40.6, '18F': 40.5}",1,99.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291485,"{'19F-I': 95.3, '19F': 95.0, '19F-III': 93.4, '19F-II': 92.2, '19F-IV': 88.2}",1,95.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218835,"{'16F': 73.0, '28F': 44.4, '28A': 41.6, '18F': 35.4, '18A': 34.9}",1,73.0,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251515,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297525,"{'23F': 99.0, '23A': 64.8, '23B': 47.6, '28A': 47.5, '06A-V': 45.8}",1,99.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049485,"{'16F': 99.5, '28F': 42.1, '19F-IV': 41.0, '18A': 40.9, '18F': 40.6}",1,99.5,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310405,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018395,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171925,"{'14': 92.6, '36': 28.5, '09L': 24.9, '15B': 24.2, '15C': 24.1}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234775,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001153065,"{'21': 91.9, '22F': 34.5, '06A-IV': 34.3, '06A-II': 34.0, '06A-VI': 34.0}",1,91.9,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225175,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347575,"{'06E': 100.0, '06B-III': 99.2, '06B-I': 46.7, '06A-III': 46.2, '06A-II': 45.2}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218775,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024225,"{'09N': 99.9, '09L': 89.1, '09A': 32.7, '09V': 32.7, '36': 32.1}",1,99.9,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254415,"{'15C': 89.6, '15B': 89.5, '15A': 62.5, '15F': 49.3, '23A': 31.0}",1,89.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243855,"{'05': 95.2, '45': 21.9, '36': 21.6, '20': 20.2, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244055,"{'14': 91.4, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900058405,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000252025,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219345,"{'14': 93.0, '36': 25.8, '09L': 24.9, '15B': 23.8, '09N': 23.7}",1,93.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316895,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 89.6, '06A': 87.7, '06A-III': 86.1}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000278885,"{'09A': 99.7, '09V': 99.5, '09N': 38.1, '09L': 36.6, '06A-IV': 27.4}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001117165,"{'15C': 95.8, '15B': 95.6, '15A': 61.2, '15F': 47.6, '23A': 34.6}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328825,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311465,"{'03': 95.8, '20': 17.9, '01': 17.8, '09L': 16.4, '36': 16.4}",1,95.8,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900795165,"{'06A-III': 88.9, '06B-I': 87.8, '06A-II': 87.4, '06A-VI': 87.4, '06A-V': 87.3}",1,88.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001110325,"{'07A': 98.3, '07F': 98.1, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,98.3,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273445,"{'18C': 99.8, '18B': 99.7, '18F': 75.7, '18A': 62.5, '16F': 39.2}",1,99.8,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298595,"{'20': 77.1, '47F': 28.0, '09L': 25.8, '09N': 25.3, '13': 25.2}",1,77.1,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322055,"{'09A': 99.6, '09V': 99.4, '09N': 38.4, '09L': 36.7, '11F': 26.6}",1,99.6,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288405,"{'38': 97.7, '25F': 84.4, '25A': 83.4, '36': 13.1, '20': 7.5}",1,97.7,25F_25A_38,25F_25A_38,,"[[0], [19]]","{'wcyD': ['b: 80.0'], 'wcyV': 100.0}","{'wcyD': 0, 'wcyV': 'detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300805,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299005,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029685,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001171405,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337375,"{'40': 99.6, '07B': 93.9, '07C': 75.4, '24F2': 48.2, '24F': 47.8}",1,99.6,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258735,"{'06E': 100.0, '06B-III': 97.9, '06B-I': 45.6, '06A-III': 45.1, '06A-II': 44.1}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001145605,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272485,"{'34': 98.7, '33F2': 35.2, '35B': 33.5, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001112025,"{'35B': 97.9, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,97.9,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267405,"{'01': 7.6, '25F': 6.0, '25A': 5.8, '45': 5.7, '22F': 5.2}",3,7.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328975,"{'09A': 95.8, '09V': 95.6, '09N': 38.7, '09L': 37.5, '11F': 26.7}",1,95.8,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251385,"{'19F-I': 96.4, '19F': 96.1, '19F-III': 94.5, '19F-II': 93.3, '19F-IV': 89.2}",1,96.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000468355,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001107785,"{'15A': 98.4, '15F': 73.7, '15C': 62.1, '15B': 62.0, '23F': 31.7}",1,98.4,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049495,"{'19A': 99.0, '19A-III': 98.8, '19A-I': 85.9, '19A-II': 83.6, '19AF': 57.0}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001106365,"{'06A': 90.4, '06A-III': 89.4, '06A-II': 89.3, '06A-VI': 89.3, '06B-II': 89.3}",1,90.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001143565,"{'06C': 85.2, '06C-I': 85.2, '06D': 84.2, '06A': 76.9, '06A-IV': 73.3}",1,85.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320265,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222065,"{'14': 95.1, '36': 26.2, '09L': 25.5, '09N': 24.4, '15B': 24.3}",1,95.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241395,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276895,"{'09A': 99.4, '09V': 99.2, '09N': 37.6, '09L': 37.0, '06A-IV': 27.2}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238075,"{'14': 100.0, '09L': 26.9, '36': 25.8, '09N': 25.0, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250405,"{'13': 83.3, '36': 28.8, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052135,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900034375,"{'24F2': 99.7, '24B': 88.5, '24F': 87.0, '24A': 71.0, '07B': 56.8}",1,99.7,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234525,"{'14': 94.0, '36': 26.0, '09L': 25.4, '09N': 24.3, '15B': 24.2}",1,94.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279295,"{'14': 94.3, '36': 25.9, '09L': 25.3, '09N': 24.5, '15B': 24.3}",1,94.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329575,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245445,"{'04': 99.7, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323315,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001106805,"{'03': 97.4, '01': 17.5, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340405,"{'15C': 89.6, '15B': 89.5, '15A': 62.5, '15F': 49.3, '23A': 31.0}",1,89.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001209705,"{'34': 93.2, '33F2': 35.3, '35B': 32.1, '33F': 29.3, '33C': 28.8}",1,93.2,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257555,"{'36': 11.8, '20': 7.7, '06A-IV': 7.7, '01': 7.4, '06B-I': 6.6}",1,11.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292905,"{'06A-II': 95.4, '06A-VI': 95.4, '06B-II': 89.4, '06A-V': 89.0, '06A-III': 88.3}",1,95.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001156205,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900037065,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001084705,"{'23F': 99.3, '23A': 65.5, '23B': 49.1, '28A': 48.2, '06A-IV': 47.3}",1,99.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330605,"{'06A-II': 95.6, '06A-VI': 95.6, '06B-II': 89.4, '06A-V': 89.0, '06A-III': 88.4}",1,95.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339485,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.5}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321795,"{'23F': 96.5, '23A': 63.2, '23B': 48.0, '28A': 47.2, '06A-V': 46.8}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031835,"{'09A': 99.7, '09V': 99.5, '09N': 38.2, '09L': 36.8, '35B': 26.7}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191745,"{'22F': 93.9, '22A': 70.2, '06A-II': 45.3, '06A-VI': 45.2, '06B-I': 45.2}",1,93.9,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331545,"{'15C': 87.8, '15B': 87.7, '15A': 64.6, '15F': 50.0, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019446715,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275435,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259535,"{'23F': 97.0, '23A': 63.9, '23B': 48.0, '28A': 47.7, '06B-II': 46.1}",1,97.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321615,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001140885,"{'15C': 95.2, '15B': 95.0, '15A': 60.8, '15F': 47.2, '23A': 34.5}",1,95.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193385,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.4, '36': 22.7}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220845,"{'14': 93.7, '36': 25.8, '09L': 25.0, '09N': 24.5, '15B': 23.8}",1,93.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193565,"{'21': 99.5, '22F': 35.9, '06A-IV': 32.7, '06A-II': 32.0, '06A-VI': 31.9}",1,99.5,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233555,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.7, '06B-II': 35.1, '06A-V': 34.9}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309545,"{'19F': 97.4, '19F-I': 96.4, '19F-III': 95.6, '19F-II': 95.5, '19F-IV': 91.0}",1,97.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286905,"{'24F2': 99.8, '24B': 88.6, '24F': 87.1, '24A': 71.3, '07B': 55.3}",1,99.8,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168225,"{'09A': 99.6, '09V': 99.4, '09N': 36.3, '09L': 35.0, '11F': 26.6}",1,99.6,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244625,"{'10A': 99.7, '10B': 66.5, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,99.7,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020945,"{'09A': 99.7, '09V': 99.5, '09N': 38.0, '09L': 36.6, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300715,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900060905,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297535,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907172005,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269535,"{'06E': 96.8, '06B-III': 96.6, '06B-I': 47.8, '06A-III': 47.3, '06A-II': 46.8}",1,96.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170735,"{'14': 92.5, '36': 28.7, '09L': 25.3, '15B': 24.2, '09N': 24.1}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283465,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001340855,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167875,"{'09A': 99.7, '09V': 99.5, '09N': 37.3, '09L': 35.9, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247335,"{'15A': 98.3, '15F': 72.9, '15C': 61.6, '15B': 61.5, '23F': 32.2}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001336515,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 94.0, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213865,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '06A-IV': 47.3, '23B': 47.0}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220905,"{'04': 99.6, '45': 34.0, '12F': 23.3, '44': 23.1, '12A': 22.2}",1,99.6,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001334155,"{'45': 5.7, '25F': 5.4, '25A': 5.3, '20': 5.2, '22F': 4.9}",1,5.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257965,"{'40': 99.6, '07B': 93.9, '07C': 75.4, '24F2': 48.2, '24F': 47.9}",1,99.6,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269105,"{'19F-I': 97.7, '19F': 97.0, '19F-III': 96.5, '19F-II': 95.0, '19F-IV': 90.1}",1,97.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254995,"{'09A': 94.5, '09V': 94.3, '09N': 38.6, '09L': 37.5, '11F': 26.7}",1,94.5,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218525,"{'09A': 99.4, '09V': 99.2, '09N': 38.5, '09L': 36.5, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001116965,"{'04': 98.3, '45': 33.9, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001130985,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321035,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021022335,"{'02': 57.6, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326825,"{'18C': 88.7, '18B': 88.6, '18F': 78.1, '18A': 61.8, '16F': 37.9}",1,88.7,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169855,"{'07C': 96.7, '07B': 77.3, '40': 74.6, '24F': 47.9, '24B': 47.8}",1,96.7,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001093345,"{'06C-I': 89.1, '06C': 89.0, '06D': 86.9, '06A-I': 77.7, '06B': 77.4}",1,89.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001131225,"{'06E': 100.0, '06B-III': 97.5, '06B-I': 44.8, '06A-III': 44.3, '06B-II': 43.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334035,"{'19F-I': 95.9, '19F': 95.6, '19F-III': 94.1, '19F-II': 92.8, '19F-IV': 88.9}",1,95.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224415,"{'13': 99.0, '09N': 29.0, '09L': 28.7, '20': 28.2, '36': 28.0}",1,99.0,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027175,"{'19A-II': 100.0, '19A-I': 96.6, '19A': 85.0, '19A-III': 84.8, '19AF': 62.1}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256025,"{'15C': 87.7, '15B': 87.6, '15A': 60.9, '15F': 48.0, '23A': 31.3}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303915,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 89.6, '06A': 87.7, '06A-III': 86.1}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189955,"{'06C-I': 99.8, '06C': 99.6, '06D': 84.6, '06A-II': 79.5, '06A-VI': 79.5}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314655,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001150505,"{'14': 94.8, '36': 25.5, '09L': 24.3, '15B': 24.3, '15C': 24.2}",1,94.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264835,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001340615,"{'11F': 61.5, '11D': 38.2, '11A': 36.6, '09V': 25.1, '09A': 25.0}",1,61.5,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317005,"{'18C': 88.3, '18B': 88.2, '18F': 77.6, '18A': 61.9, '16F': 37.8}",1,88.3,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331945,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323565,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247455,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297165,"{'33F': 93.9, '33A': 88.1, '33F2': 79.1, '34': 48.7, '35B': 36.6}",1,93.9,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191615,"{'23A': 99.6, '23F': 67.3, '23B': 43.6, '19F-II': 37.8, '15B': 37.1}",1,99.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028375,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001163465,"{'06E': 100.0, '06B-III': 99.2, '06B-I': 46.6, '06A-III': 46.1, '06A-II': 45.1}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314985,"{'38': 99.5, '25F': 84.4, '25A': 83.4, '36': 11.6, '20': 8.0}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900035345,"{'15C': 93.9, '15B': 93.8, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027315,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309215,"{'19F-I': 95.9, '19F': 95.6, '19F-III': 94.0, '19F-II': 92.8, '19F-IV': 88.8}",1,95.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272385,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019685,"{'19F-II': 99.5, '19F': 95.0, '19F-III': 94.3, '19F-I': 93.7, '19F-IV': 93.3}",1,99.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281915,"{'09A': 99.4, '09V': 99.2, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001348275,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020905,"{'07A': 99.6, '07F': 99.4, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.6,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216305,"{'19F-I': 99.7, '19F': 96.7, '19F-III': 96.7, '19F-II': 93.9, '19F-IV': 89.3}",1,99.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219225,"{'04': 99.3, '45': 33.4, '12F': 23.4, '44': 23.2, '12A': 22.3}",1,99.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001101645,"{'23F': 92.4, '23A': 61.1, '28A': 47.7, '23B': 46.8, '06A-IV': 46.5}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330665,"{'24A': 99.0, '24F2': 62.5, '24F': 60.0, '24B': 57.5, '48': 46.4}",1,99.0,,24A,,,{},{},24A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340145,"{'23B1': 100.0, '23B': 55.8, '19A-II': 36.2, '19A-I': 35.9, '19AF': 31.3}",1,100.0,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234115,"{'04': 98.3, '45': 34.8, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309615,"{'34': 92.9, '33F2': 34.5, '35B': 32.0, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001860715,"{'22F': 98.9, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-I': 41.8}",1,98.9,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001100245,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.6, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285525,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272255,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336635,"{'03': 97.0, '01': 17.5, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.0,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001164285,"{'36': 10.6, '06A-IV': 7.1, '06B-I': 5.9, '06C': 5.8, '06C-I': 5.8}",1,10.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230755,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227265,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215485,"{'23F': 78.4, '23A': 58.1, '23B': 52.1, '28A': 39.2, '28F': 36.6}",1,78.4,,23F,,,{},{},23F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168075,"{'09A': 99.1, '09V': 98.9, '09N': 37.3, '09L': 36.0, '11F': 26.5}",1,99.1,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021415,"{'06B-I': 98.8, '06A-III': 96.7, '06B-II': 89.9, '06A': 89.8, '06A-V': 88.0}",1,98.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235205,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001098845,"{'14': 94.2, '36': 24.4, '15B': 24.3, '15C': 24.2, '09L': 24.1}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001120505,"{'19F-I': 95.5, '19F': 95.2, '19F-III': 93.7, '19F-II': 92.4, '19F-IV': 88.4}",1,95.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001167445,"{'06A': 90.4, '06A-III': 89.4, '06A-II': 89.3, '06A-VI': 89.3, '06B-II': 89.3}",1,90.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339575,"{'17F': 99.6, '06B': 44.3, '06B-I': 44.1, '06A-III': 44.0, '06D': 43.7}",1,99.6,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253825,"{'09N': 98.3, '09L': 87.4, '09A': 31.4, '09V': 31.4, '36': 30.2}",1,98.3,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320795,"{'14': 91.4, '19F-IV': 25.9, '09L': 25.2, '09N': 24.9, '36': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344155,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001200775,"{'07A': 98.2, '07F': 98.0, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,98.2,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277535,"{'01': 7.0, '36': 6.3, '25F': 5.7, '45': 5.6, '25A': 5.5}",2,7.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283325,"{'10A': 94.2, '10B': 64.8, '10C': 29.3, '10F': 19.7, '47A': 16.8}",1,94.2,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245795,"{'36': 10.8, '23B1': 6.8, '45': 6.7, '06A-IV': 6.7, '01': 6.5}",1,10.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336655,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001163705,"{'35F': 91.0, '47F': 67.6, '29': 25.7, '34': 25.3, '35B': 24.3}",1,91.0,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301195,"{'03': 75.1, '20': 7.9, '01': 7.2, '36': 7.1, '22F': 6.8}",1,75.1,,3,,,{},{},3,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302105,"{'07A': 97.4, '07F': 97.2, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,97.4,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001109145,"{'06E': 100.0, '06B-III': 99.3, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337025,"{'01': 99.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001860885,"{'22F': 97.7, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-I': 41.8}",1,97.7,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284005,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017195,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063205,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900042835,"{'08': 99.7, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.7,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317705,"{'18C': 88.5, '18B': 88.4, '18F': 77.8, '18A': 61.5, '16F': 37.6}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339095,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298475,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021935,"{'03': 95.2, '01': 17.1, '36': 17.1, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260095,"{'01': 99.0, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018445,"{'04': 99.7, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326635,"{'31': 99.3, '41A': 57.2, '41F': 49.3, '06A-II': 36.5, '06A-VI': 36.5}",1,99.3,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001199835,"{'36': 13.1, '20': 9.0, '06A-IV': 8.5, '06B-I': 7.3, '06C': 7.2}",1,13.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336485,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219485,"{'09L': 99.1, '09N': 89.4, '36': 32.2, '09A': 31.5, '09V': 31.5}",1,99.1,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030255,"{'33F': 100.0, '33A': 97.5, '33F2': 70.9, '35C': 42.8, '42': 41.8}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339115,"{'23B1': 98.8, '23B': 55.9, '19A-II': 36.0, '19A-I': 35.7, '19AF': 31.5}",1,98.8,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272575,"{'15C': 95.2, '15B': 95.1, '15A': 60.8, '15F': 47.3, '23A': 34.0}",1,95.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319955,"{'23B': 88.7, '23B1': 62.4, '23F': 38.7, '06A-IV': 33.9, '23A': 33.2}",1,88.7,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001119405,"{'14': 89.8, '36': 29.1, '09L': 23.3, '09N': 22.3, '19F-II': 22.1}",1,89.8,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308605,"{'15C': 95.4, '15B': 95.3, '15A': 60.8, '15F': 47.3, '23A': 34.4}",1,95.4,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027025,"{'23F': 97.8, '23A': 63.3, '28A': 48.3, '23B': 48.2, '06A-IV': 46.8}",1,97.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001144125,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001145405,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315295,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228125,"{'06A-I': 98.1, '06B': 95.1, '06A': 88.3, '06A-V': 86.9, '06A-III': 85.2}",1,98.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329265,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332505,"{'03': 97.4, '01': 18.0, '20': 17.0, '36': 16.1, '09L': 15.4}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191985,"{'15B': 99.7, '15C': 99.5, '15A': 62.6, '15F': 48.2, '23A': 32.8}",1,99.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267255,"{'06A-II': 95.6, '06A-VI': 95.6, '06B-II': 89.5, '06A-V': 89.1, '06A-III': 88.5}",1,95.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337755,"{'23A': 97.5, '23F': 68.8, '23B': 40.1, '19F-II': 39.2, '15B': 38.8}",1,97.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001156925,"{'10A': 97.3, '10B': 67.6, '10C': 28.2, '10F': 18.6, '47A': 15.0}",1,97.3,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000251305,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255665,"{'38': 90.8, '25F': 86.8, '25A': 85.8, '36': 15.7, '01': 7.4}",1,90.8,25F_25A_38,25F_25A_38,,"[[0], [18]]","{'wcyD': ['b: 22.59'], 'wcyV': 4.69}","{'wcyD': 0, 'wcyV': 'not_detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001161405,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022925,"{'22F': 92.5, '22A': 74.2, '06A-IV': 45.1, '06A-II': 44.7, '06A-VI': 44.6}",1,92.5,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224495,"{'23B': 82.7, '23B1': 61.9, '23F': 31.7, '28A': 28.6, '19A': 27.8}",1,82.7,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065505,"{'10A': 94.2, '10B': 64.8, '10C': 29.3, '10F': 19.7, '47A': 16.8}",1,94.2,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331785,"{'17F': 99.8, '06B': 44.5, '06D': 43.7, '06A-I': 43.7, '06B-I': 43.4}",1,99.8,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264705,"{'11B': 99.6, '11C': 89.2, '11A': 31.8, '11D': 31.5, '11F': 25.9}",1,99.6,,11B/11C,,,{},{},11B/11C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001162205,"{'06A-II': 97.9, '06A-VI': 97.9, '06B-II': 90.4, '06A-V': 89.6, '06A-III': 89.2}",1,97.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334155,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330245,"{'02': 93.2, '22F': 40.3, '06B-I': 39.0, '06A-III': 38.9, '06A-II': 38.7}",1,93.2,,2,,,{},{},2,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296995,"{'05': 95.2, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214245,"{'05': 95.3, '45': 22.0, '36': 21.9, '20': 20.1, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266565,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288045,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900046565,"{'09A': 99.7, '09V': 99.5, '09N': 38.1, '09L': 36.7, '35B': 26.7}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275535,"{'15A': 99.4, '15F': 73.9, '15C': 61.8, '15B': 61.7, '23F': 31.7}",1,99.4,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236255,"{'10A': 93.9, '10B': 64.7, '10C': 29.0, '10F': 19.4, '47A': 16.3}",1,93.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282435,"{'13': 98.9, '09L': 28.7, '20': 28.7, '09N': 28.5, '36': 28.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001085005,"{'06C': 85.6, '06C-I': 85.6, '06D': 84.7, '06A': 77.0, '06A-IV': 73.3}",1,85.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001129905,"{'21': 95.8, '22F': 38.3, '06A-II': 34.6, '06A-VI': 34.5, '06A-III': 33.9}",1,95.8,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213395,"{'16F': 98.0, '28F': 42.7, '19F-IV': 42.4, '19F-II': 41.6, '18F': 41.5}",1,98.0,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001173005,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001165705,"{'45': 6.3, '36': 5.3, '25F': 5.1, '20': 5.0, '25A': 4.9}",2,6.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001099165,"{'45': 6.8, '25F': 6.7, '25A': 6.3, '38': 4.7, '35B': 4.3}",2,6.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001095045,"{'01': 7.0, '45': 5.7, '25F': 5.4, '25A': 5.2, '20': 5.1}",2,7.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315975,"{'23B1': 99.6, '23B': 56.3, '19A-II': 36.1, '19A-I': 35.9, '19AF': 31.7}",1,99.6,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056455,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276995,"{'06A-I': 99.2, '06B': 94.9, '06A': 87.7, '06A-V': 86.7, '06A-III': 82.9}",1,99.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001194035,"{'36': 11.1, '06A-IV': 7.7, '20': 7.0, '01': 6.6, '06C': 6.4}",1,11.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001200855,"{'36': 12.3, '20': 7.9, '06A-IV': 7.6, '06C': 6.2, '06C-I': 6.2}",1,12.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312755,"{'06A': 93.5, '06A-III': 91.5, '06B-I': 91.4, '06B-II': 91.2, '06A-V': 90.7}",1,93.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242555,"{'19A-I': 99.2, '19A-II': 97.5, '19A': 87.8, '19A-III': 87.6, '19AF': 61.9}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001115765,"{'09L': 99.3, '09N': 89.2, '36': 32.1, '09A': 31.4, '09V': 31.4}",1,99.3,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055085,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167775,"{'14': 93.1, '36': 27.0, '15B': 24.3, '15C': 24.2, '09L': 24.0}",1,93.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246865,"{'33D': 80.6, '33B': 76.6, '06A-I': 36.6, '06B': 36.0, '35B': 36.0}",1,80.6,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189865,"{'19F-II': 99.2, '19F': 95.0, '19F-III': 94.1, '19F-I': 93.7, '19F-IV': 92.9}",1,99.2,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255095,"{'23B': 81.3, '23B1': 65.9, '06A-IV': 36.4, '06B-II': 34.7, '06A-V': 34.5}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001195385,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295125,"{'06C-I': 92.8, '06C': 92.7, '06D': 84.7, '06B-I': 77.7, '06A-III': 77.2}",1,92.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001121285,"{'23A': 97.5, '23F': 68.8, '23B': 40.1, '19F-II': 39.2, '15B': 38.8}",1,97.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189405,"{'06B-I': 98.5, '06A-III': 96.4, '06A': 89.8, '06B-II': 89.1, '06A-V': 87.2}",1,98.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001155625,"{'19B': 95.8, '19C': 70.1, '19F-II': 53.9, '19F-I': 53.1, '19F': 53.0}",1,95.8,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001092545,"{'33C': 98.7, '34': 29.9, '35B': 25.2, '33F2': 23.8, '33F': 23.0}",1,98.7,,33C,,,{},{},33C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001111045,"{'34': 92.9, '33F2': 34.7, '35B': 31.1, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900064805,"{'19A': 98.5, '19A-III': 98.3, '19A-I': 85.2, '19A-II': 83.1, '19AF': 56.6}",1,98.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242055,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001108985,"{'36': 11.4, '23B1': 7.6, '06A-IV': 7.2, '20': 6.9, '06C': 6.0}",1,11.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335105,"{'14': 91.2, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223795,"{'18C': 88.5, '18B': 88.4, '18F': 77.8, '18A': 61.5, '16F': 37.6}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292715,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065215,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254565,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.1}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280735,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026335,"{'23B': 99.5, '23B1': 64.6, '23F': 45.8, '23A': 40.0, '06A-IV': 36.9}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224215,"{'16F': 71.5, '28F': 43.1, '28A': 40.6, '18F': 33.6, '18A': 32.9}",1,71.5,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262055,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320375,"{'15A': 99.5, '15F': 73.8, '15C': 62.2, '15B': 62.1, '23F': 31.2}",1,99.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245225,"{'01': 98.8, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,98.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228415,"{'06E': 99.6, '06B-III': 99.3, '06B-I': 46.7, '06A-III': 46.5, '06A-II': 45.5}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030715,"{'04': 99.5, '45': 33.2, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.5,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001105085,"{'15A': 98.4, '15F': 73.6, '15C': 62.1, '15B': 62.0, '23F': 31.7}",1,98.4,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001122885,"{'34': 93.3, '33F2': 35.3, '35B': 31.8, '33F': 29.3, '33C': 28.8}",1,93.3,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001113745,"{'19B': 91.7, '19C': 70.5, '19F-II': 49.3, '19F-IV': 49.3, '19F-I': 48.5}",1,91.7,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213175,"{'19F': 97.4, '19F-I': 96.4, '19F-III': 95.6, '19F-II': 95.5, '19F-IV': 91.0}",1,97.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029985,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000170155,"{'23F': 96.7, '23A': 63.7, '23B': 47.6, '28A': 47.5, '28F': 45.7}",1,96.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295235,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.3, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221525,"{'34': 98.7, '33F2': 35.2, '35B': 33.5, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055975,"{'15C': 96.2, '15B': 96.1, '15A': 61.5, '15F': 47.8, '23A': 34.7}",1,96.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336835,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337855,"{'23A': 97.5, '23F': 68.8, '23B': 40.1, '19F-II': 39.2, '15B': 38.8}",1,97.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001203615,"{'19F': 94.6, '19F-I': 94.1, '19F-III': 93.0, '19F-II': 91.7, '19F-IV': 88.0}",1,94.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256045,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277375,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001140965,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001151165,"{'35B': 99.1, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.1,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001154805,"{'15A': 97.0, '15F': 73.4, '15C': 61.2, '15B': 61.1, '23F': 31.1}",1,97.0,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024155,"{'14': 92.7, '36': 29.0, '09L': 25.6, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050095,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316785,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241105,"{'17F': 99.2, '06B': 44.1, '06B-I': 43.7, '06A-III': 43.6, '06D': 43.4}",1,99.2,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289475,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900622505,"{'14': 92.3, '36': 28.9, '09L': 25.4, '09N': 24.5, '15B': 24.1}",1,92.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168115,"{'09A': 99.7, '09V': 99.5, '09N': 38.1, '09L': 36.7, '06A-IV': 27.2}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290235,"{'14': 91.4, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337935,"{'21': 99.9, '22F': 36.1, '06A-IV': 32.8, '06A-II': 32.1, '06A-VI': 32.0}",1,99.9,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287805,"{'16F': 71.5, '28F': 43.1, '28A': 40.6, '18F': 33.6, '18A': 32.9}",1,71.5,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021375,"{'23F': 99.2, '23A': 65.4, '23B': 49.0, '28A': 48.1, '06A-IV': 47.3}",1,99.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019399805,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.3, '06A-III': 46.8, '06A-II': 45.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263945,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 32.7}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234635,"{'23A': 99.4, '23F': 67.1, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.4,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255635,"{'34': 98.6, '33F2': 35.2, '35B': 33.5, '33F': 29.8, '33C': 28.5}",1,98.6,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900188825,"{'06B-I': 99.4, '06A-III': 97.3, '06B-II': 90.0, '06A': 89.8, '06A-V': 88.1}",1,99.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001152785,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907172185,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341065,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.5, '46': 81.4}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289645,"{'19F-I': 95.8, '19F': 95.1, '19F-III': 94.6, '19F-II': 93.1, '19F-IV': 89.3}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273625,"{'04': 99.2, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262025,"{'03': 95.8, '20': 17.9, '01': 17.8, '36': 16.4, '09L': 16.2}",1,95.8,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273215,"{'03': 97.4, '01': 17.7, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239785,"{'18C': 99.3, '18B': 99.2, '18F': 75.8, '18A': 62.9, '16F': 39.5}",1,99.3,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001114805,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241675,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253445,"{'01': 7.7, '25F': 6.0, '25A': 5.8, '45': 5.8, '06A-IV': 4.9}",3,7.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307125,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050685,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250125,"{'14': 96.5, '36': 25.8, '09L': 25.5, '09N': 24.5, '15B': 24.3}",1,96.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284845,"{'11D': 99.9, '11A': 97.2, '11F': 41.9, '11C': 35.9, '11B': 34.4}",1,99.9,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193205,"{'15A': 99.8, '15F': 74.2, '15C': 62.1, '15B': 62.0, '23F': 31.8}",1,99.8,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167425,"{'14': 92.8, '36': 26.8, '09L': 24.4, '15B': 24.0, '15C': 23.9}",1,92.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316875,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169995,"{'14': 92.4, '36': 27.6, '09L': 25.0, '09N': 24.3, '15B': 24.2}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900061165,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001142925,"{'36': 9.7, '06A-IV': 8.2, '20': 7.5, '06B-I': 7.0, '06C': 6.9}",1,9.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001329015,"{'19F-I': 94.6, '19F': 94.3, '19F-III': 92.8, '19F-II': 91.7, '19F-IV': 88.9}",1,94.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241265,"{'08': 99.5, '06A-II': 24.4, '06A-VI': 24.3, '02': 24.1, '06B-II': 23.8}",1,99.5,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001124545,"{'06C': 85.2, '06C-I': 85.2, '06D': 84.2, '06A': 76.9, '06A-IV': 73.3}",1,85.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289055,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.6, '19A-III': 87.4, '19AF': 61.9}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264315,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.1}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290415,"{'19A': 99.2, '19A-III': 99.0, '19A-I': 86.1, '19A-II': 83.8, '19AF': 57.2}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001090465,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216595,"{'18C': 85.5, '18B': 85.4, '18F': 77.7, '18A': 62.0, '16F': 37.5}",1,85.5,,"Mixed serotypes- {'18C/18B', '18F'}",,,{},{},"Mixed serotypes- {'18C/18B', '18F'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214665,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322915,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031935,"{'06A-II': 100.0, '06A-VI': 100.0, '06B-II': 91.8, '06A-V': 91.0, '06A-III': 89.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585125,"{'12F': 96.9, '44': 93.6, '12B': 92.9, '12A': 80.6, '46': 77.5}",1,96.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057005,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225225,"{'21': 92.0, '22F': 36.6, '06A-IV': 31.6, '06A-II': 31.2, '06A-VI': 31.2}",1,92.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031145,"{'11D': 99.8, '11A': 97.0, '11F': 42.0, '11C': 35.7, '11B': 34.2}",1,99.8,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001329475,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336575,"{'13': 98.9, '09N': 29.1, '20': 28.9, '09L': 28.7, '36': 28.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214495,"{'06A-II': 85.5, '06A-VI': 85.5, '06A-III': 85.4, '06A-V': 84.8, '06A': 84.0}",1,85.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001101465,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250305,"{'38': 99.5, '25F': 84.5, '25A': 83.5, '36': 11.7, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327805,"{'14': 91.1, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001087145,"{'09A': 99.7, '09V': 99.5, '09N': 38.6, '09L': 36.7, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339735,"{'01': 99.0, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250395,"{'17F': 99.6, '06B': 44.4, '06D': 43.5, '06A-I': 43.3, '22F': 43.0}",1,99.6,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001090125,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275715,"{'25F': 95.1, '25A': 94.3, '38': 80.6, '36': 8.3, '20': 7.7}",1,95.1,25F_25A_38,25F_25A_38,,"[[8], [18]]","{'wcyD': ['a', 100.0], 'wcyV': 0.12}","{'wcyD': 'a', 'wcyV': 'not_detected'}",25F/25A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267365,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296405,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001301335,"{'15A': 98.4, '15F': 73.7, '15C': 62.1, '15B': 62.0, '23F': 31.7}",1,98.4,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338175,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.4, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280625,"{'14': 92.7, '36': 29.0, '09L': 25.7, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001148785,"{'06A-III': 99.8, '06B-I': 98.2, '06B-II': 91.1, '06A': 90.8, '06A-V': 90.2}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250195,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001334035,"{'36': 6.6, '20': 5.2, '22F': 5.2, '23B1': 5.0, '06A-IV': 5.0}",1,6.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338475,"{'22F': 86.3, '22A': 71.4, '06A': 39.6, '06A-III': 39.5, '06A-I': 39.4}",1,86.3,,22F,,,{},{},22F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_909594665,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284705,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023465,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000334595,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313065,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021022495,"{'02': 57.6, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253605,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296525,"{'22F': 93.7, '22A': 69.9, '06A-II': 45.3, '06A-VI': 45.2, '06B-I': 45.2}",1,93.7,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300385,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001173725,"{'06C': 85.2, '06C-I': 85.2, '06D': 84.2, '06A': 76.9, '06A-IV': 73.3}",1,85.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278865,"{'01': 99.3, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309895,"{'34': 93.0, '33F2': 34.7, '35B': 32.1, '33F': 29.0, '33C': 28.0}",1,93.0,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274935,"{'15C': 87.7, '15B': 87.5, '15A': 64.4, '15F': 49.8, '23A': 30.0}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001212725,"{'15C': 87.5, '15B': 87.3, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.5,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301075,"{'19F-I': 93.8, '19F': 92.9, '19F-III': 92.2, '19F-II': 91.3, '19F-IV': 89.5}",1,93.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254245,"{'01': 99.7, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.3}",1,99.7,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265865,"{'19AF': 97.1, '19A-II': 61.5, '19A-I': 60.9, '19A': 52.1, '19A-III': 51.9}",1,97.1,19A_19AF,19A_19AF,,[[7]],"{'wzy': [2, 92.87]}",{'wzy': 2},19A_19AF,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323845,"{'15A': 98.3, '15F': 72.9, '15C': 61.6, '15B': 61.5, '23F': 32.2}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001170505,"{'34': 92.9, '33F2': 34.7, '35B': 30.7, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001403935,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232005,"{'15C': 85.5, '15B': 85.4, '15A': 61.1, '15F': 47.9, '23A': 31.3}",1,85.5,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336265,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A': 46.2}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280125,"{'19A': 92.3, '19A-III': 92.1, '19A-II': 83.0, '19A-I': 81.0, '19AF': 55.8}",1,92.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285405,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191845,"{'19A': 99.4, '19A-III': 99.2, '19A-I': 86.1, '19A-II': 83.9, '19AF': 57.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249125,"{'23F': 88.5, '23A': 57.5, '28A': 48.1, '23B': 46.7, '06A-IV': 46.6}",1,88.5,,23F,,,{},{},23F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234435,"{'16F': 71.6, '28F': 43.2, '28A': 40.7, '18F': 33.6, '18A': 33.5}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299285,"{'18C': 88.3, '18B': 88.2, '18F': 77.6, '18A': 61.4, '16F': 37.6}",1,88.3,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001087945,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301375,"{'14': 92.7, '36': 29.0, '09L': 25.9, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001090785,"{'19F-I': 95.3, '19F': 95.0, '19F-III': 93.5, '19F-II': 92.2, '19F-IV': 88.2}",1,95.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317135,"{'13': 97.4, '09N': 29.1, '20': 28.9, '09L': 28.7, '36': 28.0}",1,97.4,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024205,"{'06A-I': 99.9, '06B': 94.4, '06A-V': 89.6, '06A': 87.0, '06A-III': 86.3}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313515,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243025,"{'04': 99.2, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001158825,"{'36': 12.9, '20': 7.9, '06A-IV': 7.6, '06C': 6.2, '06C-I': 6.2}",2,12.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256145,"{'06E': 100.0, '06B-III': 98.7, '06B-I': 46.2, '06A-III': 45.7, '06A-II': 45.0}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023065,"{'18C': 99.7, '18B': 99.6, '18F': 75.6, '18A': 62.2, '16F': 39.1}",1,99.7,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001093665,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300215,"{'01': 6.9, '25F': 6.7, '25A': 6.5, '45': 6.2, '22F': 4.7}",3,6.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030125,"{'03': 95.2, '01': 17.4, '36': 16.9, '09N': 15.8, '20': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236035,"{'07A': 99.5, '07F': 99.3, '19F-II': 36.7, '19F-IV': 36.1, '19F': 35.2}",1,99.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047565,"{'03': 95.2, '01': 17.1, '36': 16.8, '20': 15.8, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323545,"{'06C-I': 99.4, '06C': 99.2, '06D': 84.0, '06A-II': 79.5, '06A-VI': 79.5}",1,99.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 88.9']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194265,"{'10A': 93.9, '10B': 64.7, '10C': 29.0, '10F': 19.4, '47A': 16.3}",1,93.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311485,"{'19A': 99.0, '19A-III': 98.8, '19A-I': 85.9, '19A-II': 83.8, '19AF': 57.1}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242145,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342505,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249605,"{'04': 98.1, '45': 34.0, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.1,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227835,"{'23F': 92.3, '23A': 61.0, '28A': 48.0, '23B': 46.5, '06A-IV': 46.4}",1,92.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336745,"{'17F': 99.6, '06B': 44.3, '06D': 43.7, '06B-I': 43.4, '06A-III': 43.3}",1,99.6,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169905,"{'14': 92.3, '36': 28.8, '09L': 25.6, '09N': 24.5, '15B': 24.0}",1,92.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254485,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283675,"{'04': 99.6, '45': 33.3, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.6,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294505,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250325,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.6, '19A-III': 87.4, '19AF': 61.9}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 92.87]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001101405,"{'36': 12.4, '06A-IV': 6.8, '20': 6.7, '23B1': 5.6, '06C': 5.3}",1,12.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001330315,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314665,"{'19A-II': 99.0, '19A-I': 97.1, '19A': 85.7, '19A-III': 85.5, '19AF': 62.0}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019397985,"{'14': 99.7, '36': 26.6, '09L': 25.5, '15B': 24.3, '15C': 24.2}",1,99.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248615,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220285,"{'01': 98.7, '19F': 31.9, '19F-I': 31.4, '19F-III': 31.2, '19F-II': 30.9}",1,98.7,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339975,"{'13': 83.3, '36': 28.8, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323575,"{'13': 83.3, '36': 28.8, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317615,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213355,"{'04': 99.8, '45': 33.4, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001202795,"{'06E': 100.0, '06B-III': 99.2, '06B-I': 46.7, '06A-III': 46.2, '06A-II': 45.2}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332555,"{'19B': 92.9, '19C': 71.8, '19F-IV': 51.1, '19F-II': 51.0, '19F-I': 50.1}",1,92.9,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901212845,"{'01': 98.9, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223225,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263175,"{'14': 95.0, '36': 26.4, '09L': 25.5, '09N': 24.7, '15B': 24.3}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248815,"{'23F': 96.4, '23A': 63.2, '06A-IV': 48.7, '23B': 48.4, '28A': 47.1}",1,96.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032855,"{'24F2': 99.7, '24B': 88.5, '24F': 87.0, '24A': 71.0, '07B': 56.8}",1,99.7,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260285,"{'29': 59.6, '35B': 37.5, '35F': 26.8, '33B': 23.1, '33D': 22.9}",1,59.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267265,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306325,"{'09A': 95.9, '09V': 95.7, '09N': 38.8, '09L': 37.4, '11F': 26.6}",1,95.9,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294805,"{'15A': 99.3, '15F': 73.9, '15C': 61.7, '15B': 61.6, '23F': 31.6}",1,99.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287235,"{'33F': 99.6, '33A': 99.3, '33F2': 70.5, '35C': 42.8, '42': 41.8}",1,99.6,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228665,"{'19F-III': 99.8, '19F': 97.8, '19F-I': 97.1, '19F-II': 94.6, '19F-IV': 89.3}",1,99.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234945,"{'34': 98.5, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.5,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276965,"{'06C-I': 99.7, '06C': 99.5, '06D': 84.4, '06A-II': 79.3, '06A-VI': 79.3}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311415,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219685,"{'23A': 95.4, '23F': 68.3, '23B': 44.1, '19F-II': 40.0, '15B': 39.1}",1,95.4,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255495,"{'19F': 94.5, '19F-I': 94.0, '19F-III': 92.9, '19F-II': 91.6, '19F-IV': 87.9}",1,94.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262765,"{'35B': 99.4, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000762485,"{'19A-II': 100.0, '19A-I': 96.6, '19A': 85.0, '19A-III': 84.8, '19AF': 62.1}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232955,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253465,"{'05': 95.2, '45': 22.2, '36': 21.8, '20': 20.0, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248255,"{'19F': 97.0, '19F-I': 96.0, '19F-III': 95.2, '19F-II': 95.1, '19F-IV': 90.6}",1,97.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279615,"{'34': 98.7, '33F2': 35.2, '35B': 33.5, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256635,"{'20': 84.7, '47F': 26.6, '35A': 24.9, '09L': 24.8, '09N': 23.8}",1,84.7,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324625,"{'09A': 98.2, '09V': 98.0, '09N': 38.1, '09L': 36.5, '11F': 26.6}",1,98.2,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001142585,"{'23F': 96.8, '23A': 66.4, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001090845,"{'19F-I': 95.3, '19F': 95.0, '19F-III': 93.5, '19F-II': 92.2, '19F-IV': 88.2}",1,95.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301565,"{'02': 93.2, '22F': 40.3, '06B-I': 39.0, '06A-III': 38.9, '06A-II': 38.7}",1,93.2,,2,,,{},{},2,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313235,"{'19F': 97.3, '19F-I': 96.4, '19F-III': 95.6, '19F-II': 95.4, '19F-IV': 90.9}",1,97.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002889875,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900064595,"{'33F': 99.6, '33A': 97.1, '33F2': 70.6, '35C': 42.4, '42': 41.4}",1,99.6,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339165,"{'15B': 99.7, '15C': 99.6, '15A': 62.7, '15F': 48.3, '23A': 32.9}",1,99.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001085285,"{'06E': 100.0, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030845,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002081315,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262185,"{'21': 100.0, '22F': 35.9, '06A-IV': 32.9, '06A-II': 32.2, '06A-VI': 32.1}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253295,"{'14': 93.6, '19F-IV': 25.9, '36': 25.2, '09L': 24.8, '09N': 24.7}",1,93.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329485,"{'23F': 96.4, '23A': 63.2, '06A-IV': 48.7, '23B': 48.4, '28A': 47.1}",1,96.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299625,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279765,"{'05': 95.0, '45': 22.2, '36': 21.9, '20': 20.2, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274225,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228735,"{'20': 82.2, '47F': 25.9, '35A': 24.6, '09L': 24.5, '36': 24.2}",1,82.2,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227165,"{'34': 95.7, '33F2': 35.6, '35B': 34.2, '33F': 30.4, '35C': 29.1}",1,95.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334555,"{'16F': 96.7, '19F-IV': 44.8, '19F-II': 44.0, '19F': 43.0, '19F-I': 42.4}",1,96.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235255,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001127145,"{'23F': 94.6, '23A': 63.7, '28A': 47.7, '23B': 47.0, '06A': 46.4}",1,94.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283385,"{'14': 90.9, '19F-IV': 25.9, '09L': 24.8, '09N': 24.7, '36': 24.4}",1,90.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275045,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.4, '06B-II': 34.7, '06A-V': 34.5}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253195,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258035,"{'14': 99.4, '09L': 26.7, '36': 26.4, '09N': 24.1, '15B': 23.8}",1,99.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333265,"{'34': 92.8, '33F2': 34.5, '35B': 32.1, '33F': 28.8, '33C': 28.0}",1,92.8,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250605,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001142385,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052965,"{'19A': 99.8, '19A-III': 99.6, '19A-I': 86.0, '19A-II': 83.5, '19AF': 57.2}",1,99.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272705,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A': 46.2}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220385,"{'35B': 92.7, '34': 33.8, '33F': 33.4, '35C': 32.4, '33D': 32.1}",1,92.7,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000278785,"{'10A': 99.8, '10B': 66.6, '10C': 27.3, '10F': 17.7, '22F': 15.3}",1,99.8,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264465,"{'06A-II': 85.6, '06A-VI': 85.6, '06A-III': 85.5, '06A-V': 85.0, '06B-I': 84.1}",1,85.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324195,"{'13': 83.3, '36': 28.9, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319525,"{'06A-I': 98.5, '06B': 94.5, '06A-V': 89.5, '06A': 87.6, '06A-III': 86.0}",1,98.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043125,"{'03': 94.7, '36': 16.5, '01': 16.4, '09N': 15.8, '20': 15.8}",1,94.7,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261125,"{'22F': 99.0, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221635,"{'03': 95.2, '36': 17.1, '01': 17.0, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001135645,"{'15A': 98.4, '15F': 73.6, '15C': 62.1, '15B': 62.0, '23F': 31.7}",1,98.4,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304695,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001151585,"{'23F': 94.5, '23A': 63.5, '06A-IV': 53.2, '06B-II': 51.6, '23B': 50.8}",1,94.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194115,"{'06C-I': 97.7, '06C': 97.6, '06D': 84.5, '06A-II': 77.7, '06A-VI': 77.7}",1,97.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 88.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053565,"{'08': 99.8, '06A-II': 26.3, '06A-VI': 26.2, '06B-II': 25.6, '06A-V': 25.2}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027115,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274595,"{'35B': 99.4, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252545,"{'15C': 95.7, '15B': 95.5, '15A': 61.2, '15F': 47.5, '23A': 34.7}",1,95.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001326695,"{'03': 94.0, '36': 17.0, '20': 15.7, '14': 13.8, '09L': 13.6}",1,94.0,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218895,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280605,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019457295,"{'38': 98.5, '25F': 83.9, '25A': 82.9, '36': 11.8, '20': 8.2}",1,98.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900059025,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329055,"{'38': 89.6, '25F': 85.8, '25A': 84.8, '36': 10.9, '01': 7.6}",1,89.6,25F_25A_38,25F_25A_38,,"[[0], [18]]","{'wcyD': ['b: 22.59'], 'wcyV': 4.69}","{'wcyD': 0, 'wcyV': 'not_detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283915,"{'01': 99.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001147725,"{'16F': 95.7, '19F-II': 42.6, '19F-IV': 42.6, '28F': 42.4, '19F': 41.6}",1,95.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311175,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 32.7}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001129185,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193755,"{'15A': 100.0, '15F': 74.3, '15C': 62.0, '15B': 61.9, '23F': 31.7}",1,100.0,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280535,"{'06A-II': 95.5, '06A-VI': 95.5, '06B-II': 89.4, '06A-V': 89.0, '06A-III': 88.4}",1,95.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263305,"{'11D': 96.5, '11A': 95.3, '11F': 43.3, '11C': 36.2, '11B': 34.8}",1,96.5,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190445,"{'06A': 100.0, '06A-IV': 99.4, '06B-II': 95.4, '06A-V': 93.7, '06A-III': 91.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300825,"{'21': 99.3, '22F': 35.9, '06A-IV': 30.9, '06B': 30.2, '06A': 30.1}",1,99.3,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301215,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346415,"{'13': 98.9, '09L': 28.1, '20': 28.1, '09N': 27.8, '14': 26.8}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900692565,"{'06A-II': 97.9, '06A-VI': 97.9, '06B-II': 90.4, '06A-V': 89.6, '06A-III': 89.2}",1,97.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001172445,"{'11F': 61.8, '11D': 38.4, '11A': 36.8, '09V': 25.4, '09A': 25.3}",1,61.8,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312485,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278835,"{'06E': 98.8, '06B-III': 98.0, '06B-I': 47.5, '06A-III': 47.0, '06A-II': 46.7}",1,98.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051195,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280985,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257435,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190785,"{'06C-I': 99.0, '06C': 98.8, '06D': 84.5, '06A-II': 78.7, '06A-VI': 78.7}",1,99.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341355,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.5, '46': 81.4}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225455,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314235,"{'10B': 99.3, '10A': 65.2, '10F': 20.1, '10C': 18.8, '22F': 14.0}",1,99.3,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335445,"{'06A-V': 97.2, '06A-IV': 94.6, '06A': 94.1, '06B-II': 92.7, '06A-II': 89.9}",1,97.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001089965,"{'34': 93.3, '33F2': 35.3, '35B': 32.2, '33F': 29.3, '33C': 28.8}",1,93.3,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
PHESPD0073,"{'41F': 99.7, '41A': 69.8, '31': 50.1, '22F': 45.0, '06B': 42.6}",1,99.7,,41F,,,{},{},41F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333705,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900060525,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228335,"{'21': 99.7, '22F': 36.4, '06A-II': 30.6, '06A-VI': 30.5, '06A': 30.2}",1,99.7,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017425,"{'19F-I': 96.8, '19F': 96.3, '19F-III': 96.1, '19F-II': 92.1, '19F-IV': 87.7}",1,96.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001326455,"{'14': 92.9, '09L': 21.2, '15B': 20.8, '15C': 20.7, '09N': 20.4}",1,92.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900042865,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247775,"{'16F': 71.7, '28F': 43.2, '28A': 40.7, '18F': 33.7, '18A': 33.6}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001135845,"{'23F': 93.1, '23A': 63.3, '06A-IV': 53.3, '06B-II': 51.9, '23B': 50.9}",1,93.1,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232485,"{'03': 95.5, '20': 17.5, '01': 16.8, '36': 16.3, '09L': 16.2}",1,95.5,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900048125,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274445,"{'10A': 99.4, '10B': 67.1, '10C': 27.7, '10F': 18.1, '22F': 15.5}",1,99.4,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001137085,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321685,"{'14': 99.7, '09L': 27.2, '36': 26.1, '09N': 25.0, '15B': 24.3}",1,99.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019457235,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215645,"{'06A-II': 95.5, '06A-VI': 95.5, '06B-II': 89.3, '06A-V': 88.9, '06A-III': 88.4}",1,95.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244795,"{'05': 95.0, '45': 22.4, '36': 21.7, '20': 20.3, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317915,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264565,"{'23B': 99.2, '23B1': 64.2, '23F': 45.8, '23A': 40.0, '06A-IV': 36.9}",1,99.2,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043055,"{'09A': 99.6, '09V': 99.4, '09N': 38.5, '09L': 36.7, '11F': 26.5}",1,99.6,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001174205,"{'35B': 99.3, '33F': 33.6, '35C': 33.4, '34': 33.2, '35A': 32.9}",1,99.3,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900060685,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001088205,"{'23B': 99.5, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.8}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327945,"{'19F-I': 95.9, '19F': 95.6, '19F-III': 94.1, '19F-II': 92.8, '19F-IV': 88.9}",1,95.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242705,"{'12F': 95.9, '12B': 93.3, '44': 92.9, '12A': 84.8, '46': 81.7}",1,95.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338515,"{'36': 12.9, '20': 8.1, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",2,12.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232965,"{'18C': 88.4, '18B': 88.3, '18F': 77.8, '18A': 61.4, '16F': 37.6}",1,88.4,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054885,"{'01': 98.5, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,98.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284345,"{'06D': 86.1, '06C': 84.8, '06C-I': 84.8, '06A-I': 74.9, '06B': 74.8}",1,86.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 94.1]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341915,"{'28F': 98.5, '28A': 92.1, '23F': 47.5, '16F': 46.0, '06A-IV': 43.0}",1,98.5,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001129545,"{'22F': 85.5, '22A': 71.4, '06A-IV': 39.7, '06A': 39.6, '06A-III': 39.6}",1,85.5,,22F,,,{},{},22F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289365,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240065,"{'01': 99.4, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033895,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 84.0, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001087285,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001302365,"{'19F-II': 98.9, '19F': 95.1, '19F-III': 93.8, '19F-I': 93.4, '19F-IV': 92.6}",1,98.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001161425,"{'19F-I': 95.9, '19F': 95.6, '19F-III': 94.0, '19F-II': 92.8, '19F-IV': 88.8}",1,95.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229295,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 98.8]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001191975,"{'34': 98.4, '33F2': 35.2, '35B': 32.3, '33F': 29.7, '33C': 28.4}",1,98.4,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261715,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192895,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305155,"{'15F': 99.5, '15A': 92.6, '15B': 60.3, '15C': 60.2, '23F': 38.8}",1,99.5,15F_15A,15F_15A,,"[[10], [12], [14], [16]]","{'glf': 100.0, 'rmlB': 100.0, 'rmlD': 100.0, 'wcjE': 100.0}","{'glf': 'detected', 'rmlB': 'detected', 'rmlD': 'detected', 'wcjE': 'detected'}",15F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340825,"{'06A-II': 92.5, '06A-VI': 92.5, '06B-II': 88.9, '06A-V': 88.5, '06A-III': 87.9}",1,92.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001157125,"{'06B-III': 86.8, '06E': 86.5, '06B-I': 50.6, '06A-III': 50.2, '06C': 50.1}",1,86.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232325,"{'19F': 93.9, '19F-I': 93.7, '19F-III': 92.5, '19F-IV': 91.4, '19F-II': 91.3}",1,93.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234385,"{'14': 93.9, '36': 26.0, '09L': 25.3, '09N': 24.0, '15B': 24.0}",1,93.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269155,"{'06A-II': 85.5, '06A-VI': 85.5, '06A-III': 85.4, '06A-V': 84.8, '06A': 84.0}",1,85.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024025,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282055,"{'19A': 99.5, '19A-III': 99.3, '19A-I': 85.7, '19A-II': 83.2, '19AF': 57.0}",1,99.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249815,"{'07A': 98.1, '07F': 97.9, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,98.1,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027655,"{'18C': 99.3, '18B': 99.2, '18F': 75.5, '18A': 62.2, '16F': 38.7}",1,99.3,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001326375,"{'07A': 98.1, '07F': 98.0, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,98.1,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266415,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253005,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021275,"{'35F': 98.8, '47F': 74.3, '34': 27.1, '35B': 26.6, '29': 22.5}",1,98.8,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322625,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231755,"{'23F': 96.7, '23A': 63.9, '23B': 48.0, '28A': 47.5, '06B-II': 46.0}",1,96.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296565,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243115,"{'06A-II': 95.5, '06A-VI': 95.5, '06B-II': 89.4, '06A-V': 89.0, '06A-III': 88.4}",1,95.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001137145,"{'14': 94.2, '36': 25.5, '15B': 24.3, '15C': 24.2, '09L': 23.6}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292145,"{'15C': 96.1, '15B': 96.0, '15A': 61.5, '15F': 47.8, '23A': 34.9}",1,96.1,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340105,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.4, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220325,"{'06E': 99.8, '06B-III': 99.2, '06B-I': 46.6, '06A-III': 46.1, '06A-II': 45.1}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001119325,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298985,"{'03': 95.2, '01': 17.7, '36': 17.4, '20': 16.1, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215585,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001301655,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001194185,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192565,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254095,"{'06A-V': 92.3, '06A-I': 92.0, '06A-III': 89.9, '06B': 88.8, '06B-I': 88.5}",1,92.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001163505,"{'34': 92.9, '33F2': 34.7, '35B': 31.8, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024095,"{'08': 99.5, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.5,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043775,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316275,"{'23F': 96.2, '23A': 66.1, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268925,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248385,"{'07C': 94.0, '07B': 77.1, '40': 76.7, '24B': 48.5, '24F': 47.5}",1,94.0,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281995,"{'29': 59.6, '35B': 37.6, '35F': 26.8, '22F': 23.1, '33B': 23.1}",1,59.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001329635,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220805,"{'35F': 98.6, '47F': 74.3, '34': 27.0, '35B': 26.1, '29': 22.3}",1,98.6,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297215,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339605,"{'14': 91.4, '19F-IV': 25.9, '09L': 24.7, '09N': 24.7, '36': 24.4}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219005,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286535,"{'06C-I': 90.2, '06C': 90.1, '06D': 86.2, '06B-I': 78.7, '06A-III': 78.3}",1,90.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333665,"{'09A': 99.4, '09V': 99.2, '09N': 38.5, '09L': 36.4, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246905,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333125,"{'23F': 96.8, '23A': 63.7, '23B': 48.0, '28A': 47.7, '06B-II': 46.1}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236795,"{'23B1': 99.4, '23B': 55.5, '19A-I': 35.9, '19A-II': 35.9, '19AF': 31.7}",1,99.4,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240325,"{'05': 95.2, '45': 21.9, '36': 21.7, '20': 19.9, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001098425,"{'23F': 94.6, '23A': 63.7, '28A': 47.7, '23B': 47.0, '06A': 46.4}",1,94.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001340875,"{'34': 92.9, '33F2': 34.7, '35B': 31.9, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227095,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001111205,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337905,"{'06E': 89.6, '06B-III': 89.5, '06B-I': 52.1, '06B-II': 52.1, '06A-V': 51.8}",1,89.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274585,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900062935,"{'12F': 97.0, '44': 93.5, '12B': 92.8, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259655,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001166525,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024585,"{'01': 99.3, '19F': 31.9, '19F-I': 31.5, '19F-III': 31.2, '19F-II': 31.0}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228285,"{'16F': 71.5, '28F': 43.1, '28A': 40.6, '18F': 33.6, '18A': 32.9}",1,71.5,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218505,"{'17F': 99.6, '06B': 44.3, '06B-I': 44.1, '06A-III': 44.0, '06D': 43.7}",1,99.6,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019397665,"{'06E': 99.7, '06B-III': 99.4, '06B-I': 47.3, '06A-III': 46.8, '06A-II': 45.7}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052205,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261825,"{'05': 95.0, '45': 22.3, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000251225,"{'14': 99.3, '09L': 27.4, '36': 26.4, '09N': 25.2, '15B': 24.6}",1,99.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217125,"{'06E': 83.3, '06B-III': 82.5, '06B-I': 55.8, '06A-III': 54.3, '06A-II': 53.8}",1,83.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001123185,"{'06E': 100.0, '06B-III': 99.0, '06B-I': 46.7, '06A-III': 46.2, '06A-II': 45.2}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330575,"{'06D': 87.1, '06C': 85.2, '06C-I': 85.2, '06A-I': 77.9, '06B': 77.6}",1,87.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001165805,"{'36': 12.0, '20': 6.7, '06A-IV': 6.7, '45': 5.6, '23B1': 5.4}",1,12.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001083345,"{'34': 92.8, '33F2': 34.7, '35B': 31.8, '33F': 29.0, '33C': 28.1}",1,92.8,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001348375,"{'06E': 100.0, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314795,"{'09L': 98.2, '09N': 89.4, '36': 31.6, '09A': 31.2, '09V': 31.2}",1,98.2,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190065,"{'23F': 99.2, '23A': 65.4, '23B': 49.0, '28A': 48.1, '06A-IV': 47.2}",1,99.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193475,"{'23A': 99.3, '23F': 66.9, '23B': 43.2, '19F-II': 37.9, '19F-IV': 37.2}",1,99.3,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285615,"{'01': 99.3, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312245,"{'23F': 96.4, '23A': 63.2, '06A-IV': 48.9, '23B': 48.4, '06A-V': 47.2}",1,96.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192515,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324235,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334265,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305575,"{'04': 99.0, '45': 33.5, '12F': 23.4, '44': 23.2, '12A': 22.3}",1,99.0,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278235,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337745,"{'03': 95.2, '01': 17.5, '09L': 15.5, '09N': 15.1, '14': 13.9}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001148465,"{'14': 89.8, '36': 28.6, '09L': 22.8, '19F-II': 22.2, '09N': 21.7}",1,89.8,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213605,"{'18C': 88.3, '18B': 88.2, '18F': 77.8, '18A': 61.5, '16F': 37.6}",1,88.3,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291295,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311495,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171245,"{'14': 92.4, '36': 28.4, '09L': 24.9, '15B': 24.2, '15C': 24.1}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322435,"{'34': 93.0, '33F2': 34.7, '35B': 31.9, '33F': 29.0, '33C': 28.0}",1,93.0,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021005,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335185,"{'17F': 82.5, '06A-III': 43.1, '06B-I': 42.8, '06A-I': 42.2, '06B': 41.8}",1,82.5,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332675,"{'09A': 99.4, '09V': 99.2, '09N': 38.6, '09L': 36.6, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219715,"{'14': 93.6, '36': 26.0, '09L': 25.3, '09N': 24.1, '15B': 24.0}",1,93.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168365,"{'09A': 99.7, '09V': 99.5, '09N': 38.2, '09L': 36.8, '35B': 26.7}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218145,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057205,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223055,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168835,"{'09A': 99.7, '09V': 99.5, '09N': 37.9, '09L': 35.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053995,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298205,"{'19F-I': 96.6, '19F': 95.9, '19F-III': 95.9, '19F-II': 91.8, '19F-IV': 88.3}",1,96.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289255,"{'15A': 99.9, '15F': 74.3, '15C': 61.9, '15B': 61.8, '23F': 31.7}",1,99.9,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056805,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311065,"{'14': 91.5, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001108425,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.0, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283165,"{'09N': 99.8, '09L': 88.8, '09A': 32.6, '09V': 32.6, '36': 29.4}",1,99.8,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323615,"{'23F': 96.8, '23A': 63.9, '23B': 48.1, '28A': 47.5, '06B-II': 46.0}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288215,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239115,"{'18C': 99.8, '18B': 99.7, '18F': 75.7, '18A': 62.4, '16F': 39.3}",1,99.8,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308205,"{'09A': 99.7, '09V': 99.5, '09N': 38.6, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321905,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342425,"{'15C': 95.2, '15B': 95.0, '15A': 61.0, '15F': 47.5, '23A': 34.5}",1,95.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238525,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291025,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286265,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319465,"{'23B1': 98.7, '23B': 59.0, '19A-II': 36.7, '19A-I': 35.5, '19AF': 32.0}",1,98.7,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336965,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001262295,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262305,"{'31': 99.4, '41A': 57.1, '41F': 48.6, '06A-II': 36.2, '06A-VI': 36.2}",1,99.4,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022875,"{'24F2': 99.7, '24B': 88.5, '24F': 87.0, '24A': 71.3, '07B': 55.2}",1,99.7,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275075,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001172825,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219945,"{'06A-III': 94.8, '06B-I': 93.4, '06A': 90.3, '06A-IV': 89.5, '06B-II': 89.4}",1,94.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022885,"{'31': 99.7, '41A': 57.2, '41F': 48.9, '06A-II': 36.4, '06A-VI': 36.4}",1,99.7,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297955,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281695,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262975,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265605,"{'31': 99.7, '41A': 57.2, '41F': 49.3, '06A-II': 36.5, '06A-VI': 36.5}",1,99.7,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900795265,"{'07A': 91.1, '07F': 90.9, '19F-II': 39.3, '19F': 37.8, '19F-IV': 37.8}",1,91.1,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222685,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302785,"{'04': 98.3, '45': 34.9, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219365,"{'06B-I': 99.5, '06A-III': 97.4, '06B-II': 90.1, '06A': 89.7, '06A-V': 88.2}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168425,"{'09A': 99.5, '09V': 99.3, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.5,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333775,"{'07A': 91.1, '07F': 90.9, '19F-II': 39.3, '19F': 37.8, '19F-IV': 37.8}",1,91.1,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002081325,"{'14': 100.0, '36': 26.8, '15B': 24.3, '09L': 24.2, '15C': 24.2}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241805,"{'06E': 99.6, '06B-III': 99.3, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001093685,"{'06C-I': 84.3, '06C': 84.2, '06D': 82.9, '06A-I': 74.9, '06B': 74.5}",1,84.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234565,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222935,"{'48': 99.3, '24A': 46.8, '24B': 39.4, '24F': 38.9, '24F2': 37.4}",1,99.3,,48,,,{},{},48,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335215,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300655,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233085,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001343255,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001174505,"{'34': 92.9, '33F2': 34.7, '35B': 30.0, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240615,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167455,"{'14': 91.3, '36': 25.9, '09L': 24.4, '09N': 23.6, '15B': 23.3}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266725,"{'06E': 100.0, '06B-III': 97.3, '06B-I': 44.8, '06A-III': 44.3, '06B-II': 43.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257995,"{'23F': 92.2, '23A': 61.1, '28A': 47.9, '23B': 46.6, '06A-IV': 46.4}",1,92.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336975,"{'23F': 93.9, '23A': 63.4, '28A': 48.4, '23B': 46.9, '06A-III': 46.4}",1,93.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225335,"{'35B': 98.7, '33F': 33.2, '35C': 33.0, '34': 32.8, '35A': 32.6}",1,98.7,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304775,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259925,"{'21': 91.7, '22F': 36.8, '06A-IV': 31.6, '06A-II': 31.2, '06A-VI': 31.2}",1,91.7,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341185,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225925,"{'17F': 99.5, '06B': 44.3, '06B-I': 44.2, '06A-III': 44.1, '06D': 43.7}",1,99.5,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230355,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167625,"{'14': 93.2, '36': 27.0, '09L': 24.6, '15B': 24.3, '15C': 24.2}",1,93.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242405,"{'13': 98.9, '09N': 29.1, '20': 28.9, '09L': 28.7, '36': 28.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_003492185,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.5, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346735,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296575,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.7, '06B-II': 35.1, '06A-V': 34.9}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322755,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001173925,"{'35F': 98.7, '47F': 74.1, '34': 26.7, '35B': 24.9, '29': 22.5}",1,98.7,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265365,"{'23F': 96.2, '23A': 66.1, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900064825,"{'15C': 96.1, '15B': 95.8, '15A': 61.1, '15F': 47.2, '23A': 34.2}",1,96.1,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219855,"{'14': 93.4, '36': 27.3, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266915,"{'18C': 99.8, '18B': 99.7, '18F': 75.7, '18A': 62.9, '16F': 39.2}",1,99.8,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235525,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229535,"{'01': 99.0, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021055,"{'07A': 99.6, '07F': 99.4, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.6,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190465,"{'23B': 99.3, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.6}",1,99.3,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259545,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000251585,"{'03': 94.4, '36': 17.4, '01': 16.7, '20': 15.9, '09N': 15.8}",1,94.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324925,"{'18A': 99.9, '18B': 54.0, '18C': 54.0, '18F': 53.7, '19F-IV': 37.3}",1,99.9,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001085385,"{'14': 89.9, '36': 29.3, '09L': 22.8, '19F-II': 22.2, '09N': 21.7}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306585,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285375,"{'15B': 99.5, '15C': 99.2, '15A': 62.7, '15F': 48.3, '23A': 32.7}",1,99.5,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001103465,"{'08': 98.0, '02': 24.4, '06A-IV': 23.3, '22F': 23.1, '06A': 22.9}",1,98.0,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001123325,"{'22F': 85.9, '22A': 71.4, '06A': 39.6, '06A-IV': 39.5, '06A-I': 39.4}",1,85.9,,22F,,,{},{},22F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284685,"{'28A': 99.5, '28F': 92.4, '23F': 49.6, '16F': 43.7, '06B-I': 39.2}",1,99.5,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001343515,"{'28F': 98.0, '28A': 91.6, '23F': 47.5, '16F': 45.7, '06B-I': 42.5}",1,98.0,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244995,"{'14': 91.4, '19F-IV': 25.9, '09L': 24.8, '09N': 24.7, '36': 24.4}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018845,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225035,"{'12F': 96.9, '44': 93.6, '12B': 92.9, '12A': 80.6, '46': 77.5}",1,96.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276545,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302975,"{'29': 59.6, '35B': 37.8, '35F': 26.5, '22F': 23.4, '33B': 23.1}",1,59.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284725,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246475,"{'04': 99.7, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281025,"{'18C': 88.5, '18B': 88.4, '18F': 77.8, '18A': 61.5, '16F': 37.6}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342165,"{'09A': 99.4, '09V': 99.2, '09N': 37.6, '09L': 36.9, '06A-IV': 27.3}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229585,"{'19F': 96.5, '19F-I': 95.5, '19F-III': 94.8, '19F-II': 94.6, '19F-IV': 90.1}",1,96.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056995,"{'08': 99.7, '35B': 52.4, '06A-IV': 26.6, '06A-II': 26.4, '06A-VI': 26.3}",1,99.7,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269585,"{'06B-I': 98.8, '06A-III': 96.7, '06B-II': 89.9, '06A': 89.8, '06A-V': 88.0}",1,98.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274375,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317225,"{'35B': 98.9, '33F': 33.4, '35C': 33.2, '34': 33.0, '35A': 32.8}",1,98.9,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243755,"{'01': 99.5, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233145,"{'06E': 96.9, '06B-III': 96.1, '06B-I': 46.5, '06A-III': 45.9, '06A-IV': 45.2}",1,96.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 96.61]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001132505,"{'15C': 87.6, '15B': 87.5, '15A': 64.5, '15F': 49.9, '23A': 30.1}",1,87.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326455,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341715,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001204815,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247895,"{'13': 94.9, '20': 28.9, '09N': 28.8, '09L': 28.7, '36': 27.9}",1,94.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293485,"{'06A-II': 96.5, '06A-VI': 96.5, '06B-II': 93.2, '06A-III': 91.0, '06A-IV': 91.0}",1,96.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231575,"{'09A': 99.4, '09V': 99.2, '09N': 38.5, '09L': 36.5, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001198035,"{'34': 92.9, '33F2': 34.7, '35B': 31.9, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001107965,"{'06A-III': 99.8, '06B-I': 98.2, '06B-II': 91.1, '06A': 90.8, '06A-V': 90.2}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001168185,"{'36': 11.1, '20': 7.8, '06A-IV': 7.4, '45': 6.4, '06B-I': 6.3}",1,11.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001205415,"{'14': 89.9, '36': 29.0, '09L': 23.2, '19F-II': 22.2, '09N': 22.1}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002081035,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.8}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001154745,"{'45': 6.8, '25F': 5.6, '25A': 5.4, '36': 5.4, '20': 5.2}",3,6.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297055,"{'18F': 79.6, '18B': 73.0, '18C': 73.0, '18A': 62.0, '16F': 45.6}",1,79.6,,"Mixed serotypes- {'18C/18B', '18F'}",,,{},{},"Mixed serotypes- {'18C/18B', '18F'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328695,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245905,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221035,"{'05': 95.3, '45': 22.5, '36': 21.7, '20': 20.2, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255875,"{'04': 99.2, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001089385,"{'36': 12.3, '20': 8.1, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",1,12.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223505,"{'06A-II': 88.7, '06A-VI': 88.7, '06A-III': 84.4, '06A-V': 84.0, '06B-II': 83.6}",1,88.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338625,"{'21': 100.0, '22F': 36.1, '06A-IV': 32.9, '06A-II': 32.2, '06A-VI': 32.1}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278295,"{'19A-II': 98.1, '19A-I': 95.6, '19A': 84.1, '19A-III': 83.9, '19AF': 61.7}",1,98.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224585,"{'14': 92.7, '36': 29.0, '09L': 25.7, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336475,"{'33F': 99.8, '33A': 99.5, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001144745,"{'23F': 94.5, '23A': 63.6, '06A-IV': 49.6, '23B': 48.4, '28A': 47.7}",1,94.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224005,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290865,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224355,"{'19A': 99.0, '19A-III': 98.8, '19A-I': 85.9, '19A-II': 83.6, '19AF': 57.2}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002741135,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335255,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265085,"{'19F': 94.8, '19F-I': 94.3, '19F-III': 93.2, '19F-II': 91.9, '19F-IV': 88.2}",1,94.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251565,"{'15A': 99.6, '15F': 73.9, '15C': 62.3, '15B': 62.2, '23F': 31.3}",1,99.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001301635,"{'23B': 99.5, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.8}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259985,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322165,"{'19F': 94.5, '19F-I': 94.0, '19F-III': 92.9, '19F-II': 91.6, '19F-IV': 87.8}",1,94.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230955,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286025,"{'06A': 92.5, '06A-V': 90.3, '06B-II': 88.9, '06A-III': 88.7, '06A-IV': 87.4}",1,92.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278135,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052505,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314465,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333055,"{'05': 95.3, '45': 22.8, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322925,"{'23F': 96.8, '23A': 63.9, '06A-IV': 48.2, '23B': 48.0, '28A': 47.6}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255405,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235225,"{'06E': 99.3, '06B-III': 99.0, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242925,"{'06A-II': 95.2, '06A-VI': 95.2, '06B-II': 89.1, '06A-V': 88.7, '06A-III': 88.1}",1,95.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001206035,"{'34': 93.3, '33F2': 35.3, '35B': 31.1, '33F': 29.3, '33C': 28.8}",1,93.3,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296355,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323255,"{'06E': 99.5, '06B-III': 99.1, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065695,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
PHESPD0079,"{'47A': 100.0, '31': 24.1, '22F': 23.1, '47F': 21.6, '06A-IV': 20.3}",1,100.0,,47A,,,{},{},47A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298575,"{'16F': 95.8, '19F-IV': 42.8, '19F-II': 42.6, '28F': 42.5, '19F': 41.6}",1,95.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171645,"{'14': 91.9, '36': 27.8, '09L': 25.0, '15B': 24.2, '15C': 24.1}",1,91.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054975,"{'03': 95.2, '01': 17.2, '36': 16.5, '09N': 15.8, '20': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294965,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226985,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267065,"{'01': 99.1, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228535,"{'23F': 99.0, '23A': 64.8, '23B': 47.6, '28A': 47.5, '06A-V': 45.8}",1,99.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001159965,"{'14': 89.9, '36': 29.4, '09L': 23.1, '19F-II': 22.2, '09N': 21.9}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310855,"{'19A-I': 99.2, '19A-II': 97.5, '19A': 87.7, '19A-III': 87.5, '19AF': 62.0}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190205,"{'31': 99.8, '41A': 57.3, '41F': 49.0, '06A-II': 36.5, '06A-VI': 36.5}",1,99.8,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252565,"{'19A-I': 99.2, '19A-II': 97.5, '19A': 87.8, '19A-III': 87.6, '19AF': 62.0}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 92.87]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293665,"{'13': 83.3, '36': 28.9, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047035,"{'23F': 99.2, '23A': 65.4, '23B': 49.0, '28A': 48.1, '06A-IV': 47.3}",1,99.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324985,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020139855,"{'35B': 99.8, '33F': 33.6, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318145,"{'01': 99.2, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289165,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900058145,"{'19A': 99.0, '19A-III': 98.8, '19A-I': 85.9, '19A-II': 83.6, '19AF': 57.2}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246445,"{'24F': 96.3, '24B': 89.1, '24F2': 85.9, '24A': 62.2, '07C': 52.0}",1,96.3,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240675,"{'09A': 99.7, '09V': 99.5, '09N': 38.1, '09L': 36.7, '06A-IV': 27.4}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259675,"{'23F': 92.4, '23A': 61.1, '28A': 48.1, '23B': 46.6, '06A-IV': 46.6}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264225,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001404115,"{'13': 98.9, '20': 28.0, '14': 26.8, '09L': 26.6, '09N': 26.5}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246825,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221105,"{'35B': 92.7, '34': 34.0, '33F': 33.4, '35C': 32.4, '33D': 32.1}",1,92.7,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239685,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292935,"{'15C': 95.5, '15B': 95.4, '15A': 61.0, '15F': 47.5, '23A': 34.5}",1,95.5,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303985,"{'19A-I': 99.2, '19A-II': 97.5, '19A': 87.8, '19A-III': 87.6, '19AF': 61.8}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311035,"{'19F-I': 98.0, '19F-II': 95.3, '19F-III': 95.2, '19F': 95.1, '19F-IV': 90.7}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315955,"{'19F-II': 99.3, '19F': 95.5, '19F-III': 94.1, '19F-I': 93.8, '19F-IV': 93.0}",1,99.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031945,"{'14': 99.9, '09L': 27.2, '36': 25.7, '09N': 24.9, '15B': 24.3}",1,99.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264125,"{'03': 97.4, '01': 17.8, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258655,"{'48': 99.3, '24A': 46.8, '24B': 39.4, '24F': 38.9, '24F2': 37.4}",1,99.3,,48,,,{},{},48,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001083685,"{'03': 95.2, '36': 16.8, '20': 15.5, '01': 15.4, '09L': 14.5}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311515,"{'15A': 98.5, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.8}",1,98.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001141425,"{'36': 12.5, '20': 7.9, '06A-IV': 7.6, '06C': 6.2, '06C-I': 6.2}",2,12.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297755,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169565,"{'14': 92.5, '36': 28.8, '09L': 25.6, '09N': 24.5, '15B': 24.0}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285025,"{'16F': 95.8, '19F-IV': 42.8, '19F-II': 42.6, '28F': 42.5, '19F': 41.6}",1,95.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305725,"{'24F2': 99.4, '24B': 88.2, '24F': 86.7, '24A': 71.2, '07B': 55.2}",1,99.4,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027575,"{'09A': 99.7, '09V': 99.5, '09N': 38.2, '09L': 36.8, '35B': 26.7}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236065,"{'35F': 99.9, '47F': 74.7, '34': 26.7, '35B': 26.5, '36': 23.5}",1,99.9,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218275,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226265,"{'20': 84.5, '47F': 26.4, '35A': 24.9, '09L': 24.5, '09N': 23.5}",1,84.5,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324995,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001122305,"{'01': 6.5, '20': 5.5, '25F': 5.4, '45': 5.4, '25A': 5.2}",2,6.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267115,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.4, '06B-II': 34.6, '06A-V': 34.4}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001155185,"{'03': 95.2, '36': 16.9, '01': 16.2, '20': 15.6, '09L': 13.9}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254335,"{'04': 99.4, '45': 33.4, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.4,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215985,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049075,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001149065,"{'22F': 88.0, '22A': 71.4, '06A': 39.6, '06A-III': 39.5, '06A-I': 39.4}",1,88.0,,22F,,,{},{},22F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277005,"{'13': 97.3, '09L': 28.7, '20': 28.7, '09N': 28.6, '36': 27.4}",1,97.3,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023195,"{'04': 99.7, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268695,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022765,"{'04': 99.8, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001099665,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298485,"{'11D': 99.6, '11A': 96.8, '11F': 42.0, '11C': 35.8, '11B': 34.3}",1,99.6,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285035,"{'34': 93.0, '33F2': 34.7, '35B': 32.3, '33F': 29.0, '33C': 28.0}",1,93.0,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000279815,"{'06C': 84.6, '06C-I': 84.6, '06D': 84.2, '06A-I': 79.6, '06B': 79.5}",1,84.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 89.8']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302455,"{'03': 94.9, '01': 17.8, '36': 17.4, '20': 16.1, '09N': 15.8}",1,94.9,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276615,"{'06B-III': 77.2, '06E': 75.4, '06A-III': 64.2, '06B-I': 63.6, '06A-V': 63.1}",1,77.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308305,"{'07A': 99.6, '07F': 99.4, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.6,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001116185,"{'14': 89.9, '36': 28.7, '09L': 23.1, '19F-II': 22.2, '09N': 21.9}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021022255,"{'02': 57.0, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,57.0,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001205835,"{'06E': 100.0, '06B-III': 99.3, '06B-I': 46.7, '06A-III': 46.2, '06A-II': 45.2}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303595,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001343935,"{'06A': 89.6, '06A-III': 89.2, '06B-I': 87.9, '06B-II': 87.7, '06A-II': 87.2}",1,89.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295265,"{'01': 99.2, '19F': 32.0, '19F-I': 31.5, '19F-III': 31.3, '19F-II': 31.0}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339875,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284205,"{'23F': 92.4, '23A': 61.3, '28A': 48.0, '23B': 46.7, '06A-IV': 46.5}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026305,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281585,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194765,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295695,"{'19A': 99.7, '19A-III': 99.5, '19A-I': 85.9, '19A-II': 83.4, '19AF': 57.1}",1,99.7,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167605,"{'14': 93.3, '36': 27.0, '09L': 24.5, '15B': 24.3, '15C': 24.2}",1,93.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190685,"{'23F': 99.2, '23A': 65.4, '23B': 49.0, '28A': 48.1, '06A-IV': 47.1}",1,99.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257655,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303675,"{'18A': 100.0, '18B': 54.1, '18C': 54.1, '18F': 53.8, '19F-IV': 37.4}",1,100.0,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225305,"{'08': 99.8, '06A-II': 24.6, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332475,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054075,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265485,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337145,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214705,"{'19F-I': 95.4, '19F': 95.1, '19F-III': 93.5, '19F-II': 92.3, '19F-IV': 88.3}",1,95.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001134445,"{'14': 94.2, '36': 25.8, '15B': 24.3, '09L': 24.2, '15C': 24.2}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001195125,"{'06E': 86.7, '06B-III': 85.6, '06B-I': 49.7, '06C': 49.3, '06A-III': 49.3}",1,86.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900046725,"{'23B1': 100.0, '23B': 55.8, '19A-II': 36.2, '19A-I': 35.9, '19AF': 31.3}",1,100.0,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306305,"{'23F': 99.4, '23A': 65.2, '23B': 47.9, '28A': 47.8, '06A-V': 45.8}",1,99.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273655,"{'19F-I': 99.6, '19F': 96.6, '19F-III': 96.6, '19F-II': 93.8, '19F-IV': 89.4}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001099245,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001091025,"{'06A-III': 98.5, '06B-I': 96.9, '06A': 90.6, '06B-II': 90.4, '06A-V': 89.5}",1,98.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238325,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.4, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230855,"{'06A-II': 97.9, '06A-VI': 97.9, '06B-II': 90.4, '06A-V': 89.6, '06A-III': 89.2}",1,97.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001083425,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323245,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 89.4, '06A': 87.7, '06A-III': 86.0}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213875,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299825,"{'04': 98.0, '45': 34.0, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.0,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242325,"{'12F': 95.8, '12B': 93.2, '44': 92.8, '12A': 84.7, '46': 81.6}",1,95.8,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001110365,"{'07B': 99.9, '40': 92.9, '07C': 77.2, '24F2': 48.1, '24F': 47.7}",1,99.9,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001098245,"{'20': 5.7, '22F': 4.9, '25F': 4.6, '25A': 4.5, '01': 3.7}",1,5.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001107905,"{'16F': 95.7, '19F-II': 42.6, '19F-IV': 42.6, '28F': 42.4, '19F': 41.6}",1,95.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020915,"{'03': 95.2, '01': 18.0, '20': 17.2, '36': 16.2, '09L': 15.4}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327685,"{'14': 94.9, '36': 27.7, '09L': 25.3, '09N': 24.3, '15B': 24.1}",1,94.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245405,"{'14': 91.4, '19F-IV': 25.9, '09L': 24.7, '09N': 24.6, '36': 24.5}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246645,"{'15A': 99.6, '15F': 73.9, '15C': 62.3, '15B': 62.2, '23F': 31.3}",1,99.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218235,"{'14': 92.8, '36': 27.3, '09L': 25.9, '09N': 25.6, '15B': 24.3}",1,92.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055805,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297415,"{'06E': 99.6, '06B-III': 99.2, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.4}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001174565,"{'04': 98.3, '45': 32.1, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301115,"{'33F': 100.0, '33A': 99.6, '33F2': 70.9, '35C': 42.9, '42': 41.9}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255695,"{'03': 95.5, '20': 17.5, '01': 16.8, '36': 16.3, '09L': 16.0}",1,95.5,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277315,"{'12F': 96.4, '44': 93.4, '12B': 93.3, '12A': 84.8, '46': 81.7}",1,96.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900059005,"{'08': 99.8, '06A-II': 26.1, '06A-VI': 26.0, '06B-II': 25.4, '06A-V': 25.0}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248285,"{'09A': 95.7, '09V': 95.5, '09N': 38.5, '09L': 37.0, '11F': 26.5}",1,95.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169325,"{'14': 92.7, '36': 28.8, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191595,"{'19F-II': 99.5, '19F': 95.3, '19F-III': 94.3, '19F-I': 94.0, '19F-IV': 93.2}",1,99.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336905,"{'19F-I': 97.5, '19F': 96.8, '19F-III': 96.3, '19F-II': 94.8, '19F-IV': 89.9}",1,97.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019399605,"{'19A': 98.8, '19A-III': 98.6, '19A-I': 85.7, '19A-II': 83.4, '19AF': 57.0}",1,98.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291155,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251295,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281935,"{'19F': 97.4, '19F-I': 96.4, '19F-III': 95.6, '19F-II': 95.5, '19F-IV': 91.0}",1,97.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001163345,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304925,"{'38': 98.3, '25F': 79.7, '25A': 78.9, '36': 12.0, '20': 7.7}",1,98.3,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050475,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244845,"{'23B1': 99.3, '23B': 56.0, '19A-II': 35.9, '19A-I': 35.7, '19AF': 31.7}",1,99.3,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315685,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296445,"{'06C-I': 92.8, '06C': 92.7, '06D': 84.9, '06B-I': 77.7, '06A-III': 77.2}",1,92.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330155,"{'21': 92.0, '22F': 36.7, '06A-IV': 31.6, '06A-II': 31.2, '06A-VI': 31.2}",1,92.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313425,"{'06E': 97.1, '06B-III': 97.0, '06B-I': 46.0, '06A-III': 45.5, '06A-II': 44.6}",1,97.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001140365,"{'35B': 93.4, '22F': 33.8, '33B': 31.8, '34': 30.9, '33D': 30.2}",1,93.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323375,"{'06D': 87.2, '06C': 85.2, '06C-I': 85.2, '06A-I': 76.0, '06B': 75.9}",1,87.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 89.8']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224145,"{'19B': 92.9, '19C': 71.4, '19F-IV': 51.3, '19F-II': 50.4, '19F-I': 49.7}",1,92.9,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234345,"{'09A': 92.6, '09V': 92.4, '09N': 39.0, '09L': 38.4, '06A-IV': 25.7}",1,92.6,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325795,"{'13': 98.8, '09L': 28.7, '09N': 27.9, '20': 27.6, '14': 26.7}",1,98.8,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309285,"{'09L': 99.2, '09N': 90.2, '36': 32.7, '09A': 31.5, '09V': 31.5}",1,99.2,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056405,"{'34': 93.0, '33F2': 34.7, '35B': 32.0, '33F': 29.0, '33C': 28.0}",1,93.0,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267055,"{'03': 97.0, '01': 17.6, '20': 15.5, '09N': 15.3, '09L': 15.1}",1,97.0,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261755,"{'01': 7.8, '25F': 6.0, '45': 5.9, '25A': 5.8, '06A-IV': 4.9}",3,7.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222815,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260625,"{'12F': 96.4, '44': 93.4, '12B': 93.3, '12A': 84.8, '46': 81.7}",1,96.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238935,"{'06A-I': 95.1, '06B': 91.6, '06A': 89.6, '06A-V': 89.5, '06A-III': 87.2}",1,95.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229365,"{'10B': 99.2, '10A': 65.0, '10F': 20.1, '10C': 18.8, '22F': 14.0}",1,99.2,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338655,"{'23B': 88.6, '23B1': 62.3, '23F': 38.7, '06A-IV': 33.5, '23A': 33.2}",1,88.6,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001139165,"{'10F': 98.2, '10C': 80.9, '10B': 22.4, '10A': 19.2, '20': 13.8}",1,98.2,,10F,,,{},{},10F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269175,"{'20': 82.2, '47F': 25.9, '35A': 24.6, '09L': 24.5, '36': 24.2}",1,82.2,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318505,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252615,"{'06C-I': 88.8, '06C': 88.7, '06D': 86.8, '06A-I': 77.4, '06B': 77.1}",1,88.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001106405,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215955,"{'19F': 94.8, '19F-I': 94.3, '19F-III': 93.2, '19F-II': 91.9, '19F-IV': 88.2}",1,94.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270545,"{'23F': 92.4, '23A': 61.1, '28A': 48.1, '23B': 46.6, '06A-IV': 46.6}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001168325,"{'01': 6.9, '45': 6.8, '25F': 6.7, '25A': 6.5, '36': 6.5}",2,6.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261365,"{'23B1': 98.1, '23B': 55.2, '19A-II': 36.0, '19A-I': 35.8, '19AF': 31.7}",1,98.1,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245175,"{'14': 92.7, '36': 28.8, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325655,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246625,"{'38': 98.8, '25F': 84.4, '25A': 83.4, '36': 11.8, '20': 8.2}",1,98.8,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251575,"{'35B': 99.4, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001715565,"{'23F': 96.8, '23A': 63.7, '23B': 47.9, '28A': 47.7, '28F': 46.0}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318605,"{'23F': 99.0, '23A': 64.8, '23B': 47.6, '28A': 47.5, '06A-V': 45.8}",1,99.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337035,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338295,"{'06A-II': 92.3, '06A-VI': 92.3, '06B-II': 89.5, '06A-V': 89.1, '06A-III': 88.1}",1,92.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 84.81']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237705,"{'16F': 96.6, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.6,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001329255,"{'06E': 100.0, '06B-III': 96.2, '06B-I': 43.6, '06A-III': 43.1, '06A-I': 42.3}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001094805,"{'06C': 85.5, '06C-I': 85.5, '06D': 84.7, '06A': 77.0, '06A-IV': 73.2}",1,85.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289615,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001162185,"{'45': 6.8, '20': 5.7, '25F': 5.7, '25A': 5.5, '01': 5.2}",2,6.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328225,"{'06A-III': 98.5, '06B-I': 97.8, '06B-II': 90.9, '06A': 89.8, '06A-V': 89.5}",1,98.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001116485,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_003493425,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339995,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001105185,"{'34': 93.3, '33F2': 35.3, '35B': 32.1, '33F': 29.3, '33C': 28.8}",1,93.3,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191895,"{'23B': 99.3, '23B1': 64.7, '23F': 45.6, '23A': 39.8, '06A-IV': 36.7}",1,99.3,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213265,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221655,"{'15A': 99.2, '15F': 73.7, '15C': 61.8, '15B': 61.7, '23F': 31.5}",1,99.2,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321495,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193785,"{'06C-I': 99.9, '06C': 99.7, '06D': 84.6, '06A-II': 79.6, '06A-VI': 79.6}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327265,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.4, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256565,"{'14': 99.9, '36': 27.3, '09L': 25.9, '09N': 25.3, '15B': 24.3}",1,99.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001125185,"{'14': 89.6, '36': 28.3, '09L': 23.1, '19F-II': 22.2, '09N': 21.8}",1,89.6,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285015,"{'23F': 96.8, '23A': 63.7, '23B': 48.0, '28A': 47.7, '06B-II': 46.1}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270815,"{'03': 95.2, '36': 17.4, '01': 17.0, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223205,"{'08': 99.7, '06A-II': 24.6, '06A-VI': 24.5, '02': 24.4, '06B-II': 24.0}",1,99.7,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300225,"{'09N': 97.7, '09L': 87.5, '09A': 32.6, '09V': 32.6, '36': 29.8}",1,97.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065635,"{'06C-I': 93.0, '06C': 92.8, '06D': 82.8, '06B-I': 78.0, '06A-III': 77.7}",1,93.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001100305,"{'19F-I': 95.3, '19F': 95.0, '19F-III': 93.5, '19F-II': 92.2, '19F-IV': 88.2}",1,95.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001084805,"{'40': 99.6, '07B': 93.9, '07C': 75.4, '24F2': 48.2, '24F': 47.9}",1,99.6,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221025,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001149565,"{'03': 95.1, '20': 15.1, '09L': 15.0, '09N': 15.0, '01': 14.5}",1,95.1,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001083465,"{'08': 98.0, '02': 24.4, '06A-IV': 23.3, '06A': 22.9, '22F': 22.6}",1,98.0,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237565,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231055,"{'09A': 95.8, '09V': 95.6, '09N': 39.0, '09L': 37.0, '06A-IV': 26.4}",1,95.8,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331635,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304845,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341815,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299935,"{'06B-I': 99.7, '06A-III': 97.6, '06B-II': 90.3, '06A': 89.8, '06A-V': 88.4}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900459645,"{'07A': 100.0, '07F': 99.1, '19F-II': 36.2, '19F-IV': 35.6, '19F': 34.8}",1,100.0,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329205,"{'19AF': 97.1, '19A-II': 61.5, '19A-I': 60.9, '19A': 52.1, '19A-III': 51.9}",1,97.1,19A_19AF,19A_19AF,,[[7]],"{'wzy': [2, 92.87]}",{'wzy': 2},19A_19AF,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342305,"{'06E': 96.8, '06B-III': 96.0, '06B-I': 46.5, '06A-III': 45.9, '06A-IV': 45.2}",1,96.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 96.61]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019399065,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235545,"{'21': 97.0, '22F': 37.5, '06A-II': 32.6, '06A-VI': 32.5, '06A-III': 31.8}",1,97.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000251685,"{'04': 97.3, '45': 33.6, '12F': 23.6, '44': 23.4, '12A': 22.4}",1,97.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214065,"{'19F-I': 99.7, '19F': 96.7, '19F-III': 96.7, '19F-II': 93.9, '19F-IV': 89.3}",1,99.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001156025,"{'06A-III': 88.8, '06B-I': 86.5, '06A-II': 83.2, '06A-VI': 83.2, '06B-II': 83.2}",1,88.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001169305,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307455,"{'23B1': 99.6, '23B': 56.3, '19A-II': 36.1, '19A-I': 35.9, '19AF': 31.7}",1,99.6,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232265,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.8, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310955,"{'06C-I': 89.1, '06C': 89.0, '06D': 86.9, '06A-I': 77.7, '06B': 77.4}",1,89.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329255,"{'20': 97.0, '13': 26.0, '09L': 25.3, '47F': 24.4, '09N': 24.3}",1,97.0,,20,,,{},{},20,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277865,"{'01': 7.5, '45': 6.2, '25F': 5.8, '25A': 5.6, '22F': 5.0}",3,7.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019995,"{'22F': 92.0, '22A': 74.2, '06A-IV': 44.3, '06A-II': 43.9, '06A-VI': 43.8}",1,92.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247365,"{'23B': 99.3, '23B1': 64.5, '23F': 45.7, '23A': 39.9, '06A-IV': 36.8}",1,99.3,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342375,"{'14': 94.6, '36': 25.7, '15B': 24.2, '15C': 24.1, '09L': 23.5}",1,94.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001103025,"{'01': 6.3, '25F': 5.7, '45': 5.6, '25A': 5.5, '20': 5.1}",2,6.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218075,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331715,"{'01': 7.1, '45': 5.9, '25F': 5.7, '20': 5.5, '25A': 5.5}",6,7.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001329335,"{'19F-I': 95.7, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900059635,"{'22F': 98.8, '22A': 73.1, '06A': 42.5, '06B': 42.0, '06A-II': 41.8}",1,98.8,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326275,"{'23A': 99.6, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319385,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 89.6, '06A': 87.7, '06A-III': 86.1}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019446885,"{'45': 5.5, '20': 5.1, '25F': 5.1, '25A': 4.9, '38': 4.5}",1,5.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263315,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268185,"{'14': 94.2, '36': 26.3, '09L': 25.4, '09N': 24.6, '15B': 24.3}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329445,"{'34': 99.0, '33F2': 35.4, '35B': 33.6, '33F': 30.0, '33C': 28.7}",1,99.0,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001088985,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299465,"{'03': 95.2, '36': 17.4, '01': 16.8, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001345955,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001107985,"{'15A': 97.4, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.2}",1,97.4,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000018965,"{'05': 95.1, '45': 22.8, '36': 21.7, '20': 20.4, '12A': 19.8}",1,95.1,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_003003495,"{'02': 99.8, '06A-II': 40.6, '06A-VI': 40.5, '06B-II': 40.4, '06B-I': 39.9}",1,99.8,,2,,,{},{},2,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215265,"{'23F': 93.5, '23A': 63.4, '28A': 48.1, '23B': 46.7, '06A-III': 46.1}",1,93.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263085,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213085,"{'07A': 90.4, '07F': 90.2, '19F-II': 39.2, '19F': 37.7, '19F-IV': 37.7}",1,90.4,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280155,"{'14': 69.4, '36': 12.1, '15B': 9.0, '15C': 8.9, '09L': 8.2}",1,69.4,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255525,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001151085,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248305,"{'10A': 98.9, '10B': 67.1, '10C': 27.5, '10F': 18.1, '22F': 15.5}",1,98.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323115,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268505,"{'14': 91.4, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001155425,"{'15C': 96.2, '15B': 96.1, '15A': 61.5, '15F': 47.8, '23A': 34.7}",1,96.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305035,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.6, '19A-III': 87.4, '19AF': 61.9}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 92.87]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054225,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309335,"{'15C': 87.2, '15B': 87.1, '15A': 64.5, '15F': 49.9, '23A': 30.1}",1,87.2,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256005,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.0, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900060875,"{'35F': 99.1, '47F': 74.6, '34': 27.1, '35B': 26.7, '36': 22.7}",1,99.1,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900061295,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283595,"{'23A': 97.4, '23F': 68.8, '23B': 40.1, '19F-II': 39.2, '15B': 38.8}",1,97.4,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017795,"{'03': 95.2, '01': 17.3, '36': 16.5, '20': 15.8, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242715,"{'14': 91.4, '19F-IV': 25.9, '09L': 24.8, '09N': 24.7, '36': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297065,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001172185,"{'36': 11.8, '06A-IV': 7.4, '20': 7.3, '06C': 6.0, '06C-I': 6.0}",1,11.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326945,"{'21': 99.5, '22F': 35.6, '06A-IV': 30.9, '06A-II': 29.9, '06A-VI': 29.8}",1,99.5,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191855,"{'19A-I': 98.8, '19A-II': 97.1, '19A': 87.5, '19A-III': 87.3, '19AF': 61.8}",1,98.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 93.64]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218975,"{'16F': 71.6, '28F': 43.0, '28A': 40.5, '18F': 33.6, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191805,"{'22F': 97.0, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,97.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339235,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335095,"{'34': 96.6, '33F2': 34.8, '35B': 33.1, '33F': 29.2, '33C': 28.5}",1,96.6,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251985,"{'23F': 96.8, '23A': 63.6, '06A-I': 48.2, '28A': 47.2, '06B': 47.0}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335975,"{'11D': 99.8, '11A': 97.0, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,99.8,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283475,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.0, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274075,"{'15C': 87.7, '15B': 87.6, '15A': 60.9, '15F': 48.0, '23A': 31.3}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001083445,"{'06D': 95.4, '06C': 87.5, '06C-I': 87.5, '06B-I': 75.6, '06A-III': 75.2}",1,95.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 89.0']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167955,"{'14': 91.3, '36': 26.7, '09L': 25.5, '09N': 24.9, '15B': 23.4}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325905,"{'35B': 99.6, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.6,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335235,"{'06A': 89.6, '06A-III': 89.2, '06B-I': 88.0, '06B-II': 87.7, '06A-II': 87.2}",1,89.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305515,"{'06A-I': 98.5, '06B': 96.4, '06A-V': 90.0, '06A': 87.9, '06B-II': 86.8}",1,98.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294795,"{'14': 92.6, '36': 27.3, '09L': 25.9, '09N': 25.0, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270965,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215595,"{'04': 99.7, '45': 33.3, '12F': 23.6, '44': 23.4, '12A': 22.5}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001099885,"{'34': 93.1, '33F2': 35.3, '35B': 32.2, '33F': 29.3, '33C': 28.8}",1,93.1,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273525,"{'15C': 87.7, '15B': 87.6, '15A': 60.9, '15F': 48.0, '23A': 31.3}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233855,"{'12F': 96.4, '44': 93.4, '12B': 93.3, '12A': 84.8, '46': 81.7}",1,96.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247035,"{'06E': 100.0, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189495,"{'03': 95.2, '36': 17.0, '20': 15.3, '01': 14.4, '14': 14.1}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340635,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 94.0, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191455,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900059395,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001091185,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001173325,"{'14': 94.2, '15B': 24.3, '15C': 24.2, '09L': 23.3, '36': 23.2}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279345,"{'06A-II': 95.6, '06A-VI': 95.6, '06B-II': 89.5, '06A-V': 89.1, '06A-III': 88.5}",1,95.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900061915,"{'01': 97.6, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,97.6,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230635,"{'06E': 99.8, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.4}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319785,"{'34': 93.2, '06A-III': 41.8, '06B-I': 40.9, '06A-IV': 39.8, '06A': 39.6}",1,93.2,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001326635,"{'03': 95.2, '36': 17.0, '20': 15.7, '01': 14.5, '14': 14.1}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236945,"{'12F': 96.3, '44': 93.3, '12B': 93.2, '12A': 84.7, '46': 81.6}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000762585,"{'01': 6.2, '45': 5.8, '25F': 5.6, '20': 5.5, '25A': 5.4}",2,6.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001104745,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219125,"{'06A': 90.1, '06A-III': 87.2, '06B-II': 87.1, '06A-II': 86.9, '06A-VI': 86.9}",1,90.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285275,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222025,"{'11D': 96.5, '11A': 95.3, '11F': 43.0, '11C': 36.2, '11B': 34.8}",1,96.5,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257855,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272755,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001156125,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292415,"{'34': 93.0, '33F2': 34.7, '35B': 32.3, '33F': 29.0, '33C': 28.0}",1,93.0,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300115,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301925,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224155,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001089305,"{'19A-I': 98.8, '19A-II': 97.1, '19A': 87.5, '19A-III': 87.3, '19AF': 61.6}",1,98.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282885,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001120365,"{'03': 95.2, '36': 17.3, '20': 16.0, '09L': 15.2, '01': 15.1}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026285,"{'08': 99.5, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.2, '06B-II': 24.1}",1,99.5,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344495,"{'18C': 88.6, '18B': 88.5, '18F': 78.1, '18A': 60.2, '16F': 37.9}",1,88.6,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001153925,"{'03': 97.4, '20': 15.3, '09N': 14.3, '09L': 14.2, '01': 14.0}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020139865,"{'35B': 99.7, '33F': 33.5, '35C': 33.2, '34': 33.0, '35A': 32.8}",1,99.7,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266515,"{'15A': 99.6, '15F': 73.9, '15C': 62.3, '15B': 62.2, '23F': 31.3}",1,99.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001207735,"{'09A': 95.3, '09V': 95.1, '09N': 37.3, '09L': 36.5, '11F': 26.6}",1,95.3,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398345,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_003966525,"{'04': 99.7, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001104245,"{'21': 92.2, '22F': 34.3, '06A-IV': 34.3, '06A-II': 34.0, '06A-VI': 34.0}",1,92.2,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294015,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217185,"{'06A': 93.5, '06A-III': 91.5, '06B-I': 91.4, '06B-II': 91.2, '06A-V': 90.7}",1,93.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001137665,"{'06E': 100.0, '06B-III': 96.2, '06B-I': 43.6, '06A-III': 43.1, '06A-I': 42.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292215,"{'14': 91.6, '36': 26.8, '09L': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236835,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337195,"{'14': 90.0, '36': 28.9, '09L': 23.3, '09N': 22.2, '19F-II': 22.2}",1,90.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221985,"{'14': 94.9, '36': 26.3, '09L': 25.4, '09N': 24.6, '15B': 24.3}",1,94.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232305,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246675,"{'15A': 98.4, '15F': 73.0, '15C': 61.7, '15B': 61.6, '23F': 32.1}",1,98.4,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053495,"{'33F2': 99.6, '33F': 74.6, '33A': 70.2, '34': 41.9, '35B': 32.6}",1,99.6,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276735,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.5, '46': 81.4}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317055,"{'23F': 78.0, '23A': 57.7, '23B': 51.5, '28A': 38.9, '28F': 36.3}",1,78.0,,23F,,,{},{},23F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275695,"{'14': 91.4, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233125,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296365,"{'03': 95.2, '36': 17.4, '01': 16.8, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342785,"{'06A-II': 94.6, '06A-VI': 94.6, '06B-II': 88.9, '06A-V': 88.4, '06A-III': 87.6}",1,94.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001161185,"{'23F': 93.1, '23A': 63.3, '06A-IV': 53.3, '06B-II': 51.9, '23B': 50.9}",1,93.1,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327705,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344735,"{'20': 5.0, '36': 5.0, '45': 4.1, '06C-I': 3.9, '06C': 3.8}",1,5.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276585,"{'14': 94.2, '36': 26.4, '09L': 25.5, '09N': 24.7, '15B': 24.3}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194415,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255865,"{'06A-V': 92.0, '06A-I': 91.7, '06A-III': 89.6, '06B': 88.5, '06B-I': 88.2}",1,92.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233075,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001126485,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308155,"{'06A-I': 99.2, '06B': 94.9, '06A': 87.7, '06A-V': 86.7, '06A-III': 82.9}",1,99.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900059645,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286625,"{'19F-I': 91.9, '19F': 91.3, '19F-III': 90.9, '19F-II': 89.3, '19F-IV': 86.3}",1,91.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337865,"{'09N': 97.5, '09L': 87.1, '09A': 32.5, '09V': 32.5, '36': 29.8}",1,97.5,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192305,"{'19A-II': 99.7, '19A-I': 96.3, '19A': 84.7, '19A-III': 84.5, '19AF': 61.8}",1,99.7,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269125,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321385,"{'10A': 98.5, '10B': 67.1, '10C': 27.5, '10F': 18.1, '36': 15.0}",1,98.5,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253185,"{'05': 95.3, '45': 22.5, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001101565,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284745,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318645,"{'33F': 100.0, '33A': 99.7, '33F2': 70.9, '35C': 42.8, '42': 41.8}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302625,"{'27': 99.4, '06B-I': 41.8, '06A-III': 41.5, '06C': 41.0, '22F': 41.0}",1,99.4,,27,,,{},{},27,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253775,"{'06A': 89.3, '06A-II': 89.2, '06A-VI': 89.2, '06A-III': 88.9, '06B-II': 88.6}",1,89.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272965,"{'01': 99.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900034355,"{'31': 99.2, '41A': 56.7, '41F': 48.6, '06C-I': 36.6, '06C': 36.5}",1,99.2,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273485,"{'15C': 87.7, '15B': 87.6, '15A': 60.9, '15F': 48.0, '23A': 31.3}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001343915,"{'17F': 99.7, '06B': 44.4, '06B-I': 43.8, '06A-III': 43.7, '06D': 43.6}",1,99.7,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291725,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266025,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019775,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266155,"{'09N': 97.7, '09L': 87.5, '09A': 32.6, '09V': 32.6, '36': 29.8}",1,97.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900795205,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217045,"{'06C-I': 93.5, '06C': 93.3, '06D': 87.3, '06B-I': 78.0, '06A-III': 77.4}",1,93.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302485,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000171715,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237385,"{'33F': 99.6, '33A': 97.2, '33F2': 70.6, '35C': 42.5, '42': 41.5}",1,99.6,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900060085,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191545,"{'15C': 93.9, '15B': 93.8, '15A': 62.1, '15F': 48.6, '23A': 32.9}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057935,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171015,"{'14': 92.0, '36': 28.7, '09L': 25.4, '09N': 24.2, '15B': 23.7}",1,92.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289175,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299365,"{'40': 99.6, '07B': 93.9, '07C': 75.4, '24F2': 48.2, '24F': 47.9}",1,99.6,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264955,"{'19F-II': 99.2, '19F': 95.0, '19F-III': 94.0, '19F-I': 93.7, '19F-IV': 93.1}",1,99.2,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900064275,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001133805,"{'45': 95.4, '04': 38.8, '06A-II': 32.9, '06A-VI': 32.8, '06B-I': 32.7}",1,95.4,,45,,,{},{},45,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307235,"{'14': 91.2, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001160805,"{'46': 98.7, '12A': 96.4, '12B': 84.3, '44': 82.3, '12F': 82.1}",1,98.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[4]],"{'wciI': [1, 100.0]}",{'wciI': 1},12A/12B/44/46,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065605,"{'07A': 98.3, '07F': 98.1, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,98.3,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_003599925,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344815,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334805,"{'10A': 98.9, '10B': 67.1, '10C': 27.5, '10F': 18.1, '22F': 15.4}",1,98.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279605,"{'06A-II': 95.2, '06A-VI': 95.2, '06B-II': 89.1, '06A-V': 88.7, '06A-III': 88.1}",1,95.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019399425,"{'06A': 89.0, '06A-III': 88.8, '06B-I': 87.5, '06B-II': 87.3, '06A-II': 86.8}",1,89.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170825,"{'14': 92.6, '36': 28.5, '09L': 24.8, '15B': 24.1, '15C': 24.0}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336615,"{'05': 95.1, '45': 22.5, '36': 21.7, '20': 20.0, '12A': 19.8}",1,95.1,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310775,"{'11F': 61.8, '11D': 38.4, '11A': 36.8, '09V': 25.4, '09A': 25.3}",1,61.8,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900061225,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.5, '19F-IV': 35.9, '19F': 35.0}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281195,"{'09A': 98.4, '09V': 98.2, '09N': 39.4, '09L': 37.6, '11F': 26.6}",1,98.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232715,"{'01': 7.7, '25F': 6.1, '25A': 5.9, '36': 5.7, '22F': 5.3}",4,7.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055175,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260345,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192045,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236175,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296285,"{'45': 97.2, '04': 38.8, '06A-II': 32.9, '06A-VI': 32.8, '06B-I': 32.7}",1,97.2,,45,,,{},{},45,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243135,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001161265,"{'06A-II': 97.9, '06A-VI': 97.9, '06B-II': 90.4, '06A-V': 89.6, '06A-III': 89.2}",1,97.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293365,"{'14': 91.5, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293955,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288995,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236995,"{'12F': 96.4, '44': 93.4, '12B': 93.3, '12A': 84.8, '46': 81.7}",1,96.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317535,"{'23F': 78.0, '23A': 57.7, '23B': 51.5, '28A': 38.9, '28F': 36.3}",1,78.0,,23F,,,{},{},23F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219315,"{'06E': 89.5, '06B-III': 88.4, '06B-I': 52.2, '06A-III': 51.1, '06A-II': 49.7}",1,89.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244065,"{'06C-I': 91.8, '06C': 91.7, '06D': 84.6, '06B-I': 76.7, '06A-III': 76.2}",1,91.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305135,"{'14': 95.0, '36': 28.8, '09L': 25.5, '09N': 24.6, '15B': 24.3}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000762425,"{'01': 6.4, '25F': 5.7, '20': 5.5, '25A': 5.5, '45': 5.3}",2,6.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213835,"{'10A': 99.1, '10B': 67.0, '10C': 27.7, '10F': 18.1, '22F': 15.0}",1,99.1,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052765,"{'22F': 98.5, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,98.5,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334575,"{'15B': 99.7, '15C': 99.5, '15A': 62.7, '15F': 48.3, '23A': 33.1}",1,99.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171135,"{'14': 92.4, '36': 29.0, '09L': 25.7, '09N': 24.7, '15B': 24.2}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001104445,"{'06A': 89.7, '06A-III': 89.3, '06B-I': 88.0, '06B-II': 87.8, '06A-II': 87.3}",1,89.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270995,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288465,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001124665,"{'23A': 97.5, '23F': 68.8, '23B': 40.1, '19F-II': 39.2, '15B': 38.8}",1,97.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192165,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245325,"{'09A': 99.4, '09V': 99.2, '09N': 38.3, '09L': 36.5, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263095,"{'01': 99.5, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270825,"{'01': 98.8, '19F': 32.0, '19F-I': 31.5, '19F-III': 31.3, '19F-II': 31.0}",1,98.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321885,"{'09A': 99.4, '09V': 99.2, '09N': 38.3, '09L': 36.4, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900037155,"{'04': 99.7, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001348035,"{'35B': 95.0, '33F': 33.9, '35C': 33.6, '35A': 33.2, '34': 33.1}",1,95.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001110305,"{'06C-I': 88.8, '06C': 88.7, '06D': 86.7, '06A-I': 77.8, '06B': 77.5}",1,88.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 94.1]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001128385,"{'45': 5.6, '25F': 5.5, '25A': 5.4, '20': 5.1, '22F': 4.9}",1,5.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258005,"{'04': 99.7, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001326795,"{'03': 95.2, '36': 16.9, '20': 15.8, '14': 13.8, '09L': 13.4}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247355,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001193495,"{'19F-I': 95.4, '19F': 95.1, '19F-III': 93.6, '19F-II': 92.3, '19F-IV': 88.3}",1,95.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228995,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302385,"{'09A': 95.8, '09V': 95.6, '09N': 38.7, '09L': 37.5, '11F': 26.7}",1,95.8,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171215,"{'14': 91.6, '36': 28.7, '09L': 24.9, '15B': 23.9, '15C': 23.8}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311605,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.8, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316755,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334365,"{'08': 99.4, '06A-II': 25.8, '06A-VI': 25.7, '06B-II': 25.1, '06A-V': 24.7}",1,99.4,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308815,"{'18C': 88.4, '18B': 88.3, '18F': 77.7, '18A': 61.9, '16F': 37.8}",1,88.4,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341955,"{'13': 83.3, '36': 28.8, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001168465,"{'14': 92.6, '36': 27.9, '09L': 25.2, '15B': 24.2, '15C': 24.1}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258325,"{'01': 98.9, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246985,"{'06A-II': 95.2, '06A-VI': 95.2, '06B-II': 89.1, '06A-V': 88.7, '06A-III': 88.1}",1,95.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310005,"{'18C': 87.9, '18B': 87.8, '18F': 77.4, '18A': 61.8, '16F': 37.7}",1,87.9,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281955,"{'23A': 99.4, '23F': 67.1, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.4,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259045,"{'06C-I': 87.9, '06C': 87.8, '06D': 87.2, '06A-I': 77.9, '06B': 77.7}",1,87.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191585,"{'20': 5.4, '22F': 5.1, '45': 4.2, '25A': 3.6, '25F': 3.6}",1,5.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314595,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334535,"{'19A-I': 99.2, '19A-II': 97.5, '19A': 87.8, '19A-III': 87.6, '19AF': 62.0}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223655,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289825,"{'06A-II': 80.5, '06A-III': 80.5, '06A-VI': 80.5, '06B-II': 80.5, '06A': 80.2}",1,80.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001142225,"{'23A': 97.4, '23F': 68.8, '23B': 40.1, '19F-II': 39.3, '15B': 38.7}",1,97.4,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307815,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001199095,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342895,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001163845,"{'07A': 99.5, '07F': 99.3, '19F-II': 36.7, '19F-IV': 36.1, '19F': 35.2}",1,99.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215785,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248845,"{'36': 7.0, '45': 6.6, '01': 6.4, '22F': 5.8, '38': 4.7}",1,7.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232945,"{'06A-III': 90.6, '06B-I': 90.2, '06A-IV': 84.3, '06A': 84.0, '06B-II': 83.6}",1,90.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193215,"{'23B': 99.4, '23B1': 64.3, '23F': 45.7, '23A': 39.9, '06A-IV': 36.8}",1,99.4,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291005,"{'06A-III': 88.7, '06B-I': 87.8, '06A-II': 87.2, '06A-V': 87.2, '06A-VI': 87.2}",1,88.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215935,"{'05': 95.2, '45': 22.3, '36': 21.7, '20': 19.9, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240715,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272695,"{'35B': 99.1, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.7}",1,99.1,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900692645,"{'23F': 97.0, '23A': 63.9, '23B': 48.0, '28A': 47.7, '06B-II': 46.1}",1,97.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327365,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326885,"{'18C': 99.8, '18B': 99.7, '18F': 75.7, '18A': 62.3, '16F': 39.2}",1,99.8,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900064895,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001152825,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243275,"{'20': 81.9, '47F': 25.9, '35A': 24.4, '09L': 24.3, '36': 23.9}",1,81.9,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317925,"{'33F': 100.0, '33A': 99.7, '33F2': 70.9, '35C': 42.8, '42': 41.8}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213965,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220515,"{'19F': 100.0, '19F-III': 97.5, '19F-I': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,100.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303955,"{'09A': 99.4, '09V': 99.2, '09N': 37.6, '09L': 36.9, '06A-IV': 27.3}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215285,"{'06A-II': 92.4, '06A-VI': 92.4, '06B-II': 89.6, '06A-V': 89.3, '06A-III': 88.3}",1,92.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 81.42']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028695,"{'17F': 98.2, '06A-III': 43.5, '06D': 43.4, '06A-I': 43.1, '06B-I': 43.1}",1,98.2,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314495,"{'18B': 88.5, '18C': 88.3, '18F': 77.6, '18A': 61.9, '16F': 37.8}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239995,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295885,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027135,"{'15C': 93.9, '15B': 93.8, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001151285,"{'01': 5.6, '22F': 4.9, '25F': 4.5, '25A': 4.4, '38': 3.6}",1,5.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_012911775,"{'03': 98.2, '01': 17.9, '09N': 15.7, '20': 15.6, '09L': 15.0}",1,98.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296665,"{'29': 99.1, '39': 21.1, '35F': 19.4, '22F': 16.7, '35B': 16.3}",1,99.1,,29,,,{},{},29,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342085,"{'21': 100.0, '22F': 36.1, '06A-IV': 32.9, '06A-II': 32.2, '06A-VI': 32.1}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001108085,"{'14': 94.6, '36': 26.1, '09L': 24.9, '09N': 24.3, '15B': 24.2}",1,94.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254685,"{'06E': 83.5, '06B-III': 82.4, '06B-I': 55.6, '06A-III': 54.1, '06A-II': 53.5}",1,83.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240145,"{'16F': 71.4, '28F': 43.1, '28A': 40.6, '18F': 33.6, '18A': 33.2}",1,71.4,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266115,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.5, '46': 81.4}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001118085,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329365,"{'10B': 99.2, '10A': 65.2, '10F': 20.1, '10C': 18.8, '22F': 14.0}",1,99.2,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250165,"{'16F': 95.7, '19F-II': 42.6, '19F-IV': 42.6, '28F': 42.4, '19F': 41.6}",1,95.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313165,"{'14': 92.6, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234335,"{'06A-II': 95.5, '06A-VI': 95.5, '06B-II': 89.6, '06A-V': 89.0, '06A-III': 88.4}",1,95.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331265,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301805,"{'15C': 95.6, '15B': 95.4, '15A': 60.9, '15F': 47.4, '23A': 34.7}",1,95.6,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244475,"{'08': 99.7, '06A-II': 24.6, '06A-VI': 24.5, '02': 24.3, '06B-II': 24.0}",1,99.7,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297965,"{'28A': 98.2, '28F': 92.0, '23F': 49.6, '16F': 43.6, '06B-I': 39.8}",1,98.2,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222335,"{'35B': 92.6, '34': 33.8, '33F': 33.4, '35C': 32.4, '33D': 32.1}",1,92.6,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278575,"{'03': 97.4, '01': 17.5, '09L': 14.9, '09N': 14.6, '14': 14.0}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001173965,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283945,"{'23F': 96.6, '23A': 63.9, '23B': 47.8, '28A': 47.6, '28F': 45.9}",1,96.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243355,"{'06A-II': 85.7, '06A-VI': 85.7, '06A-III': 85.6, '06A-V': 85.0, '06B-I': 84.2}",1,85.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250575,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281675,"{'14': 91.4, '19F-IV': 25.9, '09L': 25.2, '09N': 24.6, '36': 24.5}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256015,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312355,"{'23A': 97.5, '23F': 68.8, '23B': 40.1, '19F-II': 39.2, '15B': 38.8}",1,97.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001108945,"{'25F': 5.3, '25A': 5.1, '22F': 4.9, '01': 4.8, '38': 4.2}",2,5.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233935,"{'01': 98.9, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275595,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 32.7}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307075,"{'14': 94.2, '36': 26.2, '09L': 25.5, '09N': 24.5, '15B': 24.3}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284755,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333485,"{'16F': 71.3, '28F': 43.0, '28A': 40.5, '18F': 33.5, '18A': 32.7}",1,71.3,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304285,"{'31': 99.5, '41A': 57.0, '41F': 48.8, '06A-II': 36.4, '06A-VI': 36.4}",1,99.5,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307465,"{'05': 95.2, '45': 22.5, '36': 21.9, '20': 20.4, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001138405,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169505,"{'14': 92.5, '36': 28.0, '09L': 25.6, '09N': 24.5, '15B': 24.0}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171225,"{'14': 92.6, '36': 28.6, '09L': 25.1, '15B': 24.2, '15C': 24.1}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247595,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291895,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 89.6, '06A': 87.7, '06A-III': 86.1}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326835,"{'22A': 94.2, '22F': 77.7, '06A-IV': 45.8, '06A-II': 44.1, '06B-I': 44.1}",1,94.2,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264295,"{'31': 99.7, '41A': 57.2, '41F': 49.3, '06A-II': 36.5, '06A-VI': 36.5}",1,99.7,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030285,"{'23F': 96.9, '23A': 63.9, '06A-IV': 48.6, '23B': 48.4, '28A': 47.6}",1,96.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001167365,"{'01': 6.1, '45': 5.8, '25F': 5.6, '20': 5.4, '25A': 5.4}",3,6.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049335,"{'22F': 98.8, '22A': 73.4, '06A': 42.6, '06A-II': 41.9, '06B-II': 41.9}",1,98.8,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249655,"{'15F': 99.8, '15A': 93.0, '15B': 60.4, '15C': 60.3, '23F': 38.9}",1,99.8,15F_15A,15F_15A,,"[[10], [12], [14], [16]]","{'glf': 100.0, 'rmlB': 100.0, 'rmlD': 100.0, 'wcjE': 100.0}","{'glf': 'detected', 'rmlB': 'detected', 'rmlD': 'detected', 'wcjE': 'detected'}",15F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327125,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.4, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254805,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_004359395,"{'09N': 100.0, '09L': 89.1, '09A': 32.7, '09V': 32.7, '36': 31.5}",1,100.0,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339535,"{'31': 99.7, '41A': 57.2, '41F': 49.3, '22F': 36.3, '06A-II': 36.3}",1,99.7,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900037145,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028765,"{'01': 99.8, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.3}",1,99.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289355,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285805,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305915,"{'23B': 87.8, '23B1': 61.0, '23F': 38.2, '23A': 33.0, '28A': 33.0}",1,87.8,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900188705,"{'06B-I': 99.5, '06A-III': 97.4, '06B-II': 90.2, '06A': 89.7, '06A-V': 88.3}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252465,"{'23B': 87.8, '23B1': 61.0, '23F': 38.5, '28A': 33.3, '23A': 33.0}",1,87.8,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900692615,"{'23F': 96.3, '23A': 63.8, '06A-IV': 50.4, '23B': 50.3, '06B-II': 48.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284825,"{'24F': 97.0, '24B': 89.7, '24F2': 86.4, '24A': 62.7, '07C': 51.8}",1,97.0,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028565,"{'06B-I': 98.6, '06A-III': 96.5, '06A': 89.7, '06B-II': 89.2, '06A-V': 87.3}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295445,"{'21': 99.6, '22F': 35.7, '06A-IV': 33.7, '06A-II': 33.0, '06A-VI': 32.9}",1,99.6,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020140345,"{'35B': 99.7, '33F': 33.5, '35C': 33.2, '34': 33.0, '35A': 32.8}",1,99.7,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338135,"{'08': 99.6, '06A-II': 24.5, '02': 24.4, '06A-VI': 24.4, '06B-II': 23.9}",1,99.6,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283875,"{'19F-I': 99.5, '19F': 96.5, '19F-III': 96.5, '19F-II': 93.7, '19F-IV': 89.3}",1,99.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001103605,"{'35F': 99.3, '47F': 74.7, '34': 26.7, '35B': 24.6, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001199995,"{'03': 94.8, '36': 17.0, '01': 15.8, '20': 15.7, '14': 14.2}",1,94.8,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001169145,"{'33B': 89.8, '33D': 89.7, '35B': 34.0, '33F2': 30.3, '22F': 26.7}",1,89.8,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171935,"{'14': 92.1, '36': 28.6, '09L': 24.6, '15B': 23.9, '15C': 23.8}",1,92.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001103765,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275275,"{'23F': 92.4, '23A': 61.1, '28A': 48.1, '23B': 46.6, '06A-IV': 46.6}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001162585,"{'03': 95.2, '36': 17.0, '01': 16.4, '20': 15.6, '09L': 14.1}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239055,"{'23F': 92.5, '23A': 64.7, '28A': 47.9, '23B': 47.4, '28F': 46.2}",1,92.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001089685,"{'03': 95.2, '36': 16.9, '01': 15.9, '20': 15.9, '09L': 14.4}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031185,"{'33F': 100.0, '33A': 97.5, '33F2': 70.9, '35C': 42.8, '42': 41.8}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310735,"{'05': 95.2, '45': 22.3, '36': 20.4, '20': 19.9, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342435,"{'15C': 89.6, '15B': 89.5, '15A': 62.5, '15F': 49.3, '23A': 31.0}",1,89.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019865,"{'08': 99.5, '06A-II': 24.5, '06A-VI': 24.4, '02': 24.2, '06B-II': 23.9}",1,99.5,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338745,"{'22F': 96.3, '22A': 73.3, '06A': 42.5, '06A-II': 42.2, '06A-VI': 42.1}",1,96.3,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300135,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001201815,"{'23F': 96.8, '23A': 66.4, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328295,"{'19F': 99.9, '19F-III': 97.5, '19F-I': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344635,"{'32A': 97.5, '32F': 97.4, '06A-II': 40.7, '06A-VI': 40.6, '06B-II': 39.9}",1,97.5,,32F/32A,,,{},{},32F/32A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001336155,"{'35F': 91.1, '47F': 67.7, '29': 25.7, '35B': 25.6, '34': 25.3}",1,91.1,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258015,"{'39': 97.9, '29': 28.6, '34': 22.6, '43': 19.3, '33C': 18.6}",1,97.9,,39,,,{},{},39,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250545,"{'06A-V': 93.0, '06A-III': 90.0, '06A-II': 89.6, '06A-VI': 89.6, '06B-I': 89.2}",1,93.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001169945,"{'32A': 97.5, '32F': 97.4, '06A-II': 40.7, '06A-VI': 40.6, '06B-II': 39.9}",1,97.5,,32F/32A,,,{},{},32F/32A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001100705,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051875,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001187425,"{'18C': 87.1, '18B': 87.0, '18F': 76.2, '18A': 61.5, '16F': 37.6}",1,87.1,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276315,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237525,"{'09A': 99.5, '09V': 99.3, '09N': 37.6, '09L': 36.7, '11F': 26.4}",1,99.5,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227545,"{'09A': 99.4, '09V': 99.2, '09N': 38.5, '09L': 36.5, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025805,"{'09A': 99.7, '09V': 99.5, '09N': 38.2, '09L': 36.8, '06A-IV': 27.4}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334225,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252915,"{'23B1': 99.6, '23B': 56.3, '19A-II': 36.1, '19A-I': 35.9, '19AF': 31.7}",1,99.6,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340965,"{'15C': 87.7, '15B': 87.6, '15A': 60.9, '15F': 48.0, '23A': 31.3}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001119865,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338985,"{'09A': 95.8, '09V': 95.6, '09N': 39.0, '09L': 37.0, '06A-IV': 26.4}",1,95.8,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301265,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295815,"{'19A': 99.5, '19A-III': 99.3, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020125,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320885,"{'23F': 92.4, '23A': 64.7, '28A': 47.8, '23B': 47.3, '28F': 46.1}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001094145,"{'36': 12.7, '20': 7.7, '06A-IV': 7.3, '45': 5.9, '06C': 5.8}",2,12.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276715,"{'01': 98.8, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001206575,"{'06C': 85.6, '06C-I': 85.6, '06D': 84.7, '06A': 77.0, '06A-IV': 73.3}",1,85.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001302155,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.3, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342365,"{'01': 6.7, '25F': 6.1, '25A': 5.9, '36': 5.7, '38': 5.2}",1,6.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018925,"{'01': 99.6, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.6,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023015,"{'23F': 99.0, '23A': 65.4, '23B': 48.9, '28A': 48.0, '06A-IV': 47.2}",1,99.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215885,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241115,"{'03': 75.1, '20': 7.9, '01': 7.1, '36': 7.1, '22F': 6.8}",1,75.1,,3,,,{},{},3,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001154905,"{'15C': 96.0, '15B': 95.8, '15A': 61.5, '15F': 47.8, '23A': 34.5}",1,96.0,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056435,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232555,"{'06A-II': 85.4, '06A-VI': 85.4, '06A-III': 85.3, '06A-V': 84.7, '06A': 84.0}",1,85.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233745,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263895,"{'04': 99.7, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001104865,"{'25F': 6.1, '25A': 5.9, '45': 5.3, '01': 5.1, '22F': 5.0}",1,6.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306395,"{'10A': 99.4, '10B': 67.1, '10C': 27.7, '10F': 18.1, '22F': 15.4}",1,99.4,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168735,"{'19A': 99.7, '19A-III': 99.5, '19A-I': 85.9, '19A-II': 83.4, '19AF': 57.2}",1,99.7,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053275,"{'18C': 85.7, '18B': 85.6, '18F': 77.9, '18A': 61.3, '16F': 37.7}",1,85.7,,"Mixed serotypes- {'18C/18B', '18F'}",,,{},{},"Mixed serotypes- {'18C/18B', '18F'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279805,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001136025,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263565,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341325,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261235,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.7, '19A-III': 87.5, '19AF': 61.8}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286575,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283405,"{'28F': 93.9, '28A': 88.9, '23F': 48.2, '16F': 44.2, '06A-IV': 42.0}",1,93.9,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339915,"{'10A': 93.9, '10B': 64.7, '10C': 29.0, '10F': 19.4, '47A': 16.3}",1,93.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259795,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 96.61]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900035075,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243365,"{'19A-II': 98.0, '19A-I': 95.5, '19A': 84.1, '19A-III': 83.9, '19AF': 61.7}",1,98.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001166165,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171415,"{'14': 92.7, '36': 28.6, '09L': 24.9, '15B': 24.2, '15C': 24.1}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019670855,"{'13': 98.8, '20': 28.6, '09L': 28.4, '09N': 28.1, '14': 26.9}",1,98.8,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334075,"{'35C': 99.7, '42': 98.7, '35A': 85.9, '33A': 45.5, '33F': 45.1}",1,99.7,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318485,"{'02': 93.0, '22F': 40.3, '06B-I': 39.0, '06A-III': 38.9, '06A-II': 38.7}",1,93.0,,2,,,{},{},2,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344015,"{'36': 12.3, '20': 8.0, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",1,12.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292055,"{'10B': 99.3, '10A': 65.2, '10F': 20.1, '10C': 18.8, '22F': 14.0}",1,99.3,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001720055,"{'06A-II': 83.2, '06A-VI': 83.2, '06A-III': 82.7, '06A-V': 82.1, '06B-I': 81.5}",1,83.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 76.28']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304255,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316505,"{'16F': 71.7, '28F': 43.2, '28A': 40.7, '18F': 33.7, '18A': 33.1}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318945,"{'10A': 99.4, '10B': 67.1, '10C': 27.7, '10F': 18.1, '22F': 15.5}",1,99.4,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001138565,"{'19F': 97.1, '19F-I': 96.1, '19F-III': 95.3, '19F-II': 95.2, '19F-IV': 90.7}",1,97.1,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274405,"{'22F': 96.2, '22A': 73.2, '06A': 42.4, '06A-II': 42.1, '06A-VI': 42.0}",1,96.2,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337315,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256155,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233625,"{'19F-I': 97.3, '19F': 96.6, '19F-III': 96.1, '19F-II': 94.6, '19F-IV': 89.7}",1,97.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274725,"{'19A': 99.1, '19A-III': 98.9, '19A-I': 86.0, '19A-II': 83.7, '19AF': 57.0}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032385,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190855,"{'03': 95.2, '01': 17.0, '36': 17.0, '20': 15.8, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307055,"{'35A': 92.1, '35C': 89.7, '42': 89.1, '33A': 45.0, '33F': 44.4}",1,92.1,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305675,"{'03': 95.8, '20': 17.9, '01': 17.6, '09L': 16.3, '36': 16.0}",1,95.8,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214765,"{'14': 93.9, '36': 26.1, '09L': 25.3, '09N': 24.1, '15B': 24.0}",1,93.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217535,"{'19AF': 97.1, '19A-II': 61.5, '19A-I': 60.9, '19A': 52.1, '19A-III': 51.9}",1,97.1,19A_19AF,19A_19AF,,[[7]],"{'wzy': [2, 92.87]}",{'wzy': 2},19A_19AF,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312505,"{'01': 99.6, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.6,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251455,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218485,"{'06B-III': 87.4, '06E': 87.0, '06A-V': 53.1, '06B-I': 52.7, '06B-II': 52.7}",1,87.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254535,"{'13': 83.6, '36': 32.0, '14': 27.2, '15B': 26.6, '15C': 26.2}",1,83.6,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347375,"{'34': 92.9, '33F2': 34.7, '35B': 31.5, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272285,"{'04': 99.3, '45': 33.7, '12F': 23.4, '44': 23.2, '12A': 22.3}",1,99.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027275,"{'19A-II': 100.0, '19A-I': 96.6, '19A': 85.0, '19A-III': 84.8, '19AF': 62.1}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900062825,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001095925,"{'14': 94.5, '36': 26.2, '09L': 25.1, '09N': 24.5, '15B': 24.2}",1,94.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273435,"{'17F': 82.3, '06A-I': 42.2, '06B': 41.8, '06A': 41.2, '06A-III': 40.5}",1,82.3,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312165,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 89.6, '06A': 87.7, '06A-III': 86.1}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280295,"{'14': 92.7, '36': 29.0, '09L': 25.7, '09N': 24.4, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266205,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167865,"{'14': 90.7, '36': 26.2, '09L': 25.5, '09N': 24.0, '15B': 23.4}",1,90.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226205,"{'14': 96.7, '36': 26.1, '09L': 25.5, '09N': 24.5, '15B': 24.3}",1,96.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001096065,"{'01': 6.4, '25F': 5.7, '45': 5.6, '20': 5.5, '25A': 5.5}",2,6.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022165,"{'07A': 99.6, '07F': 99.4, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.6,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296315,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.7, '06B-II': 35.1, '06A-V': 34.9}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001135365,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.4}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217995,"{'16F': 71.5, '28F': 43.1, '28A': 40.6, '18F': 33.6, '18A': 32.9}",1,71.5,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311145,"{'14': 99.3, '09L': 26.9, '36': 25.6, '09N': 24.7, '15B': 24.0}",1,99.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900059845,"{'07A': 99.4, '07F': 99.2, '19A': 60.5, '19A-III': 60.4, '19A-II': 54.1}",1,99.4,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317865,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224505,"{'08': 99.5, '06A-II': 24.6, '06A-VI': 24.5, '02': 24.1, '06B-II': 24.0}",1,99.5,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323015,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221825,"{'06A-I': 98.6, '06B': 94.0, '06A-V': 88.1, '06A': 87.9, '06A-III': 86.9}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331285,"{'33F': 100.0, '33A': 99.7, '33F2': 70.9, '35C': 42.8, '42': 41.8}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252855,"{'05': 95.2, '45': 22.2, '36': 21.8, '20': 20.1, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019397365,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280465,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299595,"{'19F-I': 97.7, '19F': 97.0, '19F-III': 96.5, '19F-II': 95.0, '19F-IV': 90.3}",1,97.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276835,"{'19F': 97.4, '19F-I': 96.4, '19F-III': 95.6, '19F-II': 95.5, '19F-IV': 91.0}",1,97.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235025,"{'01': 99.0, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001167245,"{'32A': 97.5, '32F': 97.4, '06A-II': 40.6, '06A-VI': 40.5, '06B-II': 39.8}",1,97.5,,32F/32A,,,{},{},32F/32A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900060595,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001115665,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001005575,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001910025,"{'03': 95.8, '20': 17.5, '01': 17.0, '36': 16.1, '09L': 15.8}",1,95.8,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065165,"{'19A': 99.2, '19A-III': 99.0, '19A-I': 86.1, '19A-II': 83.8, '19AF': 57.2}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_003492505,"{'06E': 100.0, '06B-III': 98.8, '06B-I': 46.6, '06A-III': 46.1, '06A-II': 45.1}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233495,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900016885,"{'14': 92.1, '36': 28.6, '09L': 25.5, '09N': 24.7, '15B': 23.9}",1,92.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001149365,"{'17F': 99.5, '06B': 44.2, '06B-I': 43.8, '06A-III': 43.7, '06D': 43.6}",1,99.5,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307935,"{'14': 93.4, '09L': 27.5, '36': 27.3, '09N': 25.4, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306955,"{'05': 95.2, '45': 22.3, '36': 21.9, '20': 20.3, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051305,"{'01': 98.4, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,98.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900188905,"{'23F': 98.9, '23A': 64.8, '23B': 47.6, '28A': 47.5, '06A-V': 45.7}",1,98.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295555,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322735,"{'14': 95.0, '36': 26.4, '09L': 25.3, '09N': 24.7, '15B': 24.3}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308525,"{'14': 95.1, '36': 26.0, '09L': 25.5, '09N': 24.7, '15B': 24.3}",1,95.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274945,"{'23F': 95.9, '23A': 63.8, '28A': 48.9, '06A-IV': 48.6, '23B': 48.1}",1,95.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001149205,"{'06A-II': 87.0, '06A-VI': 87.0, '06A': 85.9, '06A-IV': 84.9, '06A-V': 84.7}",1,87.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291435,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341745,"{'12B': 97.3, '12F': 91.4, '12A': 89.4, '44': 88.7, '46': 87.0}",1,97.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[4]],"{'wciI': [1, 99.3]}",{'wciI': 1},12A/12B/44/46,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030135,"{'04': 99.5, '45': 33.2, '12F': 23.2, '44': 23.0, '12A': 22.1}",1,99.5,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900036205,"{'04': 99.5, '45': 33.4, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.5,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043015,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025285,"{'06A-II': 95.0, '06A-VI': 95.0, '06A-V': 88.4, '06B-II': 88.4, '06A-III': 87.9}",1,95.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_902652965,"{'01': 99.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254845,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189115,"{'09A': 99.5, '09V': 99.3, '09N': 36.9, '09L': 35.4, '06A-IV': 26.9}",1,99.5,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248025,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001117005,"{'36': 11.0, '23B1': 7.2, '06A-IV': 6.7, '06B-I': 5.5, '06C': 5.4}",1,11.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318085,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192935,"{'06C-I': 99.7, '06C': 99.5, '06D': 84.6, '06A-II': 79.3, '06A-VI': 79.3}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228695,"{'03': 95.2, '01': 16.8, '36': 16.5, '20': 15.8, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189575,"{'06B-I': 99.6, '06A-III': 97.5, '06B-II': 90.2, '06A': 89.8, '06A-V': 88.3}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309825,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191935,"{'25F': 5.3, '25A': 5.2, '22F': 5.0, '12A': 4.6, '46': 4.6}",2,5.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302235,"{'06A-I': 98.2, '06B': 94.4, '06A-V': 89.2, '06A': 87.3, '06A-III': 85.7}",1,98.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331085,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001909405,"{'03': 95.2, '36': 17.1, '01': 16.8, '20': 15.7, '09L': 15.6}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323425,"{'23F': 96.7, '23A': 63.8, '06A-IV': 50.8, '23B': 50.3, '06B-II': 48.5}",1,96.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309885,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.5, '46': 81.4}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222525,"{'16F': 71.7, '28F': 43.6, '28A': 40.8, '18F': 33.9, '18A': 33.7}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192425,"{'15B': 99.7, '15C': 99.5, '15A': 62.7, '15F': 48.3, '23A': 33.1}",1,99.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276685,"{'35B': 99.9, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.9,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299175,"{'17F': 82.5, '06A-III': 43.3, '06B-I': 43.3, '06C': 42.2, '06A-I': 42.2}",1,82.5,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277395,"{'17F': 93.5, '06B-I': 45.7, '06A-III': 45.6, '06A-IV': 45.4, '06A': 44.5}",1,93.5,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056695,"{'19A': 99.7, '19A-III': 99.5, '19A-I': 85.9, '19A-II': 83.4, '19AF': 57.0}",1,99.7,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293605,"{'23F': 94.0, '23A': 63.5, '06A-IV': 48.8, '28A': 48.5, '06B-I': 47.7}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001154505,"{'31': 99.5, '41A': 57.3, '41F': 48.9, '06A-II': 35.8, '06A-VI': 35.8}",1,99.5,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001340395,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001107445,"{'14': 94.5, '36': 26.3, '09L': 24.2, '15B': 24.2, '15C': 24.1}",1,94.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324475,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001122865,"{'23F': 94.5, '23A': 63.6, '28A': 47.7, '23B': 46.9, '06A': 46.4}",1,94.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051245,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300005,"{'15A': 99.9, '15F': 74.2, '15C': 62.0, '15B': 61.9, '23F': 31.7}",1,99.9,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270575,"{'16F': 98.5, '28F': 42.9, '18A': 41.5, '19F-IV': 41.5, '19F-II': 41.1}",1,98.5,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055725,"{'23B1': 86.9, '23B': 58.6, '19A-II': 36.3, '19A-I': 35.7, '19AF': 32.1}",1,86.9,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247615,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287505,"{'04': 99.2, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001115405,"{'45': 5.7, '20': 5.6, '25F': 5.5, '25A': 5.3, '38': 4.6}",1,5.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232795,"{'19F-II': 99.0, '19F': 95.2, '19F-III': 93.8, '19F-I': 93.5, '19F-IV': 92.9}",1,99.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285125,"{'11F': 61.8, '11D': 38.4, '11A': 36.8, '09V': 25.4, '09A': 25.3}",1,61.8,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234175,"{'15A': 100.0, '15F': 74.3, '15C': 62.0, '15B': 61.9, '23F': 31.7}",1,100.0,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244505,"{'14': 91.4, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900035115,"{'23F': 97.8, '23A': 63.3, '28A': 48.3, '23B': 48.1, '06A-IV': 46.6}",1,97.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247675,"{'01': 98.8, '19F': 31.9, '19F-I': 31.4, '19F-III': 31.2, '19F-II': 30.9}",1,98.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033945,"{'19A': 99.5, '19A-III': 99.3, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,99.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227015,"{'06A': 90.4, '06A-III': 89.4, '06A-II': 89.3, '06A-VI': 89.3, '06B-II': 89.3}",1,90.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241315,"{'06A-II': 95.9, '06A-VI': 95.9, '06B-II': 94.6, '06A-V': 93.9, '06A': 91.5}",1,95.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235095,"{'16F': 71.5, '28F': 43.0, '28A': 40.5, '18F': 33.6, '18A': 32.9}",1,71.5,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248485,"{'06A': 86.6, '06A-V': 86.1, '06A-IV': 86.0, '06B-II': 86.0, '06B-I': 83.8}",1,86.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 83.83']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047735,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325535,"{'14': 95.0, '36': 26.3, '09L': 25.5, '09N': 24.5, '15B': 24.3}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263145,"{'06A': 90.4, '06A-III': 90.4, '06A-II': 90.3, '06A-VI': 90.3, '06B-II': 90.0}",1,90.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241415,"{'07A': 97.5, '07F': 97.3, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,97.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270755,"{'13': 98.8, '20': 29.0, '09L': 28.6, '09N': 28.2, '36': 28.0}",1,98.8,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285715,"{'35C': 100.0, '42': 99.0, '35A': 86.0, '33A': 45.6, '33F': 45.2}",1,100.0,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273065,"{'05': 95.2, '45': 22.2, '36': 20.9, '12A': 19.7, '46': 19.6}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261875,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309875,"{'19A': 99.2, '19A-III': 99.0, '19A-I': 86.1, '19A-II': 83.8, '19AF': 57.2}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027725,"{'15C': 93.9, '15B': 93.8, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273085,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001100825,"{'14': 94.9, '36': 25.9, '09L': 24.9, '15B': 24.3, '15C': 24.2}",1,94.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218885,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.2, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001143905,"{'06A-III': 99.8, '06B-I': 98.2, '06B-II': 91.1, '06A': 90.8, '06A-V': 90.2}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293945,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262235,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001154005,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268065,"{'01': 98.8, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001131545,"{'20': 86.4, '36': 27.7, '13': 25.6, '09L': 25.0, '47F': 24.6}",1,86.4,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275685,"{'19F-II': 99.3, '19F': 95.1, '19F-III': 94.1, '19F-I': 93.8, '19F-IV': 93.3}",1,99.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001120745,"{'34': 92.9, '33F2': 34.7, '35B': 31.1, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001091825,"{'22F': 87.0, '22A': 71.4, '06A': 39.6, '06A-III': 39.5, '06A-I': 39.4}",1,87.0,,22F,,,{},{},22F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317435,"{'21': 91.7, '22F': 36.8, '06A-IV': 31.6, '06A-II': 31.2, '06A-VI': 31.2}",1,91.7,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001198935,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249095,"{'19A-I': 99.2, '19A-II': 97.5, '19A': 87.8, '19A-III': 87.6, '19AF': 61.8}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225585,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001152965,"{'19B': 95.7, '19C': 70.0, '19F-II': 53.9, '19F-I': 53.1, '19F': 53.0}",1,95.7,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001133185,"{'17F': 99.8, '06B': 44.5, '06B-I': 43.8, '06D': 43.7, '06A-III': 43.7}",1,99.8,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191685,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 13.3}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170025,"{'14': 92.7, '36': 28.3, '09L': 25.4, '09N': 24.2, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269095,"{'14': 93.7, '36': 25.9, '09L': 25.0, '09N': 24.4, '15B': 23.8}",1,93.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294575,"{'06E': 99.8, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021855,"{'18C': 93.7, '18B': 93.6, '18F': 75.6, '18A': 62.7, '16F': 39.6}",1,93.7,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280105,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307005,"{'34': 98.7, '33F2': 35.2, '35B': 33.6, '33F': 29.9, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342805,"{'23F': 94.0, '23A': 63.5, '28A': 48.3, '23B': 47.0, '06A-III': 46.2}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298015,"{'18A': 99.9, '18B': 53.9, '18C': 53.9, '18F': 53.4, '19F-IV': 37.3}",1,99.9,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330235,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274315,"{'06D': 86.8, '06C': 84.9, '06C-I': 84.9, '06A-I': 75.4, '06B': 75.3}",1,86.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189475,"{'15C': 93.8, '15B': 93.7, '15A': 62.1, '15F': 48.6, '23A': 32.9}",1,93.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043115,"{'19AF': 0.4, '05': 0.2, '10C': 0.2, '10F': 0.2, '16A': 0.2}",1,0.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193705,"{'06A': 100.0, '06A-IV': 99.6, '06B-II': 95.4, '06A-V': 93.7, '06A-III': 91.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001153905,"{'06A': 89.7, '06A-III': 89.0, '06B-I': 87.7, '06B-II': 87.5, '06A-II': 87.0}",1,89.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017385,"{'08': 99.6, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.6,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290255,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000279085,"{'08': 98.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,98.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001108165,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310045,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267495,"{'06C-I': 88.8, '06C': 88.6, '06D': 86.9, '06A-I': 77.7, '06B': 77.4}",1,88.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266135,"{'09N': 99.9, '09L': 88.9, '09A': 32.7, '09V': 32.7, '36': 32.4}",1,99.9,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328355,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286935,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214995,"{'38': 89.5, '25F': 85.8, '25A': 84.8, '36': 10.9, '01': 7.6}",1,89.5,25F_25A_38,25F_25A_38,,"[[0], [18]]","{'wcyD': ['b: 22.59'], 'wcyV': 4.69}","{'wcyD': 0, 'wcyV': 'not_detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021335,"{'23B': 99.5, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.8}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342575,"{'16F': 71.5, '28F': 43.1, '28A': 40.6, '18F': 33.6, '18A': 32.9}",1,71.5,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023225,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047765,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019695,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001144085,"{'14': 89.9, '36': 29.0, '09L': 23.3, '09N': 22.2, '19F-II': 22.2}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223185,"{'34': 95.7, '33F2': 35.6, '35B': 34.2, '33F': 30.4, '35C': 29.1}",1,95.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262385,"{'13': 83.2, '36': 32.9, '14': 27.2, '15B': 26.6, '15C': 26.2}",1,83.2,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001343555,"{'37': 98.8, '33F': 77.5, '33A': 76.2, '33F2': 71.1, '35B': 31.1}",1,98.8,,37,,,{},{},37,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001120225,"{'06E': 100.0, '06B-III': 98.6, '06B-I': 46.3, '06A-III': 45.8, '06A-II': 44.8}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294545,"{'13': 83.3, '36': 28.9, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_902653015,"{'01': 99.6, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.6,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329085,"{'22F': 94.0, '22A': 70.2, '06A-II': 45.3, '06A-VI': 45.2, '06B-I': 45.2}",1,94.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191125,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.5, '20': 8.0}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239895,"{'03': 97.7, '01': 17.8, '20': 15.5, '09N': 15.3, '09L': 15.1}",1,97.7,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307675,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A': 46.2}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342395,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030145,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338215,"{'35B': 91.5, '33F': 32.3, '34': 31.4, '33B': 31.1, '33A': 30.6}",1,91.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256785,"{'19A': 99.5, '19A-III': 99.3, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,99.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063735,"{'15C': 89.6, '15B': 89.5, '15A': 62.5, '15F': 49.3, '23A': 31.0}",1,89.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313795,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282315,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000251705,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001159685,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031235,"{'22F': 99.0, '22A': 73.4, '06A': 42.5, '06B': 42.0, '06A-II': 41.8}",1,99.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320095,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228405,"{'01': 99.2, '19F': 32.2, '19F-I': 31.7, '19F-III': 31.5, '19F-II': 31.2}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224815,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231915,"{'11D': 99.5, '11A': 96.7, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,99.5,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001094165,"{'06A-III': 99.8, '06B-I': 98.2, '06B-II': 91.1, '06A': 90.8, '06A-V': 90.2}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317895,"{'01': 99.5, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019399105,"{'06A': 89.0, '06A-III': 88.2, '06B-I': 86.9, '06B-II': 86.7, '06A-II': 86.2}",1,89.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239105,"{'15C': 87.6, '15B': 87.5, '15A': 64.4, '15F': 49.8, '23A': 30.0}",1,87.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280815,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285175,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237455,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.9, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304365,"{'14': 95.0, '36': 26.3, '09L': 25.4, '09N': 24.5, '15B': 24.3}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302545,"{'15C': 87.6, '15B': 87.5, '15A': 64.4, '15F': 49.8, '23A': 30.1}",1,87.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338145,"{'23A': 97.4, '23F': 68.7, '23B': 40.0, '19F-II': 39.3, '15B': 39.1}",1,97.4,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287545,"{'19F-II': 99.3, '19F': 95.1, '19F-III': 94.1, '19F-I': 93.8, '19F-IV': 93.2}",1,99.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326505,"{'15C': 96.1, '15B': 96.0, '15A': 61.5, '15F': 47.8, '23A': 34.9}",1,96.1,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325365,"{'07A': 90.5, '07F': 90.3, '19F-II': 43.3, '19F': 41.8, '19F-IV': 41.7}",1,90.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275055,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193715,"{'21': 100.0, '22F': 35.2, '06A-IV': 34.0, '06A-II': 33.3, '06A-VI': 33.2}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028355,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337215,"{'33B': 89.8, '33D': 89.7, '35B': 33.7, '33F2': 30.0, '22F': 26.9}",1,89.8,,"Mixed serotypes- {'33B', '33D'}",,,{},{},"Mixed serotypes- {'33B', '33D'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001095985,"{'35B': 99.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_909594695,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346555,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_015006635,"{'23F': 92.5, '23A': 61.2, '28A': 48.1, '23B': 46.7, '06A-IV': 46.5}",1,92.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246255,"{'23F': 92.4, '23A': 61.1, '28A': 48.1, '23B': 46.6, '06A-IV': 46.6}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168235,"{'09A': 99.7, '09V': 99.5, '09N': 38.6, '09L': 36.7, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248345,"{'38': 90.2, '25F': 86.1, '25A': 85.1, '36': 11.9, '20': 8.3}",1,90.2,25F_25A_38,25F_25A_38,,"[[0], [18]]","{'wcyD': ['b: 22.59'], 'wcyV': 4.69}","{'wcyD': 0, 'wcyV': 'not_detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339655,"{'22A': 94.2, '22F': 75.8, '06A-IV': 45.8, '06A-II': 44.1, '06B-I': 44.1}",1,94.2,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308715,"{'33F2': 100.0, '33F': 74.7, '33A': 70.3, '34': 41.7, '35B': 32.5}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251465,"{'34': 98.7, '33F2': 35.2, '35B': 33.5, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001129065,"{'36': 13.0, '20': 8.1, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",2,13.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330565,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001149725,"{'06E': 100.0, '06B-III': 97.3, '06B-I': 44.6, '06A-III': 44.1, '06B-II': 43.3}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265755,"{'19F-IV': 73.6, '19F-II': 73.4, '19F': 72.4, '19F-I': 71.7, '19F-III': 71.3}",1,73.6,,19F,,,{},{},19F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342555,"{'36': 10.9, '20': 7.1, '06A-IV': 7.1, '01': 5.8, '45': 5.8}",1,10.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270105,"{'19A': 99.4, '19A-III': 99.2, '19A-I': 86.1, '19A-II': 83.9, '19AF': 57.2}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335595,"{'19F-II': 99.5, '19F': 95.3, '19F-III': 94.3, '19F-I': 94.0, '19F-IV': 93.2}",1,99.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296375,"{'08': 98.0, '02': 24.4, '06A-IV': 23.3, '22F': 23.2, '06A': 22.9}",1,98.0,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313785,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295285,"{'06C-I': 88.8, '06C': 88.7, '06D': 86.6, '06A-I': 77.5, '06B': 77.2}",1,88.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223365,"{'14': 92.7, '36': 28.9, '09L': 25.6, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030265,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001203515,"{'18F': 79.7, '18B': 73.1, '18C': 73.1, '18A': 60.7, '16F': 45.5}",1,79.7,,"Mixed serotypes- {'18F', '18C/18B'}",,,{},{},"Mixed serotypes- {'18F', '18C/18B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237765,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033795,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001131265,"{'14': 94.6, '36': 26.0, '09L': 24.8, '15B': 24.2, '09N': 24.1}",1,94.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340905,"{'14': 93.0, '36': 27.3, '09L': 25.8, '09N': 25.5, '15B': 24.3}",1,93.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334735,"{'09N': 100.0, '09L': 89.1, '09A': 32.7, '09V': 32.7, '36': 32.3}",1,100.0,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019397505,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027765,"{'22F': 99.0, '22A': 73.3, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001132945,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259115,"{'03': 98.2, '01': 18.0, '09N': 15.7, '20': 15.6, '09L': 15.5}",1,98.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225875,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053915,"{'09L': 99.0, '09N': 88.8, '36': 31.8, '09A': 31.4, '09V': 31.4}",1,99.0,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242875,"{'16F': 71.7, '28F': 43.2, '28A': 40.7, '18F': 33.7, '18A': 33.1}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304485,"{'07C': 94.0, '07B': 77.1, '40': 76.7, '24B': 48.6, '24F': 47.6}",1,94.0,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267355,"{'05': 95.0, '45': 22.4, '36': 21.8, '20': 20.4, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232725,"{'01': 99.5, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315655,"{'21': 99.3, '22F': 35.9, '06A-IV': 30.9, '06B': 30.2, '06A': 30.1}",1,99.3,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305935,"{'05': 95.3, '45': 22.8, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261965,"{'01': 99.1, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280255,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340815,"{'14': 93.0, '36': 27.3, '09L': 25.8, '09N': 25.5, '15B': 24.3}",1,93.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_007785425,"{'01': 6.9, '45': 5.9, '25F': 5.7, '20': 5.5, '25A': 5.5}",3,6.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263775,"{'09A': 99.4, '09V': 99.2, '09N': 37.6, '09L': 36.9, '06A-IV': 27.3}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280235,"{'18C': 88.5, '18B': 88.4, '18F': 77.8, '18A': 61.5, '16F': 37.6}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001149965,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306485,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260995,"{'09A': 99.4, '09V': 99.2, '09N': 38.5, '09L': 36.5, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283055,"{'11D': 99.8, '11A': 97.0, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,99.8,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316595,"{'36': 10.5, '23B1': 6.7, '06A-IV': 6.7, '45': 6.6, '20': 6.0}",1,10.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331885,"{'18C': 85.3, '18B': 85.2, '18F': 78.5, '18A': 62.1, '16F': 38.1}",1,85.3,,"Mixed serotypes- {'18F', '18C/18B'}",,,{},{},"Mixed serotypes- {'18F', '18C/18B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248045,"{'15C': 87.8, '15B': 87.7, '15A': 64.6, '15F': 50.0, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285635,"{'01': 99.6, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.6,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001116785,"{'23A': 97.6, '23F': 68.9, '23B': 40.1, '19F-II': 39.3, '15B': 38.7}",1,97.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281705,"{'03': 95.2, '01': 17.2, '36': 17.1, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001133725,"{'06A': 100.0, '06A-IV': 99.2, '06B-II': 95.0, '06A-V': 93.3, '06A-III': 91.3}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214805,"{'06A-II': 91.7, '06A-VI': 91.7, '06B-II': 89.4, '06A-V': 89.0, '06A-III': 87.4}",1,91.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 84.81']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282345,"{'23F': 96.8, '23A': 63.7, '23B': 48.0, '28A': 47.7, '06B-II': 46.1}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901343095,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001157885,"{'36': 13.0, '20': 8.1, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",1,13.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234105,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002888995,"{'35F': 80.2, '47F': 56.8, '35B': 27.0, '34': 21.0, '36': 18.4}",1,80.2,,35F,,,{},{},35F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240225,"{'18A': 99.9, '18B': 53.9, '18C': 53.9, '18F': 53.6, '19F-IV': 37.3}",1,99.9,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306575,"{'01': 98.6, '19F': 31.9, '19F-I': 31.4, '19F-III': 31.2, '19F-II': 30.9}",1,98.6,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289995,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.7, '06B-II': 35.1, '06A-V': 34.9}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001120485,"{'15C': 95.3, '15B': 95.1, '15A': 60.9, '15F': 47.3, '23A': 34.5}",1,95.3,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_008423535,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001336655,"{'36': 9.4, '25F': 6.9, '45': 6.8, '25A': 6.7, '20': 5.3}",1,9.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220655,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001201955,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321525,"{'14': 94.6, '36': 25.7, '09L': 25.4, '09N': 24.6, '15B': 24.2}",1,94.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260895,"{'03': 97.4, '01': 17.8, '09N': 15.4, '20': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267635,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055445,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257945,"{'19F-I': 97.9, '19F-II': 95.2, '19F-III': 95.1, '19F': 95.0, '19F-IV': 90.6}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288705,"{'01': 99.0, '19F': 32.0, '19F-I': 31.6, '19F-III': 31.3, '19F-II': 31.0}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341455,"{'05': 95.3, '45': 22.5, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_003990595,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033425,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263625,"{'11D': 80.2, '11A': 78.9, '11F': 45.2, '11B': 34.7, '11C': 31.0}",1,80.2,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304225,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321735,"{'04': 97.6, '45': 33.6, '12F': 23.6, '44': 23.4, '12A': 22.4}",1,97.6,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335035,"{'36': 10.7, '20': 5.9, '45': 5.8, '06B-I': 5.5, '06C': 5.4}",1,10.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001204055,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279045,"{'11F': 63.1, '11D': 40.3, '11A': 38.5, '35B': 27.5, '06A-III': 26.1}",1,63.1,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171655,"{'14': 91.2, '36': 28.6, '09L': 25.0, '15B': 24.2, '09N': 24.1}",1,91.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191705,"{'20': 99.4, '13': 26.1, '09L': 25.5, '09N': 24.7, '36': 24.5}",1,99.4,,20,,,{},{},20,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001329315,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310905,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287155,"{'06A-II': 98.9, '06A-VI': 98.9, '06B-II': 92.1, '06A-V': 91.3, '06A-III': 88.8}",1,98.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223285,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327445,"{'14': 94.2, '36': 26.1, '09L': 25.5, '09N': 24.5, '15B': 24.3}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001126965,"{'36': 10.9, '20': 8.0, '45': 6.7, '06B-I': 5.8, '23B1': 5.7}",1,10.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238715,"{'03': 97.4, '01': 17.9, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319795,"{'17F': 99.6, '06B': 44.3, '06B-I': 44.1, '06A-III': 44.0, '06D': 43.7}",1,99.6,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243785,"{'23F': 93.9, '23A': 63.4, '28A': 48.4, '23B': 46.9, '06A-III': 46.4}",1,93.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297875,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335655,"{'10A': 99.2, '10B': 67.1, '10C': 27.7, '10F': 18.1, '22F': 15.3}",1,99.2,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317015,"{'14': 93.4, '09L': 27.5, '36': 27.3, '09N': 25.3, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230905,"{'06C-I': 89.2, '06C': 89.1, '06D': 87.1, '06A-I': 77.9, '06B': 77.6}",1,89.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268135,"{'01': 98.7, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.7,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240395,"{'08': 99.7, '06A-II': 24.6, '06A-VI': 24.5, '02': 24.3, '06B-II': 24.0}",1,99.7,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300945,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342595,"{'04': 98.3, '45': 31.7, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001083225,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220815,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019545,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001089185,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028585,"{'06A-II': 100.0, '06A-VI': 100.0, '06B-II': 91.8, '06A-V': 91.0, '06A-III': 89.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347075,"{'14': 95.1, '36': 24.6, '15B': 24.3, '15C': 24.2, '09L': 23.7}",1,95.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251115,"{'20': 84.5, '47F': 26.5, '35A': 24.9, '09L': 24.7, '36': 24.6}",1,84.5,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900692745,"{'31': 99.8, '41A': 57.3, '41F': 49.0, '06A-II': 36.5, '06A-VI': 36.5}",1,99.8,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293195,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238255,"{'01': 99.3, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001196255,"{'25F': 6.9, '36': 6.8, '25A': 6.7, '45': 5.3, '01': 4.8}",1,6.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337835,"{'06E': 84.9, '06B-III': 84.4, '06B-I': 51.0, '06A-III': 50.4, '06A-V': 49.9}",1,84.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336095,"{'15A': 98.4, '15F': 73.6, '15C': 62.1, '15B': 62.0, '23F': 31.7}",1,98.4,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032165,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223355,"{'04': 99.2, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263395,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286305,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263415,"{'21': 91.7, '22F': 36.8, '06A-IV': 31.6, '06A-II': 31.2, '06A-VI': 31.2}",1,91.7,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320765,"{'17F': 99.8, '06B': 44.5, '06D': 43.7, '06A-I': 43.7, '06B-I': 43.4}",1,99.8,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300115,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259525,"{'04': 99.8, '45': 33.7, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053255,"{'12B': 94.6, '12F': 88.3, '12A': 86.5, '44': 85.8, '46': 84.1}",1,94.6,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[4]],"{'wciI': [1, 99.3]}",{'wciI': 1},12A/12B/44/46,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001208325,"{'34': 93.2, '33F2': 35.3, '35B': 31.8, '33F': 29.3, '33C': 28.8}",1,93.2,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168945,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285325,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222995,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230295,"{'13': 83.3, '36': 33.0, '14': 27.2, '15B': 26.7, '15C': 26.3}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341445,"{'24F2': 99.8, '24B': 88.6, '24F': 87.1, '24A': 71.3, '07B': 55.3}",1,99.8,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220475,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221295,"{'10B': 93.7, '10A': 69.9, '10F': 20.0, '10C': 18.7, '22F': 14.2}",1,93.7,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230215,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241385,"{'06A-II': 95.6, '06A-VI': 95.6, '06B-II': 89.4, '06A-V': 89.0, '06A-III': 88.5}",1,95.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030235,"{'07A': 99.6, '07F': 99.4, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.6,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259845,"{'19F-I': 97.3, '19F-II': 94.6, '19F-III': 94.6, '19F': 94.5, '19F-IV': 90.0}",1,97.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259665,"{'06A-V': 93.2, '06A-III': 90.2, '06A-II': 89.8, '06A-VI': 89.8, '06B-I': 89.4}",1,93.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304115,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284155,"{'07A': 97.4, '07F': 97.2, '19F-II': 36.7, '19F': 35.1, '19F-I': 35.0}",1,97.4,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001151765,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288615,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323365,"{'01': 99.2, '19F': 32.0, '19F-I': 31.5, '19F-III': 31.3, '19F-II': 31.0}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231625,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169205,"{'14': 93.1, '36': 27.0, '09L': 25.6, '09N': 25.1, '15B': 24.3}",1,93.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281665,"{'23F': 92.4, '23A': 61.1, '28A': 48.1, '23B': 46.4, '06A-IV': 46.4}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279705,"{'06E': 94.3, '06B-III': 94.0, '06B-I': 50.0, '06A-III': 49.5, '06A-II': 47.9}",1,94.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_902652885,"{'01': 99.8, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228605,"{'06A': 100.0, '06A-IV': 98.6, '06B-II': 94.7, '06A-V': 93.0, '06A-III': 90.8}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031765,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308195,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342825,"{'01': 7.3, '45': 6.0, '23B1': 6.0, '25F': 5.8, '36': 5.8}",3,7.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329325,"{'14': 94.3, '36': 26.2, '09L': 25.3, '09N': 24.5, '15B': 24.1}",1,94.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002081385,"{'06D': 91.3, '06C': 83.8, '06C-I': 83.8, '06A-III': 80.6, '06B-I': 80.5}",1,91.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 86.3']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191335,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020765,"{'10A': 99.7, '10B': 66.5, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,99.7,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334485,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248355,"{'09L': 99.4, '09N': 89.8, '36': 32.7, '09A': 31.5, '09V': 31.5}",1,99.4,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194805,"{'06A': 100.0, '06A-IV': 99.6, '06B-II': 95.4, '06A-V': 93.7, '06A-III': 91.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056415,"{'23A': 97.4, '23F': 68.7, '23B': 40.0, '19F-II': 39.3, '15B': 39.1}",1,97.4,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329465,"{'13': 98.9, '20': 29.0, '09L': 28.6, '09N': 28.2, '36': 28.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001136085,"{'36': 6.8, '45': 6.5, '25F': 6.3, '25A': 6.1, '20': 5.4}",1,6.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_005780045,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001130325,"{'19B': 91.7, '19C': 70.5, '19F-II': 49.3, '19F-IV': 49.3, '19F-I': 48.5}",1,91.7,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293075,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300545,"{'28A': 93.5, '28F': 93.2, '23F': 51.4, '16F': 44.8, '06A-III': 40.2}",1,93.5,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065145,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189665,"{'06A-II': 95.0, '06A-VI': 95.0, '06A-III': 88.1, '06B-I': 87.4, '06B-II': 87.4}",1,95.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225155,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229765,"{'14': 91.4, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347055,"{'06E': 99.9, '06B-III': 99.4, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.7}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335955,"{'06D': 99.1, '06C': 84.2, '06C-I': 84.2, '06A-III': 77.2, '06B-I': 77.1}",1,99.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 89.0']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346375,"{'06C': 85.2, '06C-I': 85.2, '06D': 84.2, '06A': 76.9, '06A-IV': 73.3}",1,85.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001086565,"{'06C-I': 87.3, '06C': 87.2, '06D': 84.6, '06A': 76.9, '06A-IV': 74.8}",1,87.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278875,"{'09A': 99.3, '09V': 99.1, '09N': 38.3, '09L': 36.4, '11F': 27.1}",1,99.3,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299395,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001200835,"{'10B': 99.5, '10A': 65.3, '10F': 20.1, '10C': 18.8, '47A': 12.6}",1,99.5,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324585,"{'01': 7.5, '45': 6.3, '25F': 5.8, '25A': 5.6, '22F': 5.0}",3,7.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225355,"{'14': 94.3, '36': 25.9, '09L': 25.2, '09N': 24.7, '15B': 24.3}",1,94.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312885,"{'17F': 93.8, '06A-III': 43.8, '06D': 43.6, '06B-I': 43.6, '06A-IV': 42.4}",1,93.8,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332005,"{'20': 97.3, '13': 26.0, '09L': 25.3, '09N': 24.7, '36': 24.6}",1,97.3,,20,,,{},{},20,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230465,"{'23B': 99.4, '23B1': 53.1, '23F': 46.0, '23A': 39.9, '06A-IV': 36.8}",1,99.4,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287295,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031885,"{'23F': 97.8, '23A': 63.3, '23B': 48.4, '28A': 48.3, '06A-IV': 47.1}",1,97.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231805,"{'19F': 97.4, '19F-I': 96.4, '19F-III': 95.6, '19F-II': 95.5, '19F-IV': 91.0}",1,97.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020140015,"{'35B': 99.8, '33F': 33.6, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334505,"{'06A-II': 95.3, '06A-VI': 95.3, '06B-II': 89.2, '06A-V': 88.8, '06A-III': 88.2}",1,95.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214595,"{'05': 95.3, '45': 21.8, '36': 21.7, '20': 20.3, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229435,"{'01': 99.3, '19F': 32.5, '19F-I': 32.1, '19F-III': 31.8, '19F-II': 31.5}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029715,"{'18C': 99.8, '18B': 99.7, '18F': 75.7, '18A': 62.5, '16F': 39.2}",1,99.8,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170375,"{'14': 91.7, '36': 28.7, '09L': 25.6, '09N': 24.4, '15B': 23.9}",1,91.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288875,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191775,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308685,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244415,"{'34': 90.3, '33F2': 35.6, '35B': 35.0, '33F': 32.1, '33C': 31.6}",1,90.3,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001122665,"{'23B': 99.0, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.1}",1,99.0,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292605,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900048805,"{'19A': 99.5, '19A-III': 99.3, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,99.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270625,"{'14': 92.7, '36': 28.8, '09L': 25.7, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021235,"{'19A-II': 100.0, '19A-I': 96.6, '19A': 85.0, '19A-III': 84.8, '19AF': 62.1}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296265,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270565,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285865,"{'06A': 99.9, '06A-IV': 99.5, '06B-II': 95.3, '06A-V': 93.6, '06A-III': 91.6}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300975,"{'15C': 87.6, '15B': 87.5, '15A': 64.4, '15F': 49.8, '23A': 30.0}",1,87.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299135,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293385,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222965,"{'35B': 99.3, '33F': 33.6, '34': 33.3, '35C': 33.3, '35A': 32.9}",1,99.3,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254365,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000252085,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255715,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341235,"{'33B': 89.8, '33D': 89.7, '35B': 33.1, '33F2': 30.3, '22F': 26.8}",1,89.8,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001154525,"{'18C': 88.6, '18B': 88.5, '18F': 78.1, '18A': 60.9, '16F': 37.9}",1,88.6,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332715,"{'09A': 99.6, '09V': 99.4, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.6,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901212985,"{'19F': 96.8, '19F-I': 95.8, '19F-III': 95.3, '19F-II': 94.9, '19F-IV': 90.7}",1,96.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327825,"{'19AF': 97.1, '19A-II': 61.5, '19A-I': 60.9, '19A': 52.1, '19A-III': 51.9}",1,97.1,19A_19AF,19A_19AF,,[[7]],"{'wzy': [2, 92.87]}",{'wzy': 2},19A_19AF,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001203775,"{'36': 10.6, '06A-IV': 7.1, '20': 6.2, '06B-I': 5.9, '06C': 5.8}",1,10.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273375,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272915,"{'05': 95.3, '45': 22.3, '36': 21.6, '20': 20.1, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214375,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585625,"{'12F': 96.8, '44': 93.5, '12B': 92.8, '12A': 80.6, '46': 77.5}",1,96.8,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288515,"{'01': 99.6, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.6,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321965,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.8, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_909594515,"{'14': 92.7, '36': 29.0, '09L': 25.6, '09N': 24.4, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317805,"{'14': 93.4, '36': 27.3, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335595,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318175,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585845,"{'12F': 96.6, '44': 93.3, '12B': 92.6, '12A': 80.3, '46': 77.2}",1,96.6,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191035,"{'06A': 99.6, '06A-IV': 99.2, '06B-II': 94.6, '06A-V': 93.0, '06A-III': 91.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250585,"{'18C': 99.4, '18B': 99.3, '18F': 76.0, '18A': 62.8, '16F': 39.4}",1,99.4,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278685,"{'14': 94.4, '36': 29.2, '09L': 25.5, '09N': 24.8, '15B': 24.0}",1,94.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024495,"{'06B-I': 99.7, '06A-III': 97.6, '06B-II': 90.2, '06A': 89.8, '06A-V': 88.3}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323355,"{'15C': 95.2, '15B': 95.1, '15A': 60.8, '15F': 47.3, '23A': 34.0}",1,95.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900034995,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223525,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234845,"{'04': 98.2, '45': 33.8, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001088725,"{'06C-I': 89.0, '06C': 88.9, '06D': 86.9, '06A-I': 78.0, '06B': 77.7}",1,89.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 94.1]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253345,"{'18C': 99.5, '18B': 99.4, '18F': 76.0, '18A': 62.9, '16F': 39.5}",1,99.5,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001159045,"{'23F': 94.0, '23A': 63.5, '06A-IV': 49.5, '06A-III': 48.7, '06B-I': 48.7}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194565,"{'11D': 99.8, '11A': 97.1, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,99.8,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342655,"{'14': 92.2, '36': 26.1, '09L': 25.3, '09N': 24.1, '15B': 24.0}",1,92.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585675,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900038185,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018805,"{'03': 95.2, '01': 17.1, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221915,"{'06A-I': 99.2, '06B': 94.9, '06A': 87.7, '06A-V': 86.0, '06A-III': 82.1}",1,99.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255895,"{'05': 95.3, '45': 22.3, '36': 21.8, '20': 20.1, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252585,"{'01': 99.1, '19F': 32.0, '19F-I': 31.5, '19F-III': 31.3, '19F-II': 31.0}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026245,"{'31': 99.5, '41A': 57.2, '41F': 48.9, '22F': 36.3, '06A-II': 36.2}",1,99.5,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001130005,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268815,"{'03': 95.2, '36': 17.1, '01': 17.0, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221725,"{'15C': 96.2, '15B': 96.1, '15A': 61.5, '15F': 47.8, '23A': 34.7}",1,96.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236375,"{'06A-II': 85.7, '06A-VI': 85.7, '06A-III': 85.6, '06A-V': 85.0, '06B-I': 84.2}",1,85.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269075,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.7}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253255,"{'23F': 92.4, '23A': 61.1, '28A': 48.1, '23B': 46.6, '06A-IV': 46.6}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232095,"{'06B-III': 92.9, '06E': 92.6, '06A-II': 51.1, '06A-VI': 51.1, '06B-I': 50.4}",1,92.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001207825,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287185,"{'14': 92.7, '36': 28.9, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027225,"{'11D': 99.8, '11A': 97.0, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,99.8,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332795,"{'23F': 94.0, '23A': 63.5, '28A': 48.3, '23B': 47.0, '06A-III': 46.2}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001097445,"{'08': 98.0, '02': 24.4, '06A-IV': 23.3, '06A': 22.9, '06A-II': 22.3}",1,98.0,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023455,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305405,"{'23F': 78.4, '23A': 58.1, '23B': 52.1, '28A': 39.2, '28F': 36.6}",1,78.4,,23F,,,{},{},23F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300315,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300975,"{'35B': 99.6, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.6,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264055,"{'14': 93.0, '36': 27.3, '09L': 25.8, '09N': 25.5, '15B': 24.3}",1,93.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321465,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257565,"{'06A-II': 95.6, '06A-VI': 95.6, '06B-II': 89.5, '06A-V': 89.1, '06A-III': 88.6}",1,95.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019575,"{'06B-I': 99.5, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287335,"{'33F2': 99.8, '33F': 74.6, '33A': 70.3, '34': 41.5, '35B': 32.5}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001171485,"{'06D': 95.4, '06C': 87.5, '06C-I': 87.5, '06B-I': 75.6, '06A-III': 75.2}",1,95.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 89.0']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291675,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277825,"{'07C': 98.7, '07B': 76.9, '40': 76.3, '24B': 48.5, '24F': 48.2}",1,98.7,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312905,"{'01': 98.9, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900692835,"{'04': 99.8, '45': 34.0, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260555,"{'06C-I': 84.2, '06C': 84.1, '06D': 82.9, '06A-I': 78.0, '06B': 77.7}",1,84.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218015,"{'08': 99.7, '06A-II': 24.9, '06A-VI': 24.8, '02': 24.4, '06B-II': 24.3}",1,99.7,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281465,"{'23F': 78.4, '23A': 58.1, '23B': 52.1, '28A': 39.2, '28F': 36.6}",1,78.4,,23F,,,{},{},23F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305955,"{'01': 99.2, '19F': 32.1, '19F-I': 31.7, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065155,"{'19A': 99.2, '19A-III': 99.0, '19A-I': 86.1, '19A-II': 83.8, '19AF': 57.1}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330735,"{'24F2': 99.6, '24B': 88.5, '24F': 87.0, '24A': 71.1, '07B': 55.3}",1,99.6,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242315,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.4, '06A-II': 45.4}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230965,"{'15C': 87.7, '15B': 87.6, '15A': 60.9, '15F': 48.0, '23A': 31.3}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339255,"{'03': 75.1, '20': 8.2, '01': 7.5, '36': 7.3, '22F': 6.7}",1,75.1,,3,,,{},{},3,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001137785,"{'35B': 98.3, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,98.3,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314225,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319435,"{'04': 99.8, '45': 33.7, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241925,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001144685,"{'33B': 89.8, '33D': 89.7, '35B': 32.8, '33F2': 30.0, '35C': 26.2}",1,89.8,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001157585,"{'01': 94.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,94.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288115,"{'09A': 96.0, '09V': 95.8, '09N': 38.7, '09L': 37.5, '11F': 26.7}",1,96.0,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273965,"{'36': 10.8, '06A-IV': 6.7, '45': 6.6, '23B1': 6.6, '20': 6.0}",1,10.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169915,"{'14': 92.5, '36': 28.5, '09L': 24.3, '15B': 24.1, '15C': 24.0}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231365,"{'19F': 93.9, '19F-I': 93.7, '19F-III': 92.5, '19F-IV': 91.4, '19F-II': 91.3}",1,93.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055465,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325875,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001404015,"{'20': 5.0, '22F': 5.0, '45': 4.9, '25F': 4.8, '25A': 4.7}",2,5.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026695,"{'16F': 96.7, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001127725,"{'23F': 94.6, '23A': 63.7, '28A': 47.7, '23B': 47.0, '06A': 46.4}",1,94.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339755,"{'01': 99.3, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339075,"{'13': 98.9, '09L': 28.7, '09N': 28.7, '20': 28.4, '36': 28.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317575,"{'20': 99.5, '13': 26.1, '09L': 25.3, '36': 25.0, '09N': 24.7}",1,99.5,,20,,,{},{},20,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234865,"{'07A': 98.8, '07F': 98.6, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,98.8,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329375,"{'23F': 94.7, '23A': 63.8, '28A': 47.8, '23B': 47.1, '06A': 46.6}",1,94.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322175,"{'06A-II': 95.3, '06A-VI': 95.3, '06B-II': 89.2, '06A-V': 88.8, '06A-III': 88.2}",1,95.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302575,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335475,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001990165,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001106005,"{'16F': 97.7, '28F': 42.9, '18F': 41.1, '19F-IV': 40.9, '18A': 40.8}",1,97.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019655,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339195,"{'20': 85.9, '36': 27.3, '13': 25.6, '09L': 24.6, '47F': 24.6}",1,85.9,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020935,"{'22F': 98.5, '22A': 73.4, '06A': 42.6, '06A-II': 41.9, '06B-II': 41.9}",1,98.5,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049825,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280975,"{'01': 99.4, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232385,"{'06A': 100.0, '06A-IV': 98.6, '06B-II': 94.7, '06A-V': 93.0, '06A-III': 90.8}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234205,"{'18C': 93.6, '18B': 93.5, '18F': 75.5, '18A': 62.6, '16F': 39.5}",1,93.6,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278675,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339775,"{'10B': 99.2, '10A': 65.2, '10F': 20.0, '10C': 18.8, '22F': 14.1}",1,99.2,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001330195,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.7, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270715,"{'20': 84.7, '47F': 26.6, '35A': 24.9, '09L': 24.7, '09N': 23.7}",1,84.7,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171195,"{'14': 92.2, '36': 28.9, '09L': 25.5, '09N': 24.4, '15B': 23.9}",1,92.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264285,"{'34': 92.3, '33F2': 34.9, '35B': 31.9, '33F': 29.1, '33C': 28.4}",1,92.3,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900618585,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253405,"{'35A': 94.4, '35C': 89.7, '42': 89.1, '33A': 46.4, '33F': 45.9}",1,94.4,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229105,"{'14': 99.6, '09L': 27.0, '36': 26.7, '09N': 24.8, '15B': 24.1}",1,99.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275125,"{'13': 98.9, '20': 29.0, '09L': 28.6, '09N': 28.2, '36': 28.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019625,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028645,"{'23F': 99.2, '23A': 65.4, '23B': 49.0, '28A': 48.1, '06A-IV': 47.3}",1,99.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220445,"{'28A': 99.5, '28F': 92.4, '23F': 49.6, '16F': 43.7, '06B-I': 39.2}",1,99.5,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001334735,"{'01': 7.4, '36': 6.7, '20': 6.3, '06A-IV': 6.3, '45': 4.9}",2,7.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273645,"{'23B': 77.3, '23B1': 62.3, '06A-IV': 38.9, '06A-V': 37.1, '06B-II': 37.0}",1,77.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001343435,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329355,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.8, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238725,"{'19F-I': 97.7, '19F': 97.0, '19F-III': 96.5, '19F-II': 95.0, '19F-IV': 90.1}",1,97.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238225,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019670835,"{'13': 98.8, '20': 28.6, '09L': 28.4, '09N': 28.1, '14': 26.9}",1,98.8,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001104765,"{'03': 95.2, '36': 17.1, '20': 15.4, '09N': 14.2, '01': 13.9}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292335,"{'06A-I': 97.8, '06B': 93.8, '06A-V': 88.8, '06A': 86.9, '06A-III': 85.3}",1,97.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336895,"{'04': 99.8, '45': 33.4, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335865,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169085,"{'09A': 99.0, '09V': 98.8, '09N': 37.0, '09L': 35.6, '11F': 26.4}",1,99.0,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238855,"{'06A-II': 97.8, '06A-VI': 97.8, '06B-II': 90.3, '06A-V': 89.5, '06A-III': 89.1}",1,97.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001860955,"{'22F': 98.9, '22A': 73.3, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,98.9,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340555,"{'13': 98.9, '09N': 29.1, '20': 28.9, '09L': 28.7, '36': 28.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189035,"{'06B-I': 99.2, '06A-III': 97.0, '06B-II': 89.8, '06A': 89.7, '06A-V': 87.9}",1,99.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250985,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.8, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901343015,"{'01': 7.0, '36': 6.3, '45': 5.9, '25F': 5.7, '25A': 5.5}",2,7.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303295,"{'21': 99.3, '22F': 35.7, '06A-IV': 30.9, '06B': 30.2, '06A': 30.1}",1,99.3,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341195,"{'21': 92.2, '22F': 35.5, '06A-IV': 34.3, '06A-II': 34.0, '06A-VI': 34.0}",1,92.2,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275085,"{'09A': 99.4, '09V': 99.2, '09N': 37.6, '09L': 36.9, '06A-IV': 27.2}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280635,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324425,"{'12F': 96.1, '44': 93.1, '12B': 93.0, '12A': 84.5, '46': 81.4}",1,96.1,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001137485,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215815,"{'35F': 98.9, '47F': 74.4, '34': 26.6, '35B': 26.2, '29': 22.3}",1,98.9,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286175,"{'14': 93.0, '36': 27.3, '09L': 25.8, '09N': 25.5, '15B': 24.3}",1,93.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224885,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900037115,"{'23F': 99.3, '23A': 65.1, '23B': 47.8, '28A': 47.7, '06A-V': 45.7}",1,99.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001203415,"{'06E': 100.0, '06B-III': 99.2, '06B-I': 47.0, '06A-III': 46.1, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303895,"{'19B': 93.1, '19C': 71.5, '19F-IV': 51.3, '19F-II': 50.4, '19F-I': 49.7}",1,93.1,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295785,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 89.6, '06A': 87.7, '06A-III': 86.1}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019399265,"{'12F': 96.1, '44': 93.0, '12B': 92.7, '12A': 85.1, '46': 82.0}",1,96.1,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217055,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194625,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247505,"{'06C-I': 89.0, '06C': 88.9, '06D': 86.7, '06A-I': 77.8, '06B': 77.5}",1,89.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 94.1]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314135,"{'03': 95.2, '01': 18.2, '36': 17.4, '20': 16.1, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900064065,"{'16F': 91.1, '28F': 37.0, '18A': 34.5, '18F': 34.5, '28A': 34.4}",1,91.1,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001152905,"{'48': 98.8, '24A': 46.9, '24B': 39.5, '24F': 39.1, '24F2': 37.5}",1,98.8,,48,,,{},{},48,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329965,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300395,"{'03': 75.1, '20': 7.9, '01': 7.2, '36': 7.1, '22F': 6.8}",1,75.1,,3,,,{},{},3,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342845,"{'17F': 82.5, '06A-III': 43.3, '06B-I': 43.3, '06C': 42.2, '06A-I': 42.2}",1,82.5,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233405,"{'16F': 95.4, '28F': 41.7, '18F': 41.5, '28A': 40.1, '19F-II': 39.9}",1,95.4,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273455,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294885,"{'19F-III': 100.0, '19F': 98.0, '19F-I': 97.3, '19F-II': 94.8, '19F-IV': 89.5}",1,100.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226135,"{'18C': 99.8, '18B': 99.7, '18F': 75.7, '18A': 62.3, '16F': 39.2}",1,99.8,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311435,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019445775,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189655,"{'34': 93.0, '33F2': 34.6, '35B': 31.7, '33F': 29.0, '33C': 28.0}",1,93.0,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055765,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305545,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330925,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217865,"{'06B-III': 87.4, '06E': 87.0, '06A-V': 53.1, '06B-I': 52.7, '06B-II': 52.7}",1,87.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235735,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342675,"{'07C': 94.0, '07B': 77.1, '40': 76.7, '24B': 48.6, '24F': 47.6}",1,94.0,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242765,"{'06C-I': 92.3, '06C': 92.2, '06D': 84.5, '06B-I': 77.2, '06A-III': 76.7}",1,92.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260065,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027595,"{'15B': 94.2, '15C': 93.9, '15A': 64.6, '15F': 49.7, '14': 31.1}",1,94.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001860665,"{'22F': 99.0, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337805,"{'14': 91.4, '09L': 26.5, '36': 26.5, '09N': 26.2, '15B': 23.3}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585265,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279995,"{'23F': 96.7, '23A': 63.9, '23B': 48.0, '28A': 47.6, '06B-II': 46.0}",1,96.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328155,"{'22F': 92.2, '22A': 69.7, '06A-IV': 46.3, '06A-II': 44.7, '06B-I': 44.7}",1,92.2,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239085,"{'06B-I': 98.4, '06A-III': 96.2, '06A': 89.7, '06B-II': 88.8, '06A-V': 86.9}",1,98.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229475,"{'03': 95.2, '36': 17.4, '01': 16.8, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028995,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191285,"{'03': 95.2, '36': 16.8, '20': 15.8, '01': 15.5, '09L': 14.6}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282945,"{'14': 91.3, '19F-IV': 25.9, '36': 25.0, '09L': 24.8, '09N': 24.7}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311575,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.9, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313655,"{'15C': 95.6, '15B': 95.5, '15A': 61.2, '15F': 47.6, '23A': 34.5}",1,95.6,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268495,"{'06C-I': 92.2, '06C': 92.1, '06D': 85.2, '06B-I': 77.4, '06A-III': 77.0}",1,92.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 88.9']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265985,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295315,"{'12F': 96.7, '44': 93.4, '12B': 92.7, '12A': 80.4, '46': 77.3}",1,96.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222365,"{'21': 100.0, '22F': 36.0, '06A-IV': 33.0, '06A-II': 32.3, '06A-VI': 32.2}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001116505,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323405,"{'19A-I': 99.2, '19A-II': 97.5, '19A': 87.8, '19A-III': 87.6, '19AF': 61.8}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001160245,"{'06E': 100.0, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304105,"{'19A': 80.0, '19A-III': 79.8, '19A-I': 75.2, '19A-II': 73.0, '19AF': 49.8}",1,80.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055675,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242025,"{'19B': 95.6, '19C': 69.9, '19F-II': 53.9, '19F-I': 53.1, '19F': 53.0}",1,95.6,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032175,"{'03': 95.8, '20': 17.8, '01': 17.7, '36': 16.3, '09L': 16.1}",1,95.8,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001090625,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326125,"{'06C-I': 87.5, '06C': 87.4, '06D': 86.8, '06A-I': 77.8, '06B': 77.5}",1,87.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314065,"{'23F': 96.8, '23A': 63.7, '23B': 48.0, '28A': 47.7, '06B-II': 46.1}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000173215,"{'36': 10.7, '25F': 7.2, '25A': 7.0, '01': 6.7, '45': 6.4}",1,10.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233435,"{'19A-II': 93.8, '19A-I': 90.5, '19A': 78.9, '19A-III': 78.8, '19AF': 59.3}",1,93.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273995,"{'01': 99.5, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167225,"{'09A': 99.1, '09V': 98.9, '09N': 35.5, '09L': 34.9, '11F': 26.2}",1,99.1,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193105,"{'06B-I': 99.3, '06A-III': 97.2, '06B-II': 89.9, '06A': 89.7, '06A-V': 88.0}",1,99.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001329875,"{'06E': 100.0, '06B-III': 97.3, '06B-I': 44.6, '06A-III': 44.1, '06B-II': 43.3}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321915,"{'14': 99.8, '36': 26.7, '09L': 25.8, '09N': 24.4, '15B': 24.1}",1,99.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247145,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001136425,"{'06E': 99.9, '06B-III': 99.3, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 96.61]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168385,"{'09A': 99.7, '09V': 99.5, '09N': 38.1, '09L': 36.7, '35B': 26.7}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001102225,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272365,"{'10F': 98.1, '10C': 80.7, '10B': 22.4, '10A': 19.2, '22F': 15.7}",1,98.1,,10F,,,{},{},10F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001119205,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341775,"{'09A': 99.4, '09V': 99.2, '09N': 37.6, '09L': 36.9, '06A-IV': 27.3}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316245,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268055,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272935,"{'11D': 80.2, '11A': 78.9, '11F': 45.2, '11B': 34.7, '11C': 31.0}",1,80.2,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027255,"{'33F': 100.0, '33A': 97.5, '33F2': 70.9, '35C': 42.8, '42': 41.8}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269245,"{'15C': 87.6, '15B': 87.5, '15A': 64.4, '15F': 49.8, '23A': 30.0}",1,87.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305745,"{'14': 92.5, '36': 28.7, '09L': 25.7, '09N': 24.6, '15B': 24.1}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338355,"{'14': 91.2, '19F-IV': 25.9, '36': 25.2, '09L': 24.8, '09N': 24.3}",1,91.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299095,"{'10B': 99.8, '10A': 65.5, '10F': 20.1, '10C': 18.8, '22F': 14.0}",1,99.8,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325495,"{'06A-III': 94.7, '06B-I': 93.3, '06A': 90.2, '06A-IV': 89.4, '06B-II': 89.3}",1,94.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001084905,"{'23B1': 99.9, '23B': 55.8, '19A-II': 36.2, '19A-I': 35.9, '19AF': 31.7}",1,99.9,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335235,"{'05': 95.3, '45': 22.6, '36': 21.5, '20': 20.3, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000278865,"{'09A': 99.7, '09V': 99.5, '09N': 38.1, '09L': 36.8, '06A-IV': 27.5}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344535,"{'45': 6.8, '01': 5.6, '25F': 5.6, '25A': 5.4, '22F': 4.9}",2,6.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001340195,"{'06E': 100.0, '06B-III': 96.0, '06B-I': 43.5, '06A-III': 43.0, '06A-I': 42.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001151025,"{'20': 5.4, '45': 4.8, '22F': 4.7, '25F': 4.6, '25A': 4.5}",1,5.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189675,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.4, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305715,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056095,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001860555,"{'22F': 99.0, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-I': 41.8}",1,99.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001150265,"{'34': 92.9, '33F2': 34.7, '35B': 31.6, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238455,"{'09A': 99.4, '09V': 99.2, '09N': 38.3, '09L': 36.5, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319705,"{'16F': 71.9, '28F': 43.4, '28A': 40.9, '18F': 33.9, '18A': 33.7}",1,71.9,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290645,"{'15C': 94.8, '15B': 94.7, '15A': 60.3, '15F': 46.9, '23A': 33.7}",1,94.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261605,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.7, '06B-II': 35.0, '06A-V': 34.8}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001203875,"{'06E': 100.0, '06B-III': 99.2, '06B-I': 46.7, '06A-III': 46.2, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265355,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335665,"{'24F2': 99.5, '24B': 88.3, '24F': 86.8, '24A': 70.8, '07B': 56.8}",1,99.5,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189805,"{'06C-I': 99.8, '06C': 99.6, '06D': 84.6, '06A-II': 79.4, '06A-VI': 79.4}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306415,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274555,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001105465,"{'12F': 99.8, '44': 94.9, '12B': 90.6, '12A': 85.4, '46': 82.3}",1,99.8,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052165,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213295,"{'14': 91.2, '19F-IV': 25.8, '36': 25.3, '09L': 24.7, '09N': 24.6}",1,91.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257905,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332545,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344355,"{'06B-III': 86.8, '06E': 86.5, '06B-I': 50.6, '06A-III': 50.2, '06C': 50.1}",1,86.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238575,"{'14': 92.6, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167795,"{'14': 92.8, '36': 27.2, '09L': 25.0, '15B': 24.3, '15C': 24.2}",1,92.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214205,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295035,"{'35B': 96.0, '33F': 30.6, '35C': 30.6, '35A': 30.4, '34': 30.3}",1,96.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235665,"{'23F': 93.9, '23A': 63.5, '28A': 48.4, '23B': 47.0, '06A-III': 46.4}",1,93.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241095,"{'06A-II': 95.3, '06A-VI': 95.3, '06B-II': 89.4, '06A-V': 89.0, '06A-III': 88.2}",1,95.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001088245,"{'01': 6.6, '45': 5.7, '20': 5.5, '25F': 5.5, '25A': 5.4}",2,6.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306855,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001194325,"{'25F': 5.9, '25A': 5.8, '45': 4.9, '36': 4.0, '22F': 3.9}",1,5.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031865,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022735,"{'23B': 99.5, '23B1': 64.6, '23F': 45.8, '23A': 40.0, '06A-IV': 36.9}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023095,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240195,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.8, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001157445,"{'23A': 96.6, '23F': 67.7, '23B': 45.9, '19F-II': 39.4, '15B': 38.5}",1,96.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241705,"{'18C': 88.2, '18B': 88.1, '18F': 77.7, '18A': 61.6, '16F': 37.5}",1,88.2,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001345575,"{'06A-II': 87.1, '06A-VI': 87.1, '06A': 86.0, '06A-IV': 85.0, '06A-V': 84.8}",1,87.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220505,"{'05': 95.2, '45': 22.2, '36': 21.7, '20': 19.9, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279405,"{'34': 98.5, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.5,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228205,"{'06A': 83.3, '06A-IV': 82.2, '06A-V': 81.8, '06B-II': 81.7, '06B-I': 81.5}",1,83.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 83.83']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346575,"{'23F': 94.5, '23A': 63.6, '28A': 47.7, '23B': 46.9, '06A': 46.4}",1,94.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341615,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282365,"{'14': 94.2, '36': 26.4, '09L': 25.4, '09N': 24.3, '15B': 24.3}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222885,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338805,"{'08': 99.8, '06A-II': 24.5, '02': 24.4, '06A-VI': 24.4, '06B-II': 23.9}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342235,"{'11D': 93.4, '11A': 92.2, '11F': 42.1, '11C': 34.8, '11B': 33.7}",1,93.4,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023925,"{'03': 95.2, '01': 17.3, '36': 17.1, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051825,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192325,"{'38': 99.5, '25F': 84.6, '25A': 83.6, '36': 11.7, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001088365,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341915,"{'06E': 99.6, '06B-III': 99.0, '06B-I': 46.4, '06A-III': 45.9, '06A-II': 45.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215035,"{'14': 91.2, '19F-IV': 25.9, '36': 25.0, '09L': 24.8, '09N': 24.7}",1,91.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319095,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316345,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232335,"{'01': 7.1, '36': 6.8, '25F': 6.7, '25A': 6.5, '45': 6.5}",3,7.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057895,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243105,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 89.4, '06A': 87.7, '06A-III': 86.0}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225345,"{'06C-I': 92.6, '06C': 92.5, '06D': 84.4, '06B-I': 77.6, '06A-III': 77.0}",1,92.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900459665,"{'23B1': 99.5, '23B': 55.3, '19A-II': 35.8, '19A-I': 35.5, '19AF': 31.3}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047925,"{'23B': 99.5, '23B1': 64.6, '23F': 45.8, '23A': 40.0, '06A-IV': 36.9}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283455,"{'16F': 71.7, '28F': 43.6, '28A': 40.8, '18F': 33.9, '18A': 33.6}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217345,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319275,"{'23F': 96.2, '23A': 66.1, '28A': 47.4, '23B': 47.1, '06A': 46.0}",1,96.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324885,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286595,"{'03': 97.5, '01': 17.8, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.5,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341285,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.9, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001148505,"{'06E': 100.0, '06B-III': 99.1, '06B-I': 46.7, '06A-III': 46.2, '06A-II': 45.2}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298505,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900195065,"{'24F2': 99.7, '24B': 88.5, '24F': 87.0, '24A': 71.3, '07B': 55.2}",1,99.7,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032845,"{'33F2': 99.9, '33F': 74.7, '33A': 70.3, '34': 41.6, '35B': 32.5}",1,99.9,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194025,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328125,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 94.0, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330955,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260705,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253135,"{'14': 93.4, '36': 27.3, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270015,"{'09A': 99.4, '09V': 99.2, '09N': 38.5, '09L': 36.5, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242945,"{'06A-II': 97.9, '06A-VI': 97.9, '06B-II': 90.4, '06A-V': 89.6, '06A-III': 89.2}",1,97.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337275,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001092425,"{'36': 12.2, '20': 7.8, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",2,12.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225405,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.7, '06B-II': 35.1, '06A-V': 34.9}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332195,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270915,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338925,"{'16F': 73.0, '28F': 44.9, '28A': 42.1, '18F': 35.8, '18A': 35.1}",1,73.0,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247215,"{'06E': 99.9, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214865,"{'05': 95.3, '45': 22.1, '36': 21.8, '20': 20.3, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317125,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277685,"{'06A-III': 94.8, '06B-I': 93.4, '06A': 90.3, '06A-IV': 89.5, '06B-II': 89.4}",1,94.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230395,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314785,"{'06B-III': 77.2, '06E': 75.4, '06A-III': 64.2, '06B-I': 63.6, '06A-V': 63.1}",1,77.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001097685,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320315,"{'06A-II': 95.4, '06A-VI': 95.4, '06B-II': 89.4, '06A-V': 89.0, '06A-III': 88.3}",1,95.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900037055,"{'19F-I': 91.3, '19F-III': 88.9, '19F': 88.3, '19F-II': 85.9, '19F-IV': 85.8}",1,91.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308535,"{'15C': 87.8, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235245,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900058085,"{'09L': 94.7, '09N': 85.6, '09A': 31.5, '09V': 31.5, '36': 30.1}",1,94.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304815,"{'35A': 99.9, '35C': 85.2, '42': 84.6, '33A': 42.9, '33F': 42.6}",1,99.9,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001142725,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251165,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900692995,"{'18C': 88.5, '18B': 88.4, '18F': 77.8, '18A': 61.5, '16F': 37.6}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029945,"{'03': 95.2, '01': 17.3, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309035,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316745,"{'01': 99.2, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256175,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.4, '06B-II': 34.6, '06A-V': 34.4}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274575,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272535,"{'14': 95.0, '36': 26.2, '09L': 25.5, '09N': 24.7, '15B': 24.3}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215195,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215005,"{'08': 99.5, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.5,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226605,"{'19F-II': 98.6, '19F': 94.4, '19F-III': 93.4, '19F-I': 93.1, '19F-IV': 93.0}",1,98.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020165,"{'06B-I': 99.7, '06A-III': 97.6, '06B-II': 90.3, '06A': 89.8, '06A-V': 88.4}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266235,"{'06C-I': 92.4, '06C': 92.3, '06D': 84.5, '06B-I': 77.3, '06A-III': 76.7}",1,92.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274615,"{'07C': 93.9, '07B': 77.0, '40': 76.7, '24B': 48.6, '24F': 47.6}",1,93.9,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257885,"{'21': 91.7, '22F': 36.8, '06A-IV': 31.6, '06A-II': 31.2, '06A-VI': 31.2}",1,91.7,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310545,"{'15C': 95.7, '15B': 95.6, '15A': 61.2, '15F': 47.6, '23A': 34.6}",1,95.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900199235,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238085,"{'16F': 71.7, '28F': 43.2, '28A': 40.7, '18F': 33.7, '18A': 33.5}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191755,"{'03': 94.2, '36': 16.9, '09L': 15.1, '20': 15.1, '09N': 14.7}",1,94.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258135,"{'23A': 95.1, '23F': 68.0, '23B': 43.2, '19F-II': 40.0, '15B': 39.1}",1,95.1,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316715,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001329215,"{'06E': 100.0, '06B-III': 97.2, '06B-I': 44.5, '06A-III': 44.0, '06B-II': 43.2}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026615,"{'14': 92.7, '36': 28.7, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339925,"{'20': 81.9, '47F': 25.9, '35A': 24.6, '09L': 24.5, '36': 24.1}",1,81.9,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299865,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289075,"{'14': 91.4, '09L': 26.7, '09N': 26.4, '36': 26.3, '15B': 23.5}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347095,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298425,"{'35F': 99.4, '47F': 74.7, '34': 26.6, '35B': 26.5, '29': 22.4}",1,99.4,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001095645,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341635,"{'06E': 83.5, '06B-III': 82.4, '06B-I': 55.6, '06A-III': 54.1, '06A-II': 53.5}",1,83.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050295,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.4, '23A': 34.5}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024705,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338615,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285545,"{'06A-I': 98.4, '06B': 94.5, '06A-V': 89.4, '06A': 87.6, '06A-III': 86.0}",1,98.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216355,"{'01': 98.9, '19F': 31.9, '19F-I': 31.4, '19F-III': 31.2, '19F-II': 30.9}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227895,"{'01': 98.9, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258085,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249785,"{'14': 93.6, '36': 25.8, '09L': 25.0, '09N': 24.4, '15B': 23.8}",1,93.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001127425,"{'19F-I': 95.4, '19F': 95.2, '19F-III': 93.7, '19F-II': 92.3, '19F-IV': 88.3}",1,95.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226575,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001195145,"{'23B1': 97.8, '23B': 55.8, '19A-II': 36.0, '19A-I': 35.7, '19AF': 31.5}",1,97.8,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273135,"{'06E': 99.4, '06B-III': 99.0, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,99.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050465,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192365,"{'23F': 99.2, '23A': 65.4, '23B': 49.0, '28A': 48.1, '06A-IV': 47.1}",1,99.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333875,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001140805,"{'15C': 95.7, '15B': 95.5, '15A': 61.2, '15F': 47.6, '23A': 34.5}",1,95.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251505,"{'15B': 99.8, '15C': 99.7, '15A': 62.7, '15F': 48.3, '23A': 32.9}",1,99.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335535,"{'01': 99.2, '19F': 32.1, '19F-I': 31.7, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247845,"{'06A-II': 85.8, '06A-VI': 85.8, '06A-III': 85.7, '06A-V': 85.1, '06B-I': 84.3}",1,85.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273055,"{'18C': 99.3, '18B': 99.2, '18F': 76.0, '18A': 62.9, '16F': 39.3}",1,99.3,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001172605,"{'23A': 97.4, '23F': 68.7, '23B': 40.0, '19F-II': 39.3, '15B': 39.1}",1,97.4,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267075,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250785,"{'14': 93.0, '36': 27.3, '09L': 25.8, '09N': 25.2, '15B': 24.3}",1,93.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001135045,"{'33B': 89.8, '33D': 89.7, '35B': 34.3, '33F2': 30.3, '22F': 26.7}",1,89.8,,"Mixed serotypes- {'33B', '33D'}",,,{},{},"Mixed serotypes- {'33B', '33D'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340895,"{'03': 95.2, '36': 17.4, '01': 16.8, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220585,"{'10A': 99.7, '10B': 66.5, '10C': 27.4, '10F': 17.8, '22F': 15.5}",1,99.7,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052715,"{'08': 99.8, '06A-II': 26.3, '06A-VI': 26.2, '06B-II': 25.6, '06A-V': 25.2}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057925,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239645,"{'14': 94.1, '36': 25.9, '09L': 25.2, '09N': 24.6, '15B': 24.3}",1,94.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250995,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019425,"{'09N': 99.7, '09L': 89.1, '09A': 32.7, '09V': 32.7, '36': 31.9}",1,99.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304945,"{'04': 99.7, '45': 33.5, '12F': 23.4, '44': 23.2, '12A': 22.3}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033455,"{'09A': 99.7, '09V': 99.5, '09N': 38.2, '09L': 36.8, '06A-IV': 27.4}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227925,"{'28A': 99.5, '28F': 92.4, '23F': 49.6, '16F': 43.7, '06B-I': 39.2}",1,99.5,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309385,"{'12F': 96.1, '12B': 93.0, '44': 92.8, '12A': 80.1, '46': 77.0}",1,96.1,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189785,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218315,"{'19F-I': 97.7, '19F': 97.0, '19F-III': 96.5, '19F-II': 95.0, '19F-IV': 90.1}",1,97.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222345,"{'15A': 99.2, '15F': 73.7, '15C': 61.8, '15B': 61.7, '23F': 31.5}",1,99.2,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398505,"{'14': 90.3, '13': 30.8, '09L': 28.2, '09N': 27.9, '20': 26.8}",1,90.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232435,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258725,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.0, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236765,"{'09N': 97.7, '09L': 87.5, '09A': 32.6, '09V': 32.6, '36': 29.8}",1,97.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338315,"{'06A-II': 87.1, '06A-VI': 87.1, '06A': 86.0, '06A-IV': 85.0, '06A-V': 84.8}",1,87.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001085805,"{'35F': 92.3, '47F': 68.2, '34': 26.6, '35B': 25.3, '29': 21.2}",1,92.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338595,"{'23F': 94.5, '23A': 63.5, '06A-IV': 53.2, '06B-II': 51.6, '23B': 50.8}",1,94.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336185,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233215,"{'14': 91.3, '19F-IV': 25.9, '09L': 25.1, '09N': 24.6, '36': 24.5}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230525,"{'35B': 99.4, '33F': 33.7, '35C': 33.4, '34': 33.2, '35A': 33.0}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224285,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027105,"{'23F': 99.2, '23A': 65.4, '23B': 49.0, '28A': 48.1, '06A-IV': 47.3}",1,99.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900037025,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194485,"{'23B': 99.3, '23B1': 64.7, '23F': 45.6, '23A': 39.8, '06A-IV': 36.7}",1,99.3,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232785,"{'06A-II': 97.9, '06A-VI': 97.9, '06B-II': 90.4, '06A-V': 89.6, '06A-III': 89.2}",1,97.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266165,"{'08': 99.4, '06A-II': 24.6, '06A-VI': 24.5, '02': 24.3, '06B-II': 24.0}",1,99.4,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281135,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233395,"{'14': 96.8, '36': 28.8, '09L': 25.7, '09N': 24.6, '15B': 24.2}",1,96.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217375,"{'04': 99.8, '45': 33.9, '12A': 27.0, '46': 26.9, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047585,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.4, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300645,"{'09A': 95.7, '09V': 95.5, '09N': 38.8, '09L': 37.4, '11F': 26.3}",1,95.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317095,"{'35B': 99.4, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298245,"{'23F': 97.4, '23A': 64.0, '06A-IV': 48.0, '23B': 47.7, '28A': 47.7}",1,97.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315805,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169975,"{'14': 91.7, '36': 27.5, '09L': 25.0, '09N': 24.2, '15B': 23.7}",1,91.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336735,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329425,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335695,"{'35B': 99.8, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291075,"{'15A': 99.9, '15F': 74.3, '15C': 61.9, '15B': 61.8, '23F': 31.7}",1,99.9,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029955,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329075,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 89.6, '06A': 87.7, '06A-III': 86.1}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_009831195,"{'06B': 0.2, '07C': 0.2, '18A': 0.2, '06E': 0.2, '06A-I': 0.2}",1,0.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270275,"{'01': 98.9, '19F': 32.2, '19F-I': 31.7, '19F-III': 31.5, '19F-II': 31.2}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043805,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300095,"{'19F-I': 97.8, '19F': 97.1, '19F-III': 96.6, '19F-II': 95.1, '19F-IV': 90.2}",1,97.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324805,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001141245,"{'35B': 94.8, '33F': 33.7, '35C': 33.4, '34': 33.1, '35A': 33.0}",1,94.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323775,"{'20': 76.9, '47F': 28.0, '09L': 25.8, '09N': 25.3, '13': 25.2}",1,76.9,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001340215,"{'45': 5.7, '01': 4.6, '25F': 4.6, '25A': 4.5, '22F': 4.4}",2,5.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233655,"{'19A': 79.1, '19A-III': 78.9, '19A-I': 67.8, '19A-II': 66.1, '19AF': 59.9}",1,79.1,19A_19AF,19A_19AF,,[[0]],{'wzy': ['2: 69.2']},{'wzy': 0},19A_19AF,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339115,"{'21': 92.5, '22F': 36.1, '06A-IV': 33.8, '06A-III': 33.0, '06A-II': 32.8}",1,92.5,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257925,"{'06A-II': 95.6, '06A-VI': 95.6, '06B-II': 89.5, '06A-V': 89.1, '06A-III': 88.5}",1,95.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001107105,"{'22F': 5.1, '20': 5.0, '45': 4.5, '25A': 3.8, '25F': 3.8}",2,5.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228365,"{'14': 100.0, '09L': 26.7, '36': 26.1, '09N': 24.9, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218325,"{'14': 93.1, '36': 27.2, '09L': 25.7, '09N': 25.2, '15B': 24.1}",1,93.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001168385,"{'06A': 90.4, '06A-III': 89.4, '06A-II': 89.3, '06A-VI': 89.3, '06B-II': 89.3}",1,90.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190725,"{'11D': 99.9, '11A': 97.1, '11F': 42.0, '11C': 35.8, '11B': 34.3}",1,99.9,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293475,"{'19A-I': 99.2, '19A-II': 97.5, '19A': 87.8, '19A-III': 87.6, '19AF': 61.8}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232245,"{'18C': 88.3, '18B': 88.2, '18F': 77.8, '18A': 61.6, '16F': 37.6}",1,88.3,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001168085,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001145285,"{'25F': 5.7, '45': 5.6, '25A': 5.5, '20': 5.4, '22F': 5.1}",3,5.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329765,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001584815,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302065,"{'19F': 97.3, '19F-I': 96.3, '19F-III': 95.5, '19F-II': 95.4, '19F-IV': 90.9}",1,97.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323645,"{'05': 95.0, '45': 21.8, '36': 21.0, '12A': 19.7, '46': 19.6}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190845,"{'09N': 98.7, '09L': 87.9, '09A': 32.7, '09V': 32.7, '36': 31.2}",1,98.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304415,"{'07A': 98.2, '07F': 98.0, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,98.2,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001172805,"{'23F': 96.8, '23A': 66.4, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308365,"{'04': 99.8, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194015,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050075,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249205,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.1}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001207965,"{'13': 83.6, '36': 25.7, '14': 25.3, '09L': 24.2, '09N': 24.2}",1,83.6,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325465,"{'14': 94.6, '36': 26.3, '09L': 25.3, '09N': 24.6, '15B': 24.3}",1,94.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260985,"{'28F': 93.9, '28A': 88.9, '23F': 48.2, '16F': 44.2, '06A-IV': 42.0}",1,93.9,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265955,"{'06A-III': 94.8, '06B-I': 93.4, '06A': 90.3, '06A-IV': 89.5, '06B-II': 89.4}",1,94.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314565,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220575,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340175,"{'06C-I': 88.9, '06C': 88.8, '06D': 86.7, '06A-I': 77.5, '06B': 77.2}",1,88.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223905,"{'06A-II': 91.4, '06A-VI': 91.4, '06A-V': 90.1, '06B-II': 89.7, '06A-III': 89.6}",1,91.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240725,"{'23F': 93.9, '23A': 63.4, '28A': 48.4, '23B': 46.9, '06A-III': 46.4}",1,93.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065655,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001326595,"{'35C': 100.0, '42': 99.0, '35A': 86.0, '33A': 45.6, '33F': 45.2}",1,100.0,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342795,"{'14': 93.9, '36': 25.8, '09L': 25.2, '09N': 24.1, '15B': 24.0}",1,93.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192885,"{'35F': 99.1, '47F': 74.4, '34': 26.7, '35B': 25.9, '29': 22.4}",1,99.1,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001159125,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001096325,"{'36': 11.6, '20': 8.1, '01': 7.0, '45': 6.8, '06B-I': 5.9}",1,11.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310265,"{'14': 93.4, '09L': 27.5, '36': 27.3, '09N': 25.4, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241085,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254385,"{'04': 99.2, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001343075,"{'35B': 98.2, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,98.2,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001200915,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002889575,"{'24F': 97.0, '24B': 89.8, '24F2': 86.6, '24A': 62.9, '07C': 52.0}",1,97.0,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282505,"{'33D': 80.6, '33B': 76.6, '06A-I': 36.6, '06B': 36.0, '35B': 35.9}",1,80.6,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001171625,"{'45': 5.7, '20': 5.5, '25F': 5.2, '25A': 5.1, '22F': 5.0}",1,5.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170945,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340645,"{'04': 98.3, '45': 34.7, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342215,"{'36': 11.4, '20': 7.5, '06A-IV': 7.2, '06B-I': 6.0, '06C': 5.8}",1,11.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190715,"{'23B': 88.7, '23B1': 62.1, '23F': 38.7, '06A-IV': 33.9, '23A': 33.2}",1,88.7,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252635,"{'09A': 99.7, '09V': 99.5, '09N': 37.6, '09L': 36.7, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001121945,"{'06E': 100.0, '06B-III': 98.0, '06B-I': 45.7, '06A-III': 45.2, '06A-II': 44.2}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276645,"{'23F': 92.2, '23A': 61.1, '28A': 47.9, '23B': 46.6, '06A-IV': 46.4}",1,92.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051925,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283565,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-I': 41.8}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297745,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335875,"{'08': 99.7, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.7,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327565,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 89.0}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023795,"{'08': 99.8, '06A-II': 24.5, '02': 24.4, '06A-VI': 24.4, '06B-II': 23.9}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220035,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301095,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274965,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001122385,"{'03': 95.2, '01': 17.2, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001138805,"{'06A-III': 88.5, '06B-I': 86.2, '06A': 83.1, '06A-II': 82.9, '06A-VI': 82.9}",1,88.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215355,"{'05': 95.0, '45': 22.6, '36': 21.8, '20': 20.4, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339015,"{'28A': 99.5, '28F': 92.4, '23F': 49.6, '16F': 43.7, '06B-I': 39.2}",1,99.5,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026315,"{'08': 99.2, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.2,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021195,"{'06A-I': 99.5, '06B': 94.0, '06A-V': 89.3, '06A': 86.6, '06A-III': 86.0}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001133945,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900195025,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321425,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194555,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333895,"{'19F-I': 91.3, '19F-III': 88.9, '19F': 88.3, '19F-II': 85.9, '19F-IV': 85.8}",1,91.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001085165,"{'06E': 99.5, '06B-III': 98.9, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327775,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336725,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222295,"{'23B1': 98.7, '23B': 59.0, '19A-II': 36.7, '19A-I': 35.5, '19AF': 32.0}",1,98.7,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194615,"{'22F': 99.0, '22A': 73.3, '06A': 42.5, '06B': 42.0, '06A-II': 41.8}",1,99.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900061285,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236125,"{'06A-III': 94.8, '06B-I': 93.4, '06A': 90.3, '06A-IV': 89.5, '06B-II': 89.4}",1,94.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231325,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258155,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292185,"{'06C-I': 93.5, '06C': 93.3, '06D': 87.3, '06B-I': 78.0, '06A-III': 77.4}",1,93.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000173295,"{'36': 10.5, '25F': 7.2, '25A': 7.0, '01': 6.6, '45': 6.4}",1,10.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228045,"{'06A-I': 99.8, '06B': 94.3, '06A-V': 89.4, '06A': 86.9, '06A-III': 86.1}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192095,"{'19A-II': 99.6, '19A-I': 96.2, '19A': 84.6, '19A-III': 84.4, '19AF': 62.1}",1,99.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 92.87]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030415,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.4}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341795,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335615,"{'04': 99.8, '45': 33.4, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001127405,"{'03': 95.2, '01': 17.1, '36': 17.1, '20': 15.9, '09L': 15.6}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252665,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001092445,"{'23F': 94.5, '23A': 63.5, '06A-IV': 53.2, '06B-II': 51.6, '23B': 50.8}",1,94.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001108505,"{'20': 86.5, '36': 27.6, '13': 25.6, '09L': 25.1, '47F': 24.6}",1,86.5,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287635,"{'03': 97.4, '01': 17.8, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287285,"{'19F-I': 95.9, '19F': 95.6, '19F-III': 94.0, '19F-II': 92.8, '19F-IV': 88.8}",1,95.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339475,"{'23F': 93.9, '23A': 63.4, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,93.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216265,"{'09A': 99.4, '09V': 99.2, '09N': 38.4, '09L': 36.5, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337795,"{'15C': 93.9, '15B': 93.8, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900034095,"{'09N': 100.0, '09L': 89.1, '09A': 32.7, '09V': 32.7, '36': 32.4}",1,100.0,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001154685,"{'36': 12.5, '20': 8.1, '06A-IV': 7.6, '01': 6.2, '06C': 6.2}",2,12.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001198995,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335505,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001130225,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330815,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324965,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294215,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.4, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231835,"{'23F': 97.0, '23A': 63.9, '23B': 48.0, '28A': 47.7, '06B-II': 46.1}",1,97.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001157705,"{'40': 99.6, '07B': 93.9, '07C': 75.4, '24F2': 48.2, '24F': 47.9}",1,99.6,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170675,"{'14': 92.4, '36': 28.7, '09L': 25.1, '15B': 24.1, '09N': 24.0}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222355,"{'18C': 88.3, '18B': 88.2, '18F': 77.8, '18A': 61.6, '16F': 37.6}",1,88.3,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001145345,"{'15C': 87.8, '15B': 87.7, '15A': 64.6, '15F': 50.0, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001343215,"{'36': 12.7, '20': 8.0, '23B1': 7.7, '06A-IV': 7.3, '06C': 5.8}",1,12.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239025,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232825,"{'40': 99.6, '07B': 93.9, '07C': 75.4, '24F2': 48.2, '24F': 47.9}",1,99.6,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241905,"{'06A-II': 85.5, '06A-VI': 85.5, '06A-III': 85.4, '06A-V': 84.8, '06A': 84.0}",1,85.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298085,"{'10B': 99.3, '10A': 65.2, '10F': 20.1, '10C': 18.8, '22F': 14.0}",1,99.3,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279775,"{'34': 93.0, '33F2': 34.6, '35B': 32.2, '33F': 29.0, '33C': 28.0}",1,93.0,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215705,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223105,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313395,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333455,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244525,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001155005,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302565,"{'14': 100.0, '09L': 27.2, '36': 26.1, '09N': 24.9, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274245,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256885,"{'05': 93.8, '45': 22.2, '36': 21.1, '12A': 19.7, '20': 19.7}",1,93.8,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028165,"{'06B-I': 99.7, '06A-III': 97.6, '06B-II': 90.3, '06A': 89.8, '06A-V': 88.4}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337645,"{'19A-I': 99.2, '19A-II': 97.6, '19A': 87.8, '19A-III': 87.6, '19AF': 61.8}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325785,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213095,"{'23F': 92.2, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.4}",1,92.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001127785,"{'36': 12.6, '20': 8.0, '06A-IV': 7.4, '06B-I': 6.3, '01': 6.2}",1,12.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335575,"{'36': 12.7, '20': 8.1, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",1,12.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189875,"{'23F': 99.2, '23A': 65.4, '23B': 49.0, '28A': 48.1, '06A-IV': 47.1}",1,99.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232805,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234325,"{'18C': 88.5, '18B': 88.4, '18F': 77.8, '18A': 61.6, '16F': 37.6}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342325,"{'06E': 97.2, '06B-III': 96.7, '06B-I': 47.6, '06A-III': 47.1, '06A-II': 45.7}",1,97.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310355,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327005,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001099485,"{'06E': 99.6, '06B-III': 99.0, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001168445,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225915,"{'14': 92.7, '36': 28.8, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254915,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323805,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.6, '19A-III': 87.4, '19AF': 61.9}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 92.87]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299485,"{'06A-II': 95.6, '06A-VI': 95.6, '06B-II': 89.5, '06A-V': 89.1, '06A-III': 88.5}",1,95.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047745,"{'12F': 96.7, '44': 93.4, '12B': 92.7, '12A': 80.4, '46': 77.3}",1,96.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901905415,"{'34': 98.4, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.4,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056475,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250845,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001302055,"{'15C': 96.2, '15B': 96.1, '15A': 61.5, '15F': 47.8, '23A': 34.7}",1,96.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053515,"{'09N': 99.6, '09L': 89.1, '09A': 32.7, '09V': 32.7, '36': 31.9}",1,99.6,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270795,"{'15C': 95.2, '15B': 95.1, '15A': 60.8, '15F': 47.3, '23A': 34.0}",1,95.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232505,"{'19F': 94.6, '19F-I': 93.8, '19F-III': 93.0, '19F-II': 91.4, '19F-IV': 87.7}",1,94.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001133205,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017185,"{'08': 99.8, '06A-II': 24.5, '02': 24.4, '06A-VI': 24.4, '06B-II': 23.9}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002249615,"{'23A': 97.5, '23F': 68.8, '23B': 40.1, '19F-II': 39.2, '15B': 38.8}",1,97.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194515,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020795,"{'08': 99.8, '06A-II': 24.5, '02': 24.4, '06A-VI': 24.4, '06B-II': 23.9}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296625,"{'06C-I': 92.4, '06C': 92.3, '06D': 84.4, '06B-I': 77.6, '06A-III': 77.1}",1,92.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236055,"{'08': 99.0, '06A-II': 25.5, '06A-VI': 25.4, '06B-II': 25.2, '06C': 24.5}",1,99.0,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239715,"{'04': 99.8, '45': 33.7, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001137645,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018995,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326165,"{'20': 84.5, '47F': 26.4, '35A': 24.9, '09L': 24.6, '09N': 23.7}",1,84.5,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167195,"{'14': 90.7, '36': 26.5, '09L': 24.9, '09N': 24.5, '15B': 23.4}",1,90.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191175,"{'06A-IV': 99.9, '06A': 99.7, '06B-II': 95.1, '06A-V': 93.5, '06A-III': 91.4}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342275,"{'06E': 96.5, '06B-III': 96.4, '06B-I': 45.5, '06A-III': 44.9, '06A-II': 44.5}",1,96.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325835,"{'19F-II': 99.4, '19F': 95.2, '19F-III': 94.2, '19F-I': 93.9, '19F-IV': 93.1}",1,99.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001205655,"{'14': 94.6, '36': 26.0, '15B': 24.2, '15C': 24.1, '09L': 23.9}",1,94.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294155,"{'06E': 84.1, '06B-III': 83.1, '06B-I': 54.2, '06A-IV': 54.1, '06A-II': 53.2}",1,84.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309275,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259355,"{'16F': 71.9, '28F': 43.8, '28A': 41.0, '18F': 34.1, '18A': 33.9}",1,71.9,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_902652875,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249195,"{'01': 7.5, '45': 6.4, '25F': 5.8, '25A': 5.6, '22F': 5.3}",5,7.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250905,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170565,"{'14': 92.5, '36': 27.9, '09L': 25.7, '09N': 24.6, '15B': 24.1}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340425,"{'21': 99.5, '22F': 36.3, '06A-IV': 33.2, '06A-II': 32.5, '06A-VI': 32.4}",1,99.5,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194235,"{'23A': 99.6, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337355,"{'06B-I': 89.6, '06B-II': 89.4, '06A-III': 89.1, '06A-II': 88.3, '06A-VI': 88.3}",1,89.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220205,"{'17F': 99.8, '06B': 44.5, '06B-I': 43.9, '06A-III': 43.8, '06D': 43.7}",1,99.8,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001197755,"{'35B': 98.2, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,98.2,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001340635,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001159245,"{'01': 7.1, '25F': 5.7, '45': 5.7, '25A': 5.5, '22F': 5.1}",3,7.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047605,"{'03': 95.5, '20': 17.5, '01': 16.9, '09L': 16.3, '36': 16.2}",1,95.5,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289675,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299165,"{'06A-III': 94.8, '06B-I': 93.4, '06A': 90.3, '06A-IV': 89.5, '06B-II': 89.4}",1,94.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312205,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232985,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341365,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900034005,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189515,"{'06B-I': 98.9, '06A-III': 96.8, '06B-II': 90.0, '06A': 89.6, '06A-V': 88.1}",1,98.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900036675,"{'10B': 99.3, '10A': 65.2, '10F': 20.1, '10C': 18.8, '22F': 14.0}",1,99.3,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000019265,"{'19A': 88.8, '19A-III': 88.6, '19A-II': 81.9, '19A-I': 80.3, '19AF': 55.3}",1,88.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000279495,"{'19A': 99.9, '19A-III': 99.7, '19A-I': 86.1, '19A-II': 83.6, '19AF': 57.1}",1,99.9,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001115065,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001208485,"{'33B': 89.8, '33D': 89.7, '35B': 32.6, '33F2': 30.0, '22F': 26.4}",1,89.8,,"Mixed serotypes- {'33B', '33D'}",,,{},{},"Mixed serotypes- {'33B', '33D'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291875,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001198215,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001124465,"{'23F': 94.5, '23A': 63.6, '06A-IV': 49.5, '23B': 48.4, '28A': 47.7}",1,94.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305595,"{'31': 99.7, '41A': 57.2, '41F': 49.3, '06A-II': 36.5, '06A-VI': 36.5}",1,99.7,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191975,"{'16F': 96.5, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.5,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021022515,"{'02': 57.6, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001133165,"{'03': 95.2, '36': 16.9, '01': 16.2, '20': 15.7, '09L': 14.3}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002249765,"{'01': 7.4, '45': 6.6, '20': 5.9, '25F': 5.8, '25A': 5.6}",6,7.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227285,"{'31': 99.7, '41A': 57.2, '41F': 49.3, '06A-II': 36.5, '06A-VI': 36.5}",1,99.7,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273945,"{'15B': 99.8, '15C': 99.7, '15A': 62.7, '15F': 48.3, '23A': 32.9}",1,99.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017345,"{'22F': 99.0, '22A': 73.4, '06A': 42.5, '06B': 42.0, '06A-II': 41.8}",1,99.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250795,"{'04': 98.1, '45': 33.7, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.1,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326575,"{'23A': 82.6, '23F': 79.9, '23B': 40.2, '19F-II': 38.8, '15B': 38.3}",1,82.6,,"Mixed serotypes- {'23F', '23A'}",,,{},{},"Mixed serotypes- {'23F', '23A'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298525,"{'03': 95.2, '01': 17.7, '36': 17.4, '20': 16.1, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235435,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293705,"{'08': 99.6, '06A-II': 24.5, '06A-VI': 24.4, '02': 24.2, '06B-II': 23.9}",1,99.6,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192675,"{'15B': 99.5, '15C': 99.3, '15A': 62.6, '15F': 48.2, '23A': 32.6}",1,99.5,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277105,"{'06E': 98.5, '06B-III': 98.3, '06B-I': 48.1, '06A-III': 47.7, '06A-IV': 46.7}",1,98.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224235,"{'18C': 99.5, '18B': 99.4, '18F': 76.0, '18A': 63.2, '16F': 39.5}",1,99.5,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001172345,"{'15C': 87.7, '15B': 87.5, '15A': 64.4, '15F': 49.8, '23A': 30.1}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311635,"{'06E': 99.9, '06B-III': 99.7, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.6}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341995,"{'35F': 91.1, '47F': 67.6, '29': 25.7, '35B': 25.5, '34': 25.3}",1,91.1,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296875,"{'01': 99.3, '19F': 32.5, '19F-I': 32.1, '19F-III': 31.8, '19F-II': 31.5}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318425,"{'13': 98.9, '09N': 29.1, '20': 28.9, '09L': 28.7, '36': 27.9}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001202735,"{'36': 13.1, '20': 8.1, '06A-IV': 7.6, '01': 6.4, '45': 6.3}",2,13.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274955,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001157905,"{'34': 92.9, '33F2': 34.6, '35B': 32.0, '33F': 28.9, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001142945,"{'06C': 85.2, '06C-I': 85.2, '06D': 84.2, '06A': 76.9, '06A-IV': 73.3}",1,85.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001144545,"{'07B': 99.9, '40': 92.9, '07C': 77.2, '24F2': 48.1, '24F': 47.7}",1,99.9,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244155,"{'15C': 87.3, '15B': 87.2, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.3,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017375,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900089085,"{'19A': 99.4, '19A-III': 99.2, '19A-I': 85.6, '19A-II': 83.1, '19AF': 56.7}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 98.24]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255975,"{'34': 98.7, '33F2': 35.4, '35B': 33.8, '33F': 30.0, '33C': 28.7}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055665,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241995,"{'08': 99.5, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.5,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249885,"{'19A-I': 98.8, '19A-II': 97.1, '19A': 87.4, '19A-III': 87.2, '19AF': 61.7}",1,98.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325915,"{'14': 92.3, '36': 28.8, '09L': 25.6, '09N': 24.5, '15B': 24.0}",1,92.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001147565,"{'22F': 86.3, '22A': 71.4, '06A': 39.6, '06A-III': 39.5, '06A-I': 39.4}",1,86.3,,22F,,,{},{},22F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265665,"{'34': 97.4, '33F2': 35.1, '35B': 33.6, '33F': 29.7, '33C': 28.5}",1,97.4,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257275,"{'40': 99.6, '07B': 93.9, '07C': 75.4, '24F2': 48.2, '24F': 47.9}",1,99.6,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026355,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001137385,"{'36': 6.6, '45': 6.5, '25F': 6.4, '25A': 6.2, '01': 5.5}",1,6.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265925,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A': 46.2}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585355,"{'12F': 96.9, '44': 93.6, '12B': 92.9, '12A': 80.6, '46': 77.5}",1,96.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226045,"{'06A-III': 94.8, '06B-I': 93.4, '06A': 90.3, '06A-IV': 89.5, '06B-II': 89.4}",1,94.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217245,"{'05': 95.0, '45': 22.6, '36': 21.8, '20': 20.4, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286635,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229415,"{'01': 99.1, '19F': 32.0, '19F-I': 31.5, '19F-III': 31.3, '19F-II': 31.0}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261815,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020615,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250535,"{'03': 95.2, '36': 17.1, '01': 16.8, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342765,"{'18C': 88.4, '18B': 88.3, '18F': 77.7, '18A': 61.7, '16F': 37.6}",1,88.4,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275645,"{'15C': 87.8, '15B': 87.7, '15A': 64.6, '15F': 50.0, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297005,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296305,"{'10F': 98.2, '10C': 80.9, '10B': 22.4, '10A': 19.2, '22F': 15.5}",1,98.2,,10F,,,{},{},10F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001345855,"{'04': 98.3, '45': 31.7, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294625,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286705,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001146385,"{'10A': 99.3, '10B': 67.0, '10C': 27.7, '10F': 18.1, '06B-I': 15.2}",1,99.3,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900064075,"{'16F': 99.9, '28F': 42.4, '19F-IV': 41.1, '18A': 40.9, '18F': 40.7}",1,99.9,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276225,"{'06A-II': 91.0, '06A-VI': 91.0, '06A-V': 89.7, '06A': 89.6, '06A-III': 89.3}",1,91.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237555,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.6}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900046505,"{'09A': 99.7, '09V': 99.5, '09N': 38.2, '09L': 36.8, '35B': 26.7}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283965,"{'06E': 99.4, '06B-III': 99.1, '06B-I': 46.8, '06A-III': 46.6, '06A-II': 45.6}",1,99.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001202955,"{'23F': 94.5, '23A': 63.5, '06A-IV': 53.2, '06B-II': 51.6, '23B': 50.8}",1,94.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303715,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292115,"{'15C': 96.1, '15B': 95.9, '15A': 61.4, '15F': 47.7, '23A': 34.8}",1,96.1,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001106705,"{'19F-I': 95.5, '19F': 95.2, '19F-III': 93.7, '19F-II': 92.4, '19F-IV': 88.4}",1,95.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001909705,"{'03': 95.2, '36': 17.0, '20': 15.7, '09N': 15.4, '01': 15.3}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312845,"{'04': 95.6, '45': 36.4, '12F': 23.3, '44': 22.8, '12A': 22.0}",1,95.6,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227855,"{'04': 99.8, '45': 33.7, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239945,"{'15A': 98.3, '15F': 73.0, '15C': 61.8, '15B': 61.7, '23F': 32.3}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315665,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.4, '46': 77.3}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301125,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288535,"{'15A': 99.2, '15F': 73.7, '15C': 61.8, '15B': 61.7, '23F': 31.5}",1,99.2,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287685,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000233305,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246785,"{'01': 99.9, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.3}",1,99.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240845,"{'18F': 99.9, '18B': 71.4, '18C': 71.4, '18A': 60.1, '16F': 41.4}",1,99.9,,18F,,,{},{},18F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001114325,"{'36': 11.5, '20': 6.7, '25F': 6.5, '25A': 6.3, '06A-IV': 6.2}",1,11.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238475,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325475,"{'03': 75.1, '20': 7.9, '01': 7.2, '36': 7.1, '22F': 6.8}",1,75.1,,3,,,{},{},3,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900042955,"{'31': 99.7, '41A': 57.2, '41F': 48.9, '06A-II': 36.5, '06A-VI': 36.5}",1,99.7,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001106285,"{'33C': 98.7, '34': 29.9, '35B': 25.0, '33F2': 23.8, '33F': 23.0}",1,98.7,,33C,,,{},{},33C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020555,"{'19F-II': 99.5, '19F': 95.3, '19F-III': 94.3, '19F-I': 94.0, '19F-IV': 93.2}",1,99.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269565,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258375,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236425,"{'19F': 94.8, '19F-I': 94.3, '19F-III': 93.2, '19F-II': 91.9, '19F-IV': 88.2}",1,94.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001166465,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322035,"{'14': 91.4, '09L': 26.5, '36': 26.5, '09N': 26.0, '15B': 23.2}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264985,"{'21': 91.7, '22F': 36.6, '06A-IV': 31.6, '06A-II': 31.2, '06A-VI': 31.2}",1,91.7,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001125065,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286875,"{'14': 92.6, '36': 29.0, '09L': 25.9, '09N': 24.7, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332355,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020139495,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026715,"{'14': 100.0, '09L': 27.2, '36': 26.1, '09N': 24.7, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216765,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001151385,"{'36': 12.1, '20': 8.0, '06A-IV': 7.3, '06C': 5.9, '45': 5.9}",1,12.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019397545,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001191915,"{'36': 10.7, '06A-IV': 7.1, '06B-I': 5.9, '06C': 5.8, '06C-I': 5.8}",1,10.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275855,"{'14': 91.4, '19F-IV': 25.9, '36': 25.2, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325195,"{'04': 99.2, '45': 33.5, '12F': 23.4, '44': 23.2, '12A': 22.3}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290855,"{'05': 95.3, '45': 22.5, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291095,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001161485,"{'13': 98.9, '09L': 28.2, '20': 28.1, '09N': 27.7, '14': 26.8}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001159825,"{'13': 94.9, '36': 28.1, '09L': 27.5, '09N': 27.2, '14': 25.9}",1,94.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259755,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253175,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.7, '06B-II': 35.1, '06A-V': 34.9}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276105,"{'35B': 99.2, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.2,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216155,"{'06A-II': 85.5, '06A-VI': 85.5, '06A-III': 85.4, '06A-V': 84.8, '06A': 84.0}",1,85.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286715,"{'19F-I': 95.9, '19F': 95.6, '19F-III': 94.1, '19F-II': 92.8, '19F-IV': 88.9}",1,95.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238315,"{'01': 99.8, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001148765,"{'15C': 95.2, '15B': 95.1, '15A': 60.9, '15F': 47.3, '23A': 34.5}",1,95.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265165,"{'06A-II': 95.6, '06A-VI': 95.6, '06B-II': 89.5, '06A-V': 89.2, '06A-III': 88.5}",1,95.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266045,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001147585,"{'23B': 99.3, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.6}",1,99.3,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326205,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232295,"{'14': 92.7, '36': 28.8, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167375,"{'09A': 99.6, '09V': 99.4, '09N': 37.1, '09L': 35.8, '11F': 26.6}",1,99.6,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285165,"{'06E': 99.6, '06B-III': 98.6, '06B-I': 46.3, '06A-III': 45.8, '06A-II': 45.0}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299375,"{'06E': 84.1, '06B-III': 83.1, '06B-I': 54.2, '06A-IV': 54.1, '06A-II': 53.2}",1,84.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297035,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243715,"{'38': 99.4, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.4,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250465,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228475,"{'21': 92.6, '22F': 36.2, '06A-IV': 34.3, '06A-III': 33.5, '06A-II': 33.3}",1,92.6,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264635,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256735,"{'23A': 95.1, '23F': 68.0, '23B': 43.2, '19F-II': 40.0, '15B': 39.1}",1,95.1,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250035,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300935,"{'15C': 96.1, '15B': 95.9, '15A': 61.3, '15F': 47.6, '23A': 34.7}",1,96.1,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168105,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000468375,"{'09A': 99.5, '09V': 99.3, '09N': 37.8, '09L': 36.6, '11F': 26.6}",1,99.5,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001083245,"{'23F': 94.0, '23A': 63.5, '06A-IV': 48.8, '28A': 48.5, '23B': 48.3}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341435,"{'21': 92.2, '22F': 34.5, '06A-IV': 34.3, '06A-II': 34.0, '06A-VI': 34.0}",1,92.2,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233185,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299225,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250515,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900692775,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321875,"{'18C': 97.3, '18B': 97.2, '18F': 75.4, '18A': 62.1, '16F': 38.8}",1,97.3,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346655,"{'13': 83.6, '14': 25.3, '36': 25.1, '09L': 24.5, '09N': 24.4}",1,83.6,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907172265,"{'19F-II': 98.7, '19F': 94.5, '19F-III': 93.6, '19F-I': 93.2, '19F-IV': 92.4}",1,98.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900038175,"{'22F': 99.0, '22A': 73.3, '06A-IV': 43.7, '06A': 42.6, '06A-II': 42.2}",1,99.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032275,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328435,"{'15C': 86.8, '15B': 86.6, '15A': 66.1, '15F': 51.2, '23A': 28.6}",1,86.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231085,"{'16F': 71.5, '28F': 43.1, '28A': 40.6, '18F': 33.6, '18A': 32.7}",1,71.5,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261925,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243325,"{'25F': 99.9, '25A': 98.9, '38': 80.9, '36': 9.0, '01': 7.5}",1,99.9,25F_25A_38,25F_25A_38,,"[[8], [18]]","{'wcyD': ['a', 100.0], 'wcyV': 0.12}","{'wcyD': 'a', 'wcyV': 'not_detected'}",25F/25A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242755,"{'06C-I': 93.1, '06C': 92.9, '06D': 87.4, '06B-I': 76.9, '06A-III': 76.5}",1,93.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218065,"{'04': 98.3, '45': 32.3, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001201275,"{'36': 12.7, '20': 8.1, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",1,12.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001340515,"{'23F': 96.8, '23A': 66.4, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018955,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022235,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258675,"{'23A': 97.6, '23F': 68.9, '23B': 40.1, '19F-II': 39.3, '15B': 38.7}",1,97.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398145,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.8, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001088525,"{'11D': 80.1, '11A': 78.8, '11F': 45.2, '11B': 34.8, '11C': 31.1}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057135,"{'19A': 93.6, '19A-III': 93.4, '19A-II': 82.0, '19A-I': 80.2, '19AF': 56.1}",1,93.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020139475,"{'15A': 98.1, '15F': 73.6, '15C': 61.9, '15B': 61.8, '23F': 31.7}",1,98.1,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001116605,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266775,"{'06C-I': 91.5, '06C': 91.4, '06D': 84.2, '06B-I': 76.4, '06A-III': 75.9}",1,91.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285295,"{'15C': 95.8, '15B': 95.6, '15A': 61.2, '15F': 47.5, '23A': 34.3}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019785,"{'06B-I': 99.7, '06A-III': 97.6, '06B-II': 90.3, '06A': 89.8, '06A-V': 88.4}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_909594805,"{'19F-III': 98.4, '19F': 98.0, '19F-I': 98.0, '19F-II': 93.8, '19F-IV': 89.2}",1,98.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024265,"{'11D': 99.7, '11A': 96.9, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,99.7,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251205,"{'15A': 98.3, '15F': 72.9, '15C': 61.6, '15B': 61.5, '23F': 32.2}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320055,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.0, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290985,"{'18A': 100.0, '18B': 54.0, '18C': 54.0, '18F': 53.7, '19F-IV': 37.3}",1,100.0,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900195125,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001168225,"{'19F-I': 95.4, '19F': 95.1, '19F-III': 93.6, '19F-II': 92.3, '19F-IV': 88.3}",1,95.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315725,"{'06A-V': 92.3, '06A-I': 92.1, '06A-III': 88.7, '06B': 88.5, '06A-II': 88.5}",1,92.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322595,"{'01': 99.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308485,"{'06B-III': 89.1, '06E': 88.2, '06A-II': 54.0, '06A-VI': 54.0, '06B-I': 53.4}",1,89.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001198315,"{'04': 98.3, '45': 33.5, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236865,"{'14': 99.6, '09L': 27.3, '36': 26.0, '09N': 25.1, '15B': 24.7}",1,99.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240995,"{'15A': 98.5, '15F': 73.1, '15C': 61.8, '15B': 61.7, '23F': 32.2}",1,98.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278525,"{'09L': 98.4, '09N': 90.2, '36': 32.5, '09A': 31.5, '09V': 31.5}",1,98.4,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256375,"{'19F': 94.8, '19F-I': 94.3, '19F-III': 93.2, '19F-II': 91.9, '19F-IV': 88.2}",1,94.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269615,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294405,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282015,"{'19A': 92.4, '19A-III': 92.2, '19A-II': 83.1, '19A-I': 81.1, '19AF': 56.1}",1,92.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257615,"{'05': 95.3, '45': 22.4, '36': 21.8, '20': 20.3, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337295,"{'01': 99.0, '19F': 31.9, '19F-I': 31.4, '19F-III': 31.2, '19F-II': 30.9}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255195,"{'09N': 97.9, '09L': 87.3, '09A': 31.4, '09V': 31.4, '36': 30.2}",1,97.9,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020715,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323225,"{'20': 99.5, '13': 26.0, '09L': 25.3, '09N': 24.3, '47F': 24.3}",1,99.5,,20,,,{},{},20,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223295,"{'19A-II': 98.1, '19A-I': 95.6, '19A': 84.1, '19A-III': 83.9, '19AF': 61.7}",1,98.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001345035,"{'11F': 61.8, '11D': 38.4, '11A': 36.8, '09V': 25.4, '09A': 25.3}",1,61.8,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300585,"{'12F': 95.9, '12B': 93.3, '44': 92.9, '12A': 84.8, '46': 81.7}",1,95.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334635,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900195165,"{'33F2': 100.0, '33F': 74.7, '33A': 70.3, '34': 41.7, '35B': 32.5}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001141745,"{'19F-I': 87.8, '19F': 87.1, '19F-III': 86.0, '19F-II': 84.8, '19F-IV': 80.8}",1,87.8,,19F,,,{},{},19F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233345,"{'08': 99.4, '06A-II': 24.3, '06A-VI': 24.2, '02': 24.1, '06B-II': 23.7}",1,99.4,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313855,"{'18C': 99.7, '18B': 99.6, '18F': 75.7, '18A': 62.5, '16F': 39.2}",1,99.7,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244325,"{'09N': 97.7, '09L': 87.5, '09A': 32.6, '09V': 32.6, '36': 29.8}",1,97.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257145,"{'20': 78.7, '47F': 28.0, '09L': 25.8, '13': 25.2, '09N': 25.1}",1,78.7,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001172065,"{'14': 89.9, '36': 28.6, '09L': 22.9, '19F-II': 22.2, '09N': 21.7}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281845,"{'01': 7.6, '20': 6.2, '36': 6.2, '25F': 6.0, '45': 5.9}",4,7.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001138685,"{'23B1': 98.8, '23B': 55.9, '19A-II': 36.0, '19A-I': 35.7, '19AF': 31.5}",1,98.8,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001120805,"{'36': 13.0, '20': 8.1, '06A-IV': 7.6, '06C': 6.2, '45': 6.2}",2,13.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026425,"{'06A-I': 100.0, '06B': 94.5, '06A-V': 89.1, '06A': 87.1, '06A-III': 85.8}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287195,"{'14': 92.2, '36': 29.1, '09L': 26.0, '09N': 24.8, '15B': 24.1}",1,92.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291275,"{'13': 83.6, '36': 31.3, '14': 27.1, '15B': 26.6, '15C': 26.2}",1,83.6,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226645,"{'16F': 71.7, '28F': 43.0, '28A': 40.5, '18F': 33.5, '18A': 33.4}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001114125,"{'16F': 95.7, '19F-II': 42.6, '19F-IV': 42.6, '28F': 42.4, '19F': 41.6}",1,95.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214535,"{'18C': 86.5, '18B': 86.4, '18F': 77.8, '18A': 61.9, '16F': 37.6}",1,86.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025935,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001171765,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000211075,"{'01': 99.9, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.3}",1,99.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234085,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346795,"{'14': 95.1, '36': 26.0, '15B': 24.3, '15C': 24.2, '09L': 23.9}",1,95.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900045485,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280665,"{'23A': 95.1, '23F': 68.0, '23B': 43.2, '19F-II': 40.0, '15B': 39.1}",1,95.1,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272545,"{'05': 95.3, '45': 22.3, '36': 21.8, '20': 20.3, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193975,"{'11D': 99.8, '11A': 97.0, '11F': 42.0, '11C': 35.7, '11B': 34.3}",1,99.8,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250015,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900692885,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329035,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.8, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246945,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234425,"{'06A-III': 94.6, '06B-I': 93.2, '06A': 90.3, '06A-IV': 89.3, '06B-II': 89.2}",1,94.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347515,"{'14': 89.6, '36': 29.2, '09L': 23.9, '09N': 23.1, '19F-II': 22.2}",1,89.6,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321455,"{'35B': 99.3, '33F': 33.4, '34': 33.3, '35C': 33.2, '35A': 32.8}",1,99.3,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254865,"{'05': 95.3, '45': 22.4, '36': 21.7, '20': 20.3, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291975,"{'23F': 94.0, '23A': 63.1, '23B': 48.2, '28A': 47.6, '28F': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019670865,"{'13': 98.8, '20': 28.6, '09L': 28.4, '09N': 28.1, '14': 26.9}",1,98.8,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342055,"{'16F': 71.5, '28F': 43.1, '28A': 40.6, '18F': 33.6, '18A': 32.9}",1,71.5,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245945,"{'18C': 99.1, '18B': 99.0, '18F': 75.9, '18A': 62.9, '16F': 39.1}",1,99.1,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001205175,"{'11F': 61.8, '11D': 38.4, '11A': 36.8, '09V': 25.4, '09A': 25.3}",1,61.8,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229995,"{'38': 90.2, '25F': 86.1, '25A': 85.1, '36': 11.9, '20': 8.2}",1,90.2,25F_25A_38,25F_25A_38,,"[[0], [18]]","{'wcyD': ['b: 22.59'], 'wcyV': 4.69}","{'wcyD': 0, 'wcyV': 'not_detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308225,"{'01': 7.5, '45': 6.5, '25F': 5.8, '25A': 5.6, '22F': 5.3}",5,7.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170405,"{'14': 92.4, '36': 28.2, '09L': 24.9, '15B': 24.2, '15C': 24.1}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337075,"{'09A': 99.7, '09V': 99.5, '09N': 38.6, '09L': 36.7, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252555,"{'15A': 98.3, '15F': 72.9, '15C': 61.6, '15B': 61.5, '23F': 32.2}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216745,"{'19F': 94.9, '19F-I': 94.4, '19F-III': 93.3, '19F-II': 92.0, '19F-IV': 88.3}",1,94.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276215,"{'06E': 99.8, '06B-III': 98.8, '06B-I': 46.5, '06A-III': 46.0, '06A-II': 45.4}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287555,"{'31': 99.7, '41A': 57.2, '41F': 49.3, '06A-II': 36.5, '06A-VI': 36.5}",1,99.7,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000019005,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171045,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344475,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297185,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907172105,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001343355,"{'15C': 87.5, '15B': 87.4, '15A': 64.3, '15F': 49.7, '23A': 30.2}",1,87.5,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001132845,"{'22A': 94.2, '22F': 75.9, '06A-IV': 45.6, '06A-II': 43.9, '06B-I': 43.9}",1,94.2,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001330835,"{'06E': 99.8, '06B-III': 96.0, '06B-I': 43.8, '06A-III': 43.3, '06A-I': 42.6}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324555,"{'18A': 99.9, '18B': 54.0, '18C': 54.0, '18F': 53.7, '19F-IV': 37.2}",1,99.9,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257955,"{'23B': 90.2, '23B1': 61.7, '23F': 40.2, '23A': 34.3, '28A': 33.1}",1,90.2,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900062975,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319045,"{'04': 99.2, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293255,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001102065,"{'35B': 42.5, '33B': 40.2, '33D': 36.1, '34': 31.3, '33F': 29.7}",1,42.5,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323995,"{'35B': 99.6, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.6,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293465,"{'03': 95.2, '01': 18.2, '36': 17.4, '20': 16.1, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292065,"{'07C': 96.7, '07B': 77.3, '40': 74.6, '24F': 47.9, '24B': 47.8}",1,96.7,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304475,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168455,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301725,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.6, '19A-III': 87.4, '19AF': 61.9}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 92.87]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250355,"{'15A': 98.3, '15F': 72.9, '15C': 61.6, '15B': 61.5, '23F': 32.2}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000231965,"{'19A': 99.1, '19A-III': 98.9, '19A-I': 86.0, '19A-II': 83.7, '19AF': 56.9}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280545,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257835,"{'08': 99.7, '06A-II': 24.6, '06A-VI': 24.5, '02': 24.4, '06B-II': 24.0}",1,99.7,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262725,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001160005,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001148485,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024615,"{'07A': 99.3, '07F': 99.1, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.3,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317675,"{'04': 98.3, '45': 34.0, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335965,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001126025,"{'23A': 96.6, '23F': 67.7, '23B': 45.9, '19F-II': 39.4, '15B': 38.5}",1,96.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051455,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057095,"{'06E': 83.2, '06B-III': 82.1, '06B-I': 55.4, '06A-III': 53.9, '06A-II': 53.3}",1,83.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 96.61]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001145885,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190025,"{'15B': 99.8, '15C': 99.6, '15A': 62.7, '15F': 48.3, '23A': 32.9}",1,99.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222625,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258765,"{'12F': 96.2, '44': 93.2, '12B': 93.1, '12A': 84.6, '46': 81.5}",1,96.2,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295845,"{'06E': 100.0, '06B-III': 97.9, '06B-I': 45.6, '06A-III': 45.1, '06A-II': 44.1}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274145,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270175,"{'01': 98.8, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,98.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265835,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231005,"{'19A': 79.1, '19A-III': 78.9, '19A-I': 67.8, '19A-II': 66.1, '19AF': 59.9}",1,79.1,19A_19AF,19A_19AF,,[[0]],{'wzy': ['2: 69.2']},{'wzy': 0},19A_19AF,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001125765,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272155,"{'23F': 96.7, '23A': 63.8, '06A-IV': 50.8, '23B': 50.3, '06B-II': 48.5}",1,96.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292315,"{'09A': 95.8, '09V': 95.6, '09N': 38.7, '09L': 37.5, '11F': 26.7}",1,95.8,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318905,"{'03': 95.2, '01': 18.2, '36': 17.4, '20': 16.1, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001199435,"{'14': 89.9, '36': 29.3, '09L': 23.6, '09N': 22.7, '19F-II': 22.2}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241295,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332535,"{'19A-I': 99.2, '19A-II': 97.5, '19A': 87.8, '19A-III': 87.6, '19AF': 61.8}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057945,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237255,"{'14': 92.5, '36': 28.9, '09L': 25.5, '09N': 24.6, '15B': 24.1}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309675,"{'20': 98.6, '13': 26.1, '09L': 25.3, '09N': 24.7, '36': 24.5}",1,98.6,,20,,,{},{},20,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285185,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307635,"{'19A': 79.4, '19A-III': 79.2, '19A-I': 68.1, '19A-II': 66.7, '19AF': 60.2}",1,79.4,19A_19AF,19A_19AF,,[[0]],{'wzy': ['2: 69.2']},{'wzy': 0},19A_19AF,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291795,"{'18C': 99.8, '18B': 99.7, '18F': 75.7, '18A': 62.6, '16F': 39.2}",1,99.8,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169285,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275295,"{'16F': 71.9, '28F': 43.8, '28A': 41.0, '18F': 34.1, '18A': 33.9}",1,71.9,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_909594875,"{'14': 92.4, '36': 29.0, '09L': 25.9, '09N': 24.7, '15B': 24.2}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280205,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299915,"{'10A': 99.0, '10B': 66.7, '10C': 27.7, '10F': 18.1, '22F': 15.4}",1,99.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190655,"{'06C-I': 100.0, '06C': 99.8, '06D': 84.6, '06A-II': 79.6, '06A-VI': 79.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229055,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304665,"{'01': 99.9, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.3}",1,99.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265845,"{'05': 95.3, '45': 22.5, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900048855,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314965,"{'23F': 96.8, '23A': 63.7, '23B': 48.0, '28A': 47.7, '06B-II': 46.1}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001148165,"{'35B': 99.2, '33F': 33.3, '35C': 33.1, '34': 32.9, '35A': 32.7}",1,99.2,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314085,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001173865,"{'06A': 89.7, '06A-III': 89.3, '06B-I': 88.0, '06B-II': 87.8, '06A-II': 87.3}",1,89.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001336375,"{'11F': 61.5, '11D': 38.4, '11A': 36.8, '09V': 25.2, '09A': 25.1}",1,61.5,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252955,"{'01': 99.1, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312825,"{'01': 99.0, '19F': 32.0, '19F-I': 31.5, '19F-III': 31.3, '19F-II': 31.0}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191555,"{'11D': 99.7, '11A': 96.9, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,99.7,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335485,"{'05': 95.1, '45': 22.3, '36': 21.4, '20': 20.4, '12A': 19.8}",1,95.1,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289015,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032145,"{'19A-II': 100.0, '19A-I': 96.6, '19A': 85.0, '19A-III': 84.8, '19AF': 62.1}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001083625,"{'06E': 100.0, '06B-III': 97.4, '06B-I': 45.3, '06A-III': 44.4, '06B-II': 43.9}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265425,"{'03': 97.4, '01': 17.5, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241545,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318895,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285495,"{'03': 94.9, '01': 17.9, '36': 17.2, '09N': 15.9, '20': 15.8}",1,94.9,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001201235,"{'15A': 96.9, '15F': 73.1, '15C': 61.0, '15B': 60.9, '23F': 31.3}",1,96.9,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297555,"{'06E': 78.9, '06B-III': 78.3, '06B-I': 57.2, '06A-III': 55.7, '06A-II': 54.9}",1,78.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001140225,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001155945,"{'06E': 100.0, '06B-III': 99.3, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244925,"{'04': 99.7, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054045,"{'15C': 96.2, '15B': 96.1, '15A': 61.5, '15F': 47.8, '23A': 34.7}",1,96.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294815,"{'23F': 93.9, '23A': 63.4, '28A': 48.4, '23B': 46.9, '06A-III': 46.4}",1,93.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256285,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228935,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326765,"{'05': 95.2, '45': 22.2, '36': 21.0, '12A': 19.7, '46': 19.6}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312925,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190525,"{'06C-I': 92.6, '06C': 92.4, '06D': 83.0, '06A-V': 77.5, '06B-I': 77.5}",1,92.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300375,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017805,"{'19F-I': 99.6, '19F': 96.6, '19F-III': 96.6, '19F-II': 93.8, '19F-IV': 89.2}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300055,"{'01': 6.9, '45': 5.8, '25F': 5.6, '20': 5.4, '25A': 5.4}",2,6.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021785,"{'09A': 99.7, '09V': 99.5, '09N': 38.6, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318935,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.2, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240875,"{'29': 98.9, '39': 21.0, '35F': 19.4, '22F': 16.9, '35B': 16.5}",1,98.9,,29,,,{},{},29,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001197675,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001164145,"{'45': 6.4, '25F': 5.3, '20': 5.2, '25A': 5.1, '36': 5.1}",2,6.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001120925,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308695,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001170525,"{'23B1': 98.8, '23B': 55.9, '19A-II': 36.0, '19A-I': 35.7, '19AF': 31.5}",1,98.8,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297585,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001172645,"{'01': 7.1, '45': 5.8, '25F': 5.7, '25A': 5.5, '20': 5.1}",3,7.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290005,"{'06B-III': 87.4, '06E': 87.0, '06A-V': 53.1, '06B-I': 52.7, '06B-II': 52.7}",1,87.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239805,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272765,"{'06E': 100.0, '06B-III': 99.0, '06B-I': 46.5, '06A-III': 46.0, '06A-II': 45.0}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220255,"{'06A-II': 85.5, '06A-VI': 85.5, '06A-III': 85.4, '06A-V': 84.8, '06A': 84.0}",1,85.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001330635,"{'19F': 95.5, '19F-I': 95.5, '19F-III': 93.9, '19F-II': 92.4, '19F-IV': 88.5}",1,95.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300235,"{'33F': 100.0, '33A': 97.5, '33F2': 70.9, '35C': 42.8, '42': 41.8}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900088765,"{'19A': 99.9, '19A-III': 99.7, '19A-I': 86.1, '19A-II': 83.6, '19AF': 57.2}",1,99.9,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327905,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001084305,"{'23A': 96.6, '23F': 67.7, '23B': 45.9, '19F-II': 39.4, '15B': 38.5}",1,96.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293225,"{'10B': 93.7, '10A': 69.9, '10F': 20.0, '10C': 18.7, '22F': 14.2}",1,93.7,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239435,"{'14': 91.4, '19F-IV': 25.9, '36': 25.3, '09L': 25.1, '09N': 24.9}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335275,"{'19F': 94.7, '19F-I': 94.2, '19F-III': 93.1, '19F-II': 91.8, '19F-IV': 88.1}",1,94.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055995,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.7, '19A-III': 87.5, '19AF': 62.0}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229175,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.7, '19A-III': 87.5, '19AF': 61.8}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001139805,"{'36': 13.5, '20': 8.7, '23B1': 8.1, '06A-IV': 7.1, '45': 5.9}",1,13.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280335,"{'06A-II': 95.4, '06A-VI': 95.4, '06B-II': 89.4, '06A-V': 89.0, '06A-III': 88.3}",1,95.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023355,"{'08': 99.7, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.7,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258535,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169425,"{'14': 92.5, '36': 28.5, '09L': 25.4, '09N': 24.0, '15B': 24.0}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256195,"{'35B': 99.3, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.3,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001637385,"{'06A-I': 99.9, '06B': 94.4, '06A-V': 89.5, '06A': 87.0, '06A-III': 86.2}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230945,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001168845,"{'01': 5.7, '45': 5.0, '22F': 4.3, '25F': 3.6, '25A': 3.5}",1,5.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238805,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 89.6, '06A': 87.7, '06A-III': 86.1}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256345,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230765,"{'15C': 87.7, '15B': 87.6, '15A': 60.9, '15F': 48.0, '23A': 31.3}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298495,"{'06B-III': 77.4, '06E': 76.8, '06A-II': 65.8, '06A-VI': 65.8, '06B-II': 61.8}",1,77.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001133385,"{'34': 92.9, '33F2': 34.7, '35B': 30.4, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312945,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247325,"{'06B-I': 99.1, '06A-III': 97.3, '06B-II': 89.9, '06A': 89.6, '06A-V': 88.0}",1,99.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001201875,"{'21': 92.2, '22F': 35.0, '06A-IV': 34.3, '06A-II': 34.0, '06A-VI': 34.0}",1,92.2,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250375,"{'29': 59.6, '35B': 37.5, '35F': 26.8, '22F': 23.1, '33B': 23.1}",1,59.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289925,"{'15C': 86.9, '15B': 86.8, '15A': 66.3, '15F': 51.3, '23A': 28.5}",1,86.9,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001126005,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252005,"{'04': 99.8, '45': 33.2, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215315,"{'04': 99.2, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900061185,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266305,"{'31': 99.8, '41A': 57.3, '41F': 49.0, '22F': 36.4, '06A-II': 36.4}",1,99.8,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228655,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298265,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020675,"{'31': 99.7, '41A': 57.2, '41F': 48.9, '06A-II': 36.5, '06A-VI': 36.5}",1,99.7,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278465,"{'18C': 99.1, '18B': 99.0, '18F': 75.7, '18A': 62.9, '16F': 39.3}",1,99.1,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247815,"{'06A-II': 84.7, '06A-VI': 84.7, '06A-V': 83.2, '06B-II': 82.8, '06A-III': 82.7}",1,84.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285675,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000411715,"{'36': 7.0, '45': 6.9, '01': 6.8, '20': 5.9, '23B1': 5.1}",1,7.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333065,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001118025,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262845,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001172425,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219415,"{'09A': 96.0, '09V': 95.8, '09N': 38.5, '09L': 37.4, '11F': 26.7}",1,96.0,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001099545,"{'36': 12.6, '06A-IV': 8.5, '20': 8.2, '06B-I': 7.3, '06C': 7.2}",1,12.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001136545,"{'15A': 97.1, '15F': 73.5, '15C': 61.3, '15B': 61.2, '23F': 31.1}",1,97.1,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340445,"{'06A': 86.2, '06A-III': 85.3, '06A-V': 84.5, '06A-II': 84.1, '06A-VI': 84.1}",1,86.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900195085,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254295,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325775,"{'03': 95.2, '01': 17.2, '36': 16.9, '20': 16.0, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337425,"{'21': 99.7, '22F': 36.3, '06A-IV': 33.8, '06A-II': 33.2, '06A-VI': 33.1}",1,99.7,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907172025,"{'14': 92.5, '36': 28.1, '09L': 25.6, '09N': 24.7, '15B': 24.2}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304175,"{'14': 93.1, '36': 27.3, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305755,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268105,"{'19F': 96.9, '19F-I': 95.9, '19F-III': 95.2, '19F-II': 95.0, '19F-IV': 90.5}",1,96.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001130045,"{'23F': 94.6, '23A': 63.7, '28A': 47.7, '23B': 47.0, '06A': 46.4}",1,94.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001197415,"{'19F': 94.7, '19F-I': 94.2, '19F-III': 93.1, '19F-II': 91.8, '19F-IV': 88.1}",1,94.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218675,"{'01': 7.0, '45': 5.9, '25F': 5.7, '20': 5.5, '25A': 5.5}",3,7.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001136625,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.3}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217975,"{'19F-I': 97.6, '19F': 96.9, '19F-III': 96.4, '19F-II': 94.9, '19F-IV': 90.0}",1,97.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907172255,"{'19F-III': 98.4, '19F': 98.0, '19F-I': 98.0, '19F-II': 93.8, '19F-IV': 89.2}",1,98.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224245,"{'01': 99.3, '19F': 32.0, '19F-I': 31.5, '19F-III': 31.3, '19F-II': 31.0}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321345,"{'15A': 97.0, '15F': 72.5, '15C': 60.1, '15B': 60.0, '23F': 29.9}",1,97.0,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001096125,"{'06A-III': 98.5, '06B-I': 96.9, '06A': 90.6, '06B-II': 90.4, '06A-V': 89.5}",1,98.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335055,"{'16F': 95.7, '19F-II': 42.6, '19F-IV': 42.6, '28F': 42.4, '19F': 41.6}",1,95.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322565,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264015,"{'18C': 88.3, '18B': 88.2, '18F': 77.8, '18A': 61.6, '16F': 37.6}",1,88.3,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266785,"{'46': 87.5, '12A': 86.2, '12B': 78.2, '12F': 76.2, '44': 76.2}",1,87.5,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[4]],"{'wciI': [1, 91.4]}",{'wciI': 1},12A/12B/44/46,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334565,"{'10F': 98.4, '10C': 81.1, '10B': 22.4, '10A': 19.2, '22F': 15.7}",1,98.4,,10F,,,{},{},10F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279175,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255725,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.1, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293165,"{'14': 93.0, '36': 27.3, '09L': 25.8, '09N': 25.5, '15B': 24.3}",1,93.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216455,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027285,"{'03': 95.2, '36': 18.1, '09N': 15.7, '20': 15.4, '09L': 15.3}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292735,"{'18C': 99.8, '18B': 99.7, '18F': 75.7, '18A': 62.6, '16F': 39.2}",1,99.8,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300175,"{'23F': 99.3, '23A': 65.5, '23B': 49.1, '28A': 48.2, '06A-IV': 47.3}",1,99.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272775,"{'06E': 99.9, '06B-III': 98.3, '06B-I': 45.6, '06A-III': 45.1, '06B-II': 44.3}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001114005,"{'23F': 93.9, '23A': 63.4, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,93.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226025,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319205,"{'16F': 71.7, '28F': 43.2, '28A': 40.7, '18F': 33.7, '18A': 33.1}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241645,"{'14': 95.0, '36': 26.1, '09L': 25.5, '09N': 24.8, '15B': 24.3}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215545,"{'23F': 93.4, '23A': 62.8, '28A': 48.4, '23B': 48.2, '06A-IV': 47.6}",1,93.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308385,"{'23A': 97.5, '23F': 68.8, '23B': 40.1, '19F-II': 39.2, '15B': 38.8}",1,97.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231605,"{'19F-III': 99.7, '19F': 97.7, '19F-I': 97.0, '19F-II': 94.5, '19F-IV': 89.2}",1,99.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900064155,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049515,"{'19A': 93.4, '19A-III': 93.2, '19A-II': 81.8, '19A-I': 80.0, '19AF': 55.9}",1,93.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235705,"{'06A-II': 95.5, '06A-VI': 95.5, '06B-II': 89.4, '06A-V': 89.0, '06A-III': 88.4}",1,95.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001150605,"{'01': 6.5, '25F': 5.7, '45': 5.7, '25A': 5.5, '20': 5.0}",2,6.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001151465,"{'36': 13.0, '20': 8.1, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",1,13.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335765,"{'09L': 99.7, '09N': 89.8, '36': 32.0, '09A': 30.3, '09V': 30.3}",1,99.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019446575,"{'35B': 98.9, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,98.9,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055325,"{'07A': 99.6, '07F': 99.4, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.6,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261375,"{'04': 99.2, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341875,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001169605,"{'36': 5.5, '25F': 4.7, '25A': 4.6, '12A': 4.4, '45': 4.4}",1,5.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289005,"{'11D': 79.2, '11A': 78.7, '11F': 44.0, '11B': 34.7, '11C': 31.0}",1,79.2,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305905,"{'35A': 92.1, '35C': 89.7, '42': 89.1, '33A': 45.0, '33F': 44.4}",1,92.1,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248575,"{'09A': 99.4, '09V': 99.2, '09N': 38.4, '09L': 36.5, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250775,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171775,"{'14': 92.6, '36': 28.3, '09L': 24.7, '15B': 24.2, '15C': 24.1}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326755,"{'06A-III': 94.7, '06B-I': 93.3, '06A': 90.2, '06A-IV': 89.4, '06B-II': 89.3}",1,94.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238205,"{'10B': 93.7, '10A': 69.9, '10F': 20.0, '10C': 18.7, '22F': 14.2}",1,93.7,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333025,"{'33F': 100.0, '33A': 99.9, '33F2': 70.9, '35C': 43.0, '42': 42.0}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001157945,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002813955,"{'11F': 62.8, '11D': 38.8, '11A': 37.2, '09V': 26.5, '09A': 26.4}",1,62.8,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194305,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.7, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274175,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001094905,"{'06E': 100.0, '06B-III': 97.4, '06B-I': 44.7, '06A-III': 44.2, '06B-II': 43.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293975,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053985,"{'16F': 98.0, '28F': 42.7, '19F-IV': 42.4, '19F-II': 41.6, '18F': 41.5}",1,98.0,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189145,"{'23F': 99.2, '23A': 65.4, '23B': 49.0, '28A': 48.1, '06A-IV': 47.2}",1,99.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001095745,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238585,"{'11D': 99.7, '11A': 96.9, '11F': 41.9, '11C': 35.8, '11B': 34.3}",1,99.7,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284815,"{'19F-I': 95.9, '19F': 95.6, '19F-III': 94.0, '19F-II': 92.8, '19F-IV': 88.8}",1,95.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309655,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265705,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226275,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289625,"{'03': 95.2, '01': 18.2, '36': 17.4, '20': 16.1, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001158345,"{'15A': 100.0, '15F': 74.3, '15C': 62.0, '15B': 61.9, '23F': 31.7}",1,100.0,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241825,"{'12F': 96.1, '44': 93.1, '12B': 93.0, '12A': 84.5, '46': 81.4}",1,96.1,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167915,"{'14': 93.3, '36': 27.1, '09L': 25.0, '15B': 24.3, '15C': 24.2}",1,93.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341925,"{'18A': 90.5, '18B': 54.1, '18C': 54.1, '18F': 53.5, '16F': 35.5}",1,90.5,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292685,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171165,"{'14': 91.4, '36': 28.7, '09L': 25.4, '09N': 24.2, '15B': 23.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223485,"{'11D': 96.5, '11A': 95.3, '11F': 43.3, '11C': 36.2, '11B': 34.8}",1,96.5,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243335,"{'34': 98.7, '33F2': 35.2, '35B': 33.6, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215735,"{'06E': 99.8, '06B-III': 98.8, '06B-I': 46.4, '06A-III': 45.9, '06A-II': 44.9}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 96.61]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216985,"{'16F': 98.2, '28F': 42.9, '19F-IV': 41.5, '18A': 41.4, '19F-II': 41.1}",1,98.2,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054135,"{'23F': 93.8, '23A': 63.3, '28A': 48.3, '23B': 46.8, '06A-III': 46.3}",1,93.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055165,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900034135,"{'23F': 97.8, '23A': 63.3, '28A': 48.3, '23B': 47.9, '06A-IV': 46.4}",1,97.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001982705,"{'07A': 99.4, '07F': 99.2, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.4,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338675,"{'05': 95.2, '45': 22.2, '36': 21.6, '20': 20.3, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341845,"{'06A': 93.5, '06A-III': 90.3, '06B-I': 90.2, '06B-II': 90.0, '06A-V': 89.5}",1,93.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327015,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216005,"{'09A': 99.7, '09V': 99.5, '09N': 38.3, '09L': 36.6, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306255,"{'06A-I': 99.2, '06B': 94.9, '06A': 87.7, '06A-V': 86.0, '06A-III': 82.1}",1,99.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241305,"{'20': 82.1, '47F': 25.9, '35A': 24.6, '09L': 24.5, '36': 24.2}",1,82.1,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233385,"{'06E': 91.9, '06B-III': 91.7, '06B-I': 53.0, '06A-III': 52.4, '06A-IV': 51.7}",1,91.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022205,"{'09A': 99.7, '09V': 99.5, '09N': 38.2, '09L': 36.8, '35B': 26.7}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031355,"{'18C': 99.7, '18B': 99.6, '18F': 75.7, '18A': 62.5, '16F': 39.2}",1,99.7,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233805,"{'14': 91.4, '19F-IV': 25.9, '36': 25.0, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023035,"{'14': 99.9, '09L': 27.2, '36': 26.1, '09N': 24.8, '15B': 24.3}",1,99.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900195265,"{'15C': 95.0, '15B': 94.9, '15A': 60.8, '15F': 47.1, '23A': 34.7}",1,95.0,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333075,"{'06E': 99.6, '06B-III': 99.3, '06B-I': 47.0, '06A-III': 46.4, '06A-II': 45.5}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398385,"{'19F-I': 95.8, '19F': 95.3, '19F-III': 93.9, '19F-II': 92.5, '19F-IV': 88.5}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264075,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237885,"{'17F': 99.6, '06B': 44.3, '06B-I': 44.1, '06A-III': 44.0, '06D': 43.7}",1,99.6,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194525,"{'35F': 99.1, '47F': 74.6, '34': 27.1, '35B': 26.6, '36': 22.6}",1,99.1,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268655,"{'10A': 98.4, '10B': 67.5, '10C': 27.9, '10F': 18.3, '22F': 15.8}",1,98.4,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339105,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214185,"{'11B': 99.8, '11C': 89.4, '11A': 31.3, '11D': 31.0, '11F': 25.7}",1,99.8,,11B/11C,,,{},{},11B/11C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001130705,"{'36': 11.7, '20': 8.0, '06A-IV': 7.5, '06B-I': 6.4, '45': 6.3}",1,11.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319865,"{'12F': 96.4, '44': 93.4, '12B': 93.3, '12A': 84.8, '46': 81.7}",1,96.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293845,"{'13': 83.3, '36': 28.9, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001345775,"{'09L': 94.9, '09N': 86.2, '09A': 31.0, '09V': 31.0, '36': 26.2}",1,94.9,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001117405,"{'19A': 99.5, '19A-III': 99.3, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,99.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033435,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293245,"{'19A': 99.5, '19A-III': 99.3, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236735,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303305,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279655,"{'16F': 73.0, '28F': 44.4, '28A': 41.6, '18F': 35.4, '18A': 34.8}",1,73.0,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001135165,"{'35F': 91.0, '47F': 67.6, '29': 25.7, '34': 25.3, '35B': 25.2}",1,91.0,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293205,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262565,"{'01': 7.6, '25F': 6.7, '25A': 6.5, '45': 5.9, '06A-IV': 5.4}",3,7.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018575,"{'20': 99.4, '13': 26.1, '09L': 25.5, '36': 25.0, '47F': 24.4}",1,99.4,,20,,,{},{},20,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001117845,"{'06A': 89.6, '06A-III': 89.2, '06B-I': 87.9, '06B-II': 87.7, '06A-II': 87.2}",1,89.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248095,"{'07C': 94.0, '07B': 77.1, '40': 76.7, '24B': 48.6, '24F': 47.6}",1,94.0,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001094985,"{'03': 94.8, '36': 17.0, '20': 15.7, '01': 14.2, '09L': 14.2}",1,94.8,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290765,"{'03': 95.2, '01': 17.5, '09L': 15.5, '09N': 15.1, '14': 13.9}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232085,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900058995,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001192315,"{'45': 97.3, '04': 38.8, '06A-II': 32.8, '06A-VI': 32.7, '06B-I': 32.6}",1,97.3,,45,,,{},{},45,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171075,"{'14': 92.7, '36': 28.9, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001139525,"{'03': 95.2, '36': 16.9, '01': 15.8, '20': 15.8, '09L': 14.6}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169515,"{'14': 92.7, '36': 28.8, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316925,"{'01': 99.3, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324535,"{'14': 94.9, '36': 27.7, '09L': 25.3, '09N': 24.4, '15B': 24.1}",1,94.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193315,"{'01': 95.7, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,95.7,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249105,"{'14': 92.7, '36': 29.0, '09L': 25.6, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308905,"{'22F': 94.0, '22A': 70.2, '06A-II': 45.3, '06A-VI': 45.2, '06B-I': 45.2}",1,94.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231545,"{'06E': 100.0, '06B-III': 99.1, '06B-I': 46.6, '06A-III': 46.1, '06A-II': 45.1}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265725,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336775,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257585,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001134025,"{'06A': 89.7, '06A-III': 89.3, '06B-I': 88.0, '06B-II': 87.8, '06A-II': 87.3}",1,89.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260505,"{'15C': 87.7, '15B': 87.6, '15A': 60.9, '15F': 48.0, '23A': 31.3}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284935,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220605,"{'06E': 99.5, '06B-III': 99.2, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.5}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226465,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244245,"{'14': 91.4, '19F-IV': 25.9, '09L': 24.8, '09N': 24.7, '36': 24.5}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194475,"{'31': 99.6, '41A': 57.1, '41F': 48.9, '06A-II': 36.6, '06A-VI': 36.6}",1,99.6,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336935,"{'06E': 85.3, '06B-III': 85.2, '06A-II': 57.4, '06A-VI': 57.4, '06B-I': 55.8}",1,85.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290955,"{'38': 90.2, '25F': 86.1, '25A': 85.1, '36': 11.9, '20': 8.3}",1,90.2,25F_25A_38,25F_25A_38,,"[[0], [18]]","{'wcyD': ['b: 22.59'], 'wcyV': 4.69}","{'wcyD': 0, 'wcyV': 'not_detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336385,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231865,"{'23F': 78.4, '23A': 58.1, '23B': 52.1, '28A': 39.2, '28F': 36.6}",1,78.4,,23F,,,{},{},23F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237795,"{'06B-I': 99.3, '06A-III': 97.1, '06B-II': 89.7, '06A': 89.4, '06A-V': 87.8}",1,99.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307775,"{'03': 97.4, '01': 17.8, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267125,"{'35F': 99.0, '47F': 74.5, '34': 27.1, '35B': 26.6, '29': 22.5}",1,99.0,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001099105,"{'14': 94.6, '36': 25.9, '15B': 24.2, '09L': 24.1, '15C': 24.1}",1,94.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276075,"{'14': 91.4, '19F-IV': 25.9, '09L': 24.8, '09N': 24.7, '36': 24.2}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339705,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001100745,"{'03': 95.1, '01': 17.4, '09N': 15.3, '20': 15.2, '09L': 15.1}",1,95.1,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900060825,"{'07A': 99.7, '07F': 99.5, '19F-II': 39.1, '19A': 38.7, '19A-III': 38.7}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300695,"{'15A': 98.5, '15F': 73.7, '15C': 62.0, '15B': 61.9, '23F': 31.9}",1,98.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279265,"{'06A-I': 98.1, '06B': 95.1, '06A': 88.3, '06A-V': 84.9, '06A-III': 83.1}",1,98.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297705,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222825,"{'19F-II': 99.0, '19F': 95.2, '19F-III': 93.8, '19F-I': 93.5, '19F-IV': 93.1}",1,99.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230445,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028445,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289105,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001198455,"{'10A': 99.3, '10B': 67.0, '10C': 27.7, '10F': 18.1, '06B-I': 15.2}",1,99.3,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001111765,"{'03': 95.2, '01': 17.3, '36': 17.1, '20': 15.9, '09L': 15.5}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341115,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298645,"{'19A': 99.2, '19A-III': 99.0, '19A-I': 86.1, '19A-II': 83.8, '19AF': 57.2}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900064135,"{'06C-I': 91.1, '06C': 91.0, '06D': 84.7, '06B-I': 82.5, '06A-III': 81.3}",1,91.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001334895,"{'36': 10.6, '06A-IV': 7.1, '01': 6.8, '20': 6.1, '06B-I': 5.9}",1,10.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273665,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341595,"{'22A': 94.2, '22F': 77.6, '06A-IV': 45.8, '06A-II': 44.1, '06B-I': 44.1}",1,94.2,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245625,"{'16F': 95.4, '28F': 41.8, '18F': 41.6, '28A': 40.1, '19F-II': 39.8}",1,95.4,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263765,"{'10F': 98.2, '10C': 80.9, '10B': 22.4, '10A': 19.2, '22F': 15.6}",1,98.2,,10F,,,{},{},10F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333325,"{'06E': 99.2, '06B-III': 98.9, '06B-I': 46.7, '06A-III': 46.2, '06A-II': 45.2}",1,99.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027555,"{'24F2': 99.8, '24B': 88.6, '24F': 87.1, '24A': 71.3, '07B': 55.3}",1,99.8,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032155,"{'14': 99.9, '09L': 27.2, '36': 25.8, '09N': 24.9, '15B': 24.3}",1,99.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330435,"{'17F': 82.3, '06A-I': 42.2, '06B': 41.8, '06A': 41.2, '06A-III': 40.5}",1,82.3,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238555,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279105,"{'14': 99.8, '09L': 26.9, '36': 26.9, '09N': 24.8, '15B': 24.2}",1,99.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026635,"{'33F2': 99.6, '33F': 74.6, '33A': 70.2, '34': 41.9, '35B': 32.5}",1,99.6,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305115,"{'04': 97.7, '45': 33.6, '12F': 23.6, '44': 23.4, '12A': 22.4}",1,97.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001118985,"{'03': 94.2, '36': 17.2, '20': 15.8, '01': 15.4, '14': 14.1}",1,94.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258905,"{'09N': 98.3, '09L': 87.1, '09A': 31.4, '09V': 31.4, '36': 30.2}",1,98.3,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023485,"{'19F-I': 99.7, '19F': 96.7, '19F-III': 96.7, '19F-II': 93.9, '19F-IV': 89.3}",1,99.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261735,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233175,"{'14': 99.9, '09L': 27.2, '36': 26.0, '09N': 24.6, '15B': 24.3}",1,99.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901343125,"{'38': 90.7, '25F': 86.8, '25A': 85.8, '36': 16.0, '20': 7.5}",1,90.7,25F_25A_38,25F_25A_38,,"[[0], [18]]","{'wcyD': ['b: 22.59'], 'wcyV': 4.69}","{'wcyD': 0, 'wcyV': 'not_detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226105,"{'34': 98.7, '33F2': 35.2, '35B': 33.4, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260925,"{'23F': 93.8, '23A': 63.3, '28A': 48.3, '23B': 46.3, '06A': 46.1}",1,93.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255075,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299265,"{'24F2': 99.5, '24B': 88.3, '24F': 86.8, '24A': 70.8, '07B': 56.8}",1,99.5,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033885,"{'19A': 99.4, '19A-III': 99.2, '19A-I': 86.1, '19A-II': 83.3, '19AF': 57.1}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900046685,"{'15C': 93.9, '15B': 93.8, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274035,"{'13': 83.3, '36': 28.8, '09N': 26.0, '09L': 25.7, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316545,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230995,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001348295,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249995,"{'19A-I': 99.2, '19A-II': 97.2, '19A': 87.8, '19A-III': 87.6, '19AF': 62.0}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221455,"{'14': 91.2, '19F-IV': 25.8, '09L': 24.9, '36': 24.6, '09N': 24.4}",1,91.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_009720985,"{'11D': 100.0, '11A': 97.2, '24F2': 53.8, '24B': 51.2, '24F': 50.3}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224835,"{'18C': 88.5, '18B': 88.4, '18F': 77.8, '18A': 61.5, '16F': 37.6}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900060935,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019397945,"{'06A': 91.4, '06A-III': 89.4, '06B-II': 88.5, '06B-I': 88.1, '06A-V': 87.9}",1,91.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 83.83']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051165,"{'06C': 84.7, '06C-I': 84.7, '06D': 84.3, '06A-I': 79.7, '06B': 79.6}",1,84.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 89.8']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264925,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222905,"{'23F': 94.1, '23A': 63.4, '06A-IV': 48.0, '28A': 47.7, '23B': 47.1}",1,94.1,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338395,"{'15C': 87.6, '15B': 87.5, '15A': 64.4, '15F': 49.8, '23A': 30.0}",1,87.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167555,"{'09A': 99.7, '09V': 99.5, '09N': 36.7, '09L': 35.6, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307545,"{'14': 91.3, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315095,"{'12F': 96.4, '44': 93.4, '12B': 93.3, '12A': 84.8, '46': 81.7}",1,96.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327255,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900044105,"{'09N': 99.6, '09L': 88.9, '09A': 32.7, '09V': 32.7, '36': 29.4}",1,99.6,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019457175,"{'20': 99.5, '13': 26.1, '09L': 25.6, '36': 25.0, '09N': 24.7}",1,99.5,,20,,,{},{},20,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256405,"{'12F': 96.7, '44': 93.4, '12B': 92.7, '12A': 80.4, '46': 77.3}",1,96.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341545,"{'23F': 97.0, '23A': 63.9, '23B': 47.9, '28A': 47.7, '28F': 46.0}",1,97.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332965,"{'15A': 99.8, '15F': 74.2, '15C': 61.9, '15B': 61.8, '23F': 31.6}",1,99.8,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001158685,"{'19F-I': 95.5, '19F': 95.2, '19F-III': 93.7, '19F-II': 92.4, '19F-IV': 88.4}",1,95.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310035,"{'14': 93.4, '09L': 27.5, '36': 27.3, '09N': 25.4, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057415,"{'23B1': 99.9, '23B': 55.8, '19A-II': 36.2, '19A-I': 35.9, '19AF': 31.7}",1,99.9,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220915,"{'34': 93.0, '33F2': 34.7, '35B': 32.1, '33F': 29.0, '33C': 28.0}",1,93.0,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283155,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.7, '06B-II': 35.1, '06A-V': 34.9}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232055,"{'04': 99.5, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.5,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255995,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327495,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047795,"{'23F': 99.0, '23A': 64.8, '23B': 47.6, '28A': 47.5, '06A-V': 45.8}",1,99.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001091125,"{'06E': 100.0, '06B-III': 98.8, '06B-I': 46.4, '06A-III': 45.9, '06A-II': 44.9}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001336555,"{'36': 11.5, '23B1': 7.2, '01': 6.7, '06A-IV': 6.7, '20': 6.4}",1,11.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251645,"{'01': 99.1, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340505,"{'06A-II': 95.5, '06A-VI': 95.5, '06B-II': 89.5, '06A-V': 89.1, '06A-III': 88.4}",1,95.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282695,"{'01': 99.0, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020805,"{'12F': 96.7, '44': 93.4, '12B': 92.7, '12A': 80.4, '46': 77.3}",1,96.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283265,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216915,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321635,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001340595,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900036465,"{'07A': 99.5, '07F': 99.3, '19F-II': 36.7, '19F-IV': 36.1, '19F': 35.2}",1,99.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001127745,"{'36': 11.7, '06A-IV': 7.5, '20': 7.2, '06C': 6.1, '06B-I': 6.1}",1,11.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169365,"{'14': 92.7, '36': 28.8, '09L': 25.7, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225325,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001173125,"{'19F-II': 98.9, '19F': 95.1, '19F-III': 93.8, '19F-I': 93.4, '19F-IV': 92.6}",1,98.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326185,"{'06E': 85.1, '06B-III': 84.5, '06B-I': 51.0, '06A-III': 50.4, '06A-V': 49.9}",1,85.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213685,"{'07A': 98.0, '07F': 97.8, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,98.0,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300575,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.7, '06B-II': 35.1, '06A-V': 34.9}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300025,"{'05': 95.3, '45': 22.5, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019670955,"{'09N': 99.9, '09L': 88.8, '09A': 32.6, '09V': 32.6, '14': 25.6}",1,99.9,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026455,"{'08': 99.8, '06A-II': 26.5, '06A-VI': 26.4, '06B-II': 25.8, '06A-V': 25.4}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240385,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.1}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900042945,"{'10A': 99.8, '10B': 66.6, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,99.8,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347235,"{'06E': 100.0, '06B-III': 99.2, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018975,"{'19F-II': 99.2, '19F': 95.0, '19F-III': 94.0, '19F-I': 93.7, '19F-IV': 92.9}",1,99.2,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256215,"{'05': 95.2, '45': 22.1, '36': 21.7, '20': 20.2, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282895,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 96.61]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018435,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001144365,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223175,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277515,"{'14': 95.0, '36': 28.3, '09L': 25.5, '09N': 24.5, '15B': 24.2}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326515,"{'13': 83.1, '36': 29.0, '09L': 25.9, '09N': 25.4, '15B': 25.4}",1,83.1,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320675,"{'10A': 99.1, '10B': 66.8, '10C': 27.7, '10F': 18.1, '22F': 15.5}",1,99.1,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253795,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001174465,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325695,"{'06B-III': 77.2, '06E': 75.4, '06A-III': 64.2, '06B-I': 63.6, '06A-V': 63.1}",1,77.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296245,"{'07A': 97.5, '07F': 97.3, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,97.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001158845,"{'03': 95.0, '36': 16.9, '01': 15.8, '20': 15.6, '09N': 14.1}",1,95.0,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324935,"{'11D': 80.2, '11A': 78.9, '11F': 45.2, '11B': 34.7, '11C': 31.0}",1,80.2,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238115,"{'09N': 99.9, '09L': 89.1, '09A': 32.7, '09V': 32.7, '36': 32.6}",1,99.9,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214345,"{'10A': 99.2, '10B': 66.9, '10C': 27.7, '10F': 18.1, '22F': 15.4}",1,99.2,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031895,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316535,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900044265,"{'23B': 99.3, '23B1': 64.5, '23F': 45.7, '23A': 39.9, '06A-IV': 36.7}",1,99.3,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214405,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237115,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191815,"{'21': 95.8, '22F': 36.3, '06A-II': 34.3, '06A-VI': 34.2, '06A-III': 33.7}",1,95.8,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281255,"{'15C': 87.7, '15B': 87.5, '15A': 64.4, '15F': 49.8, '23A': 30.0}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190775,"{'11D': 99.9, '11A': 97.1, '11F': 42.0, '11C': 35.8, '11B': 34.3}",1,99.9,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266895,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224135,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273125,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301745,"{'15A': 98.4, '15F': 73.6, '15C': 62.1, '15B': 62.0, '23F': 31.7}",1,98.4,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001210605,"{'03': 94.8, '36': 16.8, '20': 15.0, '01': 14.3, '14': 14.1}",1,94.8,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001084045,"{'45': 6.8, '25F': 6.6, '25A': 6.3, '01': 6.2, '22F': 4.9}",3,6.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346875,"{'06A': 89.7, '06A-III': 89.3, '06B-I': 88.0, '06B-II': 87.8, '06A-II': 87.3}",1,89.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020139435,"{'35B': 99.8, '33F': 33.4, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304605,"{'12F': 95.9, '12B': 93.3, '44': 92.9, '12A': 84.8, '46': 81.7}",1,95.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001118245,"{'36': 13.1, '20': 8.1, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",2,13.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297815,"{'07A': 99.6, '07F': 99.4, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.6,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299875,"{'33D': 89.6, '33B': 88.9, '35B': 35.1, '33F2': 29.9, '22F': 28.1}",1,89.6,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338035,"{'12F': 96.4, '44': 93.4, '12B': 93.3, '12A': 84.8, '46': 81.7}",1,96.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025225,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001118605,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030295,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168205,"{'14': 91.4, '36': 26.3, '09L': 26.1, '09N': 25.1, '15B': 23.4}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001170625,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214385,"{'14': 93.9, '36': 26.1, '09L': 25.3, '09N': 24.1, '15B': 24.0}",1,93.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235835,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043155,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283375,"{'18C': 88.5, '18B': 88.4, '18F': 77.8, '18A': 61.6, '16F': 37.6}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219725,"{'34': 93.0, '33F2': 34.7, '35B': 32.0, '33F': 29.0, '33C': 28.0}",1,93.0,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328685,"{'18C': 88.5, '18B': 88.4, '18F': 77.8, '18A': 61.5, '16F': 37.6}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267835,"{'06A-III': 94.8, '06B-I': 93.4, '06A': 90.3, '06A-IV': 89.5, '06B-II': 89.4}",1,94.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231385,"{'23F': 98.7, '23A': 65.2, '28A': 48.0, '06A-IV': 48.0, '23B': 47.8}",1,98.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001137185,"{'15A': 98.5, '15F': 73.7, '15C': 62.0, '15B': 61.9, '23F': 31.9}",1,98.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220085,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232615,"{'20': 84.7, '47F': 26.6, '35A': 24.9, '09L': 24.8, '09N': 23.8}",1,84.7,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337235,"{'23F': 94.6, '23A': 63.7, '28A': 47.7, '23B': 47.0, '06A': 46.4}",1,94.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001329835,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260565,"{'13': 98.9, '09N': 29.1, '20': 28.9, '09L': 28.7, '36': 28.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260975,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001171425,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330385,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332625,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291395,"{'05': 95.1, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.1,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001083405,"{'23A': 97.6, '23F': 68.9, '23B': 40.1, '19F-II': 39.3, '15B': 38.7}",1,97.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000279105,"{'04': 99.8, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329585,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298855,"{'34': 98.7, '33F2': 35.2, '35B': 33.5, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001198015,"{'06E': 99.7, '06B-III': 99.4, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001156145,"{'06A-III': 98.5, '06B-I': 96.9, '06A': 90.6, '06B-II': 90.4, '06A-V': 89.5}",1,98.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028785,"{'22F': 99.0, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314725,"{'18C': 99.6, '18B': 99.5, '18F': 75.4, '18A': 62.3, '16F': 39.0}",1,99.6,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057915,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327755,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194405,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316395,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900188645,"{'03': 95.2, '01': 17.2, '36': 17.0, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311005,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292845,"{'06E': 99.6, '06B-III': 99.2, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.5}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255655,"{'16F': 98.8, '28F': 42.4, '19F-IV': 41.1, '18A': 40.9, '18F': 40.8}",1,98.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225425,"{'06A': 90.1, '06A-III': 89.5, '06B-II': 89.5, '06A-II': 89.4, '06A-VI': 89.4}",1,90.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319695,"{'16F': 71.9, '28F': 43.4, '28A': 40.9, '18F': 33.9, '18A': 33.7}",1,71.9,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294535,"{'06C-I': 99.3, '06C': 99.1, '06D': 83.9, '06A-II': 79.5, '06A-VI': 79.5}",1,99.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 86.1']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257515,"{'19F-I': 97.8, '19F': 97.1, '19F-III': 96.6, '19F-II': 95.1, '19F-IV': 90.2}",1,97.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170815,"{'14': 92.5, '36': 28.5, '09L': 25.2, '15B': 24.2, '15C': 24.1}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338945,"{'15A': 98.5, '15F': 73.1, '15C': 61.8, '15B': 61.7, '23F': 32.2}",1,98.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289545,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 89.6, '06A': 87.7, '06A-III': 86.1}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274755,"{'25F': 99.6, '25A': 98.6, '38': 80.9, '36': 9.0, '01': 7.9}",1,99.6,25F_25A_38,25F_25A_38,,"[[8], [18]]","{'wcyD': ['a', 100.0], 'wcyV': 0.12}","{'wcyD': 'a', 'wcyV': 'not_detected'}",25F/25A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341125,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326625,"{'14': 94.2, '36': 26.4, '09L': 25.5, '09N': 24.6, '15B': 24.3}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341695,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263215,"{'14': 87.5, '36': 28.8, '09L': 25.8, '09N': 24.7, '15B': 23.6}",1,87.5,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215625,"{'06A-II': 85.5, '06A-VI': 85.5, '06A-III': 85.4, '06A-V': 84.8, '06A': 84.0}",1,85.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001156505,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169925,"{'14': 91.6, '36': 27.6, '09L': 25.1, '09N': 24.2, '15B': 23.7}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024005,"{'06A-V': 95.3, '06B-II': 90.7, '06A-II': 90.4, '06A-VI': 90.4, '06A-I': 90.3}",1,95.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001087445,"{'06E': 100.0, '06B-III': 99.1, '06B-I': 46.6, '06A-III': 46.1, '06A-II': 45.1}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344115,"{'19B': 91.7, '19C': 70.5, '19F-II': 49.3, '19F-IV': 49.3, '19F-I': 48.5}",1,91.7,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169035,"{'09A': 99.4, '09V': 99.2, '09N': 35.8, '09L': 34.2, '06A-IV': 26.8}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189275,"{'23B': 99.2, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.4}",1,99.2,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326905,"{'35B': 99.0, '33F': 33.4, '35C': 33.2, '34': 33.0, '35A': 32.8}",1,99.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231355,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056055,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295225,"{'14': 93.9, '36': 26.4, '09L': 25.4, '09N': 24.5, '15B': 24.2}",1,93.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253625,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274685,"{'09A': 99.6, '09V': 99.4, '09N': 38.6, '09L': 36.8, '11F': 26.6}",1,99.6,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292925,"{'13': 98.2, '36': 30.8, '09L': 29.3, '09N': 29.1, '20': 28.6}",1,98.2,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314515,"{'16F': 71.9, '28F': 43.8, '28A': 41.0, '18F': 34.1, '18A': 33.9}",1,71.9,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240935,"{'19B': 92.9, '19C': 71.8, '19F-IV': 51.1, '19F-II': 51.0, '19F-I': 50.1}",1,92.9,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001119765,"{'23F': 92.4, '23A': 61.3, '28A': 47.9, '23B': 46.7, '06A-IV': 46.4}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214355,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314935,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248175,"{'17F': 99.6, '06B': 44.3, '06B-I': 44.1, '06A-III': 44.0, '06D': 43.7}",1,99.6,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342115,"{'35A': 94.4, '35C': 89.7, '42': 89.1, '33A': 46.4, '33F': 45.9}",1,94.4,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297195,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001131725,"{'35B': 98.9, '33F': 33.6, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,98.9,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308455,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.8, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264535,"{'05': 95.3, '45': 22.4, '36': 21.8, '20': 20.3, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001096185,"{'36': 7.2, '01': 4.1, '20': 3.8, '25A': 2.7, '25F': 2.7}",1,7.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324445,"{'35B': 99.4, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216445,"{'19F': 97.4, '19F-I': 96.4, '19F-III': 95.6, '19F-II': 95.5, '19F-IV': 91.0}",1,97.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189185,"{'19F-II': 99.5, '19F': 95.3, '19F-III': 94.3, '19F-I': 94.0, '19F-IV': 93.2}",1,99.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236695,"{'14': 100.0, '09L': 26.4, '36': 25.8, '09N': 25.0, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251315,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254145,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.5}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193885,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056015,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.1}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317415,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192205,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284065,"{'19F': 97.4, '19F-I': 96.4, '19F-III': 95.6, '19F-II': 95.5, '19F-IV': 91.0}",1,97.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900062945,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000173175,"{'14': 92.4, '36': 28.5, '09L': 24.2, '15B': 24.2, '15C': 24.1}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023185,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257115,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001197395,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240015,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224985,"{'14': 94.8, '36': 28.3, '09L': 25.5, '09N': 24.4, '15B': 24.2}",1,94.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305095,"{'23F': 96.4, '23A': 63.2, '06A-IV': 48.7, '23B': 48.4, '28A': 47.2}",1,96.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285755,"{'23F': 96.8, '23A': 63.7, '23B': 48.0, '28A': 47.7, '06B-II': 46.1}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001098785,"{'22F': 98.9, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,98.9,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030795,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398685,"{'19F-I': 95.9, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.8, '19F-IV': 88.8}",1,95.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049225,"{'15A': 98.3, '15F': 72.9, '15C': 61.6, '15B': 61.5, '23F': 32.2}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001165405,"{'06A-I': 91.0, '06B': 87.4, '06A-V': 86.8, '06A': 86.3, '06A-III': 84.2}",1,91.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235395,"{'16F': 71.6, '28F': 43.2, '28A': 40.7, '18F': 33.7, '18A': 33.6}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001167065,"{'06C-I': 89.0, '06C': 88.9, '06D': 86.9, '06A-I': 78.0, '06B': 77.7}",1,89.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 94.1]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000233105,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051395,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297685,"{'10A': 96.9, '10B': 65.8, '10C': 27.8, '10F': 18.2, '22F': 16.9}",1,96.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001155765,"{'35F': 99.3, '47F': 74.7, '34': 26.7, '35B': 24.8, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268935,"{'14': 93.2, '09L': 25.8, '36': 25.7, '09N': 24.4, '15B': 23.9}",1,93.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288485,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215655,"{'06E': 100.0, '06B-III': 97.2, '06B-I': 44.7, '06A-III': 44.2, '06B-II': 43.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000252225,"{'14': 92.6, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192185,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019457075,"{'09N': 100.0, '09L': 89.1, '09A': 32.7, '09V': 32.7, '36': 32.2}",1,100.0,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318665,"{'14': 91.4, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294865,"{'16F': 95.7, '19F-II': 42.6, '19F-IV': 42.6, '28F': 42.4, '19F': 41.6}",1,95.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257225,"{'13': 94.5, '36': 27.9, '09L': 27.6, '09N': 27.3, '14': 25.7}",1,94.5,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242115,"{'19F-III': 99.9, '19F': 97.9, '19F-I': 97.2, '19F-II': 94.7, '19F-IV': 89.4}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247065,"{'14': 91.4, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333955,"{'15C': 86.8, '15B': 86.7, '15A': 64.0, '15F': 49.3, '23A': 30.2}",1,86.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001113205,"{'19B': 91.7, '19C': 70.5, '19F-II': 49.3, '19F-IV': 49.3, '19F-I': 48.5}",1,91.7,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312625,"{'19F-I': 97.7, '19F': 97.0, '19F-III': 96.5, '19F-II': 95.0, '19F-IV': 90.1}",1,97.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239425,"{'21': 97.0, '22F': 37.5, '06A-II': 32.4, '06A-VI': 32.3, '06A-III': 31.6}",1,97.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001161725,"{'14': 94.6, '15B': 24.2, '15C': 24.1, '36': 23.7, '09L': 23.6}",1,94.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342355,"{'19F-I': 96.4, '19F': 95.7, '19F-III': 95.2, '19F-II': 93.7, '19F-IV': 88.8}",1,96.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219455,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341515,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019765,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269775,"{'28A': 92.5, '28F': 92.4, '23F': 50.3, '16F': 44.9, '06A-IV': 39.9}",1,92.5,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001330135,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001566255,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000468335,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263575,"{'19A': 92.0, '19A-III': 91.8, '19A-II': 82.8, '19A-I': 80.9, '19AF': 55.6}",1,92.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260605,"{'19A': 99.7, '19A-III': 99.5, '19A-I': 85.9, '19A-II': 83.4, '19AF': 56.8}",1,99.7,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_006376385,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334935,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217415,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
PHESPD0014,"{'11F': 100.0, '11D': 42.0, '11A': 40.0, '11B': 28.3, '35B': 26.1}",1,100.0,,11F,,,{},{},11F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337155,"{'36': 12.7, '20': 8.1, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",1,12.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001105245,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299905,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337285,"{'06A-II': 95.5, '06A-VI': 95.5, '06B-II': 89.4, '06A-V': 89.0, '06A-III': 88.4}",1,95.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250185,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051895,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347395,"{'01': 6.3, '25F': 5.7, '45': 5.7, '20': 5.5, '25A': 5.5}",2,6.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319105,"{'15C': 85.6, '15B': 85.5, '15A': 61.1, '15F': 47.9, '23A': 31.4}",1,85.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001334615,"{'32A': 97.2, '32F': 97.1, '06A-II': 40.7, '06A-VI': 40.6, '06B-II': 39.9}",1,97.2,,32F/32A,,,{},{},32F/32A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286855,"{'11A': 99.5, '11D': 96.4, '11F': 40.0, '11C': 36.0, '11B': 34.5}",1,99.5,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225755,"{'15A': 98.2, '15F': 72.8, '15C': 61.6, '15B': 61.5, '23F': 32.2}",1,98.2,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344075,"{'14': 94.2, '36': 25.9, '15B': 24.3, '09L': 24.2, '15C': 24.2}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001139765,"{'32A': 97.5, '32F': 97.4, '06A-II': 40.3, '06A-VI': 40.2, '06B-II': 39.7}",1,97.5,,32F/32A,,,{},{},32F/32A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264405,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192855,"{'23B': 99.3, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.5}",1,99.3,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342335,"{'23F': 94.5, '23A': 63.6, '28A': 47.7, '23B': 46.9, '06A': 46.4}",1,94.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309125,"{'23F': 97.0, '23A': 63.9, '23B': 48.0, '28A': 47.7, '06B-II': 46.1}",1,97.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001299995,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324165,"{'22A': 94.0, '22F': 77.4, '06A-IV': 45.6, '06A-II': 43.9, '06B-I': 43.9}",1,94.0,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333295,"{'06A-I': 98.4, '06B': 94.4, '06A-V': 89.4, '06A': 87.5, '06A-III': 85.9}",1,98.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240445,"{'14': 91.3, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001116765,"{'22F': 98.8, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,98.8,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220945,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001193095,"{'23B1': 98.8, '23B': 55.9, '19A-II': 36.0, '19A-I': 35.7, '19AF': 31.5}",1,98.8,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227485,"{'19F-II': 99.5, '19F': 95.3, '19F-III': 94.3, '19F-I': 94.0, '19F-IV': 93.2}",1,99.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065675,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001146905,"{'45': 93.6, '04': 38.8, '06A-II': 32.9, '06A-VI': 32.8, '06B-I': 32.7}",1,93.6,,45,,,{},{},45,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001142445,"{'06A-II': 87.1, '06A-VI': 87.1, '06A': 86.0, '06A-IV': 85.0, '06A-V': 84.8}",1,87.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247225,"{'33D': 80.3, '33B': 75.4, '06A-I': 36.8, '06B': 35.4, '06A-IV': 35.3}",1,80.3,,"Mixed serotypes- {'33B', '33D'}",,,{},{},"Mixed serotypes- {'33B', '33D'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051555,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329625,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283355,"{'06A-V': 92.3, '06A-I': 92.0, '06A-III': 89.9, '06B': 88.8, '06B-I': 88.5}",1,92.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214275,"{'23F': 93.9, '23A': 63.5, '28A': 48.5, '23B': 46.4, '06A': 46.1}",1,93.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019399145,"{'06A': 91.4, '06A-III': 89.4, '06B-II': 88.5, '06B-I': 88.1, '06A-V': 87.9}",1,91.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 83.83']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272325,"{'09A': 93.0, '09V': 92.8, '09N': 39.6, '09L': 38.3, '08': 24.4}",1,93.0,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245855,"{'23F': 99.4, '23A': 65.2, '23B': 47.9, '28A': 47.8, '06A-V': 45.8}",1,99.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237475,"{'14': 94.1, '36': 26.3, '09L': 25.5, '09N': 24.7, '15B': 24.3}",1,94.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033605,"{'19F-I': 99.7, '19F': 96.7, '19F-III': 96.7, '19F-II': 93.9, '19F-IV': 89.3}",1,99.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324395,"{'20': 84.5, '47F': 26.4, '35A': 24.9, '09L': 24.6, '09N': 23.7}",1,84.5,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335915,"{'06E': 86.7, '06B-III': 85.6, '06B-I': 49.7, '06C': 49.3, '06A-III': 49.3}",1,86.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314145,"{'01': 99.8, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.3}",1,99.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063455,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190975,"{'23A': 99.6, '23F': 67.2, '23B': 43.5, '19F-II': 37.8, '15B': 37.2}",1,99.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018405,"{'09N': 100.0, '09L': 89.1, '09A': 32.7, '09V': 32.7, '36': 32.4}",1,100.0,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278285,"{'06A-II': 95.2, '06A-VI': 95.2, '06B-II': 89.1, '06A-V': 88.7, '06A-III': 88.1}",1,95.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264965,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 32.7}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321775,"{'38': 98.8, '25F': 84.4, '25A': 83.4, '36': 11.8, '20': 8.2}",1,98.8,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247165,"{'17F': 82.5, '06A-III': 43.1, '06B-I': 42.8, '06A-I': 42.2, '06B': 41.8}",1,82.5,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274095,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001194075,"{'06E': 100.0, '06B-III': 98.5, '06B-I': 45.9, '06A-III': 45.4, '06B-II': 44.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233365,"{'19F-I': 97.8, '19F': 97.1, '19F-III': 96.6, '19F-II': 95.1, '19F-IV': 90.2}",1,97.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001120185,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258505,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230135,"{'19A': 99.9, '19A-III': 99.7, '19A-I': 86.1, '19A-II': 83.6, '19AF': 57.1}",1,99.9,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290155,"{'14': 87.6, '09L': 24.5, '09N': 24.2, '15B': 24.1, '15C': 24.0}",1,87.6,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001089945,"{'37': 98.8, '33F': 77.5, '33A': 76.2, '33F2': 71.1, '35B': 31.1}",1,98.8,,37,,,{},{},37,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261865,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274475,"{'35B': 99.4, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585905,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194245,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240155,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313735,"{'04': 99.0, '45': 33.5, '12F': 23.4, '44': 23.2, '12A': 22.3}",1,99.0,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252445,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317295,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326645,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312105,"{'18C': 88.5, '18B': 88.4, '18F': 77.8, '18A': 61.5, '16F': 37.6}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900035085,"{'23B': 99.5, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.8}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900042355,"{'23F': 97.0, '23A': 63.9, '06A-IV': 48.5, '23B': 48.3, '28A': 47.7}",1,97.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234745,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334865,"{'05': 95.3, '45': 22.6, '36': 21.5, '20': 20.3, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001149825,"{'20': 5.4, '36': 5.4, '25F': 5.1, '25A': 4.9, '45': 4.9}",1,5.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250675,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001121445,"{'19F-I': 95.9, '19F': 95.6, '19F-III': 94.0, '19F-II': 92.8, '19F-IV': 88.8}",1,95.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333425,"{'23F': 96.4, '23A': 63.2, '06A-IV': 48.7, '23B': 48.4, '28A': 47.2}",1,96.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278355,"{'14': 92.4, '36': 29.0, '09L': 25.7, '09N': 24.7, '15B': 24.2}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001122685,"{'06A': 99.7, '06A-IV': 99.3, '06B-II': 95.1, '06A-V': 93.4, '06A-III': 91.4}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252965,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.5, '46': 81.4}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001198975,"{'33B': 89.8, '33D': 89.7, '35B': 33.1, '33F2': 30.3, '35C': 26.2}",1,89.8,,"Mixed serotypes- {'33B', '33D'}",,,{},{},"Mixed serotypes- {'33B', '33D'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900060605,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239325,"{'06E': 99.8, '06B-III': 99.5, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.7}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340835,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294265,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001174405,"{'06E': 100.0, '06B-III': 97.4, '06B-I': 45.3, '06A-III': 44.4, '06B-II': 43.9}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253025,"{'06E': 98.4, '06B-III': 97.9, '06B-I': 45.8, '06A-III': 45.2, '06A-II': 44.3}",1,98.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277435,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257095,"{'19F-I': 99.8, '19F': 96.8, '19F-III': 96.8, '19F-II': 94.0, '19F-IV': 89.4}",1,99.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235605,"{'11D': 99.8, '11A': 97.0, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,99.8,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001092185,"{'09A': 95.9, '09V': 95.7, '09N': 37.3, '09L': 36.4, '11F': 26.7}",1,95.9,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332665,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240365,"{'04': 98.3, '45': 33.9, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298545,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024885,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317085,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247645,"{'19A-I': 96.2, '19A-II': 94.5, '19A': 84.8, '19A-III': 84.6, '19AF': 61.2}",1,96.2,19A_19AF,19A_19AF,,[[0]],{'wzy': ['1: 74.41']},{'wzy': 0},19A_19AF,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325135,"{'18A': 98.7, '18B': 57.1, '18C': 57.1, '18F': 53.7, '19F-II': 36.9}",1,98.7,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226475,"{'15C': 95.7, '15B': 95.6, '15A': 61.2, '15F': 47.6, '23A': 34.6}",1,95.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280415,"{'14': 91.3, '19F-IV': 25.9, '36': 25.1, '09L': 25.0, '09N': 24.7}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301485,"{'06A-V': 93.2, '06A-III': 90.2, '06A-II': 89.8, '06A-VI': 89.8, '06B-I': 89.4}",1,93.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341755,"{'04': 98.3, '45': 34.8, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001084105,"{'15C': 95.6, '15B': 95.4, '15A': 61.0, '15F': 47.5, '23A': 34.5}",1,95.6,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189735,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297405,"{'04': 98.0, '45': 33.1, '12A': 26.9, '46': 26.8, '12F': 23.4}",1,98.0,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315065,"{'35B': 99.4, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329555,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226245,"{'15C': 95.2, '15B': 95.0, '15A': 61.0, '15F': 47.5, '23A': 34.5}",1,95.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001896045,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218285,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049545,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169185,"{'09A': 99.7, '09V': 99.5, '09N': 37.4, '09L': 36.1, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224715,"{'06A': 100.0, '06A-IV': 98.6, '06B-II': 94.7, '06A-V': 93.0, '06A-III': 90.8}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273005,"{'03': 97.4, '01': 17.5, '20': 15.1, '09N': 14.9, '09L': 14.7}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030195,"{'03': 95.2, '01': 17.2, '36': 17.1, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001113705,"{'18C': 88.4, '18B': 88.3, '18F': 77.7, '18A': 61.4, '16F': 37.8}",1,88.4,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262885,"{'15C': 87.5, '15B': 87.4, '15A': 64.4, '15F': 49.8, '23A': 30.0}",1,87.5,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001091805,"{'18F': 70.3, '18C': 61.6, '18B': 61.5, '18A': 53.8, '16F': 39.6}",1,70.3,,18F,,,{},{},18F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285825,"{'35F': 99.4, '47F': 74.7, '34': 26.7, '35B': 26.3, '29': 22.5}",1,99.4,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265625,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215755,"{'06E': 99.8, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 96.61]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335905,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000278805,"{'07A': 98.7, '07F': 98.2, '19F-II': 36.3, '19F-IV': 35.7, '19F': 34.8}",1,98.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278665,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336395,"{'01': 99.0, '19F': 32.0, '19F-I': 31.5, '19F-III': 31.3, '19F-II': 31.0}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258215,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257035,"{'05': 95.3, '45': 22.5, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274215,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255575,"{'23A': 95.1, '23F': 68.0, '23B': 42.9, '19F-II': 40.0, '15B': 39.1}",1,95.1,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223985,"{'23F': 93.9, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A': 46.1}",1,93.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321165,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031295,"{'23F': 99.2, '23A': 65.4, '23B': 49.0, '28A': 48.1, '06A-IV': 47.3}",1,99.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325345,"{'19B': 92.8, '19C': 71.7, '19F-IV': 51.0, '19F-II': 50.9, '19F-I': 50.0}",1,92.8,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001118725,"{'38': 99.0, '25F': 84.3, '25A': 83.3, '36': 10.3, '01': 7.5}",1,99.0,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315395,"{'11D': 96.2, '11A': 95.0, '11F': 43.3, '11C': 36.2, '11B': 34.8}",1,96.2,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001137465,"{'15A': 97.1, '15F': 73.5, '15C': 61.3, '15B': 61.2, '23F': 31.2}",1,97.1,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312575,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241355,"{'35A': 92.3, '35C': 89.9, '42': 89.3, '33A': 45.0, '33F': 44.4}",1,92.3,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001678985,"{'03': 95.5, '20': 17.5, '01': 16.9, '36': 16.3, '09L': 16.2}",1,95.5,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292325,"{'14': 93.0, '36': 27.2, '09L': 25.9, '09N': 25.5, '15B': 24.3}",1,93.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001101225,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398945,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028855,"{'18C': 99.7, '18B': 99.6, '18F': 75.6, '18A': 62.4, '16F': 39.2}",1,99.7,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900035005,"{'19F-II': 99.8, '19F': 95.3, '19F-III': 94.3, '19F-I': 94.0, '19F-IV': 93.3}",1,99.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304025,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.6, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282475,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001093205,"{'06E': 100.0, '06B-III': 99.2, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001146785,"{'34': 93.0, '33F2': 34.7, '35B': 32.0, '33F': 29.3, '33C': 28.2}",1,93.0,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300615,"{'18C': 97.1, '18B': 97.0, '18F': 75.2, '18A': 61.9, '16F': 38.8}",1,97.1,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269165,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230865,"{'19F-II': 99.0, '19F': 95.2, '19F-III': 93.8, '19F-I': 93.5, '19F-IV': 93.1}",1,99.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232525,"{'14': 92.4, '36': 28.8, '09L': 25.8, '09N': 24.7, '15B': 24.1}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001340375,"{'16F': 97.8, '28F': 42.8, '19F-IV': 41.1, '18F': 40.8, '28A': 40.7}",1,97.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027125,"{'23F': 99.4, '23A': 65.2, '23B': 47.9, '28A': 47.8, '06A-V': 45.8}",1,99.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054255,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230385,"{'14': 99.6, '09L': 26.8, '36': 25.6, '09N': 24.6, '15B': 23.9}",1,99.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317785,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267675,"{'22F': 98.8, '22A': 73.1, '06A': 42.3, '06B': 41.8, '06A-II': 41.6}",1,98.8,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288075,"{'36': 10.0, '01': 7.5, '20': 7.5, '45': 6.6, '22F': 6.1}",1,10.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296765,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277805,"{'01': 98.7, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.7,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296645,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170935,"{'14': 92.6, '36': 28.9, '09L': 25.7, '09N': 24.6, '15B': 24.1}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001151865,"{'45': 6.8, '25F': 5.6, '20': 5.4, '25A': 5.4, '36': 5.4}",2,6.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318795,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900042855,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312065,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236405,"{'09A': 99.7, '09V': 99.5, '09N': 38.1, '09L': 36.8, '06A-IV': 27.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313455,"{'14': 90.3, '36': 24.6, '15B': 24.4, '15C': 24.3, '09L': 23.5}",1,90.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900476475,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001330555,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001174045,"{'35B': 98.9, '33F': 33.3, '35C': 33.0, '34': 32.8, '35A': 32.6}",1,98.9,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340535,"{'23F': 96.5, '23A': 63.8, '23B': 47.9, '28A': 47.6, '06B-II': 46.1}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000941155,"{'16F': 98.2, '28F': 43.0, '19F-IV': 41.3, '18A': 41.2, '18F': 41.1}",1,98.2,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246265,"{'01': 99.1, '19F': 32.0, '19F-I': 31.5, '19F-III': 31.3, '19F-II': 31.0}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026575,"{'19A-II': 100.0, '19A-I': 96.6, '19A': 85.0, '19A-III': 84.8, '19AF': 62.1}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323755,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318765,"{'19F': 97.1, '19F-I': 96.1, '19F-III': 95.3, '19F-II': 95.2, '19F-IV': 90.7}",1,97.1,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000251905,"{'11D': 99.6, '11A': 96.8, '11F': 41.9, '11C': 35.8, '11B': 34.3}",1,99.6,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322365,"{'11D': 99.7, '11A': 96.9, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,99.7,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900035105,"{'23B': 99.5, '23B1': 64.6, '23F': 45.8, '23A': 40.0, '06A-IV': 36.9}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052215,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302305,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.3}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001158465,"{'31': 99.2, '41A': 56.7, '41F': 48.4, '06A-II': 35.9, '06A-VI': 35.9}",1,99.2,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224405,"{'34': 98.7, '33F2': 35.2, '35B': 33.6, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032865,"{'33F2': 99.9, '33F': 74.7, '33A': 70.3, '34': 41.6, '35B': 32.2}",1,99.9,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317665,"{'01': 7.0, '45': 6.5, '25F': 5.8, '25A': 5.6, '22F': 5.3}",3,7.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328475,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244535,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189995,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229525,"{'16F': 71.5, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.5,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330785,"{'13': 83.3, '36': 28.8, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900692855,"{'14': 99.9, '09L': 25.8, '09N': 24.7, '15B': 24.3, '15C': 24.2}",1,99.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296845,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.7, '06B-II': 35.1, '06A-V': 34.9}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263335,"{'23F': 92.4, '23A': 61.1, '28A': 48.1, '23B': 46.6, '06A-IV': 46.6}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258245,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001101345,"{'22F': 98.8, '22A': 73.2, '06A': 42.4, '06B': 41.9, '06A-II': 41.8}",1,98.8,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_909594535,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.5, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225395,"{'04': 99.6, '45': 33.8, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.6,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900088975,"{'19A-II': 100.0, '19A-I': 96.6, '19A': 85.0, '19A-III': 84.8, '19AF': 62.1}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335055,"{'14': 92.4, '36': 29.0, '09L': 25.6, '09N': 24.5, '15B': 24.0}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274525,"{'33F': 100.0, '33A': 97.5, '33F2': 70.9, '35C': 42.8, '42': 41.8}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028435,"{'01': 99.7, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.7,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020995,"{'09N': 99.9, '09L': 89.1, '09A': 32.7, '09V': 32.7, '36': 32.4}",1,99.9,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900060565,"{'15C': 94.8, '15B': 94.7, '15A': 60.8, '15F': 47.1, '23A': 34.5}",1,94.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001102105,"{'36': 10.5, '06A-IV': 6.9, '20': 5.9, '06B-I': 5.7, '06C': 5.5}",1,10.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279505,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001151745,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240945,"{'05': 95.2, '45': 22.2, '36': 21.9, '20': 20.3, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247195,"{'14': 93.9, '36': 25.8, '09L': 25.3, '09N': 24.0, '15B': 24.0}",1,93.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001143085,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.2, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283105,"{'06E': 100.0, '06B-III': 97.9, '06B-I': 45.6, '06A-III': 45.1, '06A-II': 44.1}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281685,"{'19A-I': 98.5, '19A-II': 96.8, '19A': 87.1, '19A-III': 86.9, '19AF': 61.5}",1,98.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001087825,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337235,"{'18C': 88.1, '18B': 88.0, '18F': 77.8, '18A': 61.4, '16F': 37.6}",1,88.1,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346755,"{'06D': 95.4, '06C': 87.5, '06C-I': 87.5, '06B-I': 75.6, '06A-III': 75.2}",1,95.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 89.0']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288065,"{'02': 93.2, '22F': 40.3, '06B-I': 39.0, '06A-III': 38.9, '06A-II': 38.7}",1,93.2,,2,,,{},{},2,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332925,"{'09A': 99.5, '09V': 99.3, '09N': 38.5, '09L': 36.6, '11F': 26.6}",1,99.5,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285285,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323835,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A': 46.2}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322415,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000279225,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341625,"{'34': 98.6, '33F2': 35.1, '35B': 33.5, '33F': 29.8, '33C': 28.4}",1,98.6,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900034165,"{'06C-I': 89.1, '06C': 89.0, '06D': 86.9, '06A-I': 77.7, '06B': 77.4}",1,89.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303345,"{'14': 92.8, '36': 27.3, '09L': 25.8, '09N': 25.5, '15B': 24.3}",1,92.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248155,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001586045,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276605,"{'21': 99.8, '22F': 36.1, '06A-IV': 32.7, '06A-II': 32.0, '06A-VI': 31.9}",1,99.8,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334015,"{'35B': 99.1, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.1,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019446835,"{'09N': 98.0, '09L': 87.9, '09A': 32.7, '09V': 32.7, '36': 31.5}",1,98.0,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322995,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270145,"{'19B': 92.9, '19C': 71.8, '19F-IV': 51.1, '19F-II': 51.0, '19F-I': 50.1}",1,92.9,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001150085,"{'23F': 96.8, '23A': 66.4, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305105,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342815,"{'06E': 100.0, '06B-III': 96.8, '06B-I': 44.3, '06A-III': 43.8, '06A-IV': 43.0}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029435,"{'23B': 99.5, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.8}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215835,"{'01': 99.4, '19F': 32.2, '19F-I': 31.7, '19F-III': 31.5, '19F-II': 31.2}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339515,"{'03': 97.4, '01': 17.6, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293645,"{'12F': 96.9, '44': 93.6, '12B': 92.9, '12A': 80.6, '46': 77.5}",1,96.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330845,"{'22F': 96.6, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-I': 41.8}",1,96.6,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168265,"{'09A': 99.7, '09V': 99.5, '09N': 37.2, '09L': 35.7, '06A-IV': 27.0}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283735,"{'18C': 88.5, '18B': 88.4, '18F': 77.8, '18A': 61.5, '16F': 37.6}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213495,"{'14': 91.4, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278565,"{'01': 99.1, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262145,"{'19F': 97.3, '19F-I': 96.3, '19F-III': 95.5, '19F-II': 95.4, '19F-IV': 90.9}",1,97.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274425,"{'35B': 99.4, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217965,"{'10A': 99.2, '10B': 67.1, '10C': 27.7, '10F': 18.1, '22F': 15.3}",1,99.2,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001201575,"{'35B': 91.0, '34': 33.4, '33F': 32.8, '35C': 31.9, '35A': 31.6}",1,91.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316585,"{'15C': 93.4, '15B': 93.2, '15A': 60.6, '15F': 47.1, '23A': 33.0}",1,93.4,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057825,"{'08': 98.3, '06A-II': 26.0, '06A-VI': 25.9, '06B-II': 25.3, '06A-V': 24.9}",1,98.3,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216225,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900060315,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260655,"{'31': 99.4, '41A': 56.9, '41F': 49.0, '06A-II': 36.2, '06A-VI': 36.2}",1,99.4,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017865,"{'08': 99.5, '06A-II': 24.4, '06A-VI': 24.3, '02': 24.2, '06B-II': 23.8}",1,99.5,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192455,"{'22F': 98.7, '22A': 73.2, '06A': 42.6, '06B': 42.1, '06A-I': 41.8}",1,98.7,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281595,"{'14': 92.5, '36': 29.0, '09L': 25.6, '09N': 24.7, '15B': 24.2}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328425,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248735,"{'14': 93.5, '36': 25.8, '09L': 25.0, '09N': 24.1, '15B': 23.8}",1,93.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001103365,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001198255,"{'36': 10.6, '06A-IV': 7.1, '45': 5.9, '06B-I': 5.9, '06C': 5.8}",1,10.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001112105,"{'36': 11.7, '20': 8.1, '06A-IV': 7.6, '01': 6.4, '06C': 6.2}",1,11.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221595,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337365,"{'19F': 95.0, '19F-I': 94.2, '19F-III': 93.4, '19F-II': 91.8, '19F-IV': 88.1}",1,95.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239735,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333375,"{'17F': 99.4, '06B': 44.1, '06B-I': 44.0, '06A-III': 43.9, '06D': 43.4}",1,99.4,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328035,"{'03': 95.2, '01': 18.2, '36': 17.4, '20': 16.1, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031725,"{'23F': 97.8, '23A': 63.3, '23B': 48.4, '28A': 48.3, '06A-IV': 47.1}",1,97.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214655,"{'01': 98.9, '19F': 32.1, '19F-I': 31.8, '19F-III': 31.4, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019399545,"{'14': 100.0, '36': 26.8, '09L': 25.8, '09N': 24.4, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325355,"{'09L': 98.8, '09N': 89.4, '36': 32.3, '09A': 31.5, '09V': 31.5}",1,98.8,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283315,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907172235,"{'14': 91.7, '36': 27.6, '09L': 24.6, '09N': 23.8, '15B': 23.6}",1,91.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310435,"{'12F': 96.4, '44': 93.4, '12B': 93.3, '12A': 84.8, '46': 81.7}",1,96.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233665,"{'19A-I': 99.0, '19A-II': 97.5, '19A': 87.6, '19A-III': 87.4, '19AF': 62.0}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270735,"{'36': 8.2, '20': 6.6, '01': 6.4, '45': 6.2, '06A-IV': 6.1}",1,8.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001147845,"{'14': 94.6, '36': 25.7, '15B': 24.2, '15C': 24.1, '09L': 23.8}",1,94.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332185,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054985,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326235,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329995,"{'03': 94.8, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,94.8,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232895,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901343175,"{'08': 98.0, '02': 24.4, '06A-IV': 23.3, '22F': 23.2, '06A': 22.9}",1,98.0,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170535,"{'14': 92.7, '36': 28.9, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340085,"{'19F-III': 99.9, '19F': 97.9, '19F-I': 97.2, '19F-II': 94.7, '19F-IV': 89.4}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002249695,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262225,"{'03': 75.1, '20': 7.9, '01': 7.2, '36': 7.1, '22F': 6.8}",1,75.1,,3,,,{},{},3,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222595,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001192275,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190675,"{'06C-I': 99.9, '06C': 99.7, '06D': 84.6, '06A-II': 79.5, '06A-VI': 79.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167895,"{'14': 91.4, '36': 26.5, '09L': 25.7, '09N': 25.0, '15B': 23.4}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001112605,"{'14': 94.6, '36': 25.0, '15B': 24.2, '15C': 24.1, '09L': 23.6}",1,94.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227825,"{'09A': 99.6, '09V': 99.4, '09N': 38.1, '09L': 36.8, '06A-IV': 27.6}",1,99.6,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280455,"{'23F': 96.9, '23A': 63.9, '23B': 47.9, '28A': 47.7, '28F': 46.0}",1,96.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339295,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280555,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226485,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001171365,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001192255,"{'06D': 95.4, '06C': 87.5, '06C-I': 87.5, '06B-I': 75.6, '06A-III': 75.2}",1,95.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 89.0']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002889595,"{'19B': 91.7, '19C': 70.5, '19F-II': 49.3, '19F-IV': 49.3, '19F-I': 48.5}",1,91.7,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001086925,"{'13': 83.6, '36': 25.7, '14': 25.4, '09L': 25.3, '09N': 25.0}",1,83.6,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253815,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256335,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217515,"{'14': 91.3, '19F-IV': 25.9, '36': 25.1, '09L': 24.8, '09N': 24.7}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269065,"{'06A-III': 84.9, '06A-VI': 84.8, '06A-II': 84.7, '06A-V': 84.4, '06A': 83.9}",1,84.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191105,"{'15A': 99.6, '15F': 74.1, '15C': 62.1, '15B': 62.0, '23F': 31.7}",1,99.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019755,"{'06A-I': 99.8, '06B': 94.3, '06A-V': 88.7, '06A': 86.9, '06A-III': 85.4}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900692595,"{'07A': 98.0, '07F': 97.8, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,98.0,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216825,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001164805,"{'10A': 99.3, '10B': 67.0, '10C': 27.7, '10F': 18.1, '06B-I': 15.2}",1,99.3,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289685,"{'03': 95.5, '20': 17.6, '01': 17.0, '09L': 16.4, '36': 16.4}",1,95.5,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306515,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.6, '19A-III': 87.4, '19AF': 61.9}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 92.87]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225655,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001192215,"{'19B': 95.7, '19C': 70.0, '19F-II': 53.9, '19F-I': 53.1, '19F': 53.0}",1,95.7,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280745,"{'19F-I': 97.5, '19F': 96.8, '19F-III': 96.3, '19F-II': 94.8, '19F-IV': 89.9}",1,97.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248755,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229625,"{'19A': 99.8, '19A-III': 99.6, '19A-I': 86.0, '19A-II': 83.5, '19AF': 57.0}",1,99.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019397485,"{'03': 94.9, '01': 17.6, '09L': 15.3, '09N': 15.0, '20': 14.6}",1,94.9,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001101005,"{'25F': 5.7, '45': 5.6, '25A': 5.5, '20': 5.4, '22F': 5.1}",2,5.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230455,"{'19A': 88.7, '19A-III': 88.5, '19A-II': 78.8, '19A-I': 78.0, '19AF': 59.6}",1,88.7,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275705,"{'28A': 92.6, '28F': 92.5, '23F': 50.4, '16F': 45.0, '06A-IV': 39.9}",1,92.6,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247975,"{'20': 84.6, '47F': 26.5, '35A': 24.9, '09L': 24.7, '36': 24.6}",1,84.6,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001107285,"{'36': 12.7, '20': 7.8, '06A-IV': 7.5, '06C': 6.1, '06C-I': 6.1}",1,12.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342535,"{'16F': 70.3, '28F': 42.3, '28A': 40.3, '18A': 32.6, '18F': 32.4}",1,70.3,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310025,"{'06A-II': 95.4, '06A-VI': 95.4, '06B-II': 89.4, '06A-V': 89.0, '06A-III': 88.3}",1,95.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233455,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222545,"{'15C': 86.5, '15B': 86.4, '15A': 63.6, '15F': 49.0, '23A': 29.9}",1,86.5,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285535,"{'03': 95.2, '01': 18.2, '36': 17.4, '20': 16.1, '09L': 15.6}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001085065,"{'19F-I': 95.4, '19F': 95.2, '19F-III': 93.7, '19F-II': 92.3, '19F-IV': 88.3}",1,95.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287625,"{'10B': 99.3, '10A': 65.2, '10F': 20.1, '10C': 18.8, '22F': 14.0}",1,99.3,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194395,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297595,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305695,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.6, '19A-III': 87.4, '19AF': 61.9}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 92.87]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281395,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.4, '06B-II': 34.7, '06A-V': 34.5}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001133685,"{'25F': 7.0, '25A': 6.8, '36': 6.7, '45': 6.7, '20': 5.3}",1,7.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305605,"{'46': 98.7, '12A': 96.4, '12B': 84.2, '44': 82.2, '12F': 82.0}",1,98.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[4]],"{'wciI': [1, 100.0]}",{'wciI': 1},12A/12B/44/46,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001091645,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215365,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900062995,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320955,"{'19F': 97.4, '19F-I': 96.0, '19F-III': 96.0, '19F-II': 95.9, '19F-IV': 90.7}",1,97.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001203815,"{'22A': 94.2, '22F': 77.1, '06A-IV': 45.8, '06A-II': 44.1, '06B-I': 44.1}",1,94.2,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337915,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298335,"{'01': 99.2, '19F': 32.0, '19F-I': 31.5, '19F-III': 31.3, '19F-II': 31.0}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249985,"{'09A': 99.0, '09V': 98.8, '09N': 38.0, '09L': 36.1, '06A-IV': 27.1}",1,99.0,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001167925,"{'03': 95.2, '36': 16.9, '01': 15.7, '20': 15.5, '09L': 14.3}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342695,"{'46': 98.3, '12A': 96.0, '12B': 84.3, '44': 82.3, '12F': 82.1}",1,98.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[4]],"{'wciI': [1, 100.0]}",{'wciI': 1},12A/12B/44/46,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335265,"{'09A': 99.4, '09V': 99.2, '09N': 38.5, '09L': 36.6, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027755,"{'10A': 99.7, '10B': 66.5, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,99.7,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245315,"{'20': 86.5, '36': 27.7, '09L': 25.8, '13': 25.6, '47F': 24.6}",1,86.5,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190665,"{'06A-II': 99.6, '06A-VI': 99.6, '06B-II': 91.4, '06A-V': 90.6, '06A-III': 89.2}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338415,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001161045,"{'36': 13.4, '20': 8.5, '23B1': 7.9, '06A-IV': 7.1, '06B-I': 5.9}",1,13.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249925,"{'04': 99.5, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.5,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332945,"{'23F': 92.8, '23A': 60.9, '28A': 48.7, '28F': 46.0, '23B': 43.9}",1,92.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225845,"{'14': 90.9, '19F-IV': 25.9, '36': 25.4, '09L': 25.2, '09N': 24.7}",1,90.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189045,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341105,"{'11D': 96.5, '11A': 95.3, '11F': 43.3, '11C': 36.2, '11B': 34.8}",1,96.5,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001087305,"{'15C': 87.8, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303975,"{'06E': 99.5, '06B-III': 99.1, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032255,"{'22F': 92.5, '22A': 74.2, '06A-IV': 44.7, '06A-II': 44.2, '06A-VI': 44.1}",1,92.5,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334355,"{'06A': 88.6, '06A-III': 87.3, '06B-I': 87.2, '06B-II': 86.6, '06A-V': 86.1}",1,88.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273775,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214085,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266425,"{'06A-II': 85.4, '06A-VI': 85.4, '06A-III': 85.3, '06A-V': 84.7, '06A': 84.0}",1,85.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051105,"{'19A': 99.5, '19A-III': 99.3, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,99.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001167465,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235865,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306445,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001345015,"{'34': 92.9, '33F2': 34.7, '35B': 32.0, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257335,"{'06E': 78.8, '06B-III': 75.7, '06A-IV': 30.8, '06A-V': 30.7, '06A-III': 30.6}",1,78.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001141485,"{'15A': 98.4, '15F': 73.6, '15C': 62.1, '15B': 62.0, '23F': 31.7}",1,98.4,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338575,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323335,"{'06E': 99.6, '06B-III': 99.3, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026625,"{'06A-II': 100.0, '06A-VI': 100.0, '06B-II': 91.8, '06A-V': 91.0, '06A-III': 89.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001174225,"{'35B': 91.4, '34': 33.5, '33F': 32.9, '35C': 31.9, '35A': 31.6}",1,91.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001154605,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.5, '06A-IV': 46.2}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001107525,"{'32A': 97.5, '32F': 97.4, '06A-II': 40.4, '06A-VI': 40.3, '06B-II': 39.6}",1,97.5,,32F/32A,,,{},{},32F/32A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900061925,"{'01': 93.9, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,93.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280995,"{'01': 99.3, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216115,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053105,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327395,"{'14': 91.5, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333725,"{'28F': 95.1, '28A': 88.3, '23F': 51.1, '06B-II': 49.1, '06A-IV': 48.7}",1,95.1,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265175,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.4, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001086205,"{'06E': 100.0, '06B-III': 95.4, '06B-I': 42.7, '06A-I': 42.6, '06B': 42.2}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291645,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020845,"{'23F': 97.7, '23A': 63.2, '23B': 48.2, '28A': 48.2, '06A-IV': 46.8}",1,97.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001122785,"{'01': 6.8, '45': 6.8, '25F': 5.7, '25A': 5.5, '20': 5.4}",2,6.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215135,"{'15C': 86.8, '15B': 86.6, '15A': 66.1, '15F': 51.2, '23A': 28.6}",1,86.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344555,"{'06E': 100.0, '06B-III': 96.8, '06B-I': 44.2, '06A-III': 43.7, '06A-IV': 42.9}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323935,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 32.7}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244215,"{'01': 99.6, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.6,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332045,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900062925,"{'19A-II': 73.4, '19A-I': 70.5, '19A': 58.8, '19A-III': 58.7, '19AF': 48.9}",1,73.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219015,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288525,"{'07C': 94.0, '07B': 77.1, '40': 76.7, '24B': 48.6, '24F': 47.6}",1,94.0,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266965,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337165,"{'24F': 96.9, '24B': 89.5, '24F2': 85.7, '24A': 67.2, '07C': 56.8}",1,96.9,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337935,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287905,"{'13': 83.3, '36': 28.9, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305625,"{'19A-I': 98.9, '19A-II': 97.2, '19A': 87.5, '19A-III': 87.3, '19AF': 61.7}",1,98.9,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020139945,"{'35B': 99.7, '33F': 33.4, '35C': 33.2, '34': 33.0, '35A': 32.8}",1,99.7,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341305,"{'11A': 99.3, '11D': 96.9, '11F': 40.1, '11C': 36.2, '11B': 34.8}",1,99.3,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301415,"{'07A': 97.5, '07F': 97.3, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,97.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001206375,"{'03': 95.2, '36': 16.9, '01': 15.8, '20': 15.3, '09N': 14.4}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306615,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001116245,"{'19F-I': 95.5, '19F': 95.2, '19F-III': 93.7, '19F-II': 92.4, '19F-IV': 88.4}",1,95.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001326335,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033925,"{'33F': 99.7, '33A': 97.2, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.7,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240685,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900061155,"{'06C-I': 91.6, '06C': 91.5, '06D': 81.6, '06B-I': 76.5, '06A-III': 75.9}",1,91.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 88.3']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002081155,"{'13': 98.9, '09L': 27.2, '09N': 26.9, '20': 26.7, '14': 26.5}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262995,"{'23F': 93.9, '23A': 63.4, '28A': 48.4, '23B': 46.9, '06A-III': 46.4}",1,93.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001404175,"{'34': 93.3, '33F2': 35.3, '35B': 31.7, '33F': 29.3, '33C': 28.8}",1,93.3,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900693035,"{'19A': 92.4, '19A-III': 92.2, '19A-II': 83.1, '19A-I': 81.1, '19AF': 55.8}",1,92.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193345,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.4, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001159345,"{'15C': 87.8, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324565,"{'11D': 96.5, '11A': 95.3, '11F': 43.3, '11C': 36.2, '11B': 34.8}",1,96.5,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303235,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324525,"{'18C': 99.8, '18B': 99.7, '18F': 75.7, '18A': 62.8, '16F': 39.2}",1,99.8,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001097485,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033505,"{'07A': 99.5, '07F': 99.3, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295415,"{'10A': 99.9, '10B': 66.7, '10C': 27.4, '10F': 17.8, '22F': 15.4}",1,99.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317985,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347835,"{'10A': 99.3, '10B': 67.0, '10C': 27.7, '10F': 18.1, '06B-I': 15.2}",1,99.3,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213155,"{'18C': 99.5, '18B': 99.4, '18F': 76.0, '18A': 62.9, '16F': 39.5}",1,99.5,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001158865,"{'16F': 95.7, '19F-II': 42.6, '19F-IV': 42.6, '28F': 42.4, '19F': 41.6}",1,95.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329695,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342615,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270315,"{'07A': 91.2, '07F': 91.0, '19F-II': 39.3, '19F': 37.8, '19F-IV': 37.8}",1,91.2,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295195,"{'03': 97.4, '01': 17.9, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295855,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300265,"{'18C': 88.5, '18B': 88.4, '18F': 77.8, '18A': 61.5, '16F': 37.6}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279135,"{'14': 95.1, '36': 26.3, '09L': 25.5, '09N': 24.4, '15B': 24.3}",1,95.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300555,"{'07C': 98.3, '07B': 75.9, '40': 73.9, '24B': 48.7, '24F': 48.3}",1,98.3,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335495,"{'35B': 99.2, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.2,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283335,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030805,"{'22F': 99.1, '22A': 73.4, '06A-IV': 43.4, '06A': 42.6, '06B': 42.1}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221475,"{'06B-III': 77.2, '06E': 75.4, '06A-III': 64.2, '06B-I': 63.6, '06A-V': 63.1}",1,77.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247805,"{'08': 99.5, '06A-II': 24.6, '06A-VI': 24.5, '02': 24.3, '06B-II': 24.0}",1,99.5,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266615,"{'08': 99.5, '06A-II': 26.1, '06A-VI': 26.0, '06B-II': 25.4, '06A-V': 25.0}",1,99.5,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236635,"{'23F': 92.5, '23A': 61.2, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278515,"{'12F': 96.4, '44': 93.4, '12B': 93.3, '12A': 84.8, '46': 81.7}",1,96.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001090685,"{'08': 98.0, '02': 24.4, '06A-IV': 23.3, '06A': 22.9, '06A-II': 22.3}",1,98.0,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900459535,"{'06B': 99.9, '06A-I': 96.1, '06A': 90.5, '06B-II': 87.2, '06B-I': 86.8}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284235,"{'23A': 99.4, '23F': 67.1, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.4,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001157285,"{'21': 92.2, '22F': 34.5, '06A-IV': 34.3, '06A-II': 34.0, '06A-VI': 34.0}",1,92.2,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331275,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001125305,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232845,"{'06A-II': 96.8, '06A-VI': 96.8, '06B-II': 89.3, '06A-V': 88.4, '06A-III': 88.0}",1,96.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192975,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295875,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000946895,"{'19B': 95.7, '19C': 70.0, '19F-II': 53.9, '19F-I': 53.1, '19F': 53.0}",1,95.7,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001149985,"{'06E': 100.0, '06B-III': 94.4, '06A-I': 42.6, '06B': 42.2, '06B-I': 41.8}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027365,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304895,"{'09A': 95.8, '09V': 95.6, '09N': 39.0, '09L': 37.0, '06A-IV': 26.3}",1,95.8,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284335,"{'19F-I': 97.4, '19F': 96.7, '19F-III': 96.2, '19F-II': 94.7, '19F-IV': 90.1}",1,97.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001132565,"{'06A-III': 99.8, '06B-I': 98.2, '06B-II': 91.1, '06A': 90.8, '06A-V': 90.2}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291185,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000211895,"{'09A': 99.3, '09V': 99.1, '09N': 38.5, '09L': 36.5, '11F': 26.6}",1,99.3,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217485,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002843545,"{'04': 99.8, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290215,"{'06C-I': 92.7, '06C': 92.6, '06D': 84.7, '06B-I': 77.6, '06A-III': 77.1}",1,92.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251545,"{'05': 95.3, '45': 22.5, '36': 21.7, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309425,"{'14': 91.6, '36': 26.8, '09L': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168935,"{'14': 93.1, '36': 27.2, '09L': 25.2, '15B': 24.3, '15C': 24.2}",1,93.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239125,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167885,"{'14': 93.4, '36': 27.1, '09L': 24.6, '15B': 24.3, '15C': 24.2}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001196735,"{'36': 12.9, '20': 8.1, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",2,12.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019475,"{'03': 95.2, '01': 17.2, '36': 16.6, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194255,"{'23B': 98.6, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 35.7}",1,98.6,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327735,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 94.0, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341885,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253075,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320805,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001210465,"{'03': 95.2, '36': 17.0, '20': 15.7, '01': 14.4, '14': 14.1}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001642845,"{'06A-I': 100.0, '06B': 94.5, '06A-V': 89.7, '06A': 87.1, '06A-III': 86.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295145,"{'15A': 98.5, '15F': 73.7, '15C': 62.0, '15B': 61.9, '23F': 31.9}",1,98.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063465,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190185,"{'23F': 99.2, '23A': 65.4, '23B': 49.0, '28A': 48.1, '06A-IV': 47.1}",1,99.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001348415,"{'32F': 97.5, '32A': 97.4, '06A-II': 40.7, '06A-VI': 40.6, '06B-II': 39.9}",1,97.5,,32F/32A,,,{},{},32F/32A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235805,"{'16F': 71.7, '28F': 43.2, '28A': 40.7, '18F': 33.7, '18A': 33.6}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001151805,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305835,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001090065,"{'15C': 95.3, '15B': 95.1, '15A': 60.9, '15F': 47.3, '23A': 34.5}",1,95.3,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057965,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294465,"{'21': 100.0, '22F': 36.1, '06A-IV': 33.6, '06A-II': 32.9, '06A-VI': 32.8}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254815,"{'24F': 97.0, '24B': 89.6, '24F2': 86.4, '24A': 62.8, '07C': 51.9}",1,97.0,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291375,"{'24F2': 99.7, '24B': 88.5, '24F': 87.0, '24A': 71.0, '07B': 56.8}",1,99.7,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001212205,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304245,"{'15A': 98.4, '15F': 73.6, '15C': 62.1, '15B': 62.0, '23F': 31.7}",1,98.4,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189765,"{'23F': 98.9, '23A': 64.7, '23B': 47.6, '28A': 47.4, '06A-V': 45.5}",1,98.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263465,"{'19F': 96.7, '19F-I': 95.7, '19F-III': 95.0, '19F-II': 94.8, '19F-IV': 90.3}",1,96.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251355,"{'06E': 99.8, '06B-III': 95.7, '06B-I': 43.8, '06A-III': 43.3, '06A-I': 42.6}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329815,"{'35A': 92.3, '35C': 86.4, '42': 85.6, '33A': 42.9, '33F': 42.8}",1,92.3,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320695,"{'23F': 92.4, '23A': 61.1, '28A': 48.1, '23B': 46.6, '06A-IV': 46.6}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224795,"{'06A-III': 94.8, '06B-I': 93.4, '06A': 90.3, '06A-IV': 89.5, '06B-II': 89.4}",1,94.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307305,"{'18C': 93.7, '18B': 93.6, '18F': 75.6, '18A': 62.7, '16F': 39.6}",1,93.7,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192785,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027805,"{'24F2': 99.7, '24B': 88.5, '24F': 87.0, '24A': 71.0, '07B': 56.8}",1,99.7,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230225,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274825,"{'13': 83.3, '36': 28.7, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900045385,"{'14': 92.6, '36': 29.0, '09L': 25.7, '09N': 24.7, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022745,"{'09N': 100.0, '09L': 89.1, '09A': 32.7, '09V': 32.7, '36': 32.4}",1,100.0,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001234125,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268725,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 32.7}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001198235,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049215,"{'14': 93.9, '15B': 24.0, '15C': 23.9, '09L': 23.6, '09N': 22.4}",1,93.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341775,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317025,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294385,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275965,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049015,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001155145,"{'10B': 99.5, '10A': 65.3, '10F': 20.1, '10C': 18.8, '22F': 13.3}",1,99.5,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252025,"{'20': 82.2, '47F': 25.9, '35A': 24.6, '09L': 24.5, '36': 24.2}",1,82.2,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025095,"{'18C': 99.7, '18B': 99.6, '18F': 75.6, '18A': 62.4, '16F': 39.2}",1,99.7,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340155,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327955,"{'08': 97.8, '02': 24.3, '06A-II': 24.0, '06A-VI': 23.9, '06B-II': 23.5}",1,97.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301355,"{'13': 83.3, '36': 28.8, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194695,"{'01': 7.1, '25F': 5.6, '45': 5.6, '25A': 5.4, '20': 5.3}",3,7.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001100965,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001139925,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299055,"{'19A': 99.1, '19A-III': 98.9, '19A-I': 86.1, '19A-II': 83.8, '19AF': 57.1}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326395,"{'05': 77.2, '45': 22.4, '36': 21.6, '20': 20.3, '12A': 19.7}",1,77.2,,5,,,{},{},5,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001197215,"{'03': 95.2, '36': 17.1, '20': 15.8, '09N': 14.5, '09L': 14.4}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019457335,"{'18A': 100.0, '18B': 54.0, '18C': 54.0, '18F': 53.7, '19F-IV': 37.3}",1,100.0,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238135,"{'04': 99.2, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301425,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218615,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189305,"{'19A-II': 100.0, '19A-I': 96.6, '19A': 85.0, '19A-III': 84.8, '19AF': 62.1}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193035,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255815,"{'06E': 100.0, '06B-III': 97.9, '06B-I': 45.6, '06A-III': 45.1, '06A-II': 44.1}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333105,"{'09A': 95.7, '09V': 95.5, '09N': 38.8, '09L': 37.4, '11F': 26.3}",1,95.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258335,"{'09A': 99.4, '09V': 99.2, '09N': 38.3, '09L': 36.5, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000334655,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218795,"{'23A': 94.9, '23F': 68.0, '23B': 43.2, '19F-II': 40.0, '15B': 39.1}",1,94.9,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001123145,"{'35F': 91.0, '47F': 67.6, '29': 25.7, '34': 25.3, '35B': 24.2}",1,91.0,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054635,"{'06A': 93.6, '06A-III': 91.8, '06A-V': 91.4, '06B-I': 91.3, '06B-II': 91.3}",1,93.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900188985,"{'23F': 99.3, '23A': 65.1, '23B': 47.7, '28A': 47.7, '06A': 45.4}",1,99.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398185,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282975,"{'03': 95.2, '36': 17.1, '01': 17.0, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238905,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001134185,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167725,"{'09A': 98.9, '09V': 98.7, '09N': 37.2, '09L': 35.6, '11F': 26.6}",1,98.9,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056035,"{'33F': 100.0, '33A': 99.9, '33F2': 70.9, '35C': 43.0, '42': 42.0}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227675,"{'14': 93.7, '36': 25.8, '09L': 25.0, '09N': 24.4, '15B': 23.8}",1,93.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001089485,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327185,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900046935,"{'18C': 99.7, '18B': 99.6, '18F': 75.6, '18A': 62.4, '16F': 39.2}",1,99.7,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315535,"{'14': 91.0, '19F-IV': 25.7, '09L': 24.7, '36': 24.4, '09N': 24.3}",1,91.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314955,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244185,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293325,"{'19A': 99.1, '19A-III': 98.9, '19A-I': 86.0, '19A-II': 83.8, '19AF': 57.1}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244515,"{'09A': 99.7, '09V': 99.5, '09N': 38.2, '09L': 36.8, '06A-IV': 27.4}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234615,"{'10A': 94.2, '10B': 64.8, '10C': 29.3, '10F': 19.7, '47A': 16.8}",1,94.2,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312225,"{'15A': 98.3, '15F': 72.9, '15C': 61.6, '15B': 61.5, '23F': 32.2}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001137225,"{'14': 94.6, '36': 25.9, '09L': 24.7, '15B': 24.2, '15C': 24.1}",1,94.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245165,"{'14': 91.4, '19F-IV': 25.9, '09L': 24.8, '09N': 24.7, '36': 23.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266195,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297245,"{'03': 95.2, '36': 17.4, '01': 17.0, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001147905,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327165,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336665,"{'15C': 90.8, '15B': 90.6, '15A': 63.0, '15F': 48.8, '23A': 31.1}",1,90.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026185,"{'09A': 99.4, '09V': 99.2, '09N': 38.7, '09L': 36.7, '11F': 26.3}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228315,"{'14': 100.0, '36': 26.7, '09L': 25.8, '09N': 24.4, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224255,"{'05': 95.3, '45': 22.5, '36': 21.8, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287455,"{'22F': 98.9, '22A': 73.2, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,98.9,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025275,"{'19F-I': 99.7, '19F': 96.7, '19F-III': 96.7, '19F-II': 93.9, '19F-IV': 89.3}",1,99.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171945,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901212745,"{'15C': 95.2, '15B': 95.1, '15A': 60.8, '15F': 47.3, '23A': 34.0}",1,95.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323955,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328135,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315025,"{'15C': 87.7, '15B': 87.6, '15A': 60.9, '15F': 48.0, '23A': 31.3}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290535,"{'16F': 95.7, '19F-II': 42.6, '19F-IV': 42.6, '28F': 42.4, '19F': 41.6}",1,95.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292745,"{'16F': 71.5, '28F': 43.0, '28A': 40.5, '18F': 33.6, '18A': 32.8}",1,71.5,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000170115,"{'06E': 99.7, '06B-III': 99.4, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331165,"{'03': 97.4, '01': 17.9, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295455,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304955,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.6, '19A-III': 87.4, '19AF': 61.9}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 92.87]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001119005,"{'35F': 91.1, '47F': 67.7, '29': 25.7, '34': 25.3, '35B': 24.6}",1,91.1,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295725,"{'09A': 95.7, '09V': 95.5, '09N': 38.6, '09L': 37.2, '35B': 26.9}",1,95.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224185,"{'14': 90.4, '19F-IV': 25.0, '36': 24.2, '09L': 24.0, '09N': 23.9}",1,90.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001129945,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 94.0, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329535,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270055,"{'14': 91.8, '36': 27.9, '09L': 25.6, '09N': 24.5, '15B': 23.7}",1,91.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250255,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321265,"{'15A': 98.3, '15F': 72.9, '15C': 61.6, '15B': 61.5, '23F': 32.2}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001096045,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001117745,"{'06C-I': 92.5, '06C': 92.4, '06D': 82.2, '06B-I': 77.3, '06A-III': 76.7}",1,92.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 88.3']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001334215,"{'20': 5.1, '22F': 4.8, '45': 4.4, '25A': 3.9, '25F': 3.9}",1,5.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240165,"{'06A': 99.8, '06A-IV': 98.4, '06B-II': 94.5, '06A-V': 92.9, '06A-III': 90.6}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001164065,"{'14': 94.2, '36': 24.9, '15B': 24.3, '15C': 24.2, '09L': 24.1}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053875,"{'06A-II': 95.5, '06A-VI': 95.5, '06B-II': 89.5, '06A-V': 89.1, '06A-III': 88.4}",1,95.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297505,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031775,"{'33F': 99.6, '33A': 99.5, '33F2': 70.6, '35C': 42.6, '42': 41.6}",1,99.6,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273305,"{'06B-III': 87.4, '06E': 87.0, '06A-V': 53.1, '06B-I': 52.7, '06B-II': 52.7}",1,87.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194755,"{'15B': 99.8, '15C': 99.6, '15A': 62.7, '15F': 48.3, '23A': 32.9}",1,99.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217945,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900036125,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001330295,"{'06E': 100.0, '06B-III': 98.9, '06B-I': 46.5, '06A-III': 46.0, '06A-II': 45.0}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001114065,"{'01': 5.4, '22F': 4.8, '25F': 4.7, '20': 4.6, '25A': 4.6}",1,5.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342215,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333275,"{'08': 99.5, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.5,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170475,"{'14': 92.7, '36': 28.9, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267505,"{'17F': 82.3, '06A-I': 42.2, '06B': 41.8, '06A': 41.2, '06A-III': 40.5}",1,82.3,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216545,"{'21': 100.0, '22F': 35.9, '06A-IV': 32.9, '06A-II': 32.2, '06A-VI': 32.1}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254595,"{'03': 97.6, '24A': 15.8, '01': 15.6, '09L': 13.4, '09N': 13.3}",1,97.6,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026385,"{'06C-I': 100.0, '06C': 99.8, '06D': 84.6, '06A-II': 79.6, '06A-VI': 79.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001095485,"{'06E': 99.9, '06B-III': 99.3, '06B-I': 46.7, '06A-III': 46.2, '06A-II': 45.2}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339135,"{'13': 98.8, '09N': 28.9, '20': 28.8, '09L': 28.5, '36': 27.8}",1,98.8,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189125,"{'06B-I': 99.4, '06A-III': 97.3, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900088945,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316605,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317875,"{'01': 7.2, '36': 6.2, '45': 6.0, '25F': 5.8, '25A': 5.6}",2,7.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318915,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234495,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269405,"{'15C': 87.8, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236085,"{'18C': 99.5, '18B': 99.4, '18F': 76.0, '18A': 62.9, '16F': 39.5}",1,99.5,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289805,"{'14': 92.6, '09L': 22.6, '09N': 21.7, '15B': 20.8, '15C': 20.7}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192275,"{'19A-II': 99.9, '19A-I': 96.5, '19A': 84.9, '19A-III': 84.7, '19AF': 62.0}",1,99.9,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341785,"{'12B': 97.3, '12F': 91.4, '12A': 89.4, '44': 88.7, '46': 87.0}",1,97.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[4]],"{'wciI': [1, 99.3]}",{'wciI': 1},12A/12B/44/46,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171595,"{'14': 92.4, '36': 27.9, '09L': 25.2, '15B': 24.2, '09N': 24.1}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334395,"{'19F-I': 95.9, '19F': 95.6, '19F-III': 94.0, '19F-II': 92.8, '19F-IV': 88.8}",1,95.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294145,"{'12F': 96.8, '44': 93.5, '12B': 92.8, '12A': 80.5, '46': 77.4}",1,96.8,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228295,"{'21': 91.7, '22F': 36.8, '06A-IV': 31.6, '06A-II': 31.2, '06A-VI': 31.2}",1,91.7,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269595,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342095,"{'23F': 94.5, '23A': 63.6, '06A-IV': 49.5, '23B': 48.3, '28A': 47.7}",1,94.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001207495,"{'22A': 94.2, '22F': 75.3, '06A-IV': 45.4, '06A-II': 43.7, '06B-I': 43.7}",1,94.2,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332605,"{'06C-I': 92.9, '06C': 92.8, '06D': 84.9, '06B-I': 77.8, '06A-III': 77.3}",1,92.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249065,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268265,"{'03': 95.2, '36': 17.3, '01': 17.1, '20': 16.1, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001200115,"{'19F-I': 95.3, '19F': 95.0, '19F-III': 93.5, '19F-II': 92.2, '19F-IV': 88.2}",1,95.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228795,"{'06A': 86.6, '06A-V': 86.1, '06A-IV': 86.0, '06B-II': 86.0, '06B-I': 83.8}",1,86.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 83.83']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052985,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327725,"{'33F2': 98.2, '33F': 74.8, '33A': 70.5, '34': 42.5, '35B': 32.8}",1,98.2,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001174725,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295665,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264975,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001150925,"{'22F': 85.8, '22A': 71.4, '06A': 39.6, '06A-III': 39.5, '06A-I': 39.4}",1,85.8,,22F,,,{},{},22F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303875,"{'09A': 95.7, '09V': 95.5, '09N': 38.6, '09L': 37.2, '11F': 26.6}",1,95.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226715,"{'22F': 98.8, '22A': 73.3, '06A': 42.8, '06B': 42.3, '06A-I': 42.0}",1,98.8,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337535,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244755,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001141965,"{'15C': 87.8, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194155,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025265,"{'03': 95.4, '20': 17.3, '01': 16.9, '36': 16.4, '09L': 16.0}",1,95.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249315,"{'09A': 98.8, '09V': 98.6, '09N': 37.3, '09L': 36.4, '06A-IV': 26.2}",1,98.8,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001090865,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229665,"{'33A': 96.1, '33F': 95.8, '33F2': 70.7, '35C': 45.8, '42': 45.1}",1,96.1,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217285,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001299655,"{'11D': 99.6, '11A': 96.8, '11F': 41.6, '11C': 35.9, '11B': 34.4}",1,99.6,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053645,"{'10B': 93.5, '10A': 69.7, '10F': 20.0, '10C': 18.7, '22F': 14.1}",1,93.5,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332865,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346395,"{'25F': 5.7, '45': 5.7, '25A': 5.5, '20': 5.1, '22F': 5.1}",2,5.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237225,"{'10A': 94.2, '10B': 64.8, '10C': 29.3, '10F': 19.7, '47A': 16.8}",1,94.2,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000279475,"{'06E': 99.6, '06B-III': 98.9, '06B-I': 46.5, '06A-III': 46.0, '06A-II': 45.0}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001211845,"{'17F': 93.5, '06A-III': 45.6, '06B-I': 45.4, '06A-IV': 45.3, '06A': 44.5}",1,93.5,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309415,"{'04': 99.8, '45': 34.0, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250105,"{'23B': 79.7, '23B1': 64.6, '06B-II': 32.8, '06A-IV': 32.7, '06A-V': 32.6}",1,79.7,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191445,"{'10A': 99.6, '10B': 66.5, '10C': 27.2, '10F': 17.6, '22F': 15.2}",1,99.6,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907172135,"{'14': 92.4, '36': 28.7, '09L': 25.2, '15B': 24.2, '09N': 24.1}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290295,"{'24F2': 99.7, '24B': 88.5, '24F': 87.0, '24A': 71.0, '07B': 56.8}",1,99.7,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258625,"{'16F': 96.7, '19F-IV': 44.8, '19F-II': 44.0, '19F': 43.0, '19F-I': 42.4}",1,96.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309855,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265195,"{'16F': 71.9, '28F': 43.4, '28A': 40.9, '18F': 33.9, '18A': 33.7}",1,71.9,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219745,"{'18A': 98.5, '18B': 53.9, '18C': 53.9, '18F': 53.7, '19F-II': 36.8}",1,98.5,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339685,"{'08': 99.3, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.3,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311755,"{'15C': 96.1, '15B': 95.9, '15A': 61.4, '15F': 47.7, '23A': 34.8}",1,96.1,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228715,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001148865,"{'19A': 99.9, '19A-III': 99.7, '19A-I': 86.1, '19A-II': 83.6, '19AF': 57.1}",1,99.9,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232645,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.8, '19F-II': 92.7, '19F-IV': 88.7}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001144825,"{'19F': 94.7, '19F-I': 94.2, '19F-III': 93.1, '19F-II': 91.8, '19F-IV': 88.1}",1,94.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001130105,"{'23A': 97.6, '23F': 68.9, '23B': 40.1, '19F-II': 39.3, '15B': 38.7}",1,97.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244125,"{'09A': 99.4, '09V': 99.2, '09N': 38.5, '09L': 36.5, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001102985,"{'36': 10.7, '20': 5.9, '45': 5.7, '06B-I': 5.5, '06C': 5.4}",1,10.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251085,"{'06A': 86.6, '06A-V': 85.9, '06A-IV': 85.8, '06B-II': 85.8, '06B-I': 83.5}",1,86.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 83.83']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317235,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249385,"{'06A-II': 95.6, '06A-VI': 95.6, '06B-II': 89.4, '06A-V': 89.0, '06A-III': 88.5}",1,95.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273895,"{'29': 59.6, '35B': 37.4, '35F': 26.8, '22F': 23.1, '33B': 23.1}",1,59.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347415,"{'34': 92.6, '33F2': 34.4, '35B': 31.5, '33F': 28.7, '33C': 27.7}",1,92.6,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259095,"{'04': 99.2, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278985,"{'23F': 88.5, '23A': 55.8, '28A': 40.7, '28F': 38.5, '23B': 38.3}",1,88.5,,23F,,,{},{},23F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001096725,"{'36': 11.0, '06A-IV': 7.6, '01': 7.2, '20': 7.0, '06C': 6.3}",1,11.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000279715,"{'23A': 97.6, '23F': 68.9, '23B': 40.1, '19F-II': 39.3, '15B': 38.7}",1,97.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001127805,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001147805,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293035,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 89.6, '06A': 87.7, '06A-III': 86.1}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289325,"{'24B': 95.5, '24F2': 91.3, '24F': 91.2, '24A': 61.0, '07C': 55.1}",1,95.5,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001105005,"{'15C': 93.7, '15B': 93.6, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,93.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327765,"{'19F-I': 98.0, '19F': 97.4, '19F-III': 96.9, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234785,"{'09N': 100.0, '09L': 88.9, '09A': 32.7, '09V': 32.7, '36': 32.2}",1,100.0,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585935,"{'12F': 96.9, '44': 93.6, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,96.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273975,"{'08': 99.1, '06A-II': 26.0, '06A-VI': 25.9, '06B-II': 25.3, '06A-V': 24.9}",1,99.1,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001153965,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_005780125,"{'14': 94.2, '36': 26.1, '09L': 25.3, '09N': 24.1, '15B': 24.1}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252395,"{'39': 97.9, '29': 28.6, '34': 22.6, '43': 19.3, '33C': 18.6}",1,97.9,,39,,,{},{},39,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056085,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001084545,"{'09A': 99.7, '09V': 99.5, '09N': 36.4, '09L': 35.1, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279495,"{'04': 99.2, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030065,"{'22F': 92.0, '22A': 74.2, '06A-IV': 45.1, '06A-II': 44.7, '06A-VI': 44.6}",1,92.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323765,"{'16F': 95.7, '19F-II': 42.6, '19F-IV': 42.6, '28F': 42.4, '19F': 41.6}",1,95.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215915,"{'11A': 99.8, '11D': 96.7, '11F': 40.0, '11C': 36.0, '11B': 34.5}",1,99.8,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337625,"{'15C': 96.1, '15B': 95.9, '15A': 61.4, '15F': 47.7, '23A': 34.8}",1,96.1,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001097545,"{'36': 10.6, '20': 7.5, '06A-IV': 7.0, '45': 6.5, '06B-I': 5.9}",1,10.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322505,"{'14': 93.7, '36': 25.7, '09L': 24.9, '09N': 24.4, '15B': 23.8}",1,93.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191495,"{'22F': 92.4, '22A': 70.2, '06A-II': 44.5, '06A-VI': 44.4, '06B-I': 44.4}",1,92.4,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001124605,"{'06A-II': 86.6, '06A-VI': 86.6, '06A': 85.9, '06A-IV': 84.5, '06A-V': 84.2}",1,86.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189025,"{'19F-I': 99.7, '19F': 96.7, '19F-III': 96.7, '19F-II': 93.9, '19F-IV': 89.3}",1,99.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193695,"{'15C': 93.9, '15B': 93.8, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900036545,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026295,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021045,"{'03': 95.2, '01': 17.3, '36': 17.1, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295705,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305265,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229515,"{'18C': 88.4, '18B': 88.3, '18F': 77.7, '18A': 61.5, '16F': 37.6}",1,88.4,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001173845,"{'35B': 99.6, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.6,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001140705,"{'34': 92.9, '33F2': 34.7, '35B': 31.5, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286205,"{'06E': 99.4, '06B-III': 99.0, '06B-I': 46.7, '06A-III': 46.2, '06A-II': 45.2}",1,99.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001082985,"{'03': 95.2, '01': 17.3, '36': 17.1, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001153845,"{'36': 11.8, '20': 6.7, '25F': 6.5, '06A-IV': 6.5, '25A': 6.3}",1,11.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193545,"{'35B': 97.9, '33F': 33.5, '35C': 33.3, '35A': 32.9, '34': 32.7}",1,97.9,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191095,"{'06C-I': 99.2, '06C': 99.1, '06D': 84.5, '06A-II': 79.0, '06A-VI': 79.0}",1,99.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316725,"{'01': 99.1, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228275,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289405,"{'22A': 94.0, '22F': 81.1, '06A-I': 41.0, '06A-IV': 40.9, '06B': 40.6}",1,94.0,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318655,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238295,"{'03': 97.9, '01': 17.4, '20': 16.4, '09N': 15.7, '09L': 15.3}",1,97.9,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338105,"{'14': 94.3, '36': 26.1, '09L': 25.3, '09N': 24.7, '15B': 24.3}",1,94.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335125,"{'06E': 100.0, '06B-III': 98.8, '06B-I': 46.3, '06A-III': 45.8, '06A-II': 45.0}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302225,"{'13': 98.9, '20': 28.9, '09N': 28.8, '09L': 28.7, '36': 27.9}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001165465,"{'36': 12.9, '20': 8.1, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",2,12.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312645,"{'14': 95.1, '36': 27.0, '09L': 25.3, '09N': 24.7, '15B': 24.3}",1,95.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001329575,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264095,"{'05': 95.3, '45': 22.3, '36': 21.4, '20': 20.2, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276415,"{'19F-I': 97.3, '19F': 96.6, '19F-III': 96.1, '19F-II': 94.6, '19F-IV': 89.7}",1,97.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231635,"{'20': 99.3, '13': 26.1, '09L': 25.6, '36': 25.0, '47F': 24.4}",1,99.3,,20,,,{},{},20,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001088885,"{'33B': 89.8, '33D': 89.7, '35B': 34.8, '33F2': 30.3, '22F': 28.2}",1,89.8,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900036445,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218765,"{'17F': 82.3, '06A-III': 42.9, '06B-I': 42.6, '06A-I': 42.0, '06B': 41.6}",1,82.3,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252705,"{'23F': 92.0, '23A': 59.0, '28F': 46.3, '06B-II': 45.9, '06A-IV': 45.8}",1,92.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333205,"{'14': 96.8, '36': 25.0, '09L': 24.4, '15B': 23.7, '09N': 23.6}",1,96.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032215,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033955,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296955,"{'19A': 99.0, '19A-III': 98.8, '19A-I': 85.9, '19A-II': 83.6, '19AF': 56.9}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246735,"{'18C': 97.6, '18B': 97.5, '18F': 74.3, '18A': 63.2, '16F': 39.2}",1,97.6,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001194665,"{'10A': 99.3, '10B': 67.0, '10C': 27.7, '10F': 18.1, '06B-I': 15.2}",1,99.3,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246935,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019397765,"{'19F': 66.3, '19F-I': 66.0, '19F-III': 64.5, '19F-II': 63.1, '19F-IV': 59.6}",1,66.3,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291905,"{'15C': 96.0, '15B': 95.9, '15A': 61.4, '15F': 47.7, '23A': 34.8}",1,96.0,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001127285,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170645,"{'14': 92.7, '36': 28.9, '09L': 25.2, '15B': 24.2, '09N': 24.1}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019535,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001105485,"{'25F': 7.5, '25A': 7.3, '45': 5.9, '22F': 5.3, '38': 4.8}",2,7.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900692975,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238275,"{'14': 91.2, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001126365,"{'14': 89.9, '36': 28.6, '09L': 22.8, '19F-II': 22.2, '09N': 21.7}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317375,"{'10A': 99.4, '10B': 67.1, '10C': 27.7, '10F': 18.1, '22F': 15.5}",1,99.4,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276355,"{'10A': 99.1, '10B': 66.8, '10C': 27.6, '10F': 18.1, '22F': 15.0}",1,99.1,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238595,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171765,"{'14': 92.1, '36': 28.6, '09L': 25.0, '09N': 24.5, '15B': 24.2}",1,92.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305305,"{'14': 91.7, '36': 25.9, '19F-IV': 25.7, '09L': 25.2, '09N': 25.1}",1,91.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284835,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341575,"{'08': 98.0, '02': 24.4, '06A-IV': 23.3, '06A': 22.9, '06A-II': 22.3}",1,98.0,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001095245,"{'19A-I': 99.0, '19A-II': 97.4, '19A': 87.6, '19A-III': 87.4, '19AF': 61.8}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309185,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020139455,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316965,"{'18C': 99.8, '18B': 99.7, '18F': 75.7, '18A': 62.5, '16F': 39.2}",1,99.8,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258865,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001142605,"{'32A': 97.5, '32F': 97.4, '06A-II': 40.7, '06A-VI': 40.6, '06B-II': 39.9}",1,97.5,,32F/32A,,,{},{},32F/32A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237215,"{'04': 99.8, '45': 33.4, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322515,"{'23F': 93.5, '23A': 65.1, '28A': 48.5, '23B': 46.9, '28F': 46.4}",1,93.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029675,"{'19F-I': 99.1, '19F': 96.3, '19F-III': 96.3, '19F-II': 93.5, '19F-IV': 89.3}",1,99.1,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328655,"{'07A': 97.5, '07F': 97.3, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,97.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292095,"{'15C': 96.0, '15B': 95.8, '15A': 61.3, '15F': 47.6, '23A': 34.8}",1,96.0,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029755,"{'12F': 96.7, '44': 93.4, '12B': 92.7, '12A': 80.4, '46': 77.3}",1,96.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028185,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223005,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306235,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049035,"{'15B': 99.8, '15C': 99.5, '15A': 62.7, '15F': 48.3, '23A': 32.9}",1,99.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220725,"{'06A-II': 85.8, '06A-VI': 85.8, '06A-III': 85.7, '06A-V': 85.3, '06B-I': 84.3}",1,85.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252685,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270805,"{'14': 93.0, '36': 27.3, '09L': 25.8, '09N': 25.2, '15B': 24.3}",1,93.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223625,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283635,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055405,"{'22F': 99.0, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260115,"{'13': 83.5, '36': 31.1, '14': 27.1, '15B': 26.5, '15C': 26.1}",1,83.5,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169275,"{'14': 92.7, '36': 28.8, '09L': 25.7, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021755,"{'04': 99.8, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337675,"{'23F': 96.2, '23A': 62.9, '06A-IV': 48.9, '23B': 48.4, '28A': 47.2}",1,96.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342225,"{'16F': 71.5, '28F': 43.1, '28A': 40.6, '18F': 33.6, '18A': 32.7}",1,71.5,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259765,"{'23F': 96.3, '23A': 63.2, '06A-IV': 48.1, '23B': 47.9, '28A': 47.0}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304405,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001139605,"{'10B': 99.5, '10A': 65.3, '10F': 20.1, '10C': 18.8, '22F': 13.8}",1,99.5,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242045,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287025,"{'19F': 94.9, '19F-I': 94.4, '19F-III': 93.3, '19F-II': 92.0, '19F-IV': 88.3}",1,94.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334875,"{'15A': 99.8, '15F': 74.1, '15C': 62.0, '15B': 61.9, '23F': 31.7}",1,99.8,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001147005,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025855,"{'03': 95.2, '01': 17.3, '36': 16.5, '09N': 15.8, '20': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342665,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028335,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001171205,"{'36': 10.2, '06A-IV': 6.7, '20': 6.1, '45': 5.3, '06C': 5.2}",1,10.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236315,"{'23B': 88.1, '23B1': 61.3, '23F': 38.5, '28A': 33.3, '23A': 33.0}",1,88.1,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272075,"{'13': 98.8, '20': 29.0, '09L': 28.6, '09N': 28.2, '36': 28.0}",1,98.8,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001109045,"{'11F': 61.7, '11D': 38.3, '11A': 36.8, '09A': 25.3, '09V': 25.3}",1,61.7,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000171675,"{'12F': 96.9, '44': 93.6, '12B': 92.9, '12A': 80.7, '46': 77.6}",1,96.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241785,"{'16F': 71.3, '28F': 42.9, '28A': 40.4, '18F': 33.7, '18A': 33.1}",1,71.3,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001110125,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302085,"{'10A': 99.1, '10B': 66.8, '10C': 27.7, '10F': 18.1, '22F': 15.5}",1,99.1,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250235,"{'15A': 98.3, '15F': 72.9, '15C': 61.6, '15B': 61.5, '23F': 32.2}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306565,"{'19F-II': 98.5, '19F': 94.6, '19F-III': 93.6, '19F-I': 93.0, '19F-IV': 92.3}",1,98.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259445,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264935,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323435,"{'10A': 98.9, '10B': 67.1, '10C': 27.5, '10F': 18.1, '22F': 15.5}",1,98.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021835,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219645,"{'09A': 92.5, '09V': 92.3, '09N': 39.0, '09L': 38.4, '06A-IV': 25.8}",1,92.5,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063515,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273905,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304385,"{'02': 93.2, '22F': 40.3, '06B-I': 39.0, '06A-III': 38.9, '06A-II': 38.7}",1,93.2,,2,,,{},{},2,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288955,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242865,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274235,"{'06A-III': 94.7, '06B-I': 93.3, '06A': 90.3, '06A-IV': 89.4, '06B-II': 89.3}",1,94.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312895,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276555,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299245,"{'23F': 99.0, '23A': 64.8, '23B': 47.6, '28A': 47.5, '06A-V': 45.8}",1,99.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019397725,"{'19A': 98.8, '19A-III': 98.6, '19A-I': 85.7, '19A-II': 83.7, '19AF': 57.1}",1,98.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339245,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_003490505,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324545,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191715,"{'22F': 98.4, '22A': 73.3, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,98.4,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001153445,"{'23F': 92.4, '23A': 61.2, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193745,"{'10A': 94.2, '10B': 64.8, '10C': 29.3, '10F': 19.7, '47A': 16.8}",1,94.2,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900035065,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.7, '36': 23.3}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283575,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292015,"{'07C': 94.0, '07B': 77.1, '40': 76.7, '24B': 48.6, '24F': 47.6}",1,94.0,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287885,"{'33F2': 100.0, '33F': 74.7, '33A': 70.3, '34': 41.7, '35B': 32.3}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028235,"{'03': 95.2, '36': 17.4, '01': 17.0, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900059375,"{'07A': 99.5, '07F': 99.3, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330105,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234675,"{'15A': 98.3, '15F': 73.0, '15C': 61.8, '15B': 61.7, '23F': 32.3}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191005,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-I': 41.8}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225265,"{'01': 7.5, '45': 6.4, '25F': 5.7, '25A': 5.5, '22F': 5.1}",5,7.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326245,"{'14': 92.7, '36': 29.0, '09L': 25.9, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244825,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217025,"{'06E': 92.4, '06B-III': 92.3, '06A-II': 50.7, '06A-VI': 50.7, '06B-I': 50.0}",1,92.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 96.61]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337415,"{'19F': 91.5, '19F-I': 91.0, '19F-III': 89.9, '19F-II': 89.0, '19F-IV': 87.9}",1,91.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297465,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304725,"{'11D': 96.5, '11A': 95.3, '11F': 43.3, '11C': 36.2, '11B': 34.8}",1,96.5,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341335,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331525,"{'07A': 90.8, '07F': 90.6, '19F-II': 39.3, '19F': 37.8, '19F-IV': 37.8}",1,90.8,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316765,"{'14': 94.3, '36': 25.9, '09L': 25.3, '09N': 24.7, '15B': 24.3}",1,94.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001301515,"{'06A-II': 97.8, '06A-VI': 97.8, '06B-II': 90.3, '06A-V': 89.5, '06A-III': 89.1}",1,97.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312115,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250735,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023075,"{'08': 99.5, '06A-II': 24.4, '02': 24.3, '06A-VI': 24.3, '06B-II': 23.8}",1,99.5,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300625,"{'20': 97.3, '13': 26.0, '09L': 25.3, '36': 24.4, '47F': 24.4}",1,97.3,,20,,,{},{},20,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194905,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235825,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.7, '19A-III': 87.5, '19AF': 61.8}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900036215,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213515,"{'14': 94.8, '36': 26.2, '09L': 25.4, '09N': 24.6, '15B': 24.3}",1,94.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265035,"{'05': 95.3, '45': 22.6, '36': 21.7, '20': 20.0, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001171745,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A': 46.2}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341935,"{'14': 91.1, '36': 25.6, '09L': 24.9, '15B': 23.8, '09N': 23.7}",1,91.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001107565,"{'03': 95.2, '36': 16.7, '20': 15.4, '09N': 15.0, '01': 14.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225065,"{'15A': 98.5, '15F': 73.1, '15C': 61.8, '15B': 61.7, '23F': 32.2}",1,98.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315845,"{'16F': 98.8, '28F': 43.1, '18A': 41.6, '19F-IV': 41.5, '18F': 41.3}",1,98.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332985,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223835,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.5, '46': 81.4}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224865,"{'16F': 71.5, '28F': 43.1, '28A': 40.6, '18F': 33.6, '18A': 32.9}",1,71.5,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291335,"{'15B': 99.8, '15C': 99.6, '15A': 62.7, '15F': 48.3, '23A': 32.9}",1,99.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193175,"{'11D': 99.7, '11A': 96.9, '11F': 41.7, '11C': 35.6, '11B': 34.1}",1,99.7,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318965,"{'09A': 95.9, '09V': 95.7, '09N': 38.8, '09L': 37.4, '11F': 26.6}",1,95.9,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031855,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_013047165,"{'06A': 99.8, '06A-IV': 99.4, '06B-II': 95.2, '06A-V': 93.5, '06A-III': 91.5}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242575,"{'14': 95.0, '36': 26.3, '09L': 25.4, '09N': 24.8, '15B': 24.3}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218205,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.9, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325265,"{'06A-III': 94.7, '06B-I': 93.3, '06A': 90.2, '06A-IV': 89.4, '06B-II': 89.3}",1,94.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258605,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341005,"{'19F-I': 97.8, '19F': 97.1, '19F-III': 96.6, '19F-II': 95.1, '19F-IV': 90.2}",1,97.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294745,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[0]],{'wciI': ['2: 89.12']},{'wciI': 0},12F_12A_12B_44_46,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001116165,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001125545,"{'35B': 99.7, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.7,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333395,"{'07A': 91.2, '07F': 91.0, '19F-II': 39.3, '19F': 37.8, '19F-IV': 37.8}",1,91.2,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256245,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.0, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312555,"{'23F': 96.7, '23A': 63.6, '23B': 48.0, '28A': 47.7, '28F': 46.0}",1,96.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292305,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317475,"{'06A-II': 98.9, '06A-VI': 98.9, '06B-II': 92.1, '06A-V': 91.3, '06A-III': 88.8}",1,98.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339915,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051415,"{'38': 99.0, '25F': 84.5, '25A': 83.5, '36': 9.8, '01': 7.8}",1,99.0,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192015,"{'03': 95.2, '36': 16.8, '01': 15.7, '20': 15.3, '09L': 14.5}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001091465,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168195,"{'09A': 99.4, '09V': 99.2, '09N': 36.5, '09L': 35.6, '11F': 26.6}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222385,"{'22F': 96.4, '22A': 73.4, '06A': 42.6, '06A-II': 42.3, '06A-VI': 42.2}",1,96.4,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243925,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301015,"{'18C': 99.8, '18B': 99.7, '18F': 75.7, '18A': 62.6, '16F': 39.2}",1,99.8,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254375,"{'17F': 99.8, '06B': 44.5, '06D': 43.7, '06A-I': 43.7, '06B-I': 43.4}",1,99.8,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288775,"{'23F': 96.8, '23A': 63.7, '23B': 48.0, '28A': 47.7, '06B-II': 46.1}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226395,"{'09A': 99.5, '09V': 99.3, '09N': 37.8, '09L': 36.8, '06A-IV': 27.2}",1,99.5,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216085,"{'18F': 89.0, '18C': 64.8, '18B': 64.7, '18A': 57.2, '16F': 39.1}",1,89.0,,18F,,,{},{},18F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255905,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333335,"{'09N': 99.8, '09L': 88.9, '09A': 32.7, '09V': 32.7, '36': 32.3}",1,99.8,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019399325,"{'14': 99.9, '36': 26.8, '09L': 25.8, '09N': 24.4, '15B': 24.3}",1,99.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235905,"{'36': 12.3, '20': 8.0, '01': 7.0, '06B-I': 6.5, '06C': 6.4}",1,12.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228185,"{'03': 95.2, '36': 17.4, '01': 16.8, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001348475,"{'18C': 88.6, '18B': 88.5, '18F': 78.1, '18A': 61.8, '16F': 37.9}",1,88.6,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900034185,"{'14': 99.5, '09L': 26.8, '36': 25.8, '09N': 24.6, '15B': 24.0}",1,99.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220425,"{'16F': 95.6, '19F-II': 42.6, '19F-IV': 42.6, '28F': 42.4, '19F': 41.6}",1,95.6,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290505,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001193695,"{'36': 10.5, '06A-IV': 7.1, '20': 6.1, '06C': 5.7, '06B-I': 5.7}",1,10.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250295,"{'35B': 99.4, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900034365,"{'06C-I': 89.1, '06C': 89.0, '06D': 86.9, '06A-I': 77.7, '06B': 77.4}",1,89.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215795,"{'06B-III': 94.4, '06E': 93.9, '06A-III': 46.9, '06B-I': 46.7, '06A-II': 46.5}",1,94.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001197915,"{'23F': 93.8, '23A': 63.4, '28A': 48.4, '23B': 47.0, '06A-III': 46.3}",1,93.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398565,"{'19A': 99.1, '19A-III': 98.9, '19A-I': 86.0, '19A-II': 83.7, '19AF': 57.2}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281485,"{'18C': 99.3, '18B': 99.2, '18F': 76.0, '18A': 62.8, '16F': 39.3}",1,99.3,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338255,"{'04': 99.8, '45': 33.4, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033545,"{'04': 99.7, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302815,"{'23F': 97.4, '23A': 65.7, '28A': 47.1, '23B': 46.4, '06A': 46.1}",1,97.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279825,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023045,"{'23F': 99.0, '23A': 64.8, '23B': 47.6, '28A': 47.5, '06A-V': 45.8}",1,99.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244585,"{'14': 91.1, '19F-IV': 25.9, '36': 25.0, '09L': 24.8, '09N': 24.3}",1,91.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319405,"{'37': 98.8, '33F': 77.5, '33A': 76.2, '33F2': 71.1, '35B': 32.4}",1,98.8,,37,,,{},{},37,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302695,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001136645,"{'45': 6.8, '25F': 6.4, '25A': 6.2, '01': 6.1, '22F': 5.1}",3,6.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238305,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280365,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585075,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341525,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297045,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293005,"{'13': 83.3, '36': 28.8, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189075,"{'22F': 94.0, '22A': 70.2, '06A-II': 45.3, '06A-VI': 45.2, '06B-I': 45.2}",1,94.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227935,"{'08': 100.0, '06A-II': 26.5, '06A-VI': 26.4, '06B-II': 25.8, '06A-V': 25.4}",1,100.0,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230125,"{'22F': 96.2, '22A': 73.4, '06A': 42.6, '06A-II': 42.3, '06A-VI': 42.2}",1,96.2,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249895,"{'03': 96.7, '01': 17.9, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,96.7,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267555,"{'06A-II': 95.6, '06A-VI': 95.6, '06B-II': 89.5, '06A-V': 89.1, '06A-III': 88.5}",1,95.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229505,"{'14': 92.6, '36': 27.2, '09L': 25.9, '09N': 25.0, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001193475,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277655,"{'01': 99.5, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308795,"{'23B': 89.6, '23B1': 61.7, '23F': 38.7, '06A-IV': 35.0, '06B-I': 33.4}",1,89.6,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312255,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254695,"{'01': 7.5, '36': 7.4, '45': 6.4, '20': 5.6, '25F': 5.4}",3,7.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169475,"{'14': 92.0, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266805,"{'23F': 94.1, '23A': 63.4, '23B': 48.3, '28A': 47.7, '06A-III': 47.3}",1,94.1,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279385,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238645,"{'13': 99.0, '09N': 29.1, '20': 28.9, '09L': 28.7, '36': 28.0}",1,99.0,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279075,"{'19A-I': 99.0, '19A-II': 97.3, '19A': 87.6, '19A-III': 87.4, '19AF': 61.6}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290105,"{'19F-I': 99.5, '19F': 96.6, '19F-III': 96.6, '19F-II': 94.0, '19F-IV': 89.3}",1,99.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001097865,"{'38': 98.2, '25F': 84.3, '25A': 83.3, '36': 11.1, '20': 6.2}",1,98.2,25F_25A_38,25F_25A_38,,"[[0], [19]]","{'wcyD': ['b: 88.52'], 'wcyV': 100.0}","{'wcyD': 0, 'wcyV': 'detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324215,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 32.7}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900036185,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047725,"{'01': 93.1, '19F': 34.5, '19F-I': 34.1, '19F-III': 33.7, '19F-II': 33.6}",1,93.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344135,"{'06E': 99.7, '06B-III': 99.2, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.5}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263165,"{'04': 99.1, '45': 33.5, '12F': 23.4, '44': 23.2, '12A': 22.3}",1,99.1,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255685,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248235,"{'18C': 99.5, '18B': 99.4, '18F': 76.0, '18A': 63.2, '16F': 39.5}",1,99.5,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221755,"{'33B': 89.6, '33D': 89.5, '35B': 34.6, '33F2': 30.3, '22F': 28.1}",1,89.6,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302845,"{'20': 82.2, '47F': 25.9, '35A': 24.6, '09L': 24.5, '36': 24.2}",1,82.2,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248365,"{'35B': 99.3, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.3,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247935,"{'09N': 100.0, '09L': 89.1, '09A': 32.7, '09V': 32.7, '36': 32.4}",1,100.0,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900060505,"{'06C-I': 88.8, '06C': 88.7, '06D': 86.7, '06A-I': 77.5, '06B': 77.2}",1,88.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900459675,"{'07B': 99.9, '40': 92.9, '07C': 77.2, '24F2': 48.1, '24F': 47.7}",1,99.9,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234405,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001199355,"{'03': 95.2, '36': 16.4, '20': 15.7, '01': 15.2, '14': 13.9}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313315,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249215,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274975,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291885,"{'06E': 89.5, '06B-III': 88.4, '06B-I': 52.2, '06A-III': 51.1, '06A-II': 49.7}",1,89.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275135,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268485,"{'35A': 93.8, '35C': 84.3, '42': 83.5, '33A': 41.8, '33F': 41.6}",1,93.8,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344375,"{'01': 6.8, '45': 5.8, '25F': 5.7, '20': 5.5, '25A': 5.5}",3,6.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302395,"{'06A-II': 88.7, '06A-VI': 88.7, '06A-III': 88.6, '06B-II': 87.8, '06A': 87.5}",1,88.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027605,"{'12F': 96.7, '44': 93.4, '12B': 92.7, '12A': 80.4, '46': 77.3}",1,96.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000251785,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000279045,"{'23F': 99.0, '23A': 65.4, '23B': 49.0, '28A': 48.1, '06A-IV': 47.3}",1,99.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231855,"{'08': 97.9, '02': 24.4, '06A-IV': 23.3, '06A': 22.8, '22F': 22.6}",1,97.9,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228165,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335495,"{'18A': 97.8, '18B': 53.4, '18C': 53.4, '18F': 53.1, '19F-IV': 37.3}",1,97.8,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022815,"{'06C-I': 92.4, '06C': 92.2, '06D': 82.9, '06B-I': 77.4, '06A-III': 77.1}",1,92.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001329395,"{'19F-I': 97.1, '19F': 96.6, '19F-III': 96.4, '19F-II': 92.4, '19F-IV': 88.0}",1,97.1,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228005,"{'14': 91.4, '19F-IV': 25.9, '36': 24.9, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319985,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279325,"{'01': 98.8, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295215,"{'19A': 98.9, '19A-III': 98.7, '19A-I': 85.6, '19A-II': 83.1, '19AF': 57.2}",1,98.9,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340565,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245035,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245385,"{'01': 99.1, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043085,"{'18C': 95.8, '18B': 95.7, '18F': 74.8, '18A': 61.3, '16F': 38.5}",1,95.8,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001121585,"{'23A': 97.5, '23F': 68.8, '23B': 40.1, '19F-II': 39.2, '15B': 38.8}",1,97.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299105,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001155805,"{'20': 5.0, '22F': 5.0, '45': 4.9, '25F': 4.8, '25A': 4.7}",2,5.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227465,"{'17F': 99.8, '06B': 44.5, '06B-I': 43.9, '06A-III': 43.8, '06D': 43.7}",1,99.8,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251555,"{'14': 95.0, '36': 26.0, '09L': 25.3, '09N': 24.3, '15B': 24.3}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244395,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266605,"{'12F': 96.4, '44': 93.4, '12B': 93.3, '12A': 84.8, '46': 81.7}",1,96.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001194345,"{'07A': 98.3, '07F': 98.1, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,98.3,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312585,"{'19A': 97.0, '19A-III': 96.9, '19A-I': 84.0, '19A-II': 81.7, '19AF': 55.5}",1,97.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228245,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339935,"{'15C': 95.2, '15B': 95.1, '15A': 60.8, '15F': 47.3, '23A': 34.0}",1,95.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001163205,"{'14': 94.6, '36': 26.1, '09L': 24.5, '15B': 24.2, '15C': 24.1}",1,94.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228235,"{'23F': 98.7, '23A': 64.5, '23B': 47.3, '28A': 47.2, '06A-V': 45.5}",1,98.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001139225,"{'06C': 85.2, '06C-I': 85.2, '06D': 84.2, '06A': 76.9, '06A-IV': 73.3}",1,85.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291055,"{'24F2': 99.5, '24B': 88.3, '24F': 86.8, '24A': 70.8, '07B': 56.8}",1,99.5,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215175,"{'33D': 80.6, '33B': 76.6, '06A-I': 36.6, '35B': 36.1, '06B': 36.0}",1,80.6,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032795,"{'06A-IV': 99.9, '06A': 99.7, '06B-II': 95.1, '06A-V': 93.5, '06A-III': 91.3}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171345,"{'14': 92.4, '36': 28.7, '09L': 24.8, '15B': 24.2, '15C': 24.1}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291245,"{'07C': 99.1, '07B': 72.9, '40': 70.7, '24B': 48.7, '24F': 48.5}",1,99.1,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001336875,"{'45': 5.8, '25F': 5.5, '25A': 5.3, '01': 4.6, '38': 4.5}",2,5.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346715,"{'16F': 95.7, '19F-II': 42.6, '19F-IV': 42.6, '28F': 42.4, '19F': 41.6}",1,95.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248475,"{'19A-II': 98.1, '19A-I': 95.6, '19A': 84.1, '19A-III': 83.9, '19AF': 61.7}",1,98.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301255,"{'15C': 90.1, '15B': 90.0, '15A': 63.0, '15F': 48.8, '23A': 30.5}",1,90.1,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315145,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290775,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001088125,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194165,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.7, '36': 22.7}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233915,"{'04': 99.2, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000171695,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001147825,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264215,"{'09A': 99.4, '09V': 99.2, '09N': 38.5, '09L': 36.4, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001143245,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001170805,"{'34': 92.8, '33F2': 34.7, '35B': 32.1, '33F': 29.0, '33C': 28.1}",1,92.8,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253105,"{'04': 99.6, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.6,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322265,"{'06C-I': 88.9, '06C': 88.8, '06D': 86.7, '06A-I': 77.5, '06B': 77.2}",1,88.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282225,"{'15C': 96.2, '15B': 96.1, '15A': 61.5, '15F': 47.8, '23A': 34.7}",1,96.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585825,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585545,"{'12F': 96.9, '44': 93.6, '12B': 92.9, '12A': 80.6, '46': 77.5}",1,96.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296425,"{'14': 94.1, '36': 26.2, '09L': 25.4, '09N': 24.3, '15B': 24.2}",1,94.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217785,"{'23F': 94.0, '23A': 63.5, '28A': 48.3, '23B': 47.0, '06A-III': 46.2}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252825,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231245,"{'04': 99.8, '45': 33.4, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248875,"{'15A': 98.3, '15F': 73.0, '15C': 61.8, '15B': 61.7, '23F': 32.3}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308405,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285395,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258385,"{'35B': 92.1, '34': 33.5, '33F': 32.9, '35C': 31.9, '35A': 31.6}",1,92.1,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219495,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242015,"{'16F': 71.9, '28F': 43.4, '28A': 40.9, '18F': 33.9, '18A': 33.7}",1,71.9,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001329375,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240625,"{'15A': 98.5, '15F': 73.1, '15C': 61.8, '15B': 61.7, '23F': 32.2}",1,98.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001098285,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287715,"{'04': 98.3, '45': 34.9, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337095,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285465,"{'03': 95.0, '36': 17.4, '01': 16.8, '20': 15.9, '09N': 15.8}",1,95.0,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001156745,"{'10B': 99.4, '10A': 65.2, '10F': 20.1, '10C': 18.8, '22F': 13.6}",1,99.4,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239305,"{'04': 99.8, '45': 33.7, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330145,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312835,"{'13': 98.9, '09N': 29.0, '09L': 28.7, '20': 28.4, '36': 28.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027525,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214945,"{'05': 95.0, '45': 22.6, '36': 21.8, '20': 20.4, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264745,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900041725,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001159505,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001127225,"{'14': 89.9, '36': 29.0, '09L': 23.5, '09N': 22.3, '19F-II': 22.2}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255085,"{'22F': 96.5, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-I': 41.8}",1,96.5,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901212865,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331905,"{'19F-I': 98.0, '19F-II': 95.3, '19F-III': 95.2, '19F': 95.1, '19F-IV': 90.7}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342395,"{'14': 90.0, '36': 27.9, '09L': 23.1, '19F-II': 22.2, '09N': 21.9}",1,90.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168685,"{'09A': 99.0, '09V': 98.8, '09N': 37.3, '09L': 36.2, '11F': 26.6}",1,99.0,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063745,"{'06A': 93.7, '06A-III': 91.9, '06A-V': 91.5, '06B-II': 91.4, '06B-I': 91.0}",1,93.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216245,"{'23F': 91.0, '23A': 59.0, '06A-IV': 48.0, '06A-V': 46.4, '23B': 46.3}",1,91.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262645,"{'01': 7.5, '45': 6.5, '25F': 5.8, '25A': 5.6, '22F': 5.3}",5,7.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001158645,"{'23A': 96.6, '23F': 67.7, '23B': 45.9, '19F-II': 39.4, '15B': 38.5}",1,96.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336025,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311805,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319875,"{'16F': 71.5, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.5,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275555,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001085845,"{'01': 6.3, '25F': 5.7, '45': 5.6, '25A': 5.5, '20': 5.4}",2,6.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001200295,"{'19B': 91.6, '19C': 70.4, '19F-II': 49.3, '19F-IV': 49.3, '19F-I': 48.5}",1,91.6,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337685,"{'06A-II': 95.3, '06A-VI': 95.3, '06B-II': 89.2, '06A-V': 88.8, '06A-III': 88.2}",1,95.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049705,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063405,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221235,"{'16F': 95.7, '19F-II': 42.6, '19F-IV': 42.6, '28F': 42.4, '19F': 41.6}",1,95.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193185,"{'20': 99.4, '13': 26.1, '09L': 25.3, '36': 24.8, '47F': 24.4}",1,99.4,,20,,,{},{},20,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248245,"{'19F': 97.3, '19F-I': 96.2, '19F-III': 95.6, '19F-II': 95.3, '19F-IV': 90.8}",1,97.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227635,"{'15C': 88.2, '15B': 88.1, '15A': 61.2, '15F': 48.2, '23A': 31.5}",1,88.2,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284675,"{'04': 99.0, '45': 33.5, '12F': 23.4, '44': 23.2, '12A': 22.3}",1,99.0,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287275,"{'15C': 87.8, '15B': 87.7, '15A': 64.6, '15F': 50.0, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170395,"{'14': 92.4, '36': 29.0, '09L': 25.8, '09N': 24.8, '15B': 24.2}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254015,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.1, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001139465,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221065,"{'19F-I': 97.7, '19F': 97.0, '19F-III': 96.5, '19F-II': 95.0, '19F-IV': 90.1}",1,97.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299115,"{'07A': 99.6, '07F': 99.4, '19F-II': 36.3, '19F-IV': 35.7, '19F': 34.8}",1,99.6,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024645,"{'09A': 99.7, '09V': 99.5, '09N': 38.4, '09L': 36.7, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001142365,"{'06E': 99.8, '06B-III': 99.2, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900058095,"{'09A': 99.4, '09V': 99.2, '09N': 37.1, '09L': 36.2, '06A-IV': 27.2}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329215,"{'23F': 96.3, '23A': 63.0, '06A-IV': 48.8, '23B': 48.4, '28A': 47.2}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239235,"{'06A-II': 97.9, '06A-VI': 97.9, '06B-II': 90.4, '06A-V': 89.6, '06A-III': 89.2}",1,97.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900062985,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317505,"{'15C': 87.6, '15B': 87.5, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229935,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.7, '19A-III': 87.5, '19AF': 61.8}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255395,"{'20': 78.7, '47F': 28.0, '09L': 25.8, '13': 25.2, '09N': 25.1}",1,78.7,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323505,"{'06C-I': 100.0, '06C': 99.8, '06D': 84.6, '06A-II': 79.6, '06A-VI': 79.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342385,"{'31': 99.8, '41A': 57.3, '41F': 49.0, '06A-II': 36.5, '06A-VI': 36.5}",1,99.8,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297975,"{'06A-I': 99.2, '06B': 94.9, '06A': 87.7, '06A-V': 86.7, '06A-III': 82.9}",1,99.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255275,"{'35F': 98.9, '47F': 74.2, '34': 26.7, '35B': 26.6, '29': 21.9}",1,98.9,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190825,"{'06B-I': 99.0, '06A-III': 96.8, '06B-II': 89.6, '06A': 89.4, '06A-V': 87.7}",1,99.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001126845,"{'01': 5.4, '20': 5.1, '22F': 5.1, '45': 5.1, '25F': 5.0}",1,5.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288375,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167215,"{'09A': 99.3, '09V': 99.1, '09N': 36.5, '09L': 34.9, '11F': 26.6}",1,99.3,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001340415,"{'06C': 85.2, '06C-I': 85.2, '06D': 84.2, '06A': 76.9, '06A-IV': 73.3}",1,85.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026675,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901212945,"{'23F': 93.9, '23A': 63.4, '28A': 48.4, '23B': 46.9, '06A-III': 46.4}",1,93.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342875,"{'19F-I': 95.2, '19F': 95.0, '19F-III': 93.5, '19F-II': 92.1, '19F-IV': 88.1}",1,95.2,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254975,"{'35B': 92.7, '34': 35.6, '33F': 33.4, '35C': 32.4, '33D': 32.1}",1,92.7,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294835,"{'16F': 71.5, '28F': 43.1, '28A': 40.6, '18F': 33.6, '18A': 32.7}",1,71.5,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269355,"{'07A': 90.8, '07F': 90.6, '19F-II': 39.3, '19F': 37.8, '19F-IV': 37.8}",1,90.8,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277625,"{'14': 93.7, '36': 26.2, '09L': 25.2, '09N': 24.6, '15B': 24.3}",1,93.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229775,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.7, '19A-III': 87.5, '19AF': 61.8}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190495,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026605,"{'14': 100.0, '09L': 26.9, '36': 26.8, '09N': 24.9, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001157545,"{'06E': 99.9, '06B-III': 94.1, '06A-I': 42.5, '06B': 42.1, '06B-I': 41.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232215,"{'19A': 99.0, '19A-III': 98.8, '19A-I': 85.9, '19A-II': 83.6, '19AF': 57.0}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001204935,"{'24F': 97.1, '24B': 89.8, '24F2': 86.6, '24A': 62.9, '07C': 52.0}",1,97.1,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023055,"{'01': 99.6, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.6,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253425,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309785,"{'23A': 99.4, '23F': 67.1, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.4,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297255,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257865,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191015,"{'21': 100.0, '22F': 33.6, '06A-IV': 32.5, '06A-II': 31.7, '06A-VI': 31.6}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001087125,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340435,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001171145,"{'19B': 95.8, '19C': 70.1, '19F-II': 53.9, '19F-I': 53.1, '19F': 53.0}",1,95.8,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238775,"{'31': 99.8, '41A': 57.3, '41F': 49.0, '22F': 36.5, '06A-II': 36.4}",1,99.8,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194885,"{'06C-I': 99.9, '06C': 99.7, '06D': 84.6, '06A-II': 79.6, '06A-VI': 79.6}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341395,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337605,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001118105,"{'23F': 94.5, '23A': 63.6, '06A-IV': 49.6, '23B': 48.4, '28A': 47.7}",1,94.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055825,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230835,"{'20': 82.2, '47F': 25.9, '35A': 24.6, '09L': 24.5, '36': 24.2}",1,82.2,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001123725,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028675,"{'31': 99.2, '41A': 56.7, '41F': 48.6, '06C-I': 36.6, '06C': 36.5}",1,99.2,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001164705,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269955,"{'16F': 71.5, '28F': 43.1, '28A': 40.6, '18F': 33.6, '18A': 32.9}",1,71.5,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257075,"{'21': 100.0, '22F': 36.0, '06A-IV': 33.0, '06A-II': 32.3, '06A-VI': 32.2}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050325,"{'19A': 99.2, '19A-III': 99.0, '19A-I': 86.1, '19A-II': 83.9, '19AF': 57.0}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281865,"{'18A': 100.0, '18B': 54.0, '18C': 54.0, '18F': 53.7, '19F-IV': 37.2}",1,100.0,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279835,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299335,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194355,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331755,"{'34': 98.4, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.4,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001071595,"{'23A': 97.6, '23F': 68.9, '23B': 40.1, '19F-II': 39.3, '15B': 38.7}",1,97.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239015,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.6, '06A-IV': 46.4}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169075,"{'09A': 99.3, '09V': 99.1, '09N': 38.4, '09L': 36.6, '11F': 26.5}",1,99.3,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330595,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001084865,"{'06A': 100.0, '06A-IV': 99.6, '06B-II': 95.4, '06A-V': 93.7, '06A-III': 91.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001148145,"{'34': 92.9, '33F2': 34.7, '35B': 31.1, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237655,"{'33F': 99.9, '33A': 99.7, '33F2': 70.9, '35C': 42.9, '42': 41.9}",1,99.9,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900034505,"{'24F2': 99.7, '24B': 88.5, '24F': 87.0, '24A': 71.3, '07B': 55.2}",1,99.7,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228815,"{'48': 99.3, '24A': 46.8, '24B': 39.4, '24F': 38.9, '24F2': 37.4}",1,99.3,,48,,,{},{},48,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047715,"{'04': 99.7, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021795,"{'14': 100.0, '09L': 27.0, '36': 26.1, '09N': 24.9, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_902652865,"{'01': 99.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266695,"{'01': 99.9, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.3}",1,99.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238945,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291365,"{'14': 93.0, '36': 27.3, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333645,"{'05': 95.3, '45': 22.5, '36': 21.5, '20': 20.3, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000212535,"{'19A': 93.4, '19A-III': 93.2, '19A-II': 81.8, '19A-I': 80.0, '19AF': 55.9}",1,93.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001109585,"{'10B': 99.3, '10A': 65.3, '10F': 20.0, '10C': 18.8, '22F': 14.1}",1,99.3,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001340495,"{'35C': 100.0, '42': 99.0, '35A': 86.0, '33A': 45.7, '33F': 45.2}",1,100.0,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001336175,"{'35F': 91.1, '47F': 67.7, '29': 25.7, '35B': 25.7, '34': 25.3}",1,91.1,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252115,"{'12F': 96.9, '44': 93.6, '12B': 92.9, '12A': 80.6, '46': 77.5}",1,96.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001085305,"{'10A': 99.3, '10B': 67.0, '10C': 27.7, '10F': 18.1, '06B-I': 15.2}",1,99.3,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258225,"{'21': 100.0, '22F': 36.1, '06A-IV': 32.9, '06A-II': 32.2, '06A-VI': 32.1}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340685,"{'05': 95.2, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907172085,"{'14': 92.7, '36': 28.9, '09L': 25.9, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338845,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191115,"{'06C-I': 99.9, '06C': 99.7, '06D': 84.6, '06A-II': 79.6, '06A-VI': 79.6}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191055,"{'23F': 99.1, '23A': 65.3, '23B': 49.0, '28A': 48.1, '06A-IV': 47.1}",1,99.1,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282335,"{'03': 97.7, '01': 17.7, '20': 15.5, '09N': 15.3, '09L': 15.1}",1,97.7,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330965,"{'05': 95.0, '45': 22.6, '36': 22.1, '20': 20.4, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189685,"{'11D': 99.9, '11A': 97.1, '11F': 42.0, '11C': 35.8, '11B': 34.3}",1,99.9,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318225,"{'18C': 99.8, '18B': 99.7, '18F': 75.7, '18A': 62.5, '16F': 39.2}",1,99.8,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000251385,"{'11D': 99.3, '11A': 96.7, '11F': 41.9, '11C': 35.8, '11B': 34.3}",1,99.3,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241865,"{'38': 99.2, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.2,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065355,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244145,"{'06D': 87.8, '06C-I': 85.5, '06C': 85.3, '06A': 78.8, '06B-II': 78.5}",1,87.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 86.1']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309315,"{'10B': 99.3, '10A': 65.2, '10F': 20.1, '10C': 18.8, '22F': 14.0}",1,99.3,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001207295,"{'23F': 94.5, '23A': 63.5, '06A-IV': 53.2, '06B-II': 51.6, '23B': 50.8}",1,94.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230655,"{'03': 95.5, '20': 17.3, '01': 16.8, '36': 16.1, '09L': 16.0}",1,95.5,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030435,"{'09A': 99.7, '09V': 99.5, '09N': 38.1, '09L': 36.7, '35B': 26.7}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291065,"{'12F': 96.8, '44': 93.5, '12B': 92.8, '12A': 80.5, '46': 77.4}",1,96.8,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269715,"{'22A': 94.0, '22F': 76.7, '06A-IV': 45.2, '06A-II': 43.5, '06A-VI': 43.4}",1,94.0,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274115,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304265,"{'06A-III': 94.6, '06B-I': 93.2, '06A': 90.3, '06A-IV': 89.3, '06B-II': 89.2}",1,94.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277845,"{'15C': 95.7, '15B': 95.6, '15A': 61.2, '15F': 47.4, '23A': 34.5}",1,95.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001131385,"{'01': 6.7, '45': 6.7, '25F': 5.6, '20': 5.4, '25A': 5.4}",3,6.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052785,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020139535,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329655,"{'06E': 99.9, '06B-III': 99.2, '06B-I': 47.8, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585585,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001101685,"{'16F': 99.8, '28F': 42.4, '19F-IV': 41.0, '18A': 40.8, '18F': 40.7}",1,99.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900059705,"{'19A': 93.4, '19A-III': 93.2, '19A-II': 81.8, '19A-I': 80.0, '19AF': 55.9}",1,93.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001084645,"{'36': 13.1, '20': 7.8, '06A-IV': 7.6, '01': 6.6, '06C': 6.2}",1,13.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001156525,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_902652945,"{'01': 99.6, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.6,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024805,"{'06B-I': 99.7, '06A-III': 97.6, '06B-II': 90.3, '06A': 89.8, '06A-V': 88.4}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001301015,"{'19A': 99.9, '19A-III': 99.7, '19A-I': 86.1, '19A-II': 83.6, '19AF': 57.2}",1,99.9,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000210935,"{'14': 92.5, '36': 28.9, '09L': 25.8, '09N': 24.7, '15B': 24.1}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168705,"{'09A': 99.7, '09V': 99.5, '09N': 35.9, '09L': 34.5, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240925,"{'19A-I': 99.0, '19A-II': 97.3, '19A': 87.6, '19A-III': 87.4, '19AF': 61.6}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213905,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338715,"{'15A': 98.3, '15F': 73.0, '15C': 61.8, '15B': 61.7, '23F': 32.3}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298135,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050345,"{'15C': 96.2, '15B': 96.1, '15A': 61.5, '15F': 47.8, '23A': 34.7}",1,96.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052735,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050365,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305965,"{'11D': 99.9, '11A': 97.1, '11F': 42.0, '11C': 35.8, '11B': 34.3}",1,99.9,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300335,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346015,"{'21': 92.2, '22F': 34.3, '06A-IV': 34.3, '06A-II': 34.0, '06A-VI': 34.0}",1,92.2,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238675,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307885,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900475805,"{'14': 99.9, '09L': 27.4, '36': 26.0, '09N': 24.7, '15B': 24.3}",1,99.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309005,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001100785,"{'25F': 6.9, '25A': 6.7, '45': 6.6, '22F': 4.9, '38': 4.7}",2,6.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290425,"{'15C': 90.7, '15B': 90.6, '15A': 63.0, '15F': 48.8, '23A': 31.1}",1,90.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252835,"{'28F': 95.2, '28A': 88.4, '23F': 51.1, '06B-II': 49.1, '06A-IV': 48.7}",1,95.2,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222235,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028685,"{'15B': 94.2, '15C': 93.9, '15A': 64.6, '15F': 49.7, '14': 31.1}",1,94.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167025,"{'09A': 99.3, '09V': 99.1, '09N': 37.1, '09L': 35.9, '11F': 26.6}",1,99.3,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254045,"{'07A': 91.2, '07F': 91.0, '19F-II': 39.3, '19F': 37.8, '19F-IV': 37.8}",1,91.2,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900037015,"{'06C-I': 92.4, '06C': 92.3, '06D': 82.1, '06B-I': 77.2, '06A-III': 76.6}",1,92.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 88.3']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269385,"{'19A-I': 98.9, '19A-II': 97.2, '19A': 87.5, '19A-III': 87.3, '19AF': 61.7}",1,98.9,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237045,"{'18A': 99.9, '18B': 53.9, '18C': 53.9, '18F': 53.6, '19F-IV': 37.3}",1,99.9,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283035,"{'23F': 96.2, '23A': 66.2, '28A': 47.4, '06A': 45.9, '28F': 45.1}",1,96.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309725,"{'19F-I': 99.6, '19F': 96.7, '19F-III': 96.7, '19F-II': 93.8, '19F-IV': 89.2}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167815,"{'09A': 99.7, '09V': 99.5, '09N': 37.2, '09L': 36.0, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293455,"{'01': 99.3, '19F': 32.2, '19F-I': 31.7, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190345,"{'06A-IV': 99.9, '06A': 99.7, '06B-II': 95.1, '06A-V': 93.5, '06A-III': 91.4}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320475,"{'14': 94.0, '36': 25.9, '09L': 25.2, '09N': 24.5, '15B': 24.3}",1,94.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251665,"{'04': 99.7, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020105,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272495,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342115,"{'36': 11.2, '20': 7.7, '45': 6.8, '06B-I': 6.1, '06C': 5.9}",1,11.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017335,"{'14': 100.0, '09L': 26.6, '36': 25.9, '09N': 24.7, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294845,"{'21': 92.0, '22F': 36.7, '06A-IV': 31.6, '06A-II': 31.2, '06A-VI': 31.2}",1,92.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222665,"{'15C': 87.8, '15B': 87.6, '15A': 64.6, '15F': 50.0, '23A': 30.1}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278345,"{'19A': 88.7, '19A-III': 88.5, '19A-II': 78.8, '19A-I': 78.0, '19AF': 59.6}",1,88.7,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296635,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193145,"{'06C-I': 88.2, '06C': 88.1, '06D': 86.7, '06A-I': 77.3, '06B': 77.0}",1,88.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 94.1]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318725,"{'23B': 99.4, '23B1': 64.6, '23F': 45.7, '23A': 39.9, '06A-IV': 36.8}",1,99.4,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192025,"{'21': 95.6, '22F': 36.3, '06A-II': 33.7, '06A-VI': 33.6, '06A-III': 33.0}",1,95.6,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001143305,"{'19F-I': 95.3, '19F': 95.0, '19F-III': 93.5, '19F-II': 92.2, '19F-IV': 88.2}",1,95.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259375,"{'16F': 95.7, '19F-II': 42.6, '19F-IV': 42.6, '28F': 42.4, '19F': 41.6}",1,95.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001115985,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338075,"{'33C': 98.7, '34': 29.9, '35B': 24.6, '33F2': 23.8, '33F': 23.0}",1,98.7,,33C,,,{},{},33C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001101205,"{'19F': 100.0, '19F-III': 97.5, '19F-I': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,100.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231375,"{'09N': 99.6, '09L': 89.0, '09A': 32.7, '09V': 32.7, '36': 32.3}",1,99.6,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193355,"{'33F2': 99.7, '33F': 74.7, '33A': 70.3, '34': 41.7, '35B': 31.0}",1,99.7,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238035,"{'09N': 99.5, '09L': 88.8, '09A': 32.6, '09V': 32.6, '36': 31.9}",1,99.5,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333005,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331335,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001134965,"{'36': 10.5, '06A-IV': 7.0, '20': 6.0, '06B-I': 5.8, '06C': 5.7}",1,10.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310255,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001098265,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315015,"{'19B': 82.0, '19C': 66.5, '19F-IV': 39.1, '19F-II': 38.7, '19F-I': 38.1}",1,82.0,,19B,,,{},{},19B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001343275,"{'36': 8.6, '06A-IV': 6.4, '25F': 5.8, '25A': 5.7, '20': 5.2}",1,8.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329605,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281095,"{'14': 92.6, '36': 29.0, '09L': 25.7, '09N': 24.5, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242105,"{'19A-I': 99.2, '19A-II': 97.5, '19A': 87.8, '19A-III': 87.6, '19AF': 61.8}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 92.87]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314155,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219355,"{'23F': 94.1, '23A': 63.4, '28A': 47.7, '23B': 47.1, '06A': 46.9}",1,94.1,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242465,"{'06E': 99.9, '06B-III': 96.9, '06B-I': 46.0, '06A-III': 45.5, '06B-II': 45.0}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000334635,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341735,"{'10B': 93.7, '10A': 69.8, '10F': 20.0, '10C': 18.7, '22F': 13.8}",1,93.7,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001111785,"{'15A': 97.0, '15F': 73.4, '15C': 61.2, '15B': 61.1, '23F': 31.1}",1,97.0,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316285,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255465,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001091345,"{'33C': 98.7, '34': 29.9, '35B': 24.8, '33F2': 23.8, '33F': 23.0}",1,98.7,,33C,,,{},{},33C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296435,"{'34': 99.2, '33F2': 35.4, '35B': 33.6, '33F': 30.0, '33C': 28.7}",1,99.2,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001116065,"{'13': 83.6, '36': 25.4, '14': 25.3, '09L': 24.8, '09N': 24.3}",1,83.6,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269315,"{'06C-I': 85.5, '06C': 85.4, '06D': 84.7, '06A-I': 80.3, '06B': 79.6}",1,85.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 94.1]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317515,"{'13': 98.4, '36': 31.6, '09L': 29.5, '09N': 29.3, '20': 28.7}",1,98.4,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321365,"{'03': 95.2, '01': 16.8, '36': 16.5, '20': 15.8, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280135,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246545,"{'05': 95.2, '45': 22.3, '36': 21.8, '20': 19.8, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021021925,"{'02': 57.1, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,57.1,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320485,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194545,"{'21': 100.0, '22F': 36.1, '06A-IV': 34.1, '06A-II': 33.4, '06A-VI': 33.3}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001340775,"{'03': 95.1, '01': 15.9, '09N': 15.2, '09L': 15.1, '20': 15.1}",1,95.1,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321005,"{'20': 82.2, '47F': 25.9, '35A': 24.6, '09L': 24.5, '36': 24.0}",1,82.2,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001133265,"{'06E': 100.0, '06B-III': 95.2, '06A-I': 42.6, '06B-I': 42.5, '06B': 42.2}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333015,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055055,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001110085,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241745,"{'09A': 99.4, '09V': 99.2, '09N': 38.4, '09L': 36.6, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302135,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001301055,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900061995,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256535,"{'07C': 99.1, '07B': 72.9, '40': 70.7, '24B': 48.7, '24F': 48.5}",1,99.1,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260875,"{'06A-II': 88.4, '06A-VI': 88.4, '06A-III': 88.3, '06A': 87.5, '06B-II': 87.5}",1,88.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276145,"{'14': 91.4, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286695,"{'14': 92.7, '36': 29.0, '09L': 25.9, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167435,"{'14': 91.4, '36': 25.8, '09L': 24.3, '09N': 23.6, '15B': 23.4}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900046645,"{'04': 99.7, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262735,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.3, '23B': 47.9, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254925,"{'09A': 99.4, '09V': 99.2, '09N': 38.5, '09L': 36.5, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338095,"{'06E': 99.6, '06B-III': 99.2, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340375,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054775,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_909594615,"{'14': 92.7, '36': 28.9, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000278825,"{'07A': 99.5, '07F': 99.3, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331735,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277195,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245125,"{'04': 99.2, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053025,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284275,"{'01': 99.1, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277665,"{'19A': 92.2, '19A-III': 92.0, '19A-II': 83.2, '19A-I': 81.0, '19AF': 55.9}",1,92.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001158625,"{'06A': 100.0, '06A-IV': 99.6, '06B-II': 95.4, '06A-V': 93.7, '06A-III': 91.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001168165,"{'06A': 90.4, '06A-III': 89.4, '06A-II': 89.3, '06A-VI': 89.3, '06B-II': 89.3}",1,90.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191485,"{'06C-I': 99.9, '06C': 99.7, '06D': 84.6, '06A-II': 79.5, '06A-VI': 79.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226495,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263505,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_003351725,"{'11D': 75.7, '11A': 74.4, '11F': 45.7, '11B': 33.2, '11C': 29.6}",1,75.7,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239375,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268555,"{'05': 95.0, '45': 22.6, '36': 21.5, '20': 20.0, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318315,"{'10A': 99.4, '10B': 67.1, '10C': 27.7, '10F': 18.1, '22F': 15.5}",1,99.4,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281795,"{'04': 99.8, '45': 33.7, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294195,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232035,"{'06A-II': 97.9, '06A-VI': 97.9, '06B-II': 90.4, '06A-V': 89.6, '06A-III': 89.2}",1,97.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000210975,"{'01': 99.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287895,"{'06E': 97.2, '06B-III': 96.7, '06B-I': 47.6, '06A-III': 47.1, '06A-II': 45.7}",1,97.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900044835,"{'22F': 98.9, '22A': 73.4, '06A-IV': 43.5, '06A': 42.5, '06B': 42.1}",1,98.9,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290605,"{'35F': 99.5, '47F': 74.8, '34': 26.7, '35B': 26.5, '29': 22.5}",1,99.5,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001113965,"{'14': 89.9, '36': 29.3, '09L': 23.6, '09N': 22.7, '19F-II': 22.2}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218025,"{'04': 89.1, '12A': 34.8, '46': 34.7, '12B': 30.4, '12F': 28.8}",1,89.1,,4,,,{},{},4,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245735,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320335,"{'22A': 94.2, '22F': 77.6, '06A-IV': 45.8, '06A-II': 44.1, '06B-I': 44.1}",1,94.2,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900459695,"{'04': 99.6, '45': 33.4, '12A': 26.9, '46': 26.8, '12F': 23.4}",1,99.6,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300145,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194345,"{'15B': 95.7, '15C': 95.7, '15A': 61.1, '15F': 47.6, '23A': 34.7}",1,95.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053835,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217585,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227785,"{'14': 91.6, '36': 26.7, '09L': 26.6, '09N': 26.1, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000231945,"{'19F-III': 99.9, '19F': 97.9, '19F-I': 97.3, '19F-II': 94.9, '19F-IV': 89.6}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285985,"{'06A': 92.3, '06A-V': 90.1, '06B-II': 88.7, '06A-III': 88.5, '06A-IV': 87.2}",1,92.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279155,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226865,"{'22F': 96.4, '22A': 73.4, '06A': 42.6, '06A-II': 42.3, '06A-VI': 42.2}",1,96.4,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326385,"{'35B': 99.7, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.7,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001205015,"{'06E': 100.0, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330425,"{'18C': 99.8, '18B': 99.7, '18F': 75.7, '18A': 62.6, '16F': 39.2}",1,99.8,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308675,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252765,"{'19F': 97.2, '19F-I': 96.2, '19F-III': 95.4, '19F-II': 95.3, '19F-IV': 90.8}",1,97.2,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243075,"{'06C-I': 89.3, '06C': 89.2, '06D': 86.9, '06A-I': 77.8, '06B': 77.5}",1,89.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302505,"{'06A': 89.7, '06A-III': 88.9, '06B-I': 87.6, '06B-II': 87.4, '06A-II': 86.9}",1,89.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278625,"{'09L': 99.3, '09N': 90.2, '36': 32.7, '09A': 31.5, '09V': 31.5}",1,99.3,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228805,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342035,"{'23F': 93.9, '23A': 63.4, '28A': 48.4, '23B': 46.9, '06A': 46.2}",1,93.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001114525,"{'22F': 98.7, '22A': 73.4, '06A': 42.5, '06B': 42.0, '06A-I': 41.7}",1,98.7,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302825,"{'12B': 97.3, '12F': 91.4, '12A': 89.4, '44': 88.7, '46': 87.0}",1,97.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[4]],"{'wciI': [1, 99.3]}",{'wciI': 1},12A/12B/44/46,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220665,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001160925,"{'03': 95.2, '36': 16.9, '01': 16.1, '20': 15.6, '09L': 14.3}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318615,"{'34': 98.7, '33F2': 35.2, '35B': 33.3, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267805,"{'19A': 99.4, '19A-III': 99.2, '19A-I': 86.1, '19A-II': 83.9, '19AF': 57.2}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284985,"{'29': 98.5, '39': 20.9, '35F': 19.4, '22F': 16.5, '35B': 16.3}",1,98.5,,29,,,{},{},29,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900089095,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252195,"{'14': 91.3, '09L': 26.7, '36': 26.6, '09N': 26.4, '15B': 23.4}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235655,"{'38': 99.3, '25F': 84.5, '25A': 83.5, '36': 10.5, '01': 7.9}",1,99.3,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306635,"{'15C': 87.7, '15B': 87.6, '15A': 60.9, '15F': 48.0, '23A': 31.3}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001117185,"{'06E': 100.0, '06B-III': 97.3, '06B-I': 44.6, '06A-III': 44.1, '06B-II': 43.3}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001085585,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308545,"{'19A': 88.7, '19A-III': 88.5, '19A-II': 78.8, '19A-I': 78.0, '19AF': 59.6}",1,88.7,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273755,"{'06E': 89.8, '06B-III': 88.7, '06B-I': 52.2, '06A-III': 51.1, '06A-II': 49.7}",1,89.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293045,"{'15B': 100.0, '15C': 99.2, '15A': 62.4, '15F': 48.1, '23A': 32.9}",1,100.0,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001098905,"{'36': 13.0, '20': 8.1, '06A-IV': 7.5, '06C': 6.1, '06B-I': 6.1}",2,13.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287405,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.8, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189585,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326685,"{'34': 98.7, '33F2': 35.2, '35B': 33.5, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292575,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900323455,"{'06B-I': 99.5, '06A-III': 97.4, '06B-II': 90.1, '06A': 89.7, '06A-V': 88.2}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000279935,"{'22F': 98.8, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,98.8,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237195,"{'03': 95.2, '01': 17.2, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317995,"{'18C': 88.4, '18B': 88.3, '18F': 77.7, '18A': 61.9, '16F': 37.8}",1,88.4,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256705,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304305,"{'24A': 98.9, '24F2': 62.4, '24F': 59.9, '24B': 57.4, '48': 46.3}",1,98.9,,24A,,,{},{},24A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001090825,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032235,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001208585,"{'33B': 89.8, '33D': 89.7, '35B': 33.1, '33F2': 30.0, '22F': 26.7}",1,89.8,,"Mixed serotypes- {'33B', '33D'}",,,{},{},"Mixed serotypes- {'33B', '33D'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001161825,"{'35B': 99.0, '33F': 33.6, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291165,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279485,"{'01': 99.3, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001127245,"{'10A': 94.1, '10B': 64.7, '10C': 29.3, '10F': 19.7, '47A': 16.8}",1,94.1,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001129265,"{'14': 89.9, '36': 29.2, '09L': 23.6, '09N': 22.5, '19F-II': 22.2}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001202615,"{'03': 95.2, '36': 16.9, '20': 15.8, '14': 14.1, '09L': 13.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276265,"{'06A-I': 99.2, '06B': 94.9, '06A': 87.7, '06A-V': 86.0, '06A-III': 82.1}",1,99.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248195,"{'14': 91.4, '19F-IV': 25.9, '36': 25.3, '09L': 24.8, '09N': 24.5}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317215,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019446395,"{'35B': 99.4, '33F': 33.5, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194845,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323445,"{'23F': 97.4, '23A': 64.0, '06A-IV': 48.0, '23B': 47.7, '28A': 47.7}",1,97.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246335,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319815,"{'06B-III': 77.2, '06E': 75.4, '06A-III': 64.2, '06B-I': 63.6, '06A-V': 63.1}",1,77.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290395,"{'23F': 94.1, '23A': 63.4, '23B': 48.3, '06A-III': 47.9, '06B-I': 47.9}",1,94.1,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300135,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001164245,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.9, '19F-IV': 88.9}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001119065,"{'06C': 85.2, '06C-I': 85.2, '06D': 84.2, '06A': 76.9, '06A-IV': 73.3}",1,85.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279675,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319085,"{'33F': 100.0, '33A': 99.8, '33F2': 70.9, '35C': 43.0, '42': 42.0}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001345515,"{'38': 87.8, '25F': 84.0, '25A': 83.2, '36': 11.8, '20': 7.5}",1,87.8,25F_25A_38,25F_25A_38,,"[[0], [18]]","{'wcyD': ['b: 22.59'], 'wcyV': 4.69}","{'wcyD': 0, 'wcyV': 'not_detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283845,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296835,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.7, '19A-III': 87.5, '19AF': 61.8}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231025,"{'39': 97.9, '29': 28.6, '34': 22.6, '43': 19.3, '33C': 18.6}",1,97.9,,39,,,{},{},39,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275525,"{'19F': 97.4, '19F-I': 96.4, '19F-III': 95.6, '19F-II': 95.5, '19F-IV': 91.0}",1,97.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001193395,"{'36': 12.4, '20': 7.6, '06A-IV': 6.6, '06C': 5.2, '06B-I': 5.1}",1,12.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050945,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019565,"{'04': 99.5, '45': 33.4, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.5,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000210995,"{'03': 95.2, '36': 17.4, '01': 16.8, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019399375,"{'06A': 91.4, '06A-III': 88.9, '06B-II': 88.0, '06B-I': 87.6, '06A-V': 87.4}",1,91.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 83.83']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321575,"{'09N': 97.7, '09L': 87.5, '09A': 32.6, '09V': 32.6, '36': 29.7}",1,97.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_012584365,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306975,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 96.61]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292175,"{'12F': 96.8, '44': 93.5, '12B': 92.8, '12A': 80.5, '46': 77.4}",1,96.8,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240835,"{'33F': 99.9, '33A': 99.7, '33F2': 70.9, '35C': 42.9, '42': 41.9}",1,99.9,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293065,"{'15C': 90.8, '15B': 90.6, '15A': 63.0, '15F': 48.8, '23A': 31.1}",1,90.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235895,"{'14': 92.6, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272955,"{'18C': 99.5, '18B': 99.4, '18F': 75.4, '18A': 62.9, '16F': 39.2}",1,99.5,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233265,"{'09A': 95.8, '09V': 95.6, '09N': 39.0, '09L': 37.0, '06A-IV': 26.4}",1,95.8,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030785,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001329615,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338235,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.3}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278745,"{'14': 94.8, '36': 28.1, '09L': 25.5, '09N': 24.5, '15B': 24.2}",1,94.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315165,"{'10A': 99.4, '10B': 67.1, '10C': 27.7, '10F': 18.1, '22F': 15.5}",1,99.4,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241055,"{'14': 94.3, '36': 26.0, '09L': 25.3, '09N': 24.6, '15B': 24.3}",1,94.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278095,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322355,"{'06A-II': 95.3, '06A-VI': 95.3, '06B-II': 89.2, '06A-V': 88.8, '06A-III': 88.2}",1,95.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338025,"{'10A': 93.9, '10B': 64.7, '10C': 29.0, '10F': 19.4, '22F': 16.5}",1,93.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227005,"{'14': 92.6, '36': 28.8, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274865,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.7, '36': 22.6}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001299675,"{'19F-III': 99.8, '19F': 97.8, '19F-I': 97.1, '19F-II': 94.6, '19F-IV': 89.3}",1,99.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276775,"{'08': 99.7, '06A-II': 24.6, '06A-VI': 24.5, '02': 24.3, '06B-II': 24.0}",1,99.7,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251045,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001195225,"{'15C': 87.6, '15B': 87.5, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324175,"{'09A': 98.2, '09V': 98.0, '09N': 38.1, '09L': 36.5, '11F': 26.6}",1,98.2,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065135,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328305,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 94.0, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052435,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001103545,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002718275,"{'04': 99.2, '45': 32.7, '12F': 23.4, '44': 23.2, '12A': 22.3}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232825,"{'19A': 99.8, '19A-III': 99.6, '19A-I': 86.1, '19A-II': 83.6, '19AF': 57.0}",1,99.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 98.08]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193945,"{'24F2': 99.2, '24B': 88.0, '24F': 86.5, '24A': 71.2, '07B': 54.7}",1,99.2,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001100205,"{'36': 12.4, '20': 8.0, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",1,12.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269235,"{'15A': 98.3, '15F': 72.9, '15C': 61.6, '15B': 61.5, '23F': 32.1}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213665,"{'22A': 94.2, '22F': 77.6, '06A-IV': 45.6, '06A-II': 43.9, '06B-I': 43.9}",1,94.2,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339175,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288235,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.5, '46': 81.4}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289185,"{'23A': 99.5, '23F': 67.2, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217305,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.1}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001160405,"{'11F': 61.8, '11D': 38.4, '11A': 36.8, '09V': 25.4, '09A': 25.3}",1,61.8,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001094205,"{'06D': 31.4, '35B': 30.9, '06C': 30.8, '22F': 30.8, '06C-I': 30.8}",1,31.4,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268175,"{'06D': 87.8, '06C-I': 85.4, '06C': 85.2, '06A': 78.8, '06B-II': 78.4}",1,87.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 86.1']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214295,"{'19A': 96.8, '19A-III': 96.6, '19A-I': 85.4, '19A-II': 83.4, '19AF': 56.7}",1,96.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221865,"{'14': 92.7, '36': 28.8, '09L': 25.7, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320515,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900034495,"{'03': 95.2, '01': 17.1, '36': 16.9, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216615,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255745,"{'15A': 98.3, '15F': 73.0, '15C': 61.8, '15B': 61.7, '23F': 32.3}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305475,"{'14': 92.7, '36': 28.8, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242275,"{'24A': 98.9, '24F2': 62.4, '24F': 59.9, '24B': 57.4, '48': 46.3}",1,98.9,,24A,,,{},{},24A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228055,"{'06A': 82.9, '06A-IV': 81.9, '06A-V': 81.5, '06B-II': 81.4, '06B-I': 81.2}",1,82.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 83.83']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280245,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309495,"{'12F': 96.9, '44': 93.6, '12B': 92.9, '12A': 80.6, '46': 77.5}",1,96.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001170185,"{'34': 93.1, '33F2': 35.1, '35B': 31.9, '33F': 29.1, '33C': 28.6}",1,93.1,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907172335,"{'19A': 99.4, '19A-III': 99.2, '19A-I': 86.1, '19A-II': 83.9, '19AF': 57.1}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001133505,"{'06A': 89.7, '06A-III': 89.3, '06B-I': 88.0, '06B-II': 87.8, '06A-II': 87.3}",1,89.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051335,"{'45': 92.1, '04': 38.8, '06A-II': 27.1, '06A-VI': 27.0, '06C': 26.6}",1,92.1,,45,,,{},{},45,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001330515,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028495,"{'18C': 99.3, '18B': 99.2, '18F': 75.6, '18A': 62.3, '16F': 38.9}",1,99.3,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285965,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319635,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030705,"{'23F': 99.3, '23A': 65.1, '23B': 47.8, '28A': 47.7, '06A-V': 45.7}",1,99.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279185,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.7, '06A-V': 85.1, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020595,"{'03': 94.8, '20': 17.3, '01': 16.9, '36': 16.3, '09L': 16.1}",1,94.8,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340065,"{'23F': 99.3, '23A': 65.5, '23B': 49.1, '28A': 48.2, '06A-IV': 47.3}",1,99.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270945,"{'34': 98.3, '33F2': 35.1, '35B': 33.3, '33F': 29.4, '33C': 28.5}",1,98.3,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274165,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.7, '19A-III': 87.5, '19AF': 61.8}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019446535,"{'22F': 97.6, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-I': 41.8}",1,97.6,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001164825,"{'22F': 99.0, '22A': 73.3, '06A': 42.5, '06B': 42.0, '06A-I': 41.7}",1,99.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001098545,"{'17F': 93.5, '06A-III': 45.5, '06B-I': 45.3, '06A-IV': 45.2, '06A': 44.5}",1,93.5,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334905,"{'19A-I': 99.0, '19A-II': 97.3, '19A': 87.6, '19A-III': 87.4, '19AF': 61.9}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339945,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213745,"{'06E': 94.6, '06B-III': 94.6, '06B-I': 47.5, '06A-III': 47.0, '06A-II': 46.5}",1,94.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342945,"{'46': 87.5, '12A': 86.2, '12B': 78.2, '12F': 76.2, '44': 76.2}",1,87.5,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[4]],"{'wciI': [1, 91.4]}",{'wciI': 1},12A/12B/44/46,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001133705,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323725,"{'06A-I': 99.9, '06B': 94.5, '06A-V': 89.6, '06A': 87.1, '06A-III': 86.3}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_009721035,"{'28A': 96.9, '28F': 93.6, '23F': 61.2, '16F': 54.1, '23A': 52.7}",1,96.9,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326325,"{'06B-III': 77.2, '06E': 75.4, '06A-III': 64.2, '06B-I': 63.6, '06A-V': 63.1}",1,77.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257735,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032185,"{'18C': 95.8, '18B': 95.7, '18F': 74.8, '18A': 61.4, '16F': 38.5}",1,95.8,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221115,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.9}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281305,"{'14': 94.2, '36': 26.1, '09L': 25.5, '09N': 24.7, '15B': 24.3}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001084825,"{'36': 12.3, '20': 7.8, '06A-IV': 6.7, '45': 6.1, '06C': 5.3}",1,12.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001340055,"{'23A': 96.6, '23F': 67.7, '23B': 45.9, '19F-II': 39.4, '15B': 38.5}",1,96.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024635,"{'04': 99.8, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300285,"{'23B1': 98.7, '23B': 59.0, '19A-II': 36.7, '19A-I': 35.5, '19AF': 32.0}",1,98.7,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241915,"{'06C-I': 89.4, '06C': 89.3, '06D': 84.3, '06B-I': 77.4, '06A-III': 77.0}",1,89.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301535,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001165725,"{'19A': 99.5, '19A-III': 99.3, '19A-I': 85.9, '19A-II': 83.4, '19AF': 56.9}",1,99.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 99.31]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297895,"{'12F': 96.1, '12B': 93.1, '44': 92.8, '12A': 80.2, '46': 77.1}",1,96.1,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001096605,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029535,"{'19F-II': 99.5, '19F': 95.3, '19F-III': 94.3, '19F-I': 94.0, '19F-IV': 93.2}",1,99.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236785,"{'14': 91.4, '09L': 26.7, '36': 26.7, '09N': 26.3, '15B': 23.4}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319225,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226195,"{'04': 99.2, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306785,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021022795,"{'02': 57.6, '06C': 23.4, '06B-I': 23.4, '06C-I': 23.4, '06A-II': 23.1}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900037475,"{'03': 94.9, '01': 17.2, '36': 17.1, '20': 15.9, '09N': 15.7}",1,94.9,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261305,"{'03': 95.7, '01': 17.2, '36': 16.6, '20': 15.9, '09N': 15.7}",1,95.7,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269525,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_909594605,"{'14': 92.7, '36': 28.9, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284375,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229465,"{'18C': 93.5, '18B': 93.4, '18F': 75.4, '18A': 62.4, '16F': 39.4}",1,93.5,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168585,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252895,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340395,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317825,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236585,"{'03': 97.4, '01': 17.7, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001334915,"{'14': 89.9, '36': 29.2, '09L': 23.8, '09N': 22.7, '19F-II': 22.2}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284025,"{'06C-I': 92.5, '06C': 92.4, '06D': 82.2, '06B-I': 77.3, '06A-III': 76.7}",1,92.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 88.3']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167785,"{'09A': 99.6, '09V': 99.4, '09N': 37.0, '09L': 35.7, '11F': 26.6}",1,99.6,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213425,"{'15A': 99.2, '15F': 73.8, '15C': 61.4, '15B': 61.3, '23F': 31.7}",1,99.2,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270475,"{'35B': 99.4, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225645,"{'01': 99.1, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331925,"{'34': 98.7, '33F2': 35.2, '35B': 33.6, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301205,"{'15A': 99.9, '15F': 74.2, '15C': 61.9, '15B': 61.8, '23F': 31.6}",1,99.9,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019446305,"{'01': 6.8, '45': 5.9, '25F': 5.6, '25A': 5.4, '20': 5.3}",2,6.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057155,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313015,"{'15A': 98.4, '15F': 73.6, '15C': 62.1, '15B': 62.0, '23F': 31.7}",1,98.4,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306675,"{'10B': 93.6, '10A': 69.9, '10F': 20.0, '10C': 18.7, '22F': 14.2}",1,93.6,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025165,"{'12F': 96.7, '44': 93.4, '12B': 92.7, '12A': 80.4, '46': 77.3}",1,96.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001343415,"{'18C': 88.6, '18B': 88.5, '18F': 78.1, '18A': 61.8, '16F': 37.9}",1,88.6,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240405,"{'14': 99.8, '09L': 27.4, '36': 25.7, '09N': 24.6, '15B': 24.3}",1,99.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001202655,"{'36': 10.6, '06A-IV': 7.1, '20': 6.1, '06B-I': 5.9, '06C': 5.8}",1,10.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245575,"{'14': 93.6, '36': 25.6, '09L': 25.0, '09N': 24.4, '15B': 23.8}",1,93.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001129025,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334425,"{'10B': 93.6, '10A': 69.8, '10F': 20.0, '10C': 18.7, '22F': 14.2}",1,93.6,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585465,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283525,"{'15A': 99.5, '15F': 73.8, '15C': 62.2, '15B': 62.1, '23F': 31.3}",1,99.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317905,"{'19A': 99.0, '19A-III': 98.8, '19A-I': 85.7, '19A-II': 83.5, '19AF': 57.2}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259725,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246315,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324065,"{'15C': 89.6, '15B': 89.5, '15A': 62.5, '15F': 49.3, '23A': 31.0}",1,89.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001161085,"{'23F': 94.5, '23A': 63.6, '28A': 47.7, '23B': 46.9, '06A': 46.4}",1,94.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249415,"{'14': 91.3, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281165,"{'23F': 92.2, '23A': 61.1, '28A': 47.9, '23B': 46.6, '06A-IV': 46.4}",1,92.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907172145,"{'14': 91.9, '36': 28.6, '09L': 24.9, '15B': 24.2, '09N': 24.1}",1,91.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001113265,"{'07B': 99.9, '40': 92.9, '07C': 77.2, '24F2': 48.1, '24F': 47.7}",1,99.9,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289655,"{'19A': 99.2, '19A-III': 99.0, '19A-I': 86.1, '19A-II': 83.8, '19AF': 57.1}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318845,"{'16F': 71.7, '28F': 43.2, '28A': 40.7, '18F': 33.7, '18A': 33.1}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168915,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324015,"{'14': 94.9, '36': 27.6, '09L': 25.3, '09N': 24.4, '15B': 24.1}",1,94.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260795,"{'15A': 99.6, '15F': 73.9, '15C': 62.3, '15B': 62.2, '23F': 31.3}",1,99.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028725,"{'03': 95.2, '01': 17.1, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318955,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900195155,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283855,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043815,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019397585,"{'10A': 99.2, '10B': 66.9, '10C': 27.6, '10F': 18.0, '22F': 15.4}",1,99.2,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000252065,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237915,"{'06A-II': 92.8, '06A-VI': 92.8, '06B-II': 90.0, '06A-V': 89.7, '06A-III': 88.5}",1,92.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 84.81']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252735,"{'18C': 88.3, '18B': 88.2, '18F': 77.7, '18A': 61.5, '16F': 37.6}",1,88.3,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285575,"{'03': 95.6, '01': 17.3, '36': 17.3, '09N': 15.9, '20': 15.8}",1,95.6,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277895,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280965,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001143645,"{'36': 12.5, '20': 8.0, '06A-IV': 7.5, '06C': 6.1, '06B-I': 6.1}",2,12.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338825,"{'35B': 99.7, '33F': 33.5, '35C': 33.4, '34': 33.0, '35A': 33.0}",1,99.7,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270725,"{'06C-I': 92.5, '06C': 92.4, '06D': 82.2, '06B-I': 77.3, '06A-III': 76.7}",1,92.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 88.3']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269665,"{'05': 95.0, '45': 22.4, '36': 21.8, '20': 20.4, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233595,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001103825,"{'06E': 100.0, '06B-III': 97.4, '06B-I': 45.3, '06A-III': 44.4, '06B-II': 43.9}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193625,"{'31': 99.6, '41A': 57.1, '41F': 48.9, '06A-II': 36.6, '06A-VI': 36.6}",1,99.6,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276445,"{'19F': 97.3, '19F-I': 96.3, '19F-III': 95.5, '19F-II': 95.4, '19F-IV': 90.9}",1,97.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234755,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274385,"{'09N': 99.7, '09L': 88.7, '09A': 32.4, '09V': 32.4, '36': 30.5}",1,99.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266745,"{'23F': 96.4, '23A': 63.1, '06A-IV': 48.8, '23B': 48.5, '06A-V': 47.2}",1,96.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227725,"{'14': 91.4, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.3}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304435,"{'05': 98.9, '45': 22.0, '04': 19.8, '36': 17.8, '20': 16.6}",1,98.9,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276255,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292555,"{'06C-I': 89.1, '06C': 89.0, '06D': 86.9, '06A-I': 77.7, '06B': 77.4}",1,89.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265945,"{'14': 99.8, '09L': 26.2, '36': 25.9, '09N': 24.8, '15B': 24.1}",1,99.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281855,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295005,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021895,"{'15C': 95.7, '15B': 95.6, '15A': 61.2, '15F': 47.6, '23A': 34.6}",1,95.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331835,"{'34': 98.4, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.4,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305555,"{'09A': 99.6, '09V': 99.4, '09N': 38.6, '09L': 36.7, '11F': 26.6}",1,99.6,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337595,"{'36': 10.3, '06A-IV': 6.7, '45': 6.1, '20': 5.7, '23B1': 5.6}",1,10.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170875,"{'14': 92.6, '36': 28.6, '09L': 24.8, '15B': 24.2, '15C': 24.1}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248765,"{'23F': 91.3, '23A': 59.9, '06A-IV': 46.9, '28A': 46.8, '23B': 46.2}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269475,"{'06E': 89.5, '06B-III': 88.4, '06B-I': 52.0, '06A-III': 50.9, '06A-II': 49.5}",1,89.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263785,"{'14': 95.0, '36': 28.2, '09L': 25.5, '09N': 24.5, '15B': 24.2}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220615,"{'09A': 99.7, '09V': 99.5, '09N': 38.5, '09L': 36.7, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328935,"{'21': 100.0, '22F': 36.1, '06A-IV': 32.9, '06A-II': 32.2, '06A-VI': 32.1}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258915,"{'06A-II': 91.0, '06A-VI': 91.0, '06A-V': 89.7, '06A': 89.6, '06A-III': 89.3}",1,91.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287795,"{'16F': 95.0, '28F': 41.8, '18F': 41.6, '28A': 40.1, '18A': 39.7}",1,95.0,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191085,"{'20': 5.4, '45': 5.3, '22F': 4.7, '25F': 4.7, '25A': 4.6}",1,5.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294915,"{'15C': 89.6, '15B': 89.5, '15A': 62.5, '15F': 49.3, '23A': 31.0}",1,89.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289535,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001110845,"{'08': 98.0, '02': 24.4, '06A-IV': 23.3, '06A': 22.9, '22F': 22.6}",1,98.0,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001173565,"{'19B': 95.8, '19C': 70.1, '19F-II': 53.9, '19F-I': 53.1, '19F': 53.0}",1,95.8,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053055,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017315,"{'15C': 95.7, '15B': 95.5, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317335,"{'06C-I': 86.5, '06C': 86.4, '06D': 85.0, '06A-I': 76.0, '06B': 75.7}",1,86.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243895,"{'04': 99.7, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291115,"{'15C': 96.1, '15B': 95.9, '15A': 61.4, '15F': 47.7, '23A': 34.8}",1,96.1,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_009720975,"{'22F': 98.1, '22A': 73.5, '06A-IV': 50.5, '06A': 50.1, '06A-III': 49.8}",1,98.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258255,"{'15A': 97.4, '15F': 73.5, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.4,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026515,"{'24F2': 99.5, '24B': 88.3, '24F': 86.8, '24A': 71.1, '07B': 55.2}",1,99.5,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339765,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900040005,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167645,"{'09A': 99.5, '09V': 99.3, '09N': 37.1, '09L': 35.9, '11F': 26.3}",1,99.5,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063965,"{'07A': 99.5, '07F': 99.3, '19F-II': 36.7, '19F-IV': 36.1, '19F': 35.2}",1,99.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001330375,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339375,"{'36': 8.9, '20': 5.7, '06A-IV': 5.7, '06C': 4.2, '06B-I': 4.2}",1,8.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000233145,"{'06A-II': 97.9, '06A-VI': 97.9, '06B-II': 90.4, '06A-V': 89.6, '06A-III': 89.2}",1,97.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001129705,"{'36': 8.7, '20': 6.2, '06A-IV': 5.9, '45': 4.8, '12A': 4.4}",1,8.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001138785,"{'36': 12.8, '20': 8.1, '06A-IV': 7.6, '01': 7.1, '06C': 6.2}",1,12.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242565,"{'04': 99.7, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282925,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.6}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229645,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342985,"{'16F': 71.9, '28F': 43.8, '28A': 41.0, '18F': 34.1, '18A': 34.0}",1,71.9,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000689155,"{'12F': 95.8, '44': 92.7, '12B': 92.4, '12A': 81.2, '46': 78.1}",1,95.8,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332145,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221355,"{'08': 99.5, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.5,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337135,"{'36': 11.5, '20': 7.9, '23B1': 7.5, '45': 6.5, '06B-I': 5.5}",1,11.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231615,"{'16F': 71.7, '28F': 43.2, '28A': 40.7, '18F': 33.7, '18A': 33.6}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254745,"{'01': 99.0, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001127905,"{'35F': 99.2, '47F': 74.6, '34': 26.7, '35B': 25.8, '29': 22.5}",1,99.2,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053315,"{'07A': 91.2, '07F': 91.0, '19F-II': 39.3, '19F': 37.8, '19F-IV': 37.8}",1,91.2,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245515,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314825,"{'09L': 99.4, '09N': 90.2, '36': 32.8, '09A': 31.5, '09V': 31.5}",1,99.4,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235125,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289715,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227875,"{'10A': 99.2, '10B': 66.9, '10C': 27.7, '10F': 18.1, '22F': 15.5}",1,99.2,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286685,"{'07A': 97.5, '07F': 97.3, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,97.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252805,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056355,"{'35B': 99.6, '33F': 33.3, '35C': 33.1, '34': 32.9, '35A': 32.7}",1,99.6,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216135,"{'19F-I': 97.9, '19F-II': 95.2, '19F-III': 95.1, '19F': 95.0, '19F-IV': 90.6}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001299875,"{'19F-III': 99.9, '19F': 97.9, '19F-I': 97.2, '19F-II': 94.7, '19F-IV': 89.4}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025305,"{'35B': 99.9, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.9,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320155,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053755,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215825,"{'35F': 99.2, '47F': 74.5, '34': 26.7, '35B': 26.6, '29': 22.5}",1,99.2,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319535,"{'01': 99.5, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261445,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001109245,"{'13': 98.9, '09L': 28.1, '20': 28.1, '09N': 27.7, '14': 26.8}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900199265,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298875,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293855,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001326315,"{'18C': 99.8, '18B': 99.7, '18F': 75.7, '18A': 62.0, '16F': 39.2}",1,99.8,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237145,"{'14': 93.9, '36': 27.6, '09L': 25.3, '09N': 24.4, '15B': 23.9}",1,93.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275665,"{'18C': 99.7, '18B': 99.6, '18F': 75.6, '18A': 62.4, '16F': 39.2}",1,99.7,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001193415,"{'34': 92.9, '33F2': 34.7, '35B': 31.3, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245465,"{'06E': 100.0, '06B-III': 99.2, '06B-I': 46.7, '06A-III': 46.2, '06A-II': 45.2}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337395,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247945,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251745,"{'09A': 96.0, '09V': 95.8, '09N': 38.4, '09L': 37.2, '11F': 26.7}",1,96.0,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338375,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002889235,"{'36': 10.7, '20': 5.9, '45': 5.7, '22F': 5.5, '06B-I': 5.5}",1,10.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341535,"{'06C': 85.6, '06C-I': 85.6, '06D': 84.7, '06A': 77.0, '06A-IV': 73.3}",1,85.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286035,"{'13': 83.7, '36': 32.8, '14': 27.1, '15B': 26.6, '15C': 26.2}",1,83.7,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265655,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.5, '46': 81.4}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232025,"{'06A-II': 95.3, '06A-VI': 95.3, '06B-II': 89.2, '06A-V': 88.8, '06A-III': 88.2}",1,95.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319575,"{'09N': 98.3, '09L': 87.4, '09A': 31.4, '09V': 31.4, '36': 30.2}",1,98.3,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229615,"{'23B': 81.3, '23B1': 65.9, '06A-IV': 36.7, '06B-II': 35.1, '06A-V': 34.9}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272065,"{'11B': 99.6, '11C': 89.2, '11A': 31.8, '11D': 31.5, '11F': 25.9}",1,99.6,,11B/11C,,,{},{},11B/11C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337975,"{'36': 11.1, '06A-IV': 7.7, '20': 7.0, '06C': 6.4, '06B-I': 6.4}",1,11.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229895,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018385,"{'06A-II': 94.5, '06A-VI': 94.5, '06A-V': 87.9, '06B-II': 87.9, '06A': 87.4}",1,94.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001092165,"{'36': 9.8, '20': 6.7, '01': 6.3, '45': 6.3, '22F': 5.6}",1,9.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219895,"{'09N': 99.8, '09L': 89.0, '09A': 32.7, '09V': 32.7, '36': 32.1}",1,99.8,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331995,"{'19B': 92.8, '19C': 71.8, '19F-IV': 50.8, '19F-II': 50.7, '19F-I': 49.8}",1,92.8,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226005,"{'06E': 99.5, '06B-III': 99.1, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900060885,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305215,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001098925,"{'14': 99.6, '09L': 26.7, '36': 25.9, '09N': 24.7, '15B': 24.1}",1,99.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001191675,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326995,"{'18C': 88.6, '18B': 88.5, '18F': 77.8, '18A': 61.6, '16F': 37.6}",1,88.6,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221735,"{'18C': 99.3, '18B': 99.2, '18F': 76.0, '18A': 62.9, '16F': 39.3}",1,99.3,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001205475,"{'24F': 97.1, '24B': 89.8, '24F2': 86.6, '24A': 62.9, '07C': 52.0}",1,97.1,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333305,"{'34': 98.8, '33F2': 35.2, '35B': 33.6, '33F': 30.0, '33C': 28.7}",1,98.8,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001170025,"{'35F': 91.1, '47F': 67.7, '29': 25.7, '35B': 25.5, '34': 25.3}",1,91.1,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259855,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019399305,"{'06E': 100.0, '06B-III': 99.1, '06B-I': 46.5, '06A-III': 46.0, '06A-II': 45.0}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001093785,"{'19F-I': 95.0, '19F': 94.7, '19F-III': 93.2, '19F-II': 91.9, '19F-IV': 87.9}",1,95.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278595,"{'19A-I': 98.5, '19A-II': 96.8, '19A': 87.1, '19A-III': 86.9, '19AF': 61.5}",1,98.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018425,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319645,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331895,"{'15C': 87.9, '15B': 87.7, '15A': 64.6, '15F': 50.0, '23A': 30.2}",1,87.9,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193445,"{'22F': 97.5, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,97.5,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017355,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285745,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294175,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.7, '19A-III': 87.5, '19AF': 61.7}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286895,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047635,"{'06B-I': 99.7, '06A-III': 97.6, '06B-II': 90.3, '06A': 89.8, '06A-V': 88.4}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265235,"{'05': 95.1, '45': 22.3, '36': 21.7, '20': 20.0, '12A': 19.8}",1,95.1,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327635,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001165225,"{'06E': 100.0, '06B-III': 96.0, '06B-I': 43.5, '06A-III': 43.0, '06A-I': 42.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001156165,"{'34': 93.2, '33F2': 35.3, '35B': 32.2, '33F': 29.2, '33C': 28.8}",1,93.2,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218405,"{'31': 99.8, '41A': 57.3, '41F': 49.0, '06A-II': 36.4, '06A-VI': 36.4}",1,99.8,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001170605,"{'14': 94.2, '36': 25.4, '15B': 24.3, '15C': 24.2, '09L': 23.6}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324855,"{'13': 83.3, '36': 28.9, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301855,"{'13': 83.4, '36': 33.0, '14': 27.2, '15B': 26.7, '15C': 26.3}",1,83.4,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001110865,"{'45': 5.8, '25F': 5.7, '25A': 5.5, '36': 5.3, '20': 5.0}",3,5.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223935,"{'22F': 96.4, '22A': 73.4, '06A': 42.6, '06A-II': 42.3, '06A-VI': 42.2}",1,96.4,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296925,"{'35B': 99.4, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001098305,"{'06A-III': 98.6, '06B-I': 97.0, '06A': 90.6, '06B-II': 90.5, '06A-V': 89.6}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021555,"{'14': 99.9, '09L': 26.5, '36': 25.9, '09N': 24.8, '15B': 24.2}",1,99.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023005,"{'14': 92.6, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028205,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260545,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294335,"{'19F-III': 99.9, '19F': 97.9, '19F-I': 97.2, '19F-II': 94.7, '19F-IV': 89.4}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332415,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331485,"{'15C': 95.7, '15B': 95.6, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254775,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001087765,"{'36': 10.5, '01': 7.0, '06A-IV': 7.0, '20': 5.9, '06B-I': 5.8}",1,10.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303085,"{'06E': 83.4, '06B-III': 82.3, '06B-I': 55.6, '06A-III': 54.1, '06A-II': 53.5}",1,83.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307175,"{'01': 99.3, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324505,"{'02': 92.4, '22F': 39.9, '06B-I': 38.7, '06A-III': 38.6, '06A-II': 38.5}",1,92.4,,2,,,{},{},2,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288085,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000278965,"{'10A': 99.9, '10B': 66.7, '10C': 27.5, '10F': 17.9, '22F': 15.3}",1,99.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318775,"{'15C': 95.7, '15B': 95.6, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001117625,"{'35B': 98.2, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,98.2,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300595,"{'09L': 99.1, '09N': 89.4, '36': 32.3, '09A': 31.5, '09V': 31.5}",1,99.1,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297085,"{'10B': 99.4, '10A': 65.2, '10F': 20.1, '10C': 18.8, '36': 16.0}",1,99.4,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055345,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297545,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022895,"{'19A': 99.4, '19A-III': 99.2, '19A-I': 86.1, '19A-II': 83.9, '19AF': 57.2}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001102265,"{'36': 11.4, '20': 7.9, '01': 7.0, '45': 6.7, '06B-I': 5.8}",1,11.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242265,"{'34': 92.3, '33F2': 34.9, '35B': 31.9, '33F': 29.1, '33C': 28.4}",1,92.3,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311085,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269915,"{'24F': 96.9, '24B': 89.6, '24F2': 86.3, '24A': 62.7, '07C': 51.7}",1,96.9,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054215,"{'03': 95.2, '01': 17.3, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309085,"{'04': 99.8, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001155385,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001128705,"{'36': 10.7, '45': 6.2, '20': 5.9, '06B-I': 5.5, '06C': 5.4}",1,10.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001158385,"{'36': 9.1, '20': 6.6, '23B1': 6.1, '45': 5.9, '06A-IV': 5.7}",1,9.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340315,"{'35B': 99.4, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171125,"{'14': 92.7, '36': 28.1, '09L': 25.6, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228485,"{'09L': 99.4, '09N': 90.2, '36': 32.8, '09A': 31.5, '09V': 31.5}",1,99.4,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333925,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296195,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274325,"{'15C': 87.5, '15B': 87.4, '15A': 64.6, '15F': 50.0, '23A': 30.0}",1,87.5,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249325,"{'14': 91.4, '19F-IV': 25.9, '36': 25.1, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001128325,"{'09N': 99.7, '09L': 88.7, '09A': 32.4, '09V': 32.4, '36': 30.5}",1,99.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241625,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333115,"{'17F': 82.3, '06A-I': 42.2, '06B': 41.8, '06A': 41.2, '06A-III': 40.5}",1,82.3,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249175,"{'16F': 71.7, '28F': 43.2, '28A': 40.7, '18F': 33.7, '18A': 33.6}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306455,"{'06A': 93.2, '06A-V': 91.8, '06B-II': 90.6, '06A-III': 88.8, '06A-IV': 88.8}",1,93.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268085,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900089225,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220355,"{'35B': 99.6, '33F': 33.3, '34': 33.1, '35C': 33.1, '35A': 32.7}",1,99.6,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313775,"{'35B': 99.4, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001202855,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330355,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.6}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303855,"{'15F': 99.8, '15A': 93.0, '15B': 60.4, '15C': 60.3, '23F': 38.9}",1,99.8,15F_15A,15F_15A,,"[[10], [12], [14], [16]]","{'glf': 100.0, 'rmlB': 100.0, 'rmlD': 100.0, 'wcjE': 100.0}","{'glf': 'detected', 'rmlB': 'detected', 'rmlD': 'detected', 'wcjE': 'detected'}",15F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234285,"{'05': 95.1, '45': 22.5, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.1,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240585,"{'19A-I': 99.1, '19A-II': 97.1, '19A': 87.7, '19A-III': 87.5, '19AF': 62.0}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254155,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331445,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264805,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168485,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278085,"{'04': 98.3, '45': 34.0, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268045,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321145,"{'23B': 88.7, '23B1': 62.4, '23F': 38.7, '06A-IV': 33.9, '23A': 33.2}",1,88.7,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284355,"{'13': 98.9, '09L': 28.7, '20': 28.7, '09N': 28.5, '36': 27.4}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320165,"{'17F': 93.5, '06B-I': 45.7, '06A-III': 45.6, '06A-IV': 45.4, '06A': 44.5}",1,93.5,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287525,"{'17F': 93.5, '06A-III': 45.6, '06B-I': 45.4, '06A-IV': 45.3, '06A': 44.5}",1,93.5,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339845,"{'06E': 99.8, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.5, '06A-II': 45.5}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220885,"{'21': 100.0, '22F': 36.1, '06A-IV': 32.8, '06A-II': 32.1, '06A-VI': 32.0}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021355,"{'23F': 99.0, '23A': 64.8, '23B': 47.6, '28A': 47.5, '06A-V': 45.8}",1,99.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229065,"{'14': 92.7, '36': 29.0, '09L': 25.6, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234875,"{'09A': 99.6, '09V': 99.4, '09N': 38.1, '09L': 36.7, '06A-IV': 27.5}",1,99.6,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305845,"{'14': 91.5, '09L': 26.6, '36': 26.6, '09N': 26.3, '15B': 23.3}",1,91.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280285,"{'14': 96.8, '36': 26.3, '09L': 25.5, '09N': 24.8, '15B': 24.0}",1,96.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281905,"{'19F-I': 95.4, '19F': 95.1, '19F-III': 93.6, '19F-II': 92.3, '19F-IV': 88.3}",1,95.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232425,"{'23F': 96.3, '23A': 63.0, '06A-IV': 48.8, '23B': 48.4, '28A': 47.2}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257815,"{'04': 99.7, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219695,"{'21': 91.7, '22F': 36.7, '06A-IV': 31.6, '06A-II': 31.2, '06A-VI': 31.2}",1,91.7,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001207155,"{'06C': 85.6, '06C-I': 85.6, '06D': 84.7, '06A': 77.0, '06A-IV': 73.3}",1,85.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001119885,"{'34': 98.6, '33F2': 35.2, '35B': 32.3, '33F': 29.7, '33C': 28.4}",1,98.6,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030085,"{'35F': 99.0, '47F': 74.3, '34': 26.7, '35B': 26.6, '29': 22.5}",1,99.0,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001096405,"{'01': 6.6, '45': 5.8, '20': 5.1, '22F': 4.7, '38': 4.7}",3,6.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194315,"{'38': 99.1, '25F': 84.4, '25A': 83.4, '36': 11.8, '20': 8.2}",1,99.1,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900064095,"{'19A': 99.2, '19A-III': 99.0, '19A-I': 86.1, '19A-II': 83.8, '19AF': 57.2}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273935,"{'13': 83.4, '36': 33.0, '14': 27.2, '15B': 26.7, '15C': 26.3}",1,83.4,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020075,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242905,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.8, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001115705,"{'20': 5.5, '01': 5.2, '45': 5.0, '22F': 4.7, '25A': 4.3}",1,5.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303665,"{'34': 98.7, '33F2': 35.2, '35B': 33.2, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306245,"{'39': 97.8, '29': 28.6, '34': 22.6, '43': 19.2, '33C': 18.6}",1,97.8,,39,,,{},{},39,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244095,"{'09N': 100.0, '09L': 88.9, '09A': 32.7, '09V': 32.7, '36': 32.4}",1,100.0,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268125,"{'01': 99.4, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002093365,"{'06A-I': 100.0, '06B': 94.5, '06A-V': 90.1, '06A': 87.2, '06A-III': 86.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023665,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298275,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000019825,"{'19F-I': 98.1, '19F': 96.2, '19F-III': 96.0, '19F-II': 93.6, '19F-IV': 89.2}",1,98.1,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001139425,"{'23F': 93.9, '23A': 63.4, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,93.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252875,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215215,"{'05': 95.0, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043845,"{'11D': 100.0, '11A': 97.2, '22F': 52.4, '11F': 47.6, '22A': 37.7}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238975,"{'15A': 99.2, '15F': 73.7, '15C': 61.8, '15B': 61.7, '23F': 31.5}",1,99.2,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324125,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329455,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216535,"{'19AF': 97.1, '19A-II': 61.5, '19A-I': 60.9, '19A': 52.1, '19A-III': 51.9}",1,97.1,19A_19AF,19A_19AF,,[[7]],"{'wzy': [2, 92.87]}",{'wzy': 2},19A_19AF,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001152045,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300505,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235295,"{'06A-II': 100.0, '06A-VI': 100.0, '06B-II': 91.8, '06A-V': 91.0, '06A-III': 89.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216855,"{'17F': 67.9, '24A': 32.4, '48': 28.8, '22F': 28.1, '06A-I': 26.8}",1,67.9,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168625,"{'19A': 99.5, '19A-III': 99.3, '19A-I': 85.7, '19A-II': 83.2, '19AF': 56.7}",1,99.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001096585,"{'33D': 90.1, '33B': 89.1, '35B': 34.1, '33F2': 29.7, '22F': 27.6}",1,90.1,,33D,,,{},{},33D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229155,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267245,"{'38': 90.8, '25F': 86.8, '25A': 85.8, '36': 16.0, '20': 7.5}",1,90.8,25F_25A_38,25F_25A_38,,"[[0], [18]]","{'wcyD': ['b: 22.59'], 'wcyV': 4.69}","{'wcyD': 0, 'wcyV': 'not_detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021022195,"{'02': 57.6, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325585,"{'15C': 95.2, '15B': 95.1, '15A': 60.8, '15F': 47.3, '23A': 34.0}",1,95.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300955,"{'23B': 99.5, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.6}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001126905,"{'36': 11.8, '20': 8.0, '06A-IV': 7.5, '06C': 6.1, '06B-I': 6.1}",2,11.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270375,"{'11A': 99.2, '11D': 96.8, '11F': 40.0, '11C': 36.2, '11B': 34.7}",1,99.2,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276365,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335825,"{'18C': 99.7, '18B': 99.6, '18F': 75.6, '18A': 62.5, '16F': 39.2}",1,99.7,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258635,"{'05': 95.2, '45': 22.0, '36': 21.7, '20': 20.3, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336225,"{'23A': 99.6, '23F': 67.2, '23B': 43.5, '19F-II': 37.8, '15B': 37.1}",1,99.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222325,"{'01': 98.8, '19F': 32.0, '19F-I': 31.5, '19F-III': 31.3, '19F-II': 31.0}",1,98.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225045,"{'16F': 71.5, '28F': 43.1, '28A': 40.6, '18F': 33.6, '18A': 32.9}",1,71.5,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063535,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001111325,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301515,"{'24F2': 99.8, '24B': 88.6, '24F': 87.1, '24A': 67.4, '07C': 53.9}",1,99.8,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264025,"{'40': 99.4, '07B': 93.7, '07C': 75.2, '24F2': 48.1, '24F': 47.8}",1,99.4,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315045,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254165,"{'22F': 96.3, '22A': 73.4, '06A': 42.6, '06A-II': 42.3, '06A-VI': 42.2}",1,96.3,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289275,"{'19F-I': 94.8, '19F': 94.1, '19F-III': 94.0, '19F-IV': 93.9, '19F-II': 92.1}",1,94.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001345595,"{'33B': 89.8, '33D': 89.7, '35B': 32.7, '33F2': 30.0, '22F': 26.3}",1,89.8,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301895,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.4, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237305,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043035,"{'19F-I': 99.9, '19F': 97.2, '19F-III': 97.2, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001097765,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340245,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296705,"{'14': 93.8, '36': 26.1, '09L': 25.1, '09N': 24.1, '15B': 23.9}",1,93.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237315,"{'22F': 99.0, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900016945,"{'33F': 100.0, '33A': 97.5, '33F2': 70.9, '35C': 42.8, '42': 41.8}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277925,"{'09A': 93.0, '09V': 92.8, '09N': 39.6, '09L': 38.3, '08': 24.4}",1,93.0,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340325,"{'06A': 93.5, '06A-III': 90.1, '06B-I': 90.0, '06B-II': 90.0, '06A-V': 89.5}",1,93.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017835,"{'06A-I': 99.8, '06B': 94.3, '06A-V': 88.7, '06A': 86.9, '06A-III': 85.4}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001129505,"{'36': 11.5, '20': 8.0, '06A-IV': 7.3, '45': 6.4, '06B-I': 6.2}",1,11.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293495,"{'35A': 93.5, '35C': 84.0, '42': 83.2, '33A': 41.9, '33F': 41.6}",1,93.5,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299615,"{'06E': 99.5, '06B-III': 99.2, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279415,"{'21': 91.7, '22F': 36.8, '06A-IV': 31.6, '06A-II': 31.2, '06A-VI': 31.2}",1,91.7,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314245,"{'14': 92.4, '36': 28.9, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259155,"{'35B': 99.0, '33F': 33.4, '35C': 33.2, '34': 33.0, '35A': 32.8}",1,99.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263965,"{'19F-I': 95.9, '19F': 95.6, '19F-III': 94.0, '19F-II': 92.8, '19F-IV': 88.8}",1,95.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023915,"{'18C': 99.3, '18B': 99.2, '18F': 75.6, '18A': 62.3, '16F': 38.9}",1,99.3,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293055,"{'09N': 99.7, '09L': 88.9, '09A': 32.6, '09V': 32.6, '36': 32.3}",1,99.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191665,"{'06A': 100.0, '06A-IV': 99.6, '06B-II': 95.4, '06A-V': 93.7, '06A-III': 91.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033965,"{'19A': 99.1, '19A-III': 98.9, '19A-I': 86.0, '19A-II': 83.7, '19AF': 57.2}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309735,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.8, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229875,"{'17F': 99.3, '06B': 44.3, '06B-I': 44.2, '06A-III': 44.1, '06D': 43.7}",1,99.3,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049505,"{'11D': 99.9, '11A': 97.1, '11F': 41.9, '11C': 35.9, '11B': 34.4}",1,99.9,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239755,"{'06C-I': 88.9, '06C': 88.8, '06D': 87.0, '06A-I': 77.8, '06B': 77.5}",1,88.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335375,"{'35C': 98.4, '42': 97.8, '35A': 85.8, '33A': 45.4, '33F': 45.3}",1,98.4,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001207175,"{'06A': 89.7, '06A-III': 89.3, '06B-I': 88.0, '06B-II': 87.8, '06A-II': 87.3}",1,89.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001138825,"{'36': 13.0, '20': 8.1, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",1,13.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258475,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001154145,"{'06C': 85.6, '06C-I': 85.6, '06D': 84.7, '06A': 77.0, '06A-IV': 73.3}",1,85.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237825,"{'14': 92.3, '36': 29.0, '09L': 25.8, '09N': 24.5, '15B': 23.9}",1,92.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000196595,"{'19A': 99.2, '19A-III': 99.0, '19A-I': 86.1, '19A-II': 83.8, '19AF': 57.2}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043175,"{'19A-II': 100.0, '19A-I': 96.6, '19A': 85.0, '19A-III': 84.8, '19AF': 62.1}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232085,"{'14': 92.6, '36': 27.2, '09L': 25.9, '09N': 25.0, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001195165,"{'36': 8.8, '06A-IV': 5.9, '20': 5.7, '23B1': 5.6, '06B-I': 4.5}",1,8.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900039655,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223425,"{'04': 99.8, '45': 33.9, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221325,"{'06E': 99.6, '06B-III': 99.2, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001156085,"{'34': 92.6, '33F2': 34.4, '35B': 29.9, '33F': 28.7, '33C': 27.7}",1,92.6,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000233165,"{'19A': 92.8, '19A-III': 92.6, '19A-II': 81.8, '19A-I': 80.0, '19AF': 55.8}",1,92.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001137685,"{'14': 94.1, '36': 26.1, '09L': 24.6, '15B': 24.2, '15C': 24.1}",1,94.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298915,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221245,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317745,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337695,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238955,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900005375,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288415,"{'23F': 96.8, '23A': 63.7, '23B': 48.0, '28A': 47.7, '06B-II': 46.1}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289975,"{'22F': 98.9, '22A': 73.2, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,98.9,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325765,"{'10B': 99.5, '10A': 65.2, '10F': 19.8, '10C': 18.7, '22F': 14.1}",1,99.5,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282305,"{'38': 97.6, '25F': 84.3, '25A': 83.3, '36': 12.8, '20': 7.2}",1,97.6,25F_25A_38,25F_25A_38,,"[[0], [19]]","{'wcyD': ['b: 80.0'], 'wcyV': 100.0}","{'wcyD': 0, 'wcyV': 'detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001115285,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226165,"{'06A-II': 92.5, '06A-VI': 92.5, '06B-II': 89.8, '06A-V': 89.4, '06A-III': 88.3}",1,92.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 84.81']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224275,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021021895,"{'02': 57.6, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001131945,"{'02': 93.0, '22F': 38.8, '06B-I': 38.7, '06A-III': 38.6, '06A-II': 38.5}",1,93.0,,2,,,{},{},2,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250435,"{'07C': 97.9, '07B': 76.5, '40': 75.2, '24B': 48.2, '24F': 47.8}",1,97.9,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254615,"{'06B-III': 87.2, '06E': 87.0, '06A-V': 53.1, '06B-II': 52.7, '06B-I': 52.5}",1,87.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226535,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321725,"{'23F': 77.8, '23A': 57.6, '23B': 51.4, '28A': 38.8, '28F': 36.2}",1,77.8,,23F,,,{},{},23F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221645,"{'11F': 63.1, '11D': 40.3, '11A': 38.5, '35B': 27.5, '06A-III': 26.0}",1,63.1,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305365,"{'03': 95.2, '01': 17.8, '36': 17.4, '20': 16.1, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314375,"{'01': 99.3, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230165,"{'01': 99.1, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332395,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276955,"{'23F': 96.7, '23A': 63.8, '06A-IV': 50.8, '23B': 50.3, '06B-II': 48.5}",1,96.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055435,"{'07A': 97.5, '07F': 97.3, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,97.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340735,"{'16F': 95.7, '19F-II': 42.6, '19F-IV': 42.6, '28F': 42.4, '19F': 41.6}",1,95.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220115,"{'19B': 92.6, '19C': 72.8, '19F-II': 51.4, '19F-IV': 51.1, '19F-I': 50.8}",1,92.6,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342735,"{'22F': 96.5, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-I': 41.8}",1,96.5,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331645,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307995,"{'19A': 99.5, '19A-III': 99.3, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001118265,"{'03': 95.2, '36': 16.9, '01': 15.9, '20': 15.5, '09N': 15.3}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230375,"{'19A': 79.1, '19A-III': 78.9, '19A-I': 67.8, '19A-II': 66.1, '19AF': 59.9}",1,79.1,19A_19AF,19A_19AF,,[[0]],{'wzy': ['2: 69.2']},{'wzy': 0},19A_19AF,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001132345,"{'11F': 61.6, '11D': 38.3, '11A': 36.8, '09A': 25.2, '09V': 25.2}",1,61.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234295,"{'04': 99.7, '45': 33.4, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294855,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312095,"{'10B': 99.3, '10A': 65.2, '10F': 20.1, '10C': 18.8, '22F': 14.0}",1,99.3,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900035605,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320045,"{'13': 98.9, '20': 29.0, '09L': 28.6, '09N': 28.2, '36': 28.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336075,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335465,"{'35B': 99.4, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284925,"{'14': 91.7, '36': 27.9, '09L': 25.6, '09N': 24.5, '15B': 23.7}",1,91.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_008253725,"{'02': 57.6, '06C': 23.4, '06B-I': 23.4, '06C-I': 23.4, '06A-II': 23.1}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232365,"{'07A': 98.1, '07F': 97.9, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,98.1,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304185,"{'42': 100.0, '35C': 98.8, '35A': 85.2, '33A': 44.6, '33F': 44.1}",1,100.0,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291925,"{'01': 99.3, '19F': 32.2, '19F-I': 31.7, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333045,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339835,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279645,"{'19F': 97.3, '19F-I': 96.3, '19F-III': 95.5, '19F-II': 95.4, '19F-IV': 90.9}",1,97.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241185,"{'13': 98.8, '09N': 29.1, '20': 28.9, '09L': 28.7, '36': 28.0}",1,98.8,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324295,"{'45': 97.2, '04': 38.8, '06A-II': 32.7, '06A-VI': 32.6, '06B-I': 32.5}",1,97.2,,45,,,{},{},45,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342455,"{'45': 6.6, '20': 5.4, '25F': 5.4, '36': 5.4, '25A': 5.2}",2,6.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001336475,"{'34': 90.1, '33F2': 35.5, '35B': 34.9, '33F': 32.1, '33C': 31.5}",1,90.1,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001148705,"{'23F': 91.8, '23A': 62.5, '06A-V': 53.3, '06A': 51.3, '06B-II': 51.1}",1,91.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001348395,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320855,"{'01': 6.9, '20': 6.1, '06A-IV': 6.1, '25F': 5.9, '25A': 5.7}",3,6.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285855,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339055,"{'33D': 80.4, '33B': 76.4, '06A-I': 36.5, '06B': 35.9, '35B': 35.9}",1,80.4,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194455,"{'06C-I': 99.9, '06C': 99.7, '06D': 84.6, '06A-II': 79.6, '06A-VI': 79.6}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295565,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.2, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043205,"{'03': 95.2, '36': 13.4, '01': 13.3, '20': 12.1, '09L': 11.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286275,"{'23F': 96.8, '23A': 63.7, '23B': 48.0, '28A': 47.7, '06B-II': 46.1}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257025,"{'35B': 99.4, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001586005,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335575,"{'14': 91.4, '19F-IV': 25.9, '36': 25.4, '09L': 25.1, '09N': 24.6}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289945,"{'19A': 99.1, '19A-III': 98.9, '19A-I': 86.0, '19A-II': 83.7, '19AF': 57.4}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270405,"{'09A': 99.4, '09V': 99.2, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900188755,"{'06A': 100.0, '06A-IV': 99.6, '06B-II': 95.4, '06A-V': 93.7, '06A-III': 91.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_909594655,"{'14': 92.7, '36': 28.9, '09L': 25.9, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330995,"{'15A': 98.4, '15F': 73.6, '15C': 61.9, '15B': 61.8, '23F': 31.9}",1,98.4,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001982715,"{'14': 100.0, '09L': 27.2, '36': 26.1, '09N': 24.9, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001116125,"{'06C-I': 89.1, '06C': 89.0, '06D': 86.9, '06A-I': 77.7, '06B': 77.4}",1,89.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324655,"{'13': 83.1, '36': 28.8, '09L': 25.9, '09N': 25.6, '15B': 25.4}",1,83.1,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001111125,"{'35F': 99.3, '47F': 74.7, '34': 26.7, '35B': 25.1, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191225,"{'06C-I': 98.9, '06C': 98.8, '06D': 84.4, '06A-II': 78.6, '06A-VI': 78.6}",1,98.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339655,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326695,"{'06C-I': 89.0, '06C': 88.9, '06D': 86.8, '06A-I': 77.6, '06B': 77.3}",1,89.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303565,"{'04': 98.3, '45': 34.1, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237665,"{'08': 99.6, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.6,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327555,"{'29': 59.4, '35B': 37.4, '35F': 26.8, '22F': 23.3, '33B': 23.1}",1,59.4,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316185,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274995,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 32.8}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001173985,"{'16F': 99.9, '28F': 42.4, '19F-IV': 41.1, '18A': 41.0, '18F': 40.7}",1,99.9,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277875,"{'19A-I': 95.1, '19A-II': 94.0, '19A': 83.7, '19A-III': 83.6, '19AF': 59.1}",1,95.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001140005,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249575,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.1}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260295,"{'23F': 96.7, '23A': 63.8, '23B': 47.9, '28A': 47.6, '06B-II': 46.1}",1,96.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310135,"{'23B1': 98.7, '23B': 59.0, '19A-II': 36.7, '19A-I': 35.5, '19AF': 32.0}",1,98.7,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338395,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299675,"{'35B': 99.2, '33F': 33.6, '35C': 33.1, '34': 32.9, '35A': 32.7}",1,99.2,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282455,"{'14': 95.0, '36': 28.1, '09L': 25.4, '09N': 24.4, '15B': 24.2}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030485,"{'27': 99.4, '06B-I': 41.6, '06A-III': 41.3, '22F': 40.9, '06C': 40.6}",1,99.4,,27,,,{},{},27,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001157145,"{'34': 98.6, '33F2': 35.2, '35B': 32.4, '33F': 29.7, '33C': 28.4}",1,98.6,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330025,"{'01': 99.3, '19F': 32.2, '19F-I': 31.7, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021022455,"{'02': 57.6, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333945,"{'04': 97.3, '45': 34.8, '12F': 25.3, '44': 24.9, '12A': 23.9}",1,97.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001172085,"{'23F': 99.2, '23A': 65.4, '23B': 49.0, '28A': 48.1, '06A-IV': 47.3}",1,99.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001120285,"{'36': 12.5, '20': 8.0, '06A-IV': 7.5, '23B1': 7.4, '06C': 6.1}",1,12.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250955,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313335,"{'15C': 95.5, '15B': 95.3, '15A': 61.2, '15F': 47.6, '23A': 34.4}",1,95.5,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323155,"{'13': 83.3, '36': 28.9, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332835,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312285,"{'14': 93.0, '36': 27.1, '09L': 26.1, '09N': 25.7, '15B': 24.3}",1,93.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294615,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307915,"{'03': 95.2, '01': 17.7, '36': 17.4, '20': 16.1, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275625,"{'34': 98.6, '33F2': 35.1, '35B': 33.5, '33F': 29.8, '33C': 28.4}",1,98.6,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001404215,"{'36': 10.3, '06A-IV': 6.7, '20': 5.7, '23B1': 5.6, '45': 5.5}",1,10.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267415,"{'01': 7.4, '45': 6.5, '25F': 5.8, '25A': 5.6, '22F': 5.3}",3,7.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021022275,"{'02': 57.3, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,57.3,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246165,"{'04': 99.2, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028295,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019397435,"{'15C': 96.0, '15B': 95.9, '15A': 61.4, '15F': 47.7, '23A': 34.8}",1,96.0,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261415,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023875,"{'06B-I': 99.6, '06A-III': 97.5, '06B-II': 90.1, '06A': 89.8, '06A-IV': 88.9}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234315,"{'19F-II': 99.3, '19F': 95.1, '19F-III': 94.1, '19F-I': 93.8, '19F-IV': 93.2}",1,99.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241135,"{'18C': 99.5, '18B': 99.4, '18F': 76.0, '18A': 63.0, '16F': 39.5}",1,99.5,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292955,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028615,"{'22A': 93.8, '22F': 81.1, '06A-I': 41.0, '06A-IV': 40.7, '06B': 40.5}",1,93.8,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230285,"{'14': 92.3, '36': 28.8, '09L': 25.4, '09N': 24.5, '15B': 24.0}",1,92.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051515,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001098185,"{'03': 95.1, '20': 15.1, '09L': 14.2, '01': 14.1, '09N': 14.0}",1,95.1,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254785,"{'23F': 92.4, '23A': 61.1, '28A': 48.1, '23B': 46.6, '06A-IV': 46.6}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020139985,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001326755,"{'03': 95.2, '36': 17.0, '20': 15.3, '09N': 15.0, '09L': 14.9}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323325,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327545,"{'06A-I': 98.4, '06B': 94.4, '06A-V': 89.4, '06A': 87.4, '06A-III': 85.9}",1,98.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033485,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221535,"{'23F': 78.4, '23A': 58.1, '23B': 52.1, '28A': 39.2, '28F': 36.6}",1,78.4,,23F,,,{},{},23F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324385,"{'14': 94.9, '36': 27.7, '09L': 25.3, '09N': 24.4, '15B': 24.1}",1,94.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052815,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272905,"{'19F': 94.9, '19F-I': 94.4, '19F-III': 93.3, '19F-II': 92.0, '19F-IV': 88.3}",1,94.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001169265,"{'16F': 95.7, '19F-II': 42.6, '19F-IV': 42.6, '28F': 42.4, '19F': 41.6}",1,95.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001146685,"{'34': 93.1, '33F2': 35.3, '35B': 32.0, '33F': 29.3, '33C': 28.8}",1,93.1,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213925,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238635,"{'15B': 99.8, '15C': 99.6, '15A': 62.7, '15F': 48.3, '23A': 32.9}",1,99.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325745,"{'22A': 94.2, '22F': 77.6, '06A-IV': 45.8, '06A-II': 44.1, '06B-I': 44.1}",1,94.2,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250385,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289445,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309765,"{'16F': 95.4, '28F': 41.8, '18F': 41.6, '28A': 40.1, '18A': 39.9}",1,95.4,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001164485,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285695,"{'33B': 89.6, '33D': 89.5, '35B': 34.7, '33F2': 30.3, '22F': 28.1}",1,89.6,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001139445,"{'06E': 99.7, '06B-III': 96.3, '06B-I': 44.2, '06A-III': 43.7, '06B-II': 42.9}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001348015,"{'10A': 99.3, '10B': 67.0, '10C': 27.7, '10F': 18.1, '06B-I': 15.2}",1,99.3,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290095,"{'19A': 99.4, '19A-III': 99.2, '19A-I': 86.1, '19A-II': 83.9, '19AF': 57.1}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189615,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001091945,"{'19B': 95.7, '19C': 70.0, '19F-II': 53.9, '19F-I': 53.1, '19F': 53.0}",1,95.7,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304545,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251725,"{'06E': 99.3, '06B-III': 98.9, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,99.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268475,"{'14': 93.0, '36': 27.3, '09L': 25.8, '09N': 25.4, '15B': 24.3}",1,93.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253395,"{'10A': 93.9, '10B': 64.7, '10C': 29.0, '10F': 19.4, '22F': 16.4}",1,93.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315355,"{'13': 83.7, '36': 32.4, '14': 27.3, '15B': 26.7, '15C': 26.3}",1,83.7,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001170325,"{'06E': 99.8, '06B-III': 99.1, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313675,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001163585,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224105,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.7, '19A-III': 87.5, '19AF': 61.8}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339275,"{'08': 99.5, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.5,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001153305,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287475,"{'02': 92.6, '22F': 40.0, '06B-I': 38.5, '06A-III': 38.4, '06A-II': 38.2}",1,92.6,,2,,,{},{},2,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320065,"{'21': 99.8, '22F': 36.1, '06A-IV': 32.9, '06A-II': 32.2, '06A-VI': 32.1}",1,99.8,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339665,"{'01': 99.0, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273925,"{'05': 95.3, '45': 22.0, '36': 21.7, '20': 20.0, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299555,"{'05': 95.0, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337315,"{'14': 94.6, '36': 26.1, '09L': 25.1, '09N': 24.2, '15B': 24.2}",1,94.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299985,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334345,"{'46': 87.4, '12A': 86.1, '12B': 78.1, '12F': 76.1, '44': 76.1}",1,87.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[4]],"{'wciI': [1, 91.4]}",{'wciI': 1},12A/12B/44/46,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346095,"{'13': 83.6, '09L': 25.7, '09N': 25.7, '36': 25.7, '14': 25.4}",1,83.6,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232675,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.7}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298445,"{'29': 96.8, '39': 21.1, '22F': 17.3, '35F': 17.3, '35B': 16.6}",1,96.8,,29,,,{},{},29,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171955,"{'14': 92.6, '36': 28.9, '09L': 25.8, '09N': 24.5, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000279005,"{'23F': 97.6, '23A': 63.3, '23B': 48.4, '28A': 48.3, '06A-IV': 47.1}",1,97.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001096085,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324875,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001164045,"{'33B': 89.8, '33D': 89.7, '35B': 32.9, '33F2': 30.0, '35C': 26.2}",1,89.8,,"Mixed serotypes- {'33B', '33D'}",,,{},{},"Mixed serotypes- {'33B', '33D'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311745,"{'19A-I': 99.7, '19A-II': 97.5, '19A': 87.7, '19A-III': 87.5, '19AF': 61.8}",1,99.7,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310485,"{'19A': 88.7, '19A-III': 88.5, '19A-II': 78.8, '19A-I': 78.0, '19AF': 59.6}",1,88.7,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217885,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330195,"{'14': 91.0, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311735,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339865,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229095,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260355,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262075,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284385,"{'18C': 99.3, '18B': 99.2, '18F': 76.0, '18A': 62.8, '16F': 39.3}",1,99.3,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171405,"{'14': 91.9, '36': 28.6, '09L': 24.7, '15B': 23.9, '15C': 23.8}",1,91.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240915,"{'24F': 97.0, '24B': 89.7, '24F2': 86.4, '24A': 63.0, '07C': 52.0}",1,97.0,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273475,"{'35F': 99.2, '47F': 74.5, '34': 26.7, '35B': 26.5, '29': 22.2}",1,99.2,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243415,"{'19B': 82.2, '19C': 66.8, '19F-IV': 39.5, '19F-II': 39.1, '19F-I': 38.5}",1,82.2,,19B,,,{},{},19B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300715,"{'06A-III': 90.2, '06B-I': 89.6, '06A-II': 88.7, '06A-VI': 88.7, '06A-V': 88.5}",1,90.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248895,"{'03': 96.6, '01': 17.5, '20': 15.5, '09N': 15.2, '09L': 15.1}",1,96.6,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000173195,"{'36': 10.6, '20': 5.4, '06A-IV': 5.4, '12A': 4.4, '46': 4.4}",1,10.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318235,"{'17F': 82.2, '06A-I': 42.1, '06B': 41.7, '06A': 41.0, '06A-III': 40.4}",1,82.2,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244045,"{'23B1': 99.6, '23B': 56.3, '19A-II': 36.1, '19A-I': 35.9, '19AF': 31.7}",1,99.6,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900058225,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319455,"{'14': 91.1, '19F-IV': 25.9, '36': 25.4, '09L': 25.0, '09N': 24.4}",1,91.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027245,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.4, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030815,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327335,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342045,"{'21': 92.0, '22F': 36.6, '06A-IV': 31.6, '06A-II': 31.2, '06A-VI': 31.2}",1,92.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334945,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214985,"{'23F': 95.2, '23A': 62.7, '28A': 48.3, '23B': 46.3, '06A-IV': 45.7}",1,95.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314715,"{'28F': 98.6, '28A': 92.2, '23F': 47.6, '16F': 46.0, '06B-I': 43.2}",1,98.6,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249565,"{'15C': 95.8, '15B': 95.6, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264895,"{'09A': 96.0, '09V': 95.8, '09N': 38.5, '09L': 37.4, '11F': 26.7}",1,96.0,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232195,"{'23F': 96.1, '23A': 63.2, '06A-IV': 48.7, '23B': 48.4, '06A-V': 47.1}",1,96.1,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019615,"{'04': 99.2, '45': 33.1, '12F': 23.2, '44': 23.0, '12A': 22.1}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230565,"{'34': 98.6, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.6,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347815,"{'36': 12.9, '20': 8.1, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",1,12.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300055,"{'23F': 99.0, '23A': 64.8, '23B': 47.6, '28A': 47.5, '06A-V': 45.8}",1,99.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001201835,"{'36': 11.4, '20': 7.7, '23B1': 7.5, '45': 6.7, '22F': 5.6}",1,11.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289195,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001103865,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336945,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318395,"{'35F': 99.2, '47F': 74.5, '34': 26.7, '35B': 26.6, '29': 22.2}",1,99.2,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230985,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268075,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.3, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294525,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266505,"{'38': 98.9, '25F': 84.5, '25A': 83.5, '36': 11.8, '20': 8.2}",1,98.9,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213705,"{'23F': 94.0, '23A': 63.5, '28A': 48.3, '23B': 47.0, '06A-III': 46.2}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168305,"{'09A': 99.7, '09V': 99.5, '09N': 38.2, '09L': 36.8, '06A-IV': 27.4}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001153165,"{'10F': 98.2, '10C': 80.9, '10B': 22.4, '10A': 19.2, '20': 14.0}",1,98.2,,10F,,,{},{},10F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288685,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228255,"{'24A': 99.0, '24F2': 62.5, '24F': 60.0, '24B': 57.5, '48': 46.4}",1,99.0,,24A,,,{},{},24A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330165,"{'06B-III': 94.4, '06E': 93.9, '06A-III': 46.8, '06B-I': 46.6, '06A-II': 46.4}",1,94.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001126265,"{'36': 12.9, '20': 8.1, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",1,12.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018375,"{'34': 93.0, '33F2': 34.6, '35B': 32.1, '33F': 29.0, '33C': 28.0}",1,93.0,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232765,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233475,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250645,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242935,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279365,"{'19F-IV': 73.6, '19F-II': 73.4, '19F': 72.4, '19F-I': 71.7, '19F-III': 71.3}",1,73.6,,19F,,,{},{},19F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253315,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309925,"{'09A': 99.7, '09V': 99.5, '09N': 38.5, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227175,"{'15C': 85.6, '15B': 85.5, '15A': 61.1, '15F': 47.9, '23A': 31.4}",1,85.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264485,"{'12F': 96.2, '44': 93.1, '12B': 92.8, '12A': 85.0, '46': 81.9}",1,96.2,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298775,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277505,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299195,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283745,"{'01': 98.8, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257715,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324785,"{'14': 95.0, '36': 28.2, '09L': 25.4, '09N': 24.5, '15B': 24.2}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256185,"{'22F': 98.5, '22A': 72.8, '06A': 42.2, '06B': 41.7, '06A-II': 41.5}",1,98.5,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228065,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024565,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234885,"{'04': 99.7, '45': 33.8, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302935,"{'16F': 95.5, '28F': 41.8, '18F': 41.7, '28A': 40.1, '18A': 39.9}",1,95.5,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051835,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275195,"{'31': 99.8, '41A': 57.3, '41F': 49.0, '22F': 36.4, '06A-II': 36.3}",1,99.8,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324045,"{'08': 99.8, '02': 24.4, '06A-II': 24.3, '06A-VI': 24.2, '06B-II': 23.7}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253995,"{'06A-II': 88.8, '06A-VI': 88.8, '06A-III': 88.7, '06B-II': 87.9, '06A': 87.5}",1,88.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001141865,"{'34': 98.4, '33F2': 35.2, '35B': 31.8, '33F': 29.7, '33C': 28.4}",1,98.4,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231235,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255135,"{'19A-I': 99.4, '19A-II': 97.5, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024175,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017445,"{'03': 95.2, '01': 17.3, '36': 16.5, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001171925,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332915,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311595,"{'27': 99.6, '06B-I': 42.1, '06A-III': 41.8, '06C': 41.2, '22F': 41.2}",1,99.6,,27,,,{},{},27,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280005,"{'19F-II': 99.3, '19F': 95.1, '19F-III': 94.1, '19F-I': 93.8, '19F-IV': 93.2}",1,99.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232345,"{'12F': 95.9, '12B': 93.3, '44': 92.9, '12A': 84.4, '46': 81.3}",1,95.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256385,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218305,"{'23F': 94.0, '23A': 63.5, '06A-IV': 48.8, '28A': 48.5, '06B-I': 47.7}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253485,"{'12F': 96.2, '44': 93.1, '12B': 92.8, '12A': 85.0, '46': 81.9}",1,96.2,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255035,"{'35F': 99.2, '47F': 74.5, '34': 26.7, '35B': 26.7, '29': 22.2}",1,99.2,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001169745,"{'15C': 87.8, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263855,"{'05': 95.3, '45': 22.4, '36': 21.6, '20': 20.1, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001158605,"{'33B': 89.8, '33D': 89.7, '35B': 34.0, '33F2': 30.0, '22F': 27.4}",1,89.8,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329095,"{'33D': 80.4, '33B': 76.4, '06A-I': 36.6, '06B': 36.0, '35B': 36.0}",1,80.4,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280065,"{'12F': 96.3, '44': 93.3, '12B': 93.2, '12A': 84.7, '46': 81.6}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307485,"{'06A': 92.1, '06A-V': 92.1, '06A-IV': 91.1, '06B-II': 90.7, '06A-III': 89.2}",1,92.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264505,"{'19B': 95.7, '19C': 70.0, '19F-II': 53.9, '19F-I': 53.1, '19F': 53.0}",1,95.7,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332465,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019595,"{'23B': 99.5, '23B1': 64.6, '23F': 45.8, '23A': 40.0, '06A-IV': 36.9}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221845,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A': 46.2}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262925,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001098745,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216995,"{'14': 91.3, '19F-IV': 25.9, '36': 25.1, '09L': 24.8, '09N': 24.3}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273405,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278305,"{'06A-V': 93.2, '06A-III': 90.2, '06A-II': 89.8, '06A-VI': 89.8, '06B-I': 89.4}",1,93.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901212955,"{'14': 91.6, '09L': 26.7, '36': 26.4, '09N': 26.2, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322825,"{'14': 95.0, '36': 26.0, '09L': 25.1, '09N': 24.4, '15B': 24.3}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234265,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287815,"{'34': 98.7, '33F2': 35.4, '35B': 33.6, '33F': 30.0, '33C': 28.7}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215295,"{'23F': 96.4, '23A': 63.2, '06A-IV': 48.8, '23B': 48.4, '28A': 47.2}",1,96.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001340915,"{'16F': 95.7, '19F-II': 42.6, '19F-IV': 42.6, '28F': 42.4, '19F': 41.6}",1,95.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032925,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286495,"{'06C-I': 87.3, '06C': 87.2, '06D': 84.6, '06A': 76.9, '06A-IV': 74.8}",1,87.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224175,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273155,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330825,"{'06A-I': 98.4, '06B': 94.4, '06A-V': 89.4, '06A': 87.5, '06A-III': 85.9}",1,98.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307525,"{'14': 100.0, '09L': 26.9, '36': 26.1, '09N': 24.6, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272115,"{'14': 99.5, '09L': 27.0, '36': 25.6, '09N': 24.8, '15B': 24.1}",1,99.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342095,"{'06A-II': 94.2, '06A-VI': 94.2, '06B-II': 88.4, '06A-V': 88.0, '06A-III': 87.1}",1,94.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250865,"{'23A': 95.2, '23F': 68.2, '23B': 44.1, '19F-II': 39.9, '15B': 38.9}",1,95.2,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191885,"{'06A': 99.7, '06A-IV': 99.7, '06B-II': 94.9, '06A-V': 93.3, '06A-III': 91.2}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001093045,"{'06C-I': 88.7, '06C': 88.6, '06D': 86.7, '06A-I': 77.8, '06B': 77.5}",1,88.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 94.1]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900048425,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244165,"{'09A': 95.8, '09V': 95.6, '09N': 39.0, '09L': 37.0, '06A-IV': 26.4}",1,95.8,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900323465,"{'23B': 99.5, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.8}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189105,"{'06A': 99.7, '06A-IV': 99.4, '06B-II': 94.8, '06A-V': 93.2, '06A-III': 91.3}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257305,"{'09A': 98.1, '09V': 97.9, '09N': 39.5, '09L': 37.6, '11F': 26.6}",1,98.1,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026075,"{'09A': 99.7, '09V': 99.5, '09N': 38.6, '09L': 36.6, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300955,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235975,"{'15C': 87.7, '15B': 87.6, '15A': 60.9, '15F': 48.0, '23A': 31.3}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330035,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286115,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 89.6, '06A': 87.7, '06A-III': 86.1}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287735,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252985,"{'06A-II': 96.2, '06A-VI': 96.2, '06B-II': 94.9, '06A-V': 94.1, '06A': 91.8}",1,96.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223755,"{'23F': 93.9, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.3}",1,93.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026535,"{'08': 99.5, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.2, '06B-II': 24.1}",1,99.5,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298465,"{'10B': 99.3, '10A': 65.2, '10F': 20.1, '10C': 18.8, '22F': 14.0}",1,99.3,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332345,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258415,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017855,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259995,"{'14': 92.4, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310755,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215075,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321535,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222775,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.7, '06B-II': 35.1, '06A-V': 34.9}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232065,"{'06C-I': 88.7, '06C': 88.6, '06D': 86.5, '06A-I': 77.3, '06B': 77.0}",1,88.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001204495,"{'06C': 85.6, '06C-I': 85.6, '06D': 84.6, '06A': 76.9, '06A-IV': 73.3}",1,85.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251855,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326705,"{'19A-I': 99.2, '19A-II': 97.5, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001117565,"{'19F-I': 95.3, '19F': 95.0, '19F-III': 93.5, '19F-II': 92.2, '19F-IV': 88.2}",1,95.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227375,"{'23F': 94.0, '23A': 63.5, '28A': 48.3, '23B': 47.0, '06A-III': 46.2}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335415,"{'01': 6.9, '45': 6.3, '20': 5.4, '36': 5.4, '25F': 5.2}",2,6.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293345,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001348115,"{'14': 94.6, '36': 26.2, '09L': 24.9, '09N': 24.2, '15B': 24.2}",1,94.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063755,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235955,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281295,"{'21': 95.8, '22F': 35.5, '06A-III': 33.9, '06B-I': 33.8, '06A-IV': 33.1}",1,95.8,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026525,"{'09N': 99.9, '09L': 89.1, '09A': 32.7, '09V': 32.7, '36': 30.8}",1,99.9,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292225,"{'06C-I': 87.8, '06C': 87.7, '06D': 87.1, '06A-I': 77.9, '06B': 77.6}",1,87.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252305,"{'29': 98.9, '39': 21.0, '35F': 19.4, '22F': 16.5, '35B': 16.4}",1,98.9,,29,,,{},{},29,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024835,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.4, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300795,"{'23F': 96.5, '23A': 63.8, '23B': 47.9, '28A': 47.6, '06B-II': 46.1}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001202935,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217575,"{'23A': 99.6, '23F': 67.3, '23B': 43.2, '19F-II': 37.7, '15B': 37.0}",1,99.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900064285,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001159005,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243145,"{'23F': 93.9, '23A': 63.4, '28A': 48.4, '23B': 46.9, '06A-III': 46.4}",1,93.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247955,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001123745,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313055,"{'14': 93.2, '36': 27.3, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223975,"{'13': 83.3, '36': 28.8, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001345615,"{'09L': 97.7, '09N': 87.9, '36': 32.5, '09A': 31.4, '09V': 31.4}",1,97.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245005,"{'15C': 87.8, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342015,"{'19F': 94.7, '19F-I': 93.9, '19F-III': 93.1, '19F-II': 91.5, '19F-IV': 87.8}",1,94.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300785,"{'12F': 95.8, '12B': 93.2, '44': 92.8, '12A': 84.7, '46': 81.6}",1,95.8,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283835,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047695,"{'03': 95.2, '01': 17.2, '36': 16.4, '09N': 15.7, '20': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254575,"{'03': 97.4, '01': 17.8, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023655,"{'09A': 99.7, '09V': 99.5, '09N': 38.2, '09L': 36.8, '06A-IV': 27.4}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289495,"{'01': 92.2, '19F': 33.3, '19F-I': 32.6, '19F-III': 32.5, '19F-II': 32.4}",1,92.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332685,"{'05': 95.3, '45': 22.5, '36': 21.7, '20': 20.3, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339325,"{'05': 95.2, '45': 22.3, '36': 21.8, '20': 20.1, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169935,"{'14': 92.6, '36': 28.5, '09L': 25.1, '09N': 24.3, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229215,"{'04': 99.7, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256615,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001115825,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 89.5, '06A': 87.7, '06A-III': 86.0}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262555,"{'15C': 87.8, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050535,"{'06A-II': 93.8, '06A-VI': 93.8, '06B-II': 88.2, '06A-V': 87.7, '06A': 87.3}",1,93.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221795,"{'21': 99.1, '22F': 35.7, '06A-IV': 30.9, '06B': 30.2, '06A': 30.1}",1,99.1,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243525,"{'17F': 82.4, '06A-I': 42.1, '06B': 41.7, '06A': 41.2, '22F': 40.3}",1,82.4,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189595,"{'06B-I': 99.5, '06A-III': 97.4, '06B-II': 90.1, '06A': 89.8, '06A-V': 88.2}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001134545,"{'23A': 96.6, '23F': 67.7, '23B': 45.9, '19F-II': 39.4, '15B': 38.5}",1,96.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001110485,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000007045,"{'02': 57.6, '06C': 23.4, '06B-I': 23.4, '06C-I': 23.4, '06A-II': 23.1}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338735,"{'19F-I': 95.3, '19F': 95.0, '19F-III': 93.5, '19F-II': 92.2, '19F-IV': 88.2}",1,95.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030665,"{'06B-I': 99.6, '06A-III': 97.5, '06B-II': 90.1, '06A': 89.8, '06A-IV': 88.9}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303815,"{'04': 99.0, '45': 33.0, '12F': 23.4, '44': 23.2, '12A': 22.3}",1,99.0,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243405,"{'19A': 99.5, '19A-III': 99.3, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,99.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001146665,"{'35B': 99.8, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304505,"{'15A': 99.6, '15F': 73.9, '15C': 62.3, '15B': 62.2, '23F': 31.3}",1,99.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239485,"{'23B': 88.1, '23B1': 61.3, '23F': 38.5, '28A': 33.3, '23A': 33.0}",1,88.1,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001152365,"{'06E': 100.0, '06B-III': 99.3, '06B-I': 46.7, '06A-III': 46.2, '06A-II': 45.2}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019397525,"{'10B': 99.8, '10A': 65.5, '10F': 20.1, '10C': 18.8, '22F': 13.9}",1,99.8,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900046945,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001154925,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194095,"{'10A': 93.9, '10B': 64.7, '10C': 29.0, '10F': 19.4, '47A': 16.3}",1,93.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322805,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241965,"{'08': 99.5, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.5,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231145,"{'04': 99.7, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331075,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260225,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001301995,"{'06A': 100.0, '06A-IV': 99.6, '06B-II': 95.4, '06A-V': 93.7, '06A-III': 91.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001093865,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001153645,"{'36': 12.4, '20': 8.0, '06A-IV': 7.5, '06C': 6.1, '06B-I': 6.1}",2,12.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228705,"{'19F': 97.3, '19F-I': 96.3, '19F-III': 95.5, '19F-II': 95.4, '19F-IV': 90.9}",1,97.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001302075,"{'23B': 99.2, '23B1': 52.9, '23F': 45.8, '23A': 39.9, '06A-IV': 36.5}",1,99.2,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001161865,"{'17F': 99.5, '06B': 44.2, '06B-I': 44.1, '06A-III': 44.0, '06D': 43.6}",1,99.5,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304745,"{'06A-I': 98.4, '06B': 94.4, '06A-V': 89.4, '06A': 87.5, '06A-III': 85.9}",1,98.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900618545,"{'01': 98.6, '19F': 32.0, '19F-I': 31.5, '19F-III': 31.3, '19F-II': 31.0}",1,98.6,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227665,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224395,"{'19F': 97.4, '19F-I': 96.4, '19F-III': 95.6, '19F-II': 95.5, '19F-IV': 91.0}",1,97.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302555,"{'03': 94.9, '01': 17.8, '36': 17.4, '20': 16.1, '09N': 15.8}",1,94.9,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322275,"{'06A-II': 95.6, '06A-VI': 95.6, '06B-II': 89.5, '06A-V': 89.1, '06A-III': 88.5}",1,95.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227115,"{'04': 99.7, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229555,"{'06A-II': 95.1, '06A-VI': 95.1, '06B-II': 89.0, '06A-V': 88.6, '06A-III': 88.0}",1,95.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340365,"{'11D': 80.2, '11A': 78.9, '11F': 45.3, '11B': 34.7, '11C': 31.0}",1,80.2,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300565,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306745,"{'04': 98.3, '45': 34.9, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298005,"{'06A-II': 92.5, '06A-VI': 92.5, '06B-II': 88.9, '06A-V': 88.5, '06A-III': 87.9}",1,92.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021575,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001164105,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309115,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245305,"{'14': 100.0, '09L': 26.7, '36': 25.9, '09N': 24.9, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266345,"{'19F-I': 99.7, '19F': 96.7, '19F-III': 96.7, '19F-II': 93.9, '19F-IV': 89.3}",1,99.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001094345,"{'19F-I': 92.7, '19F': 92.4, '19F-III': 90.9, '19F-II': 89.6, '19F-IV': 85.4}",1,92.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291695,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299655,"{'35B': 99.4, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302705,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001329295,"{'06E': 99.2, '06B-III': 98.8, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258955,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001157825,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311895,"{'04': 98.3, '45': 34.0, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169435,"{'14': 92.7, '36': 28.4, '09L': 24.4, '15B': 24.2, '15C': 24.1}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234355,"{'09N': 99.9, '09L': 88.9, '09A': 32.7, '09V': 32.7, '36': 32.0}",1,99.9,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216635,"{'06E': 89.7, '06B-III': 89.1, '06B-I': 53.9, '06A-III': 53.4, '06A-II': 53.2}",1,89.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260435,"{'04': 99.8, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001584865,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294165,"{'09A': 99.6, '09V': 99.4, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.6,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001104285,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269435,"{'06E': 99.6, '06B-III': 99.2, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168175,"{'14': 93.1, '36': 26.9, '15B': 24.3, '15C': 24.2, '09L': 24.0}",1,93.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001108305,"{'36': 11.6, '20': 8.1, '01': 6.8, '45': 6.5, '06B-I': 6.1}",1,11.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301445,"{'03': 75.1, '20': 7.9, '01': 7.2, '36': 7.1, '22F': 6.8}",1,75.1,,3,,,{},{},3,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275775,"{'06A-III': 94.7, '06B-I': 93.3, '06A': 90.3, '06A-IV': 89.7, '06B-II': 89.4}",1,94.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021022685,"{'02': 57.6, '06C': 23.4, '06B-I': 23.4, '06C-I': 23.4, '06A-II': 23.1}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267175,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297275,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001145665,"{'06A': 90.1, '06A-III': 90.0, '06A-II': 89.9, '06A-VI': 89.9, '06B-II': 89.9}",1,90.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232535,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.6}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053555,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001155065,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001164885,"{'23A': 99.2, '23F': 67.3, '23B': 43.6, '19F-II': 37.4, '19F-IV': 37.0}",1,99.2,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270165,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001145245,"{'36': 10.6, '20': 7.6, '06A-IV': 7.0, '06B-I': 5.9, '45': 5.7}",1,10.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001090345,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901905305,"{'06A-I': 99.8, '06B': 94.3, '06A-V': 89.4, '06A': 86.9, '06A-III': 86.1}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056785,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285145,"{'11F': 61.8, '11D': 38.4, '11A': 36.8, '09V': 25.4, '09A': 25.3}",1,61.8,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398655,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327205,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307555,"{'03': 95.8, '20': 17.9, '01': 17.8, '36': 16.4, '09L': 16.1}",1,95.8,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218995,"{'20': 83.8, '09L': 25.4, '13': 25.2, '09N': 24.2, '47F': 23.7}",1,83.8,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033835,"{'22F': 98.8, '22A': 73.1, '06A': 42.3, '06B': 41.8, '06A-II': 41.6}",1,98.8,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017405,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.4, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309515,"{'15C': 95.8, '15B': 95.6, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270215,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321185,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001089525,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240115,"{'14': 91.7, '19F-IV': 25.8, '09L': 25.0, '09N': 25.0, '36': 24.7}",1,91.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299795,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",2,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245665,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.5, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338005,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277645,"{'21': 91.7, '22F': 36.7, '06A-IV': 31.6, '06A-II': 31.2, '06A-VI': 31.2}",1,91.7,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057435,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244015,"{'16F': 71.4, '28F': 43.1, '28A': 40.6, '18F': 33.5, '18A': 32.5}",1,71.4,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001199075,"{'14': 95.1, '36': 25.6, '09L': 24.3, '15B': 24.3, '15C': 24.2}",1,95.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294995,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290365,"{'19A-I': 98.0, '19A-II': 97.1, '19A': 86.5, '19A-III': 86.3, '19AF': 61.8}",1,98.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056115,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900064265,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026095,"{'04': 99.7, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292775,"{'11D': 96.3, '11A': 95.1, '11F': 43.2, '11C': 36.2, '11B': 34.8}",1,96.3,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001102565,"{'36': 11.0, '06A-IV': 6.6, '23B1': 5.7, '20': 5.5, '06B-I': 5.4}",1,11.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248545,"{'06A-II': 85.7, '06A-VI': 85.7, '06A-III': 85.6, '06A-V': 85.2, '06B-I': 84.2}",1,85.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277425,"{'10A': 99.1, '10B': 66.8, '10C': 27.7, '10F': 18.1, '22F': 15.4}",1,99.1,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001109365,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001149405,"{'10B': 99.4, '10A': 65.2, '10F': 20.1, '10C': 18.8, '22F': 13.7}",1,99.4,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001336575,"{'23B1': 98.8, '23B': 55.9, '19A-II': 36.0, '19A-I': 35.7, '19AF': 31.5}",1,98.8,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225965,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344615,"{'19F-I': 95.3, '19F': 95.0, '19F-III': 93.5, '19F-II': 92.2, '19F-IV': 88.2}",1,95.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001299815,"{'19A': 99.5, '19A-III': 99.3, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,99.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001123085,"{'45': 6.4, '20': 5.4, '36': 5.4, '25F': 5.2, '25A': 5.0}",2,6.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307435,"{'06A-II': 88.6, '06A-VI': 88.6, '06A-III': 88.5, '06B-II': 87.7, '06A': 87.4}",1,88.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326585,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245565,"{'03': 95.3, '01': 17.5, '36': 16.6, '20': 15.9, '09N': 15.7}",1,95.3,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222435,"{'19F-I': 97.8, '19F': 97.1, '19F-III': 96.6, '19F-II': 95.1, '19F-IV': 90.2}",1,97.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001150645,"{'01': 99.3, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248495,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226895,"{'19F': 97.4, '19F-I': 96.4, '19F-III': 95.6, '19F-II': 95.5, '19F-IV': 91.0}",1,97.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001162465,"{'06E': 100.0, '06B-III': 99.1, '06B-I': 46.6, '06A-III': 46.1, '06A-II': 45.1}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031955,"{'03': 95.2, '01': 17.2, '36': 16.6, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327245,"{'06D': 93.9, '06C-I': 85.6, '06C': 85.5, '06A-III': 79.4, '06B-I': 79.4}",1,93.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 89.0']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279065,"{'20': 86.2, '36': 27.2, '09L': 25.9, '13': 25.6, '47F': 24.6}",1,86.2,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001196955,"{'06D': 95.4, '06C': 87.5, '06C-I': 87.5, '06B-I': 75.6, '06A-III': 75.2}",1,95.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 89.0']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276125,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.7, '06B-II': 35.1, '06A-V': 34.9}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054795,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322485,"{'15C': 90.8, '15B': 90.6, '15A': 63.0, '15F': 48.8, '23A': 31.1}",1,90.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248375,"{'33D': 80.3, '33B': 75.4, '06A-I': 36.8, '06B': 35.4, '06A-IV': 35.3}",1,80.3,,"Mixed serotypes- {'33B', '33D'}",,,{},{},"Mixed serotypes- {'33B', '33D'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001131305,"{'19B': 95.7, '19C': 70.0, '19F-II': 53.9, '19F-I': 53.1, '19F': 53.0}",1,95.7,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019399405,"{'05': 95.3, '45': 22.6, '36': 21.4, '20': 19.9, '04': 19.4}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275025,"{'23F': 96.7, '23A': 63.8, '06A-IV': 50.8, '23B': 50.3, '06B-II': 48.5}",1,96.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330215,"{'23A': 95.1, '23F': 68.0, '23B': 43.2, '19F-II': 40.0, '15B': 39.1}",1,95.1,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001101945,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219785,"{'19F-I': 96.4, '19F': 96.1, '19F-III': 94.5, '19F-II': 93.3, '19F-IV': 89.2}",1,96.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_909594595,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289115,"{'14': 94.9, '36': 26.4, '09L': 25.3, '09N': 25.1, '15B': 24.3}",1,94.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265855,"{'14': 91.5, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299315,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001098505,"{'28F': 98.6, '28A': 92.2, '23F': 47.6, '16F': 46.0, '06B-I': 42.5}",1,98.6,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020139725,"{'35B': 99.8, '33F': 33.5, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000251965,"{'09A': 99.5, '09V': 99.3, '09N': 38.5, '09L': 36.6, '11F': 26.6}",1,99.5,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215765,"{'17F': 82.5, '06A-I': 42.2, '06B': 41.8, '06A': 41.2, '06A-III': 40.5}",1,82.5,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243775,"{'16F': 71.1, '28F': 42.9, '28A': 40.4, '18F': 33.4, '18A': 33.3}",1,71.1,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900064835,"{'22F': 98.9, '22A': 73.4, '06A-IV': 43.5, '06A': 42.6, '06B': 42.1}",1,98.9,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001128565,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278425,"{'06A-III': 94.8, '06B-I': 93.4, '06A': 90.3, '06A-IV': 89.5, '06B-II': 89.4}",1,94.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327625,"{'23A': 97.1, '23F': 68.8, '23B': 40.1, '19F-II': 39.2, '15B': 38.8}",1,97.1,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_006376345,"{'09A': 99.7, '09V': 99.5, '09N': 38.1, '09L': 36.1, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224325,"{'35B': 99.4, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001122005,"{'19F-I': 95.9, '19F': 95.6, '19F-III': 94.0, '19F-II': 92.8, '19F-IV': 88.8}",1,95.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239445,"{'21': 99.8, '22F': 36.1, '06A-IV': 32.9, '06A-II': 32.2, '06A-VI': 32.1}",1,99.8,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001104425,"{'45': 6.8, '25F': 5.7, '25A': 5.5, '20': 5.4, '36': 5.4}",3,6.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001119585,"{'19F-I': 95.5, '19F': 95.2, '19F-III': 93.7, '19F-II': 92.4, '19F-IV': 88.4}",1,95.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001143445,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231725,"{'01': 99.1, '19F': 32.0, '19F-I': 31.5, '19F-III': 31.3, '19F-II': 31.0}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219075,"{'09L': 99.4, '09N': 90.2, '36': 32.8, '09A': 31.5, '09V': 31.5}",1,99.4,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021022085,"{'02': 57.6, '06C': 23.4, '06B-I': 23.4, '06C-I': 23.4, '06A-II': 23.1}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001191775,"{'01': 96.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,96.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276625,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.5, '46': 81.4}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054995,"{'22F': 98.8, '22A': 73.4, '06A': 42.6, '06A-II': 41.9, '06B-II': 41.9}",1,98.8,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001136665,"{'14': 89.9, '36': 29.4, '09L': 23.2, '09N': 22.2, '19F-II': 22.2}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234365,"{'15A': 99.6, '15F': 73.9, '15C': 62.3, '15B': 62.2, '23F': 31.3}",1,99.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323045,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001138425,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231765,"{'09L': 99.4, '09N': 90.2, '36': 32.8, '09A': 31.5, '09V': 31.5}",1,99.4,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220275,"{'06C-I': 89.3, '06C': 89.2, '06D': 84.3, '06B-I': 77.3, '06A-III': 76.9}",1,89.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263265,"{'06E': 99.7, '06B-III': 97.5, '06B-I': 45.3, '06A-III': 44.8, '06B-II': 44.0}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170185,"{'14': 92.6, '36': 28.5, '09L': 24.9, '15B': 24.2, '15C': 24.1}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246435,"{'23F': 99.0, '23A': 64.8, '23B': 47.6, '28A': 47.5, '06A-V': 45.8}",1,99.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334045,"{'05': 95.1, '45': 22.4, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.1,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335225,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344935,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245365,"{'35A': 94.4, '35C': 89.7, '42': 89.1, '33A': 46.3, '33F': 45.9}",1,94.4,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228565,"{'23F': 92.4, '23A': 61.1, '28A': 48.1, '23B': 46.6, '06A-IV': 46.6}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224875,"{'14': 94.2, '36': 26.2, '09L': 25.6, '09N': 24.6, '15B': 24.3}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001328995,"{'06E': 99.9, '06B-III': 96.1, '06B-I': 43.5, '06A-III': 43.0, '06A-I': 42.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001162225,"{'14': 89.9, '36': 29.2, '09L': 23.5, '09N': 22.2, '19F-II': 22.2}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260155,"{'19F': 97.1, '19F-I': 96.1, '19F-III': 95.3, '19F-II': 95.2, '19F-IV': 90.7}",1,97.1,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332135,"{'06A-III': 85.9, '06A-II': 85.6, '06A-VI': 85.6, '06A-V': 84.9, '06B-I': 84.5}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280515,"{'14': 94.3, '36': 25.8, '09L': 25.2, '09N': 24.7, '15B': 24.3}",1,94.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194685,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329005,"{'23F': 96.4, '23A': 63.1, '06A-IV': 48.7, '23B': 48.3, '28A': 47.1}",1,96.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282595,"{'03': 95.2, '36': 17.4, '01': 16.8, '09N': 15.7, '20': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244335,"{'23F': 94.1, '23A': 63.4, '28A': 47.7, '23B': 47.1, '06A': 46.9}",1,94.1,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262875,"{'23A': 97.5, '23F': 68.8, '23B': 40.1, '19F-II': 39.2, '15B': 38.8}",1,97.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231465,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286225,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300455,"{'22F': 98.6, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-I': 41.8}",1,98.6,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169005,"{'09A': 99.4, '09V': 99.2, '09N': 36.9, '09L': 35.5, '11F': 26.6}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269135,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052705,"{'19A': 97.7, '19A-III': 97.5, '19A-I': 83.9, '19A-II': 81.4, '19AF': 55.2}",1,97.7,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317205,"{'07A': 97.3, '07F': 97.1, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,97.3,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332365,"{'10B': 93.7, '10A': 69.9, '10F': 20.0, '10C': 18.7, '22F': 14.2}",1,93.7,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242365,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302195,"{'19A-I': 99.0, '19A-II': 97.3, '19A': 87.6, '19A-III': 87.4, '19AF': 61.8}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222675,"{'06B-I': 99.7, '06A-III': 97.6, '06B-II': 90.3, '06A': 89.8, '06A-V': 88.4}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312235,"{'23F': 92.4, '23A': 61.1, '28A': 48.1, '23B': 46.6, '06A-IV': 46.6}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260235,"{'16F': 71.7, '28F': 43.6, '28A': 40.8, '18F': 33.9, '18A': 33.7}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001164385,"{'19F-I': 95.5, '19F': 95.2, '19F-III': 93.7, '19F-II': 92.4, '19F-IV': 88.4}",1,95.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021022035,"{'02': 57.6, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001116425,"{'23F': 96.4, '23A': 63.1, '06A-IV': 48.8, '23B': 48.3, '28A': 47.2}",1,96.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245115,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221685,"{'04': 99.2, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266285,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236615,"{'15A': 98.3, '15F': 72.9, '15C': 61.6, '15B': 61.5, '23F': 32.2}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226215,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001140085,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335715,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 32.7}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065565,"{'03': 95.8, '20': 17.9, '01': 17.7, '36': 16.4, '09L': 16.1}",1,95.8,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325025,"{'20': 78.8, '47F': 28.0, '09L': 25.8, '13': 25.2, '09N': 25.1}",1,78.8,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346135,"{'15C': 87.8, '15B': 87.7, '15A': 64.6, '15F': 50.0, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322665,"{'01': 99.1, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347955,"{'19B': 91.7, '19C': 70.5, '19F-II': 49.3, '19F-IV': 49.3, '19F-I': 48.5}",1,91.7,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251055,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315365,"{'14': 99.0, '09L': 26.9, '36': 25.9, '09N': 24.3, '15B': 24.0}",1,99.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236905,"{'08': 96.3, '02': 23.8, '06A': 22.6, '22F': 22.6, '35B': 22.1}",1,96.3,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047885,"{'18C': 99.7, '18B': 99.6, '18F': 75.7, '18A': 62.5, '16F': 39.2}",1,99.7,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337335,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303755,"{'14': 93.0, '36': 27.3, '09L': 25.8, '09N': 25.5, '15B': 24.3}",1,93.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257805,"{'40': 99.6, '07B': 93.9, '07C': 75.4, '24F2': 48.2, '24F': 47.9}",1,99.6,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300655,"{'14': 99.8, '09L': 26.8, '36': 25.8, '09N': 24.5, '15B': 24.3}",1,99.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273185,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258565,"{'34': 93.0, '33F2': 34.7, '35B': 32.1, '33F': 29.0, '33C': 28.0}",1,93.0,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026135,"{'06A-I': 99.5, '06B': 94.0, '06A-V': 89.2, '06A': 86.6, '06A-III': 85.9}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265305,"{'23F': 96.7, '23A': 63.8, '23B': 47.9, '28A': 47.6, '06B-II': 46.1}",1,96.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308355,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342135,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001160605,"{'06C': 85.6, '06C-I': 85.6, '06D': 84.7, '06A': 77.0, '06A-IV': 73.3}",1,85.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259145,"{'06B-III': 94.4, '06E': 93.9, '06A-III': 46.8, '06B-I': 46.6, '06A-II': 46.4}",1,94.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236775,"{'35B': 92.7, '34': 33.8, '33F': 33.4, '35C': 32.4, '33D': 32.1}",1,92.7,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001203855,"{'06C': 85.2, '06C-I': 85.2, '06D': 84.2, '06A': 76.9, '06A-IV': 73.3}",1,85.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226225,"{'06A-II': 95.4, '06A-VI': 95.4, '06B-II': 89.3, '06A-V': 88.9, '06A-III': 88.3}",1,95.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232225,"{'19A': 99.7, '19A-III': 99.5, '19A-I': 85.9, '19A-II': 83.4, '19AF': 56.9}",1,99.7,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215275,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001109125,"{'34': 92.9, '33F2': 34.7, '35B': 31.4, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239855,"{'14': 80.1, '35B': 20.1, '15B': 19.7, '15C': 19.2, '06B-I': 18.7}",1,80.1,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019397805,"{'06A-III': 98.5, '06B-I': 97.8, '06B-II': 90.9, '06A': 89.8, '06A-V': 89.5}",1,98.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030185,"{'23F': 99.2, '23A': 65.4, '23B': 49.0, '28A': 48.1, '06A-IV': 47.3}",1,99.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308295,"{'06A-II': 98.9, '06A-VI': 98.9, '06B-II': 92.1, '06A-V': 91.3, '06A-III': 88.8}",1,98.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242975,"{'01': 99.2, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254325,"{'01': 99.0, '19F': 32.2, '19F-I': 31.7, '19F-III': 31.5, '19F-II': 31.2}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192525,"{'23B1': 99.9, '23B': 55.8, '19A-II': 36.2, '19A-I': 35.9, '19AF': 31.7}",1,99.9,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001330075,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339635,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280385,"{'01': 99.1, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224825,"{'35B': 99.4, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261795,"{'23F': 96.7, '23A': 63.8, '06A-IV': 50.3, '23B': 50.0, '06B-II': 48.1}",1,96.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252215,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.7, '19A-III': 87.5, '19AF': 62.0}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001329815,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288145,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242195,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316665,"{'23F': 99.3, '23A': 65.5, '23B': 49.1, '28A': 48.2, '06A-IV': 47.3}",1,99.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020095,"{'10A': 99.3, '10B': 66.4, '10C': 27.4, '10F': 17.8, '22F': 14.4}",1,99.3,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340345,"{'17F': 82.2, '06A-I': 42.2, '06B': 41.8, '06A': 41.2, '22F': 40.7}",1,82.2,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289555,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237995,"{'01': 99.2, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253905,"{'06A-II': 95.5, '06A-VI': 95.5, '06B-II': 89.4, '06A-V': 89.0, '06A-III': 88.4}",1,95.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305805,"{'23F': 92.4, '23A': 61.1, '28A': 48.1, '23B': 46.6, '06A-IV': 46.6}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272735,"{'19F-IV': 73.6, '19F-II': 73.4, '19F': 72.5, '19F-I': 71.7, '19F-III': 71.4}",1,73.6,,19F,,,{},{},19F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337105,"{'33F2': 99.8, '33F': 74.7, '33A': 70.3, '34': 41.7, '35B': 32.5}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233245,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001860785,"{'22F': 98.6, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,98.6,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017175,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228575,"{'06A-II': 88.6, '06A-VI': 88.6, '06A-III': 88.5, '06B-II': 87.7, '06A': 87.4}",1,88.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001173625,"{'04': 98.3, '45': 33.7, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265375,"{'15C': 89.6, '15B': 89.5, '15A': 62.5, '15F': 49.3, '23A': 31.0}",1,89.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312615,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225955,"{'11D': 99.9, '11A': 97.1, '11F': 41.9, '11C': 35.9, '11B': 34.4}",1,99.9,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001169785,"{'14': 89.9, '36': 29.3, '09L': 23.9, '09N': 22.8, '19F-II': 22.2}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335405,"{'24F2': 99.6, '24B': 88.4, '24F': 86.9, '24A': 71.4, '07B': 55.2}",1,99.6,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001144765,"{'35A': 99.7, '35C': 85.0, '42': 84.4, '33A': 42.9, '33F': 42.6}",1,99.7,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287225,"{'14': 96.8, '36': 25.1, '09L': 24.4, '15B': 23.7, '09N': 23.6}",1,96.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001132325,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323905,"{'14': 92.5, '36': 28.9, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029395,"{'19F-I': 99.1, '19F': 96.3, '19F-III': 96.3, '19F-II': 93.5, '19F-IV': 89.3}",1,99.1,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_909594635,"{'14': 92.7, '36': 28.9, '09L': 25.8, '09N': 24.3, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289085,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272595,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308235,"{'33D': 80.6, '33B': 76.6, '06A-I': 36.6, '06B': 36.0, '35B': 35.9}",1,80.6,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237075,"{'23A': 99.6, '23F': 67.2, '23B': 43.5, '19F-II': 37.8, '15B': 37.2}",1,99.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027775,"{'09N': 99.6, '09L': 89.1, '09A': 32.7, '09V': 32.7, '36': 32.3}",1,99.6,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281425,"{'04': 99.5, '45': 33.2, '12A': 26.8, '46': 26.7, '12F': 23.4}",1,99.5,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221225,"{'07B': 99.7, '40': 92.7, '07C': 77.2, '24F2': 48.1, '24F': 47.5}",1,99.7,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324795,"{'02': 92.4, '22F': 40.0, '06B-I': 38.7, '06A-III': 38.6, '06A-II': 38.5}",1,92.4,,2,,,{},{},2,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295535,"{'19A-I': 99.2, '19A-II': 97.5, '19A': 87.8, '19A-III': 87.6, '19AF': 62.0}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266995,"{'06A-III': 94.8, '06B-I': 93.4, '06A': 90.3, '06A-IV': 89.5, '06B-II': 89.4}",1,94.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330755,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303485,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 96.61]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308175,"{'19F-I': 99.8, '19F': 96.8, '19F-III': 96.8, '19F-II': 94.0, '19F-IV': 89.4}",1,99.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254315,"{'06E': 100.0, '06B-III': 99.3, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001334755,"{'34': 92.9, '33F2': 34.7, '35B': 31.6, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001194015,"{'35B': 98.8, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,98.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293415,"{'18C': 86.5, '18B': 86.4, '18F': 75.5, '18A': 60.5, '16F': 36.6}",1,86.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213755,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273385,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.0, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299075,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265155,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.7, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315885,"{'23F': 99.2, '23A': 65.5, '23B': 49.1, '28A': 48.2, '06A-IV': 47.3}",1,99.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057885,"{'23A': 97.6, '23F': 68.9, '23B': 40.1, '19F-II': 39.3, '15B': 38.7}",1,97.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901212795,"{'09N': 97.7, '09L': 87.5, '09A': 32.4, '09V': 32.4, '36': 29.3}",1,97.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226115,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315585,"{'02': 93.2, '22F': 40.3, '06B-I': 39.0, '06A-III': 38.9, '06A-II': 38.7}",1,93.2,,2,,,{},{},2,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251135,"{'34': 95.0, '33F2': 34.6, '35B': 32.7, '33F': 29.6, '33C': 28.4}",1,95.0,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168255,"{'09A': 99.7, '09V': 99.5, '09N': 37.0, '09L': 35.5, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049745,"{'04': 98.3, '45': 33.9, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023545,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241125,"{'23F': 92.4, '23A': 61.1, '28A': 48.1, '23B': 46.6, '06A-IV': 46.6}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002529515,"{'18C': 99.7, '18B': 99.6, '18F': 75.6, '18A': 62.4, '16F': 39.2}",1,99.7,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245775,"{'01': 99.1, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313265,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232255,"{'11D': 99.8, '11A': 97.0, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,99.8,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341235,"{'15C': 90.5, '15B': 90.4, '15A': 62.8, '15F': 48.7, '23A': 31.1}",1,90.5,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276115,"{'14': 93.7, '36': 26.2, '09L': 25.4, '09N': 24.5, '15B': 24.3}",1,93.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249005,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268865,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327915,"{'19F-I': 95.9, '19F': 95.6, '19F-III': 94.0, '19F-II': 92.8, '19F-IV': 88.9}",1,95.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001106925,"{'06C': 85.4, '06C-I': 85.4, '06D': 84.5, '06A': 76.8, '06A-IV': 73.1}",1,85.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261625,"{'08': 99.7, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.7,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310385,"{'17F': 82.3, '06A-I': 42.2, '06B': 41.8, '06A': 41.2, '06A-III': 40.5}",1,82.3,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278535,"{'35B': 99.3, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.3,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332755,"{'06A-I': 99.4, '06B': 95.1, '06A': 87.6, '06A-V': 86.9, '06A-III': 83.3}",1,99.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253165,"{'33F2': 98.5, '33F': 75.1, '33A': 70.8, '34': 42.5, '35B': 32.8}",1,98.5,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001143125,"{'06A-III': 98.2, '06B-I': 96.6, '06A': 90.5, '06B-II': 90.2, '06A-V': 89.3}",1,98.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260675,"{'14': 92.5, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336195,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192585,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-I': 41.8}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238815,"{'01': 99.5, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232915,"{'06A-II': 95.9, '06A-VI': 95.9, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.7}",1,95.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900476505,"{'16F': 71.7, '28F': 43.2, '28A': 40.7, '18F': 33.7, '18A': 33.6}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243425,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001095525,"{'23F': 94.5, '23A': 63.6, '06A-IV': 49.6, '23B': 48.4, '28A': 47.7}",1,94.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001138165,"{'25F': 7.3, '25A': 7.2, '36': 6.8, '45': 5.5, '22F': 5.4}",1,7.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189855,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227425,"{'06B-I': 98.8, '06A-III': 96.7, '06A': 89.8, '06B-II': 89.5, '06A-V': 87.6}",1,98.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022535,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232705,"{'17F': 95.2, '22F': 45.0, '06B': 44.2, '06B-I': 43.9, '06A-III': 43.8}",1,95.2,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001087325,"{'36': 7.3, '20': 5.5, '25F': 4.7, '06A-IV': 4.7, '25A': 4.5}",1,7.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030855,"{'03': 95.2, '01': 17.3, '36': 16.5, '20': 15.8, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321545,"{'23F': 92.2, '23A': 61.1, '28A': 47.9, '23B': 46.6, '06A-IV': 46.4}",1,92.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214035,"{'05': 95.3, '45': 22.4, '36': 21.6, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328205,"{'06A-I': 95.1, '06B': 93.0, '06A-V': 89.4, '06A': 87.3, '06B-II': 86.2}",1,95.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001194305,"{'18F': 79.7, '18B': 73.1, '18C': 73.1, '18A': 60.6, '16F': 45.5}",1,79.7,,"Mixed serotypes- {'18C/18B', '18F'}",,,{},{},"Mixed serotypes- {'18C/18B', '18F'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229545,"{'06E': 100.0, '06B-III': 97.9, '06B-I': 45.6, '06A-III': 45.1, '06A-II': 44.1}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001085945,"{'10B': 99.3, '10A': 65.3, '10F': 20.0, '10C': 18.8, '22F': 13.8}",1,99.3,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170575,"{'14': 92.4, '36': 28.9, '09L': 25.6, '09N': 24.7, '15B': 24.2}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278965,"{'01': 99.3, '19F': 32.2, '19F-I': 31.7, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168435,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001193315,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001154705,"{'11F': 61.6, '11D': 38.3, '11A': 36.8, '09A': 25.2, '09V': 25.2}",1,61.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001107625,"{'05': 95.2, '45': 21.1, '36': 20.6, '12A': 19.7, '46': 19.6}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313685,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269375,"{'01': 7.5, '36': 7.4, '45': 6.6, '25F': 5.7, '20': 5.6}",3,7.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326745,"{'06A': 96.6, '06B': 87.6, '06A-IV': 86.8, '06A-I': 86.5, '06B-II': 86.3}",1,96.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233445,"{'06E': 99.9, '06B-III': 99.4, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001088325,"{'45': 6.8, '25F': 5.6, '20': 5.4, '25A': 5.4, '36': 5.4}",2,6.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236745,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227185,"{'14': 92.7, '36': 28.8, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302745,"{'03': 95.2, '36': 17.4, '01': 16.8, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257105,"{'06A': 96.3, '06B': 87.4, '06A-IV': 86.6, '06A-I': 86.3, '06B-II': 86.1}",1,96.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282195,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328215,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001336215,"{'22A': 94.2, '22F': 77.5, '06A-IV': 45.8, '06A-II': 44.1, '06B-I': 44.1}",1,94.2,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001092125,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297285,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277305,"{'06A-I': 99.2, '06B': 94.9, '06A': 87.7, '06A-V': 86.0, '06A-III': 82.1}",1,99.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338385,"{'14': 94.9, '36': 27.3, '09L': 25.3, '09N': 24.9, '15B': 24.2}",1,94.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255555,"{'06B-I': 99.7, '06A-III': 97.6, '06B-II': 90.3, '06A': 89.8, '06A-V': 88.4}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314905,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279875,"{'23F': 96.0, '23A': 66.0, '28A': 47.3, '06A': 46.0, '28F': 45.1}",1,96.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334475,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270595,"{'01': 7.8, '25F': 6.1, '25A': 5.9, '36': 5.8, '38': 5.2}",4,7.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001091585,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001194145,"{'25F': 6.8, '25A': 6.6, '45': 5.7, '01': 5.0, '36': 4.4}",1,6.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254555,"{'33D': 80.6, '33B': 76.6, '06A-I': 36.6, '06B': 36.0, '35B': 36.0}",1,80.6,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313985,"{'14': 91.4, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001336535,"{'14': 89.9, '36': 29.2, '09L': 23.2, '09N': 22.2, '19F-II': 22.2}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275035,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.9, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001114405,"{'06C': 85.2, '06C-I': 85.2, '06D': 84.2, '06A': 76.9, '06A-IV': 73.3}",1,85.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319745,"{'09N': 97.7, '09L': 87.5, '09A': 32.6, '09V': 32.6, '36': 31.4}",1,97.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241175,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315525,"{'19A': 99.2, '19A-III': 99.0, '19A-I': 86.1, '19A-II': 83.8, '19AF': 57.2}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022135,"{'19F-I': 99.7, '19F': 96.7, '19F-III': 96.7, '19F-II': 93.9, '19F-IV': 89.3}",1,99.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297575,"{'08': 97.8, '06A-II': 25.7, '06A-VI': 25.6, '06B-II': 25.0, '06A-V': 24.7}",1,97.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189005,"{'06B-I': 99.0, '06A-III': 96.9, '06B-II': 89.6, '06A': 89.3, '06A-V': 87.7}",1,99.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220055,"{'21': 91.7, '22F': 36.8, '06A-IV': 31.6, '06A-II': 31.2, '06A-VI': 31.2}",1,91.7,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265775,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900692845,"{'16F': 71.7, '28F': 43.6, '28A': 40.8, '18F': 33.9, '18A': 33.7}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273245,"{'36': 10.7, '06A-IV': 6.7, '23B1': 6.6, '45': 6.3, '20': 5.9}",1,10.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277445,"{'34': 98.6, '33F2': 35.2, '35B': 33.3, '33F': 29.8, '33C': 28.5}",1,98.6,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049735,"{'15C': 84.6, '15B': 84.5, '15A': 58.7, '15F': 46.1, '23A': 31.0}",1,84.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253125,"{'13': 98.9, '09N': 29.1, '20': 28.9, '09L': 28.7, '36': 28.1}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341315,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001136105,"{'03': 95.1, '20': 15.1, '09L': 14.5, '09N': 14.5, '01': 14.2}",1,95.1,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191205,"{'06C-I': 100.0, '06C': 99.8, '06D': 84.6, '06A-II': 79.6, '06A-VI': 79.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267595,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.5, '06A-V': 89.1, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323745,"{'06A-I': 98.5, '06B': 94.5, '06A-V': 89.5, '06A': 87.6, '06A-III': 86.0}",1,98.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250445,"{'23B1': 98.8, '23B': 55.9, '19A-II': 36.0, '19A-I': 35.7, '19AF': 31.5}",1,98.8,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296085,"{'15A': 98.1, '15F': 72.8, '15C': 61.6, '15B': 61.5, '23F': 32.0}",1,98.1,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325335,"{'06B-III': 77.2, '06E': 75.4, '06A-III': 64.2, '06B-I': 63.6, '06A-V': 63.1}",1,77.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237805,"{'07C': 97.9, '07B': 76.5, '40': 75.2, '24B': 48.2, '24F': 47.8}",1,97.9,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001104025,"{'35B': 99.7, '33F': 33.3, '35C': 33.2, '34': 32.9, '35A': 32.8}",1,99.7,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325105,"{'05': 95.2, '45': 22.2, '36': 20.9, '12A': 19.7, '46': 19.6}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302955,"{'03': 98.2, '20': 18.3, '01': 17.4, '09N': 15.6, '09L': 15.5}",1,98.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001097245,"{'11F': 61.8, '11D': 38.4, '11A': 36.8, '09V': 25.4, '09A': 25.3}",1,61.8,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274705,"{'35B': 92.4, '34': 33.8, '33F': 33.4, '35C': 32.4, '33D': 32.1}",1,92.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310705,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328075,"{'09N': 100.0, '09L': 88.9, '09A': 32.7, '09V': 32.7, '36': 31.8}",1,100.0,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243655,"{'19F-II': 99.3, '19F': 95.1, '19F-III': 94.1, '19F-I': 93.8, '19F-IV': 93.0}",1,99.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065475,"{'07A': 99.7, '07F': 99.5, '19F-II': 38.4, '19F-IV': 37.8, '19F': 37.0}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194215,"{'15C': 93.9, '15B': 93.8, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900195095,"{'24F2': 99.5, '24B': 88.4, '24F': 86.9, '24A': 71.1, '07B': 55.1}",1,99.5,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334765,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.8, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245025,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001155265,"{'23F': 93.9, '23A': 63.4, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,93.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318285,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900692485,"{'01': 99.2, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300815,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250225,"{'03': 97.4, '01': 17.8, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001112565,"{'34': 92.9, '33F2': 34.7, '35B': 30.5, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300685,"{'22F': 94.0, '22A': 70.2, '06A-II': 45.3, '06A-VI': 45.2, '06B-I': 45.2}",1,94.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250115,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001171525,"{'15C': 87.8, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000212515,"{'01': 99.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240645,"{'19F-II': 99.3, '19F': 95.5, '19F-III': 94.1, '19F-I': 93.8, '19F-IV': 93.0}",1,99.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001173045,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306995,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306375,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001139725,"{'15C': 87.8, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282395,"{'23F': 95.9, '23A': 63.8, '28A': 48.9, '06A-IV': 48.5, '23B': 48.1}",1,95.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266655,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316905,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191325,"{'22F': 96.3, '22A': 72.9, '06A': 42.3, '06B': 41.9, '06A-II': 41.7}",1,96.3,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234705,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253495,"{'21': 91.7, '22F': 36.8, '06A-IV': 31.6, '06A-II': 31.2, '06A-VI': 31.2}",1,91.7,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193855,"{'28F': 96.4, '28A': 90.9, '16F': 47.2, '23F': 46.5, '06A-IV': 43.6}",1,96.4,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001118065,"{'19B': 95.7, '19C': 70.0, '19F-II': 53.9, '19F-I': 53.1, '19F': 53.0}",1,95.7,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297655,"{'23B1': 99.6, '23B': 56.3, '19A-II': 36.1, '19A-I': 35.9, '19AF': 31.7}",1,99.6,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290165,"{'19A': 99.1, '19A-III': 98.9, '19A-I': 86.1, '19A-II': 83.7, '19AF': 57.2}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278375,"{'15C': 87.7, '15B': 87.6, '15A': 60.9, '15F': 48.0, '23A': 31.3}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289155,"{'10B': 99.3, '10A': 65.2, '10F': 20.1, '10C': 18.8, '22F': 14.0}",1,99.3,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333735,"{'15B': 99.5, '15C': 99.3, '15A': 62.6, '15F': 48.3, '23A': 33.0}",1,99.5,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259495,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055025,"{'35B': 99.8, '33F': 33.7, '35C': 33.3, '34': 33.0, '35A': 32.9}",1,99.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900040655,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341015,"{'09A': 96.0, '09V': 95.8, '09N': 38.5, '09L': 37.4, '11F': 26.7}",1,96.0,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248405,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243045,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001113345,"{'36': 6.8, '45': 6.7, '25F': 6.6, '25A': 6.4, '20': 5.4}",1,6.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000256685,"{'23F': 96.3, '23A': 63.0, '06A-IV': 48.6, '23B': 48.2, '28A': 47.0}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253505,"{'05': 95.1, '45': 22.5, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.1,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900692915,"{'35B': 99.3, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.3,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001199895,"{'09A': 95.2, '09V': 95.0, '09N': 37.7, '09L': 36.3, '11F': 26.6}",1,95.2,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272085,"{'05': 95.3, '45': 22.6, '36': 21.5, '20': 20.0, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193375,"{'35F': 99.1, '47F': 74.6, '34': 27.1, '35B': 26.6, '29': 22.5}",1,99.1,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_018336875,"{'02': 99.8, '06A-II': 40.6, '06A-VI': 40.5, '06B-II': 40.4, '06B-I': 39.9}",1,99.8,,2,,,{},{},2,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233505,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001174445,"{'14': 89.9, '36': 29.4, '09L': 22.9, '19F-II': 22.2, '09N': 21.9}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224845,"{'09A': 99.7, '09V': 99.5, '09N': 38.6, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307825,"{'14': 91.4, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043065,"{'04': 99.7, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324845,"{'07C': 94.0, '07B': 77.1, '40': 76.7, '24B': 48.6, '24F': 47.6}",1,94.0,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232655,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262135,"{'14': 91.5, '36': 26.7, '09L': 26.6, '09N': 26.2, '15B': 23.4}",1,91.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030495,"{'01': 99.8, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274065,"{'19F-I': 97.7, '19F': 97.0, '19F-III': 96.5, '19F-II': 95.0, '19F-IV': 90.1}",1,97.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029595,"{'04': 99.7, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229375,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_909594645,"{'14': 92.4, '36': 28.9, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001140505,"{'36': 10.9, '01': 7.0, '20': 7.0, '45': 6.9, '22F': 5.6}",1,10.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261145,"{'06A-II': 92.4, '06A-VI': 92.4, '06B-II': 89.6, '06A-V': 89.3, '06A-III': 88.1}",1,92.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 84.81']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328995,"{'05': 95.3, '45': 22.3, '36': 21.1, '20': 20.0, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314205,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001121205,"{'36': 11.2, '06A-IV': 8.2, '20': 7.9, '06B-I': 7.0, '06C': 6.9}",1,11.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001099325,"{'31': 99.8, '41A': 57.3, '41F': 49.0, '06A-II': 36.5, '06A-VI': 36.5}",1,99.8,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235505,"{'19B': 82.3, '19C': 66.8, '19F-IV': 39.5, '19F-II': 39.1, '19F-I': 38.5}",1,82.3,,19B,,,{},{},19B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001171805,"{'36': 13.6, '20': 8.8, '23B1': 8.1, '06A-IV': 7.1, '01': 6.2}",2,13.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281405,"{'21': 100.0, '22F': 36.0, '06A-IV': 32.6, '06A-II': 31.9, '06A-VI': 31.8}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268165,"{'38': 98.9, '25F': 84.5, '25A': 83.5, '36': 11.8, '20': 8.2}",1,98.9,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227135,"{'35A': 94.4, '35C': 89.7, '42': 89.1, '33A': 46.3, '33F': 45.9}",1,94.4,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224965,"{'23F': 98.7, '23A': 65.5, '23B': 48.6, '28A': 47.6, '06A-IV': 46.7}",1,98.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001115845,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305785,"{'19F-I': 95.4, '19F': 95.1, '19F-III': 93.5, '19F-II': 92.3, '19F-IV': 88.3}",1,95.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167485,"{'09A': 99.2, '09V': 99.0, '09N': 37.3, '09L': 35.9, '11F': 26.6}",1,99.2,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298785,"{'33F2': 99.2, '33F': 74.7, '33A': 70.3, '34': 41.7, '35B': 32.5}",1,99.2,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331055,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249595,"{'07C': 94.0, '07B': 76.9, '40': 76.4, '24B': 48.6, '24F': 47.6}",1,94.0,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227645,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052425,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303625,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001343195,"{'10F': 98.2, '10C': 80.9, '10B': 22.4, '10A': 19.2, '20': 14.2}",1,98.2,,10F,,,{},{},10F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335995,"{'36': 12.6, '20': 9.4, '06A-IV': 7.7, '06C': 6.5, '45': 6.5}",1,12.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001093465,"{'19A-I': 99.0, '19A-II': 97.4, '19A': 87.6, '19A-III': 87.4, '19AF': 61.6}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273115,"{'14': 94.2, '36': 26.3, '09L': 25.5, '09N': 24.4, '15B': 24.3}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251475,"{'29': 59.6, '35B': 37.2, '35F': 26.8, '22F': 22.8, '33B': 22.8}",1,59.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316945,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294655,"{'38': 89.8, '25F': 86.0, '25A': 85.0, '36': 10.9, '01': 7.9}",1,89.8,25F_25A_38,25F_25A_38,,"[[0], [18]]","{'wcyD': ['b: 22.59'], 'wcyV': 4.69}","{'wcyD': 0, 'wcyV': 'not_detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049865,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265185,"{'17F': 82.3, '06A-I': 42.2, '06B': 41.8, '06A': 41.2, '06A-III': 40.5}",1,82.3,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338205,"{'05': 95.0, '45': 22.6, '36': 21.7, '20': 20.3, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170805,"{'14': 92.6, '36': 28.6, '09L': 24.9, '15B': 24.2, '09N': 24.1}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304705,"{'01': 7.4, '45': 6.3, '25F': 5.8, '25A': 5.6, '22F': 5.0}",2,7.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281765,"{'19A-I': 99.3, '19A-II': 97.3, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216055,"{'06A-II': 95.5, '06A-VI': 95.5, '06B-II': 89.4, '06A-V': 89.0, '06A-III': 88.4}",1,95.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001136905,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001125385,"{'03': 95.2, '36': 16.9, '20': 15.6, '01': 15.0, '09L': 14.5}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301315,"{'15A': 99.8, '15F': 74.2, '15C': 61.9, '15B': 61.8, '23F': 31.5}",1,99.8,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001162985,"{'01': 6.9, '45': 5.8, '25F': 5.7, '20': 5.5, '25A': 5.5}",2,6.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001129685,"{'19A-II': 82.7, '19A-I': 81.3, '19A': 69.6, '19A-III': 69.5, '19AF': 62.0}",1,82.7,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217685,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338285,"{'17F': 82.3, '06A-I': 42.2, '06B': 41.8, '06A': 41.2, '06A-III': 40.5}",1,82.3,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001127525,"{'35F': 91.0, '47F': 67.6, '29': 25.7, '34': 25.3, '35B': 24.0}",1,91.0,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033495,"{'23F': 97.8, '23A': 63.3, '28A': 48.3, '23B': 48.1, '06A-IV': 46.6}",1,97.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318755,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291205,"{'14': 93.2, '36': 27.1, '09L': 25.7, '09N': 25.2, '15B': 24.1}",1,93.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337475,"{'25F': 6.2, '25A': 6.0, '45': 5.9, '22F': 4.8, '38': 4.7}",2,6.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900042365,"{'09N': 100.0, '09L': 88.9, '09A': 32.7, '09V': 32.7, '36': 29.4}",1,100.0,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028575,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030685,"{'23F': 97.0, '23A': 63.9, '23B': 48.0, '28A': 47.7, '06B-II': 46.1}",1,97.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169535,"{'14': 91.4, '36': 27.9, '09L': 25.6, '09N': 24.5, '15B': 23.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001157845,"{'19F-I': 95.4, '19F': 95.2, '19F-III': 93.7, '19F-II': 92.3, '19F-IV': 88.3}",1,95.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242395,"{'19F-I': 97.7, '19F': 97.0, '19F-III': 96.5, '19F-II': 95.0, '19F-IV': 90.1}",1,97.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001207575,"{'36': 10.6, '06A-IV': 7.1, '01': 6.4, '20': 5.9, '06B-I': 5.9}",1,10.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270775,"{'01': 99.1, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307655,"{'06A-I': 98.3, '06B': 94.3, '06A-V': 89.3, '06A': 87.3, '06A-III': 85.8}",1,98.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236485,"{'03': 95.2, '01': 17.1, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309535,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226885,"{'09A': 94.6, '09V': 94.4, '09N': 37.5, '09L': 36.5, '11F': 25.3}",1,94.6,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307835,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 89.6, '06A': 87.7, '06A-III': 86.1}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337575,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330315,"{'23F': 97.0, '23A': 63.9, '28A': 47.7, '28F': 46.0, '06A': 45.0}",1,97.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001113005,"{'37': 56.5, '01': 6.4, '45': 6.2, '25F': 5.7, '20': 5.5}",1,56.5,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273705,"{'14': 93.7, '36': 26.0, '09L': 25.3, '09N': 24.4, '15B': 24.2}",1,93.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334055,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276845,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298615,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021345,"{'12F': 96.7, '44': 93.4, '12B': 92.7, '12A': 80.4, '46': 77.3}",1,96.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223865,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275475,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 32.7}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001115325,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228835,"{'23F': 94.1, '23A': 63.4, '28A': 47.7, '23B': 47.1, '06A': 46.9}",1,94.1,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001348435,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321675,"{'35B': 98.9, '33F': 33.4, '35C': 33.2, '34': 33.0, '35A': 32.8}",1,98.9,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238235,"{'07A': 99.5, '07F': 99.3, '19F-II': 36.7, '19F-IV': 36.1, '19F': 35.2}",1,99.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398585,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288005,"{'10A': 97.5, '10B': 66.4, '10C': 27.4, '10F': 17.8, '22F': 14.7}",1,97.5,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278795,"{'18C': 99.5, '18B': 99.4, '18F': 76.0, '18A': 62.9, '16F': 39.5}",1,99.5,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057865,"{'19A': 97.0, '19A-III': 96.8, '19A-II': 84.6, '19A-I': 84.1, '19AF': 57.1}",1,97.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278695,"{'06A-II': 86.1, '06A-VI': 86.1, '06A-III': 85.8, '06B-I': 84.7, '06A': 84.6}",1,86.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171735,"{'14': 92.6, '36': 28.3, '09L': 24.7, '15B': 24.2, '15C': 24.1}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223885,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300535,"{'06A-I': 98.7, '06B': 94.5, '06A-V': 89.2, '06A': 87.6, '06A-III': 85.7}",1,98.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301595,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233205,"{'23F': 78.4, '23A': 58.1, '23B': 52.1, '28A': 39.2, '28F': 36.6}",1,78.4,,23F,,,{},{},23F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253665,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341795,"{'06A-II': 95.5, '06A-VI': 95.5, '06B-II': 89.5, '06A-V': 89.1, '06A-III': 88.5}",1,95.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290625,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301885,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323185,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247045,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269755,"{'15C': 90.6, '15B': 90.5, '15A': 62.9, '15F': 48.5, '23A': 30.8}",1,90.6,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313255,"{'01': 99.2, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213655,"{'07A': 98.2, '07F': 98.0, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,98.2,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291425,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304965,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319585,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283215,"{'09A': 99.4, '09V': 99.2, '09N': 38.5, '09L': 36.5, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279595,"{'06E': 100.0, '06B-III': 98.7, '06B-I': 46.4, '06A-III': 45.9, '06A-II': 45.1}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_909594775,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277095,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.7, '06A-V': 85.1, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260915,"{'13': 98.9, '09L': 28.7, '09N': 28.6, '20': 28.4, '36': 28.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261835,"{'22F': 86.6, '22A': 65.3, '06B-I': 45.0, '06A-III': 44.8, '06A-IV': 44.0}",1,86.6,,22F,,,{},{},22F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000251805,"{'15C': 96.1, '15B': 96.0, '15A': 61.4, '15F': 47.7, '23A': 34.7}",1,96.1,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170965,"{'14': 92.6, '36': 28.9, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030675,"{'18C': 99.5, '18B': 99.4, '18F': 75.5, '18A': 62.5, '16F': 39.0}",1,99.5,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193135,"{'21': 95.8, '22F': 37.1, '06A-II': 34.5, '06A-VI': 34.4, '06A-III': 33.7}",1,95.8,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304345,"{'03': 94.9, '01': 17.9, '36': 17.2, '09N': 15.9, '20': 15.8}",1,94.9,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336165,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001144985,"{'17F': 99.7, '06B': 44.4, '06B-I': 44.0, '06A-III': 43.9, '06D': 43.6}",1,99.7,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193525,"{'21': 95.8, '22F': 38.2, '06A-II': 34.5, '06A-VI': 34.4, '06A-III': 33.9}",1,95.8,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347135,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001101925,"{'19F-I': 95.4, '19F': 95.2, '19F-III': 93.7, '19F-II': 92.3, '19F-IV': 88.3}",1,95.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331035,"{'08': 99.7, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.7,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233895,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_003966505,"{'03': 95.2, '36': 17.4, '01': 16.8, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192705,"{'19A-I': 99.7, '19A-II': 97.5, '19A': 87.7, '19A-III': 87.5, '19AF': 61.8}",1,99.7,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297795,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338225,"{'13': 98.9, '09N': 29.1, '09L': 28.7, '20': 28.5, '36': 27.4}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001199575,"{'06E': 100.0, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217875,"{'03': 97.5, '01': 17.5, '20': 16.4, '09N': 15.7, '09L': 15.5}",1,97.5,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018415,"{'03': 95.2, '01': 17.3, '36': 16.5, '09N': 15.8, '20': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030345,"{'01': 99.4, '19F': 31.9, '19F-I': 31.5, '19F-III': 31.2, '19F-II': 31.0}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900459515,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232125,"{'14': 95.0, '36': 25.9, '09L': 25.4, '09N': 24.3, '15B': 24.3}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295095,"{'21': 92.0, '22F': 36.7, '06A-IV': 31.6, '06A-II': 31.2, '06A-VI': 31.2}",1,92.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216395,"{'19F-I': 94.6, '19F': 94.3, '19F-III': 92.7, '19F-II': 91.5, '19F-IV': 87.5}",1,94.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327875,"{'33B': 89.4, '33D': 89.3, '35B': 34.7, '33F2': 30.2, '22F': 28.1}",1,89.4,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317755,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262755,"{'35A': 94.4, '35C': 89.7, '42': 89.1, '33A': 46.3, '33F': 45.9}",1,94.4,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341315,"{'18C': 88.6, '18B': 88.5, '18F': 78.1, '18A': 60.6, '16F': 37.9}",1,88.6,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304445,"{'15A': 97.0, '15F': 74.9, '15C': 61.6, '15B': 61.5, '23F': 31.7}",1,97.0,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338995,"{'33F': 100.0, '33A': 99.9, '33F2': 70.9, '35C': 43.0, '42': 42.0}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001194685,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335395,"{'37': 98.8, '33F': 77.0, '33A': 75.7, '33F2': 70.6, '35B': 30.5}",1,98.8,,37,,,{},{},37,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281835,"{'06A-II': 85.5, '06A-VI': 85.5, '06A-III': 85.4, '06A-V': 84.8, '06A': 84.0}",1,85.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054505,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021022075,"{'02': 57.6, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233535,"{'06A': 83.3, '06A-IV': 82.2, '06A-V': 81.8, '06B-II': 81.7, '06B-I': 81.5}",1,83.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 83.83']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268895,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A': 46.2}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292425,"{'01': 7.8, '25F': 6.0, '45': 5.9, '25A': 5.8, '22F': 5.2}",4,7.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298745,"{'08': 99.7, '06A-II': 24.6, '06A-VI': 24.5, '02': 24.3, '06B-II': 24.0}",1,99.7,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329105,"{'05': 95.2, '45': 22.2, '36': 21.0, '12A': 19.7, '46': 19.6}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216285,"{'09A': 99.3, '09V': 99.1, '09N': 38.5, '09L': 36.5, '11F': 27.0}",1,99.3,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308185,"{'11D': 96.3, '11A': 95.1, '11F': 43.3, '11C': 36.2, '11B': 34.8}",1,96.3,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052485,"{'19A': 99.5, '19A-III': 99.3, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,99.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290015,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341855,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337135,"{'18A': 100.0, '18B': 54.1, '18C': 54.1, '18F': 53.8, '19F-IV': 37.4}",1,100.0,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001140145,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279755,"{'14': 93.4, '36': 26.2, '09L': 25.2, '09N': 24.4, '15B': 24.0}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900034475,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-I': 41.8}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231125,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259635,"{'14': 93.3, '36': 27.3, '09L': 26.0, '09N': 25.4, '15B': 24.3}",1,93.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268355,"{'20': 85.6, '13': 26.2, '36': 26.0, '09L': 25.8, '47F': 24.6}",1,85.6,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001096005,"{'35B': 99.8, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001343395,"{'35A': 99.9, '35C': 85.2, '42': 84.6, '33A': 42.9, '33F': 42.6}",1,99.9,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231695,"{'06E': 100.0, '06B-III': 99.1, '06B-I': 46.6, '06A-III': 46.1, '06A-II': 45.1}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303535,"{'03': 94.9, '01': 17.9, '36': 17.2, '09N': 15.9, '20': 15.8}",1,94.9,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285955,"{'06A': 99.9, '06A-IV': 99.5, '06B-II': 95.3, '06A-V': 93.6, '06A-III': 91.6}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023825,"{'08': 99.1, '06A-II': 26.1, '06A-VI': 26.0, '06B-II': 25.4, '06A-V': 25.0}",1,99.1,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001860895,"{'22F': 98.9, '22A': 73.2, '06A': 42.6, '06B': 42.0, '06A-II': 41.9}",1,98.9,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233305,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.5, '46': 81.4}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277015,"{'35F': 98.9, '47F': 74.2, '34': 26.7, '35B': 26.7, '29': 22.2}",1,98.9,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299995,"{'06D': 87.1, '06C': 85.2, '06C-I': 85.2, '06A-I': 77.9, '06B': 77.6}",1,87.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001162545,"{'18C': 88.6, '18B': 88.5, '18F': 78.1, '18A': 61.8, '16F': 37.9}",1,88.6,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398825,"{'23F': 94.5, '23A': 63.7, '28A': 47.7, '23B': 47.0, '06A': 46.4}",1,94.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001340755,"{'36': 11.2, '06A-IV': 6.7, '20': 5.9, '23B1': 5.7, '06B-I': 5.5}",1,11.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329825,"{'06C-I': 87.7, '06C': 87.6, '06D': 86.9, '06A-I': 77.9, '06B': 77.6}",1,87.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 88.4']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302155,"{'39': 97.9, '29': 28.6, '34': 22.6, '43': 19.3, '33C': 18.6}",1,97.9,,39,,,{},{},39,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332565,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281635,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001154645,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282575,"{'06A-II': 95.4, '06A-VI': 95.4, '06B-II': 89.3, '06A-V': 88.9, '06A-III': 88.3}",1,95.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333165,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031315,"{'15C': 93.9, '15B': 93.8, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194435,"{'23B': 99.5, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.8}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900046545,"{'08': 99.5, '06A-II': 24.5, '06A-VI': 24.4, '02': 24.2, '06B-II': 23.9}",1,99.5,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236985,"{'18C': 99.7, '18B': 99.6, '18F': 75.6, '18A': 62.3, '16F': 39.2}",1,99.7,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051635,"{'05': 95.3, '36': 20.3, '12A': 19.8, '46': 19.7, '04': 19.4}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_003494385,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318435,"{'14': 92.5, '36': 28.8, '09L': 25.6, '09N': 24.5, '15B': 24.0}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321815,"{'06A': 99.8, '06A-IV': 99.4, '06B-II': 95.2, '06A-V': 93.5, '06A-III': 91.5}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001086125,"{'06A-III': 99.8, '06B-I': 98.2, '06B-II': 91.1, '06A': 90.8, '06A-V': 90.2}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215395,"{'01': 7.8, '25F': 6.0, '25A': 5.8, '45': 5.5, '22F': 4.9}",3,7.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296935,"{'05': 95.2, '45': 22.2, '36': 21.8, '20': 20.3, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302615,"{'15C': 89.6, '15B': 89.5, '15A': 62.5, '15F': 49.3, '23A': 31.0}",1,89.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261045,"{'14': 92.7, '36': 28.9, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_012911675,"{'32A': 96.4, '32F': 96.3, '06A-II': 40.1, '06A-VI': 40.0, '06B-II': 39.5}",1,96.4,,32F/32A,,,{},{},32F/32A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232445,"{'04': 99.4, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.4,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900034465,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '22F': 26.9}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398245,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249025,"{'07C': 94.0, '07B': 77.1, '40': 76.7, '24B': 48.6, '24F': 47.6}",1,94.0,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194295,"{'23B': 99.5, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.8}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235075,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001087885,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001128345,"{'06E': 100.0, '06B-III': 97.5, '06B-I': 44.8, '06A-III': 44.3, '06B-II': 43.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226525,"{'14': 92.7, '36': 29.0, '09L': 25.7, '09N': 24.5, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000233065,"{'19F-II': 99.2, '19F': 95.0, '19F-III': 94.1, '19F-I': 93.7, '19F-IV': 92.9}",1,99.2,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001206635,"{'35F': 92.3, '47F': 68.2, '34': 26.6, '35B': 25.0, '29': 21.2}",1,92.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245835,"{'03': 94.3, '36': 17.4, '01': 17.0, '20': 15.9, '09N': 15.8}",1,94.3,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293085,"{'06E': 99.8, '06B-III': 99.3, '06B-I': 46.7, '06A-III': 46.2, '06A-II': 45.2}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221125,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398795,"{'06A-I': 98.2, '06B': 94.2, '06A-V': 89.2, '06A': 87.2, '06A-III': 85.7}",1,98.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262105,"{'04': 94.9, '45': 34.2, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,94.9,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339555,"{'01': 99.3, '19F': 32.5, '19F-I': 32.1, '19F-III': 31.8, '19F-II': 31.5}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900048115,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252335,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900061245,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222475,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057355,"{'19A-II': 93.7, '19A-I': 90.4, '19A': 78.8, '19A-III': 78.7, '19AF': 59.3}",1,93.7,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320025,"{'06A': 86.6, '06A-V': 86.1, '06A-IV': 86.0, '06B-II': 86.0, '06B-I': 83.8}",1,86.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 83.83']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280505,"{'01': 99.3, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167525,"{'14': 93.2, '36': 27.0, '15B': 24.2, '15C': 24.1, '09L': 23.9}",1,93.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319715,"{'04': 99.7, '45': 33.9, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249525,"{'16F': 71.3, '28F': 42.9, '28A': 40.4, '18F': 33.7, '18A': 33.1}",1,71.3,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022315,"{'09A': 99.7, '09V': 99.5, '09N': 38.4, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000279895,"{'06C-I': 89.2, '06C': 89.1, '06D': 86.9, '06A-I': 78.0, '06B': 77.7}",1,89.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 94.1]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017025,"{'03': 95.8, '20': 17.9, '01': 17.7, '36': 16.4, '09L': 16.2}",1,95.8,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219185,"{'23F': 96.4, '23A': 63.9, '23B': 47.9, '06A-IV': 47.4, '28A': 47.1}",1,96.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249485,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338635,"{'22F': 3.4, '01': 3.1, '35B': 2.0, '25A': 1.9, '25F': 1.9}",1,3.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170785,"{'14': 91.7, '36': 28.3, '09L': 24.7, '09N': 24.1, '15B': 23.9}",1,91.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300835,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001172505,"{'10A': 94.1, '10B': 64.8, '10C': 29.3, '10F': 19.7, '47A': 16.8}",1,94.1,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001204655,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232345,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.8, '19F-II': 92.7, '19F-IV': 88.7}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247425,"{'24F2': 77.7, '24F': 76.9, '24B': 76.1, '24A': 61.5, '07C': 51.1}",1,77.7,,24F/24B,,,{},{},24F/24B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191655,"{'10A': 99.6, '10B': 66.5, '10C': 27.5, '10F': 17.9, '22F': 13.9}",1,99.6,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252075,"{'02': 92.5, '22F': 40.1, '06B-I': 38.8, '06A-III': 38.7, '06A-II': 38.5}",1,92.5,,2,,,{},{},2,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231485,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305795,"{'23B': 81.2, '23B1': 66.1, '06A-IV': 36.3, '06B-II': 34.7, '06A-V': 34.5}",1,81.2,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261515,"{'06E': 99.9, '06B-III': 99.7, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303605,"{'23F': 96.5, '23A': 64.1, '23B': 48.0, '28A': 47.2, '06A-V': 46.7}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268465,"{'01': 98.8, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001084605,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001140665,"{'01': 5.2, '20': 5.0, '45': 4.6, '22F': 4.5, '25A': 4.2}",2,5.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235315,"{'14': 95.0, '36': 26.1, '09L': 25.4, '09N': 24.7, '15B': 24.3}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341705,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335745,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316485,"{'06A-III': 76.7, '06B-I': 75.4, '06A': 75.0, '06B-II': 74.3, '06A-V': 74.0}",1,76.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314675,"{'08': 99.6, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.6,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329745,"{'20': 84.6, '47F': 26.6, '35A': 24.9, '09L': 24.7, '09N': 23.7}",1,84.6,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047855,"{'38': 90.2, '25F': 86.1, '25A': 85.1, '36': 11.9, '20': 8.4}",1,90.2,25F_25A_38,25F_25A_38,,"[[0], [18]]","{'wcyD': ['b: 22.59'], 'wcyV': 4.69}","{'wcyD': 0, 'wcyV': 'not_detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001123505,"{'08': 98.0, '02': 24.4, '06A-IV': 23.3, '06A': 22.9, '06A-II': 22.3}",1,98.0,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335675,"{'09A': 96.0, '09V': 95.8, '09N': 38.5, '09L': 37.4, '11F': 26.7}",1,96.0,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303115,"{'23B1': 98.7, '23B': 59.0, '19A-II': 36.7, '19A-I': 35.5, '19AF': 32.0}",1,98.7,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310095,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340665,"{'14': 96.7, '36': 25.1, '09L': 24.4, '15B': 23.7, '09N': 23.6}",1,96.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019397225,"{'19A': 99.2, '19A-III': 99.0, '19A-I': 86.1, '19A-II': 83.8, '19AF': 57.1}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336595,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 96.61]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248855,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001167825,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001162665,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317065,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338115,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053955,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339045,"{'04': 99.3, '45': 33.0, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001087465,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243535,"{'35B': 99.0, '33F': 33.4, '35C': 33.2, '34': 33.0, '35A': 32.8}",1,99.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255945,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.7, '06B-II': 35.0, '06A-V': 34.8}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305025,"{'03': 95.2, '36': 17.4, '01': 16.8, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264415,"{'17F': 82.5, '06A-III': 43.1, '06B-I': 42.8, '06A-I': 42.2, '06B': 41.8}",1,82.5,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189925,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.3, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029775,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338775,"{'01': 98.9, '19F': 31.9, '19F-I': 31.4, '19F-III': 31.2, '19F-II': 30.9}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021021875,"{'02': 57.6, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226735,"{'23B': 88.1, '23B1': 61.0, '23F': 38.5, '28A': 33.3, '23A': 33.0}",1,88.1,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244005,"{'12F': 96.7, '44': 93.4, '12B': 92.7, '12A': 80.4, '46': 77.3}",1,96.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292165,"{'18C': 99.8, '18B': 99.7, '18F': 75.7, '18A': 62.5, '16F': 39.2}",1,99.8,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339995,"{'07A': 90.5, '07F': 90.3, '19F-II': 43.3, '19F': 41.8, '19F-IV': 41.7}",1,90.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234485,"{'34': 98.5, '33F2': 35.0, '35B': 33.4, '33F': 29.6, '33C': 28.5}",1,98.5,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215465,"{'14': 93.9, '36': 26.0, '09L': 25.3, '09N': 24.1, '15B': 24.0}",1,93.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266175,"{'31': 99.4, '41A': 57.2, '41F': 49.3, '06A-II': 36.5, '06A-VI': 36.5}",1,99.4,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221045,"{'14': 94.1, '36': 26.4, '09L': 25.5, '09N': 24.7, '15B': 24.3}",1,94.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307475,"{'14': 92.7, '36': 28.9, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334205,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314355,"{'04': 99.8, '45': 33.4, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257005,"{'19A': 98.9, '19A-III': 98.7, '19A-I': 85.8, '19A-II': 83.5, '19AF': 57.0}",1,98.9,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334895,"{'14': 92.6, '09L': 22.6, '09N': 21.7, '15B': 20.8, '15C': 20.7}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270195,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333805,"{'23F': 97.0, '23A': 63.9, '28A': 47.7, '28F': 46.0, '23B': 45.7}",1,97.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000279835,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001403835,"{'15A': 97.3, '15F': 73.4, '15C': 61.6, '15B': 61.5, '23F': 31.1}",1,97.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262085,"{'14': 93.4, '36': 27.3, '09L': 25.8, '09N': 25.2, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256425,"{'19A-I': 99.2, '19A-II': 97.5, '19A': 87.8, '19A-III': 87.6, '19AF': 61.9}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001117905,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331025,"{'10B': 93.5, '10A': 70.2, '10F': 20.1, '10C': 18.8, '22F': 14.3}",1,93.5,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216195,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000251545,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273415,"{'35B': 99.3, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.3,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001093165,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026045,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001584995,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311455,"{'19F-I': 99.7, '19F': 96.7, '19F-III': 96.7, '19F-II': 93.9, '19F-IV': 89.3}",1,99.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289605,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 89.6, '06A': 87.7, '06A-III': 86.1}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019495,"{'11A': 98.9, '11D': 96.5, '11F': 40.0, '11C': 36.2, '11B': 34.7}",1,98.9,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001145905,"{'45': 6.6, '36': 5.3, '25F': 5.2, '20': 5.0, '25A': 5.0}",2,6.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001087565,"{'14': 90.2, '36': 29.3, '09L': 24.3, '09N': 23.3, '19F-II': 22.2}",1,90.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274195,"{'34': 98.7, '33F2': 35.2, '35B': 33.5, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299215,"{'06E': 99.5, '06B-III': 99.1, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272525,"{'13': 98.9, '09N': 29.1, '09L': 28.7, '20': 28.7, '36': 27.5}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336235,"{'23A': 97.5, '23F': 68.8, '23B': 40.1, '19F-II': 39.2, '15B': 38.8}",1,97.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050715,"{'19A': 99.5, '19A-III': 99.3, '19A-I': 85.7, '19A-II': 83.2, '19AF': 57.0}",1,99.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259085,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224905,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 90.2, '06A': 87.7, '06A-III': 86.9}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052975,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267015,"{'09A': 98.3, '09V': 98.1, '09N': 38.1, '09L': 36.4, '11F': 26.6}",1,98.3,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190815,"{'20': 5.7, '01': 5.6, '25F': 5.5, '25A': 5.3, '22F': 4.9}",1,5.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254955,"{'10A': 99.1, '10B': 66.8, '10C': 27.6, '10F': 18.1, '22F': 15.4}",1,99.1,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170265,"{'14': 92.5, '36': 28.4, '09L': 25.0, '09N': 24.3, '15B': 24.2}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001093725,"{'34': 92.9, '33F2': 34.7, '35B': 31.2, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269785,"{'08': 99.8, '06A-II': 26.3, '06A-VI': 26.2, '06B-II': 25.6, '06A-V': 25.2}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170635,"{'14': 92.4, '36': 28.4, '09L': 24.9, '09N': 24.0, '15B': 24.0}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001168265,"{'35F': 80.2, '47F': 56.8, '35B': 27.0, '34': 21.0, '36': 18.7}",1,80.2,,35F,,,{},{},35F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313705,"{'14': 92.5, '36': 28.9, '09L': 25.7, '09N': 24.6, '15B': 24.1}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001120785,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278325,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332405,"{'03': 95.2, '01': 17.7, '36': 17.4, '20': 16.1, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325015,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252595,"{'23F': 99.1, '23A': 65.4, '23B': 49.0, '28A': 48.0, '06A-IV': 47.3}",1,99.1,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330625,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248775,"{'35B': 99.4, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190475,"{'14': 99.8, '36': 26.8, '09L': 25.2, '09N': 24.6, '15B': 24.3}",1,99.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001118445,"{'21': 92.2, '22F': 34.9, '06A-IV': 34.1, '06A-II': 33.8, '06A-VI': 33.8}",1,92.2,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239765,"{'19A-I': 99.2, '19A-II': 97.5, '19A': 87.8, '19A-III': 87.6, '19AF': 61.9}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322635,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286605,"{'06C-I': 88.5, '06C': 88.4, '06D': 84.7, '06A': 77.0, '06B-I': 75.7}",1,88.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305175,"{'03': 75.1, '20': 7.9, '01': 7.2, '36': 7.1, '22F': 6.8}",1,75.1,,3,,,{},{},3,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300305,"{'09A': 95.9, '09V': 95.7, '09N': 38.8, '09L': 37.4, '11F': 26.6}",1,95.9,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325855,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293915,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001124505,"{'13': 83.6, '36': 25.5, '14': 25.4, '09L': 24.5, '09N': 24.2}",1,83.6,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019585,"{'10A': 99.9, '10B': 66.8, '10C': 27.4, '10F': 17.9, '22F': 15.5}",1,99.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001114885,"{'35B': 94.4, '33F': 38.0, '33A': 35.7, '34': 31.0, '33B': 30.7}",1,94.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293025,"{'24F': 97.2, '24B': 89.9, '24F2': 86.6, '24A': 62.9, '07C': 52.0}",1,97.2,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219215,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303725,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273045,"{'03': 97.4, '01': 17.5, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002081125,"{'16F': 91.2, '28F': 37.1, '28A': 34.5, '18F': 34.4, '19F-IV': 34.3}",1,91.2,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240335,"{'14': 91.4, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.6}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259345,"{'14': 91.4, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216295,"{'01': 99.2, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299185,"{'15C': 87.9, '15B': 87.7, '15A': 64.6, '15F': 50.0, '23A': 30.2}",1,87.9,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321435,"{'14': 93.5, '36': 25.7, '09L': 25.0, '09N': 24.4, '15B': 23.8}",1,93.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242355,"{'36': 10.8, '23B1': 6.8, '45': 6.7, '06A-IV': 6.7, '20': 6.0}",1,10.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339695,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309235,"{'23A': 97.5, '23F': 68.8, '23B': 40.1, '19F-II': 39.2, '15B': 38.8}",1,97.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289305,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192145,"{'15C': 94.0, '15B': 93.8, '15A': 62.1, '15F': 48.6, '23A': 32.9}",1,94.0,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290115,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001144325,"{'36': 12.2, '20': 7.9, '06A-IV': 7.6, '06C': 6.2, '06C-I': 6.2}",1,12.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306555,"{'14': 91.4, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219555,"{'10A': 99.1, '10B': 66.8, '10C': 27.7, '10F': 18.1, '22F': 15.5}",1,99.1,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334325,"{'07A': 91.2, '07F': 91.0, '19F-II': 39.3, '19F': 37.8, '19F-IV': 37.8}",1,91.2,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168185,"{'09A': 99.7, '09V': 99.5, '09N': 38.6, '09L': 36.6, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189095,"{'19F-II': 99.6, '19F': 95.1, '19F-III': 94.1, '19F-I': 93.8, '19F-IV': 93.1}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335855,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001154305,"{'14': 94.6, '36': 25.9, '09L': 25.1, '09N': 24.2, '15B': 24.2}",1,94.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287485,"{'10A': 99.8, '10B': 66.6, '10C': 27.4, '10F': 17.8, '22F': 15.4}",1,99.8,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341415,"{'14': 94.6, '36': 26.1, '09L': 24.7, '15B': 24.2, '09N': 24.1}",1,94.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900035025,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334675,"{'45': 94.2, '04': 38.5, '06A-II': 30.0, '06A-VI': 29.9, '06C': 29.5}",1,94.2,,45,,,{},{},45,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283685,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169455,"{'14': 92.7, '36': 28.5, '09L': 24.5, '15B': 24.2, '15C': 24.1}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296295,"{'06C-I': 89.3, '06C': 89.2, '06D': 87.0, '06A-I': 77.9, '06B': 77.6}",1,89.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 88.4']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268035,"{'19F-I': 97.8, '19F': 97.1, '19F-III': 96.6, '19F-II': 95.1, '19F-IV': 90.2}",1,97.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286455,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021395,"{'18C': 99.5, '18B': 99.4, '18F': 75.4, '18A': 62.4, '16F': 39.2}",1,99.5,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001173645,"{'36': 12.8, '20': 8.0, '06A-IV': 7.6, '23B1': 7.4, '06C': 6.2}",1,12.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001193175,"{'23F': 93.9, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,93.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054735,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900064915,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267615,"{'19F': 97.3, '19F-I': 96.3, '19F-III': 95.5, '19F-II': 95.4, '19F-IV': 90.9}",1,97.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328965,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239045,"{'07A': 99.5, '07F': 99.3, '19F-II': 36.7, '19F-IV': 36.1, '19F': 35.2}",1,99.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226385,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229815,"{'23A': 97.6, '23F': 68.9, '23B': 40.1, '19F-II': 39.3, '15B': 38.7}",1,97.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230055,"{'19A-II': 85.9, '19A-I': 83.4, '19A': 71.7, '19A-III': 71.6, '19AF': 56.6}",1,85.9,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900034395,"{'04': 99.5, '45': 33.2, '12F': 23.2, '44': 23.0, '12A': 22.1}",1,99.5,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900044845,"{'23B1': 99.9, '23B': 55.8, '19A-II': 36.2, '19A-I': 35.9, '19AF': 31.7}",1,99.9,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342955,"{'33B': 89.8, '33D': 89.7, '35B': 33.8, '33F2': 30.3, '22F': 27.1}",1,89.8,,"Mixed serotypes- {'33B', '33D'}",,,{},{},"Mixed serotypes- {'33B', '33D'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325305,"{'07C': 94.0, '07B': 77.1, '40': 76.7, '24B': 48.6, '24F': 47.6}",1,94.0,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022975,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001111465,"{'15C': 87.7, '15B': 87.5, '15A': 64.4, '15F': 49.8, '23A': 30.1}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001196915,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032805,"{'23F': 99.2, '23A': 65.4, '23B': 49.0, '28A': 48.1, '06A-IV': 47.3}",1,99.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324115,"{'06B-III': 77.2, '06E': 75.4, '06A-III': 64.2, '06B-I': 63.6, '06A-V': 63.1}",1,77.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329705,"{'06A-II': 95.6, '06A-VI': 95.6, '06B-II': 89.5, '06A-V': 89.1, '06A-III': 88.5}",1,95.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324605,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237265,"{'13': 98.9, '09L': 28.7, '09N': 28.6, '20': 28.4, '36': 28.1}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001301495,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.7, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001119045,"{'35B': 99.6, '33F': 33.7, '35C': 33.3, '34': 33.0, '35A': 32.9}",1,99.6,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269805,"{'06A-V': 99.5, '06B-II': 94.6, '06A': 91.7, '06A-II': 90.1, '06A-VI': 90.1}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001126545,"{'23A': 97.2, '23F': 68.8, '23B': 40.1, '19F-II': 38.9, '15B': 38.5}",1,97.2,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276065,"{'10B': 99.8, '10A': 65.5, '10F': 20.1, '10C': 18.8, '22F': 14.1}",1,99.8,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323925,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.5}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900459595,"{'12F': 99.1, '44': 94.2, '12B': 90.2, '12A': 85.0, '46': 82.0}",1,99.1,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223235,"{'03': 95.2, '36': 17.1, '01': 16.5, '20': 15.9, '09N': 15.5}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312375,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001205455,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216025,"{'06A-II': 92.4, '06A-VI': 92.4, '06B-II': 89.6, '06A-V': 89.3, '06A-III': 88.3}",1,92.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 84.81']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294345,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338495,"{'14': 91.4, '36': 26.7, '09L': 26.6, '09N': 26.3, '15B': 23.3}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326025,"{'14': 91.7, '36': 27.9, '09L': 25.6, '09N': 24.5, '15B': 23.7}",1,91.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333195,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276045,"{'14': 91.4, '19F-IV': 25.9, '09L': 24.8, '09N': 24.7, '36': 24.4}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336255,"{'14': 90.2, '36': 27.7, '09L': 24.2, '09N': 22.9, '19F-II': 22.1}",1,90.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319115,"{'16F': 71.9, '28F': 43.8, '28A': 41.0, '18F': 34.1, '18A': 34.0}",1,71.9,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328165,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220015,"{'22F': 93.6, '22A': 70.0, '06A-II': 45.1, '06B-I': 45.1, '06A-VI': 45.0}",1,93.6,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329915,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225555,"{'09A': 99.1, '09V': 98.9, '09N': 38.5, '09L': 36.7, '11F': 27.0}",1,99.1,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330255,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302805,"{'35B': 99.4, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021615,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025205,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286075,"{'06A-III': 99.8, '06B-I': 98.2, '06B-II': 91.1, '06A': 90.8, '06A-V': 90.2}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316085,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019454385,"{'02': 57.6, '06C': 23.4, '06B-I': 23.4, '06C-I': 23.4, '06A-II': 23.1}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262655,"{'06A-II': 88.8, '06A-VI': 88.8, '06A-III': 88.7, '06B-II': 87.9, '06A': 87.6}",1,88.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020140235,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291865,"{'04': 98.2, '45': 33.9, '12A': 27.0, '46': 26.9, '12F': 23.8}",1,98.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025215,"{'03': 95.2, '01': 17.1, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001207195,"{'14': 89.8, '36': 28.8, '09L': 23.0, '19F-II': 22.1, '09N': 21.8}",1,89.8,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232665,"{'06E': 99.7, '06B-III': 98.5, '06B-I': 46.5, '06A-III': 46.0, '06A-II': 45.0}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311355,"{'01': 99.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217085,"{'01': 7.7, '25F': 6.0, '45': 5.9, '25A': 5.8, '22F': 4.9}",3,7.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322585,"{'12A': 93.7, '12B': 92.9, '46': 91.3, '12F': 86.9, '44': 84.2}",1,93.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[4]],"{'wciI': [1, 99.3]}",{'wciI': 1},12A/12B/44/46,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019446335,"{'20': 5.5, '45': 4.8, '22F': 4.2, '25A': 4.1, '25F': 4.1}",1,5.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055745,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001299695,"{'35B': 99.8, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320225,"{'34': 98.7, '33F2': 35.2, '35B': 33.5, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233485,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319365,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017365,"{'23F': 97.8, '23A': 63.3, '23B': 48.4, '28A': 48.3, '06A-IV': 47.0}",1,97.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233775,"{'23F': 78.0, '23A': 57.7, '23B': 51.5, '28A': 38.9, '28F': 36.3}",1,78.0,,23F,,,{},{},23F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233005,"{'07A': 97.5, '07F': 97.3, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,97.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001334335,"{'36': 13.4, '20': 8.7, '23B1': 7.9, '06A-IV': 7.1, '06B-I': 5.9}",1,13.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193395,"{'06C-I': 89.1, '06C': 89.0, '06D': 86.9, '06A-I': 77.7, '06B': 77.4}",1,89.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253515,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.7, '19A-III': 87.5, '19AF': 61.7}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018495,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341395,"{'06A-II': 88.7, '06A-VI': 88.7, '06A-III': 88.6, '06B-II': 87.8, '06A': 87.5}",1,88.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001093925,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288765,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255565,"{'14': 92.7, '36': 28.9, '09L': 25.7, '09N': 24.4, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244195,"{'03': 97.4, '01': 17.8, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001110565,"{'20': 5.5, '45': 4.9, '22F': 4.8, '25A': 4.3, '25F': 4.3}",1,5.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286795,"{'31': 99.6, '41A': 57.1, '41F': 48.9, '06A-II': 36.6, '06A-VI': 36.6}",1,99.6,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001097205,"{'36': 11.4, '06A-IV': 6.7, '20': 5.9, '23B1': 5.7, '22F': 5.6}",1,11.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900042915,"{'03': 95.5, '20': 17.6, '01': 17.2, '36': 16.3, '09L': 16.1}",1,95.5,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900060535,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023735,"{'03': 95.2, '01': 17.2, '36': 17.1, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314175,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262475,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249075,"{'15C': 95.7, '15B': 95.6, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021022295,"{'02': 57.6, '06C': 23.4, '06B-I': 23.4, '06C-I': 23.4, '06A-II': 23.1}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241205,"{'01': 99.5, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245415,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295115,"{'14': 91.6, '36': 26.7, '09L': 26.6, '09N': 26.3, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292035,"{'23A': 95.1, '23F': 68.0, '23B': 43.2, '19F-II': 40.0, '15B': 39.1}",1,95.1,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318325,"{'01': 99.7, '19F': 32.2, '19F-I': 31.7, '19F-III': 31.5, '19F-II': 31.2}",1,99.7,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000211915,"{'23F': 92.2, '23A': 61.2, '28A': 48.0, '23B': 46.7, '06A-IV': 46.3}",1,92.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295255,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244385,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216385,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270355,"{'06E': 100.0, '06B-III': 98.2, '06B-I': 45.8, '06A-III': 45.3, '06B-II': 44.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261025,"{'12F': 95.8, '12B': 93.2, '44': 92.8, '12A': 84.7, '46': 81.6}",1,95.8,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290485,"{'06A-I': 98.3, '06B': 94.3, '06A-V': 89.3, '06A': 87.4, '06A-III': 85.8}",1,98.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033845,"{'19A': 99.5, '19A-III': 99.3, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,99.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001150945,"{'36': 11.4, '20': 7.9, '45': 6.5, '23B1': 5.6, '06B-I': 5.5}",1,11.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241475,"{'06C-I': 89.2, '06C': 89.1, '06D': 87.0, '06A-I': 77.8, '06B': 77.5}",1,89.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263105,"{'19A': 99.0, '19A-III': 98.8, '19A-I': 85.9, '19A-II': 83.6, '19AF': 57.0}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002889415,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193085,"{'31': 99.6, '41A': 57.1, '41F': 48.9, '06A-II': 36.5, '06A-VI': 36.5}",1,99.6,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001109445,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268565,"{'06A-I': 99.4, '06B': 95.1, '06A-V': 89.1, '06A': 87.9, '06A-III': 85.2}",1,99.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194335,"{'19A': 99.5, '19A-III': 99.3, '19A-I': 86.2, '19A-II': 84.0, '19AF': 57.2}",1,99.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317815,"{'06A-III': 94.7, '06B-I': 93.3, '06A': 90.2, '06A-IV': 89.4, '06B-II': 89.3}",1,94.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318255,"{'09A': 99.5, '09V': 99.3, '09N': 38.7, '09L': 36.8, '11F': 26.5}",1,99.5,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001131805,"{'14': 95.0, '36': 26.2, '09L': 25.4, '09N': 24.4, '15B': 24.3}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049565,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000252285,"{'15C': 94.6, '15B': 94.5, '15A': 60.5, '15F': 47.0, '23A': 34.7}",1,94.6,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248585,"{'09A': 99.3, '09V': 99.1, '09N': 38.5, '09L': 36.5, '11F': 27.1}",1,99.3,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001584945,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001100345,"{'22F': 99.0, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-I': 41.8}",1,99.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291655,"{'35A': 93.8, '35C': 87.5, '42': 86.7, '33A': 45.8, '33F': 45.8}",1,93.8,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279935,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308755,"{'15A': 98.4, '15F': 73.1, '15C': 61.7, '15B': 61.6, '23F': 32.2}",1,98.4,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221835,"{'11D': 80.1, '11A': 78.9, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313135,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290845,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318495,"{'16F': 99.5, '28F': 42.6, '19F-IV': 41.1, '18F': 40.9, '18A': 40.7}",1,99.5,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900035365,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001138505,"{'35C': 100.0, '42': 99.0, '35A': 86.0, '33A': 45.6, '33F': 45.2}",1,100.0,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001134325,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338935,"{'36': 12.9, '20': 8.1, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",1,12.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306135,"{'24A': 98.9, '24F2': 62.4, '24F': 59.9, '24B': 57.4, '48': 46.3}",1,98.9,,24A,,,{},{},24A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001104325,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238845,"{'17F': 99.8, '06B': 44.5, '06B-I': 44.1, '06A-III': 44.0, '06D': 43.7}",1,99.8,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339895,"{'01': 99.1, '19F': 32.0, '19F-I': 31.6, '19F-III': 31.3, '19F-II': 31.0}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167445,"{'14': 91.2, '36': 26.6, '09L': 25.2, '09N': 24.4, '15B': 23.4}",1,91.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328345,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291495,"{'14': 91.5, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338935,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286105,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267865,"{'04': 99.5, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.5,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232625,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213325,"{'14': 91.4, '19F-IV': 25.8, '36': 25.4, '09L': 24.7, '09N': 24.6}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239955,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029625,"{'04': 99.5, '45': 33.2, '12F': 23.2, '44': 23.0, '12A': 22.1}",1,99.5,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229305,"{'23F': 93.9, '23A': 63.4, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,93.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267135,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001117945,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304595,"{'19F': 94.8, '19F-I': 94.3, '19F-III': 93.2, '19F-II': 91.9, '19F-IV': 88.1}",1,94.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001092665,"{'10F': 98.2, '10C': 80.9, '10B': 22.4, '10A': 19.2, '22F': 15.3}",1,98.2,,10F,,,{},{},10F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297865,"{'03': 75.1, '20': 7.9, '01': 7.1, '36': 7.1, '22F': 6.8}",1,75.1,,3,,,{},{},3,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001336775,"{'19B': 90.6, '19C': 75.0, '19F-II': 52.1, '19F-IV': 52.0, '19F-I': 51.5}",1,90.6,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299665,"{'14': 93.6, '36': 26.1, '09L': 25.3, '09N': 24.1, '15B': 24.0}",1,93.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277455,"{'06A': 96.6, '06B': 87.6, '06A-IV': 86.8, '06A-I': 86.5, '06B-II': 86.3}",1,96.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001123545,"{'18C': 88.6, '18B': 88.5, '18F': 78.0, '18A': 60.6, '16F': 37.9}",1,88.6,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313995,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001326875,"{'03': 95.2, '36': 16.9, '20': 15.7, '01': 14.4, '09L': 14.2}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338125,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.0, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050155,"{'06E': 83.5, '06B-III': 82.4, '06B-I': 55.6, '06A-III': 54.1, '06A-II': 53.5}",1,83.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193505,"{'16F': 96.5, '19F-IV': 44.6, '19F-II': 43.8, '19F': 42.8, '19F-I': 42.2}",1,96.5,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240045,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247185,"{'14': 91.4, '19F-IV': 25.9, '36': 25.1, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226365,"{'06A-II': 85.5, '06A-VI': 85.5, '06A-III': 85.4, '06A-V': 84.8, '06A': 84.0}",1,85.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289695,"{'17F': 93.4, '06A-III': 45.6, '06B-I': 45.4, '06A-IV': 45.3, '06A': 44.5}",1,93.4,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313285,"{'01': 98.8, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900059365,"{'35B': 99.7, '33F': 33.5, '35C': 33.3, '34': 33.0, '35A': 32.9}",1,99.7,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255735,"{'06A-II': 85.3, '06A-VI': 85.3, '06A-III': 85.2, '06A-V': 84.6, '06A': 83.8}",1,85.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289595,"{'07A': 91.0, '07F': 90.8, '19F-II': 39.3, '19F': 37.8, '19F-IV': 37.8}",1,91.0,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340795,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001137765,"{'07B': 99.9, '40': 92.9, '07C': 77.2, '24F2': 48.1, '24F': 47.7}",1,99.9,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264715,"{'03': 97.4, '01': 17.7, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270675,"{'03': 74.9, '01': 7.2, '20': 7.1, '22F': 6.8, '45': 6.3}",1,74.9,,3,,,{},{},3,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023265,"{'04': 99.8, '45': 33.2, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017325,"{'04': 99.8, '45': 33.4, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049555,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318715,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265225,"{'14': 99.5, '09L': 27.0, '36': 25.8, '09N': 24.8, '15B': 24.1}",1,99.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246635,"{'01': 7.8, '25F': 6.1, '25A': 5.9, '36': 5.7, '38': 5.2}",4,7.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312965,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001173085,"{'06A-II': 87.2, '06A-VI': 87.2, '06A': 85.9, '06A-IV': 85.1, '06A-V': 84.9}",1,87.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276005,"{'19A-II': 99.0, '19A-I': 97.1, '19A': 85.7, '19A-III': 85.5, '19AF': 62.0}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001113805,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900692935,"{'19A-I': 97.8, '19A-II': 96.9, '19A': 86.3, '19A-III': 86.1, '19AF': 61.6}",1,97.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300755,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.0, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306045,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246715,"{'07C': 99.3, '07B': 72.9, '40': 70.7, '24B': 48.8, '24F': 48.6}",1,99.3,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314275,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308045,"{'09N': 97.6, '09L': 87.4, '09A': 32.6, '09V': 32.6, '36': 29.7}",1,97.6,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235985,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290715,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218945,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019745,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250135,"{'23F': 94.0, '23A': 63.5, '28A': 48.3, '23B': 47.0, '06A-III': 46.2}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001129765,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337965,"{'11A': 99.3, '11D': 96.9, '11F': 40.1, '11C': 36.2, '11B': 34.8}",1,99.3,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338675,"{'07A': 98.2, '07F': 98.0, '19F-II': 36.7, '19F': 35.0, '19F-I': 34.9}",1,98.2,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319555,"{'06A-II': 95.5, '06A-VI': 95.5, '06B-II': 89.4, '06A-V': 89.0, '06A-III': 88.4}",1,95.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213165,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026165,"{'04': 99.8, '45': 33.3, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063255,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001154965,"{'06C': 85.6, '06C-I': 85.6, '06D': 84.7, '06A': 77.0, '06A-IV': 73.3}",1,85.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900692705,"{'14': 93.9, '36': 27.5, '09L': 25.3, '09N': 24.3, '15B': 23.9}",1,93.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289895,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057425,"{'19A': 99.1, '19A-III': 98.9, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.1}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316495,"{'14': 94.2, '36': 26.4, '09L': 25.5, '09N': 24.7, '15B': 24.3}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250945,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227515,"{'19F-I': 96.4, '19F': 95.7, '19F-III': 95.4, '19F-II': 93.9, '19F-IV': 90.2}",1,96.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025785,"{'04': 99.7, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001195865,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333575,"{'18C': 99.8, '18B': 99.7, '18F': 75.7, '18A': 62.5, '16F': 39.2}",1,99.8,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344335,"{'36': 12.5, '20': 8.1, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",2,12.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309445,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033855,"{'17F': 99.5, '06B': 44.1, '06B-I': 44.0, '06A-III': 43.9, '06D': 43.6}",1,99.5,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299955,"{'09L': 99.5, '09N': 89.5, '09A': 31.4, '09V': 31.4, '36': 30.7}",1,99.5,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297105,"{'05': 95.3, '45': 22.6, '36': 22.0, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294515,"{'11A': 97.1, '11D': 94.7, '11F': 39.0, '11C': 35.9, '11B': 34.3}",1,97.1,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303825,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900475305,"{'02': 99.8, '06A-II': 40.6, '06A-VI': 40.5, '06B-II': 40.4, '06B-I': 39.9}",1,99.8,,2,,,{},{},2,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339015,"{'11F': 61.8, '11D': 38.4, '11A': 36.8, '09V': 25.4, '09A': 25.3}",1,61.8,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192475,"{'11D': 99.9, '11A': 97.1, '11F': 41.9, '11C': 35.9, '11B': 34.4}",1,99.9,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282355,"{'03': 95.2, '01': 17.3, '36': 17.0, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901343105,"{'15C': 86.9, '15B': 86.8, '15A': 64.1, '15F': 49.4, '23A': 30.2}",1,86.9,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900037455,"{'17F': 98.5, '06B': 43.9, '06A-III': 43.6, '06D': 43.4, '06B-I': 43.2}",1,98.5,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264625,"{'16F': 99.9, '28F': 42.4, '19F-IV': 41.1, '18A': 41.0, '18F': 40.7}",1,99.9,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063985,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297325,"{'04': 98.0, '45': 33.1, '12A': 26.9, '46': 26.8, '12F': 23.4}",1,98.0,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285305,"{'06A-I': 98.5, '06B': 94.5, '06A-V': 89.5, '06A': 87.6, '06A-III': 86.0}",1,98.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001141305,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287035,"{'18C': 99.6, '18B': 99.5, '18F': 75.5, '18A': 62.3, '16F': 39.0}",1,99.6,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337735,"{'15C': 95.7, '15B': 95.6, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025995,"{'14': 100.0, '09L': 27.2, '36': 25.8, '09N': 24.7, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286365,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282705,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298145,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191475,"{'38': 99.5, '25F': 84.5, '25A': 83.5, '36': 11.8, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001122725,"{'36': 10.9, '06A-IV': 7.0, '20': 6.2, '06C': 5.6, '06C-I': 5.6}",1,10.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328275,"{'14': 92.4, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274905,"{'13': 83.3, '36': 28.8, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275315,"{'19A': 99.4, '19A-III': 99.2, '19A-I': 86.1, '19A-II': 83.9, '19AF': 57.2}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217165,"{'19AF': 96.9, '19A-II': 63.0, '19A-I': 62.3, '19A': 51.8, '19A-III': 51.6}",1,96.9,19A_19AF,19A_19AF,,[[7]],"{'wzy': [2, 97.62]}",{'wzy': 2},19A_19AF,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052545,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296605,"{'19F-I': 97.8, '19F': 97.1, '19F-III': 96.6, '19F-II': 95.1, '19F-IV': 90.2}",1,97.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329235,"{'23F': 96.8, '23A': 63.7, '23B': 48.0, '28A': 47.7, '06B-II': 46.1}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900062155,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398525,"{'18C': 88.6, '18B': 88.5, '18F': 77.8, '18A': 61.5, '16F': 38.0}",1,88.6,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052475,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231405,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023345,"{'09A': 99.7, '09V': 99.5, '09N': 38.2, '09L': 36.8, '06A-IV': 27.4}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285045,"{'34': 93.0, '33F2': 34.7, '35B': 32.1, '33F': 29.0, '33C': 28.0}",1,93.0,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000468295,"{'19A-II': 99.0, '19A-I': 97.1, '19A': 85.7, '19A-III': 85.5, '19AF': 62.0}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001301135,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232665,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268345,"{'11D': 96.5, '11A': 95.3, '11F': 43.3, '11C': 36.2, '11B': 34.8}",1,96.5,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269865,"{'21': 99.1, '22F': 35.9, '06A-IV': 30.9, '06B': 30.2, '06A': 30.1}",1,99.1,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266645,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.6, '19A-III': 87.4, '19AF': 61.9}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330695,"{'14': 91.3, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251195,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318275,"{'07A': 99.4, '07F': 99.2, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.4,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030775,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266885,"{'15A': 98.3, '15F': 72.9, '15C': 61.6, '15B': 61.5, '23F': 32.2}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335805,"{'23A': 99.6, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330865,"{'07A': 91.2, '07F': 91.0, '19F-II': 39.3, '19F': 37.8, '19F-IV': 37.8}",1,91.2,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277885,"{'16F': 71.9, '28F': 43.8, '28A': 41.0, '18F': 34.1, '18A': 33.9}",1,71.9,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261565,"{'06E': 100.0, '06B-III': 95.9, '06B-I': 43.8, '06A-III': 43.3, '06A-I': 42.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900034035,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167075,"{'09A': 99.7, '09V': 99.5, '09N': 37.0, '09L': 35.3, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260335,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330325,"{'23F': 97.0, '23A': 63.9, '28A': 47.7, '28F': 46.0, '06A': 45.0}",1,97.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303505,"{'38': 97.7, '25F': 84.4, '25A': 83.4, '36': 13.1, '20': 7.5}",1,97.7,25F_25A_38,25F_25A_38,,"[[0], [19]]","{'wcyD': ['b: 80.0'], 'wcyV': 100.0}","{'wcyD': 0, 'wcyV': 'detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907166945,"{'14': 91.7, '36': 26.9, '09L': 24.5, '15B': 24.3, '15C': 24.2}",1,91.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341675,"{'06E': 83.3, '06B-III': 82.2, '06B-I': 55.6, '06A-III': 54.1, '06A-II': 53.5}",1,83.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021022345,"{'02': 57.6, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021022395,"{'02': 57.6, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215905,"{'14': 92.7, '36': 29.0, '09L': 25.6, '09N': 24.7, '15B': 24.3}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214605,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220495,"{'03': 95.2, '01': 17.2, '36': 17.1, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231205,"{'14': 91.4, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
PHESPD0076,"{'12B': 95.1, '44': 91.6, '12F': 90.5, '12A': 89.0, '46': 87.6}",1,95.1,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[4]],"{'wciI': [1, 99.3]}",{'wciI': 1},12A/12B/44/46,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325715,"{'36': 10.8, '45': 6.7, '20': 6.0, '01': 5.5, '06B-I': 5.5}",1,10.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313965,"{'38': 90.2, '25F': 86.1, '25A': 85.1, '01': 16.3, '36': 11.9}",1,90.2,25F_25A_38,25F_25A_38,,"[[0], [18]]","{'wcyD': ['b: 22.59'], 'wcyV': 4.69}","{'wcyD': 0, 'wcyV': 'not_detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322425,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331605,"{'16F': 71.5, '28F': 43.1, '28A': 40.6, '18F': 33.6, '18A': 32.9}",1,71.5,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250285,"{'19A-I': 98.5, '19A-II': 96.8, '19A': 87.1, '19A-III': 86.9, '19AF': 61.5}",1,98.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000251645,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213825,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001155605,"{'34': 92.9, '33F2': 34.7, '35B': 31.9, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247275,"{'13': 83.4, '36': 33.0, '14': 27.2, '15B': 26.7, '15C': 26.3}",1,83.4,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001112725,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001172365,"{'35B': 96.3, '33F': 32.2, '35C': 30.6, '34': 30.4, '33A': 30.2}",1,96.3,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291525,"{'19F-I': 99.8, '19F': 96.8, '19F-III': 96.8, '19F-II': 94.0, '19F-IV': 89.4}",1,99.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244905,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.8, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291445,"{'03': 95.1, '20': 18.0, '01': 17.0, '09N': 15.6, '36': 15.6}",1,95.1,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221285,"{'01': 99.1, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346495,"{'06A': 90.4, '06A-III': 89.3, '06A-II': 89.2, '06A-VI': 89.2, '06B-II': 89.2}",1,90.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254935,"{'16F': 71.7, '28F': 43.6, '28A': 40.8, '18F': 33.9, '18A': 33.7}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330655,"{'18C': 88.5, '18B': 88.4, '18F': 77.8, '18A': 62.1, '16F': 37.6}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326355,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057955,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325055,"{'02': 92.4, '22F': 40.0, '06B-I': 38.7, '06A-III': 38.6, '06A-II': 38.5}",1,92.4,,2,,,{},{},2,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047955,"{'31': 99.7, '41A': 57.2, '41F': 48.9, '22F': 36.3, '06A-II': 36.3}",1,99.7,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324815,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344755,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214915,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323285,"{'14': 93.6, '36': 26.1, '09L': 25.3, '09N': 24.1, '15B': 24.0}",1,93.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236005,"{'35B': 99.2, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.2,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170615,"{'14': 92.6, '36': 29.0, '09L': 25.9, '09N': 24.7, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331475,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001126585,"{'45': 6.7, '01': 6.6, '25F': 6.4, '25A': 6.2, '38': 4.6}",2,6.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253415,"{'09N': 100.0, '09L': 89.1, '09A': 32.7, '09V': 32.7, '36': 32.2}",1,100.0,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308975,"{'19A-II': 98.1, '19A-I': 95.6, '19A': 84.1, '19A-III': 83.9, '19AF': 61.7}",1,98.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273205,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292765,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 88.6, '06A': 87.7, '06A-III': 85.1}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330805,"{'19AF': 100.0, '19A-II': 62.1, '19A-I': 61.4, '19A': 53.2, '19A-III': 53.0}",1,100.0,19A_19AF,19A_19AF,,[[7]],"{'wzy': [2, 100.0]}",{'wzy': 2},19A_19AF,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900034485,"{'03': 95.2, '01': 17.1, '36': 16.5, '09N': 15.8, '20': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347915,"{'06A-III': 88.6, '06B-I': 86.3, '06A': 83.1, '06A-II': 83.0, '06A-VI': 83.0}",1,88.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261675,"{'07A': 97.9, '07F': 97.7, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,97.9,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217405,"{'05': 95.0, '45': 22.6, '36': 21.7, '20': 20.2, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244745,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335285,"{'06A-III': 88.8, '06B-I': 87.7, '06A-II': 87.3, '06A-V': 87.3, '06A-VI': 87.3}",1,88.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001137725,"{'01': 7.1, '45': 5.9, '25F': 5.6, '25A': 5.5, '20': 5.1}",2,7.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318155,"{'15C': 95.8, '15B': 95.6, '15A': 61.2, '15F': 47.6, '23A': 34.4}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192665,"{'06C-I': 99.7, '06C': 99.5, '06D': 84.6, '06A-II': 79.4, '06A-VI': 79.4}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309795,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020139335,"{'15A': 98.5, '15F': 73.7, '15C': 62.0, '15B': 61.9, '23F': 31.9}",1,98.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283935,"{'07C': 99.5, '07B': 73.1, '40': 71.0, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001262335,"{'34': 92.9, '33F2': 34.7, '35B': 30.4, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287995,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305465,"{'23B': 90.2, '23B1': 61.7, '23F': 40.2, '23A': 34.3, '28A': 33.1}",1,90.2,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900092115,"{'19A-II': 99.9, '19A-I': 96.5, '19A': 84.9, '19A-III': 84.7, '19AF': 61.9}",1,99.9,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252605,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049835,"{'15C': 96.3, '15B': 96.1, '15A': 61.5, '15F': 47.8, '23A': 34.7}",1,96.3,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900034055,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049005,"{'19A': 99.5, '19A-III': 99.3, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,99.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250885,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297295,"{'01': 7.5, '45': 6.3, '25F': 5.8, '25A': 5.6, '22F': 5.0}",5,7.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019670785,"{'13': 98.8, '20': 28.6, '09L': 28.4, '09N': 28.1, '14': 26.9}",1,98.8,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226585,"{'09N': 99.7, '09L': 89.0, '09A': 32.4, '09V': 32.4, '36': 30.5}",1,99.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299725,"{'19F-I': 97.7, '19F': 97.0, '19F-III': 96.5, '19F-II': 95.0, '19F-IV': 90.3}",1,97.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001102145,"{'10F': 98.2, '10C': 80.9, '10B': 22.4, '10A': 19.2, '20': 13.9}",1,98.2,,10F,,,{},{},10F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318695,"{'48': 99.4, '24A': 47.1, '24B': 39.7, '24F': 39.2, '24F2': 37.7}",1,99.4,,48,,,{},{},48,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001136585,"{'06E': 100.0, '06B-III': 98.8, '06B-I': 46.4, '06A-III': 45.9, '06A-II': 44.9}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001197975,"{'06E': 99.9, '06B-III': 99.7, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268765,"{'06A-II': 95.3, '06A-VI': 95.3, '06B-II': 89.1, '06A-V': 88.7, '06A-III': 88.2}",1,95.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001125825,"{'14': 94.5, '36': 26.2, '09L': 25.1, '09N': 24.2, '15B': 24.2}",1,94.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308245,"{'03': 95.2, '01': 17.1, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000211035,"{'03': 95.2, '01': 17.1, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222455,"{'23F': 96.2, '23A': 66.2, '28A': 47.3, '06A': 45.9, '28F': 45.0}",1,96.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001110545,"{'35F': 99.0, '47F': 74.3, '34': 26.7, '35B': 26.6, '29': 22.5}",1,99.0,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249405,"{'03': 97.2, '01': 17.7, '20': 15.5, '09N': 15.3, '09L': 15.1}",1,97.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313045,"{'01': 7.4, '45': 6.5, '25F': 5.8, '20': 5.7, '25A': 5.6}",3,7.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272795,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023155,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278445,"{'05': 95.3, '45': 22.4, '36': 21.2, '12A': 19.8, '46': 19.7}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316635,"{'06E': 99.6, '06B-III': 99.2, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001107725,"{'03': 97.4, '20': 15.5, '09N': 15.3, '09L': 15.1, '01': 14.0}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297565,"{'19A': 99.5, '19A-III': 99.3, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240455,"{'18C': 88.2, '18B': 88.1, '18F': 77.7, '18A': 61.6, '16F': 37.6}",1,88.2,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228305,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.7, '06B-II': 35.1, '06A-V': 34.9}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293175,"{'06A-II': 99.2, '06A-VI': 99.2, '06B-II': 92.4, '06A-V': 91.6, '06A-IV': 89.7}",1,99.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194895,"{'06C-I': 99.9, '06C': 99.7, '06D': 84.6, '06A-II': 79.6, '06A-VI': 79.6}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900046705,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267085,"{'14': 92.7, '36': 28.8, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055375,"{'21': 96.5, '22F': 47.2, '22A': 36.7, '06A-I': 35.3, '06A-II': 35.2}",1,96.5,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171755,"{'14': 92.6, '36': 28.0, '09L': 25.2, '15B': 24.2, '09N': 24.1}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234185,"{'14': 92.5, '36': 28.9, '09L': 25.7, '09N': 24.6, '15B': 24.1}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900088855,"{'15C': 94.0, '15B': 93.8, '15A': 62.1, '15F': 48.6, '23A': 32.9}",1,94.0,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001125125,"{'34': 92.9, '33F2': 34.7, '35B': 31.5, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192135,"{'22F': 91.4, '22A': 70.2, '06A-II': 45.1, '06A-VI': 45.0, '06B-I': 45.0}",1,91.4,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315085,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342495,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342075,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231715,"{'06A': 92.1, '06A-V': 91.3, '06A-IV': 90.3, '06B-II': 89.9, '06A-III': 88.6}",1,92.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264245,"{'06E': 100.0, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281745,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347315,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001129785,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.8, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001139025,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 94.0, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254425,"{'07C': 98.9, '07B': 75.2, '40': 73.1, '24B': 48.7, '24F': 48.4}",1,98.9,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257595,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056735,"{'07A': 99.6, '07F': 99.4, '19F-II': 36.3, '19F-IV': 35.7, '19F': 34.9}",1,99.6,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261855,"{'23B1': 99.5, '23B': 56.2, '19A-II': 36.1, '19A-I': 35.9, '19AF': 31.7}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258595,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261005,"{'08': 99.4, '02': 24.1, '06A-II': 24.1, '06A-VI': 24.0, '06B-II': 23.5}",1,99.4,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242415,"{'06E': 92.3, '06B-III': 92.0, '06A-II': 50.6, '06A-VI': 50.6, '06B-I': 49.8}",1,92.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267585,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.0, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001143665,"{'06A-III': 98.5, '06B-I': 96.9, '06A': 90.6, '06B-II': 90.4, '06A-V': 89.5}",1,98.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025145,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001170485,"{'23A': 97.4, '23F': 68.8, '23B': 40.1, '19F-II': 39.2, '15B': 38.8}",1,97.4,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001205555,"{'23A': 97.5, '23F': 68.8, '23B': 40.1, '19F-II': 39.2, '15B': 38.8}",1,97.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323105,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193665,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001174005,"{'15C': 87.8, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277045,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342715,"{'13': 83.3, '36': 28.8, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334755,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907172325,"{'14': 92.7, '36': 28.4, '09L': 24.5, '15B': 24.2, '15C': 24.1}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295765,"{'01': 99.1, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288695,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.8, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314425,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279955,"{'14': 95.0, '36': 28.1, '09L': 25.4, '09N': 24.4, '15B': 24.2}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024765,"{'14': 100.0, '09L': 27.2, '36': 25.9, '09N': 24.9, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288925,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258355,"{'06C-I': 89.1, '06C': 89.0, '06D': 86.9, '06A-I': 77.7, '06B': 77.4}",1,89.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308005,"{'09L': 99.0, '09N': 89.9, '36': 32.8, '09A': 31.5, '09V': 31.5}",1,99.0,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299295,"{'39': 97.9, '29': 28.6, '34': 22.6, '43': 19.3, '33C': 18.6}",1,97.9,,39,,,{},{},39,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192655,"{'23B': 99.0, '23B1': 64.5, '23F': 45.7, '23A': 39.9, '06A-IV': 36.3}",1,99.0,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336795,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001153685,"{'11F': 61.7, '11D': 38.3, '11A': 36.8, '09A': 25.3, '09V': 25.3}",1,61.7,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001167845,"{'37': 56.5, '45': 5.9, '20': 5.5, '36': 5.1, '25F': 5.0}",1,56.5,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315155,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329865,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332785,"{'22F': 93.8, '22A': 70.0, '06A-II': 45.3, '06A-VI': 45.2, '06B-I': 45.2}",1,93.8,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287955,"{'22A': 94.1, '22F': 77.6, '06A-IV': 44.1, '06B-I': 42.6, '06A-II': 42.4}",1,94.1,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287945,"{'31': 99.8, '41A': 57.3, '41F': 49.0, '06A-II': 36.5, '06A-VI': 36.5}",1,99.8,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001111845,"{'14': 94.3, '36': 26.2, '09L': 24.7, '15B': 24.2, '15C': 24.1}",1,94.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268665,"{'14': 93.9, '36': 26.0, '09L': 25.3, '09N': 24.1, '15B': 24.0}",1,93.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306885,"{'12F': 95.9, '12B': 93.3, '44': 92.9, '12A': 84.8, '46': 81.7}",1,95.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226355,"{'14': 91.4, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.3}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245095,"{'19A-I': 99.4, '19A-II': 97.5, '19A': 88.0, '19A-III': 87.8, '19AF': 61.8}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229335,"{'14': 99.9, '09L': 27.4, '36': 26.0, '09N': 24.6, '15B': 24.3}",1,99.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344235,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023615,"{'23B1': 100.0, '23B': 55.8, '19A-II': 36.2, '19A-I': 35.9, '19AF': 31.3}",1,100.0,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332745,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312005,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026495,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001299715,"{'23A': 97.6, '23F': 68.9, '23B': 40.1, '19F-II': 39.3, '15B': 38.7}",1,97.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021022655,"{'02': 57.6, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344215,"{'06C': 85.6, '06C-I': 85.6, '06D': 84.7, '06A': 77.0, '06A-IV': 73.3}",1,85.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001138985,"{'06C': 85.2, '06C-I': 85.2, '06D': 84.2, '06A': 76.9, '06A-IV': 73.3}",1,85.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054195,"{'35B': 99.6, '33F': 33.6, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.6,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296275,"{'13': 98.5, '36': 30.7, '09L': 29.5, '09N': 29.3, '20': 28.7}",1,98.5,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900039365,"{'23B': 99.5, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.8}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900059665,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275165,"{'35F': 99.2, '47F': 74.5, '34': 26.7, '35B': 26.7, '29': 22.2}",1,99.2,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001203575,"{'14': 94.6, '36': 26.1, '15B': 24.2, '15C': 24.1, '09L': 23.5}",1,94.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339835,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000762745,"{'45': 6.2, '20': 5.9, '25F': 5.8, '25A': 5.6, '01': 5.5}",2,6.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018875,"{'23F': 97.7, '23A': 63.2, '23B': 48.3, '28A': 48.2, '06A-IV': 46.9}",1,97.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001203195,"{'22A': 94.2, '22F': 75.3, '06A-IV': 45.8, '06A-II': 44.1, '06B-I': 44.1}",1,94.2,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316555,"{'18C': 99.8, '18B': 99.7, '18F': 75.7, '18A': 62.6, '16F': 39.2}",1,99.8,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259245,"{'16F': 71.7, '28F': 43.6, '28A': 40.8, '18F': 33.9, '18A': 33.7}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302495,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001108205,"{'11F': 61.5, '11D': 38.2, '11A': 36.6, '09V': 25.1, '09A': 25.0}",1,61.5,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287825,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001090205,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296095,"{'12A': 93.4, '12B': 92.8, '46': 91.0, '12F': 86.6, '44': 83.9}",1,93.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[4]],"{'wciI': [1, 99.3]}",{'wciI': 1},12A/12B/44/46,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222115,"{'13': 83.3, '36': 28.7, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277905,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900038015,"{'19F-II': 99.5, '19F': 95.0, '19F-III': 94.3, '19F-I': 93.7, '19F-IV': 93.3}",1,99.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_909594585,"{'14': 92.7, '36': 29.0, '09L': 25.7, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333635,"{'16F': 95.8, '19F-IV': 42.7, '28F': 42.5, '19F-II': 42.5, '19F': 41.5}",1,95.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021022535,"{'02': 56.8, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,56.8,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235595,"{'15B': 99.7, '15C': 99.5, '15A': 62.7, '15F': 48.3, '23A': 32.9}",1,99.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335095,"{'45': 6.7, '25F': 5.5, '20': 5.4, '36': 5.4, '25A': 5.3}",2,6.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338345,"{'23F': 91.2, '23A': 59.9, '06A-IV': 47.0, '28A': 46.7, '23B': 46.3}",1,91.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049935,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032315,"{'08': 99.7, '06A-II': 24.6, '06A-VI': 24.5, '02': 24.3, '06B-II': 24.0}",1,99.7,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326445,"{'23B': 88.1, '23B1': 61.3, '23F': 38.5, '28A': 33.3, '23A': 33.0}",1,88.1,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295325,"{'05': 95.2, '45': 22.2, '36': 21.0, '12A': 19.7, '46': 19.6}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302515,"{'23F': 93.9, '23A': 63.5, '28A': 48.4, '23B': 47.0, '06A-III': 46.3}",1,93.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001105505,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.5, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255115,"{'04': 99.2, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233585,"{'07B': 99.9, '40': 92.9, '07C': 77.2, '24F2': 48.1, '24F': 47.7}",1,99.9,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324595,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270435,"{'01': 7.5, '45': 6.3, '25F': 5.8, '25A': 5.6, '22F': 5.0}",3,7.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332845,"{'09A': 99.4, '09V': 99.2, '09N': 38.6, '09L': 36.6, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001158265,"{'10A': 99.4, '10B': 67.1, '10C': 27.7, '10F': 18.1, '22F': 14.0}",1,99.4,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225075,"{'18C': 99.0, '18B': 98.9, '18F': 75.7, '18A': 62.9, '16F': 39.0}",1,99.0,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304985,"{'04': 99.2, '45': 33.5, '12F': 23.4, '44': 23.2, '12A': 22.3}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318045,"{'06A-III': 97.4, '06B-I': 95.5, '06A': 90.3, '06B-II': 89.2, '06A-V': 88.8}",1,97.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001103085,"{'06E': 100.0, '06B-III': 96.0, '06B-I': 43.4, '06A-III': 42.9, '06A-I': 42.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900059315,"{'19A': 99.0, '19A-III': 98.8, '19A-I': 85.9, '19A-II': 83.6, '19AF': 57.1}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900060515,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326335,"{'19F-II': 98.7, '19F': 94.5, '19F-III': 93.5, '19F-I': 93.2, '19F-IV': 92.6}",1,98.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026155,"{'14': 92.1, '36': 28.7, '09L': 25.5, '09N': 24.7, '15B': 23.9}",1,92.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022225,"{'04': 99.5, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.5,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337455,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277295,"{'01': 99.0, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335695,"{'46': 98.3, '12A': 96.0, '12B': 84.3, '44': 82.3, '12F': 82.1}",1,98.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[4]],"{'wciI': [1, 100.0]}",{'wciI': 1},12A/12B/44/46,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020140285,"{'35B': 99.7, '33F': 33.4, '35C': 33.2, '34': 33.0, '35A': 32.8}",1,99.7,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332515,"{'04': 99.8, '45': 34.0, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306475,"{'07B': 99.9, '40': 92.9, '07C': 77.2, '24F2': 48.1, '24F': 47.7}",1,99.9,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228845,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 32.7}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287695,"{'19A': 99.6, '19A-III': 99.4, '19A-I': 85.8, '19A-II': 83.3, '19AF': 56.8}",1,99.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292815,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273095,"{'20': 78.7, '47F': 28.0, '09L': 25.8, '13': 25.2, '09N': 25.1}",1,78.7,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232705,"{'23F': 92.3, '23A': 61.2, '28A': 48.1, '23B': 46.7, '06A-IV': 46.6}",1,92.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189365,"{'23F': 98.8, '23A': 64.8, '23B': 47.5, '28A': 47.5, '06A-V': 45.3}",1,98.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318805,"{'15C': 95.2, '15B': 95.0, '15A': 60.7, '15F': 47.2, '23A': 34.0}",1,95.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241445,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339815,"{'15A': 98.3, '15F': 72.9, '15C': 61.6, '15B': 61.5, '23F': 32.2}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900064635,"{'19F-I': 74.1, '19F': 73.5, '19F-III': 73.1, '19F-II': 70.7, '19F-IV': 67.1}",1,74.1,,19F,,,{},{},19F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001101185,"{'18B': 100.0, '18C': 99.8, '18F': 75.7, '18A': 61.6, '16F': 39.2}",1,100.0,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246925,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333175,"{'23B': 81.1, '23B1': 65.0, '06B-II': 34.7, '06A-V': 34.5, '06A-IV': 34.1}",1,81.1,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288725,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335955,"{'16F': 71.7, '28F': 43.2, '28A': 40.7, '18F': 33.7, '18A': 33.1}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292505,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029725,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171485,"{'14': 92.6, '36': 28.1, '09L': 24.6, '15B': 24.2, '15C': 24.1}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339275,"{'06D': 31.4, '06C': 30.8, '06C-I': 30.8, '22F': 30.6, '35B': 30.1}",1,31.4,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001147125,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055705,"{'16F': 99.9, '28F': 42.4, '19F-IV': 41.1, '18A': 41.0, '18F': 40.7}",1,99.9,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306965,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240135,"{'16F': 71.5, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.5,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246075,"{'23F': 96.9, '23A': 63.9, '23B': 47.9, '28A': 47.6, '06B-II': 46.0}",1,96.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001086045,"{'19F': 94.7, '19F-I': 94.2, '19F-III': 93.1, '19F-II': 91.8, '19F-IV': 88.1}",1,94.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213985,"{'03': 75.1, '20': 7.9, '01': 7.1, '36': 7.1, '22F': 6.8}",1,75.1,,3,,,{},{},3,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288285,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313365,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308465,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330075,"{'09A': 99.4, '09V': 99.2, '09N': 37.6, '09L': 36.9, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305435,"{'06A': 83.7, '06A-IV': 83.2, '06A-V': 82.6, '06B-I': 82.5, '06B-II': 82.5}",1,83.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 83.83']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000026665,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.9, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296615,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335335,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303785,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228855,"{'06A-II': 88.7, '06A-VI': 88.7, '06A-III': 88.6, '06B-II': 87.8, '06A': 87.5}",1,88.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334315,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043185,"{'14': 92.7, '36': 29.0, '09L': 25.6, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167395,"{'09A': 99.3, '09V': 99.1, '09N': 36.5, '09L': 35.5, '06A-IV': 27.0}",1,99.3,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309915,"{'35B': 99.8, '33F': 33.6, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398605,"{'24F2': 77.5, '24F': 77.2, '24B': 76.0, '24A': 67.1, '07B': 54.7}",1,77.5,,24F/24B,,,{},{},24F/24B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273815,"{'13': 98.8, '09L': 29.5, '20': 29.0, '09N': 28.8, '14': 27.0}",1,98.8,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303635,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031875,"{'08': 99.6, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.6,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346995,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001195505,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238515,"{'22F': 98.7, '22A': 73.0, '06A-IV': 43.4, '06A': 42.5, '06B': 42.0}",1,98.7,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265565,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309375,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900059885,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245085,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001156645,"{'06C-I': 89.1, '06C': 89.0, '06D': 86.9, '06A-I': 77.7, '06B': 77.4}",1,89.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030225,"{'14': 99.9, '09L': 27.2, '36': 26.1, '09N': 24.5, '15B': 24.3}",1,99.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277335,"{'06A-III': 85.0, '06A-VI': 84.9, '06A-II': 84.8, '06A-V': 84.5, '06A': 84.0}",1,85.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001099905,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286775,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.4, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001103525,"{'45': 6.8, '25F': 6.7, '25A': 6.5, '36': 6.5, '01': 5.6}",3,6.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296415,"{'23B1': 98.7, '23B': 59.0, '19A-II': 36.7, '19A-I': 35.5, '19AF': 32.0}",1,98.7,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248625,"{'23F': 78.4, '23A': 58.1, '23B': 52.1, '28A': 39.2, '28F': 36.6}",1,78.4,,23F,,,{},{},23F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296585,"{'09N': 99.9, '09L': 89.0, '09A': 32.7, '09V': 32.7, '36': 32.3}",1,99.9,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293885,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900188795,"{'14': 92.6, '36': 28.6, '09L': 24.9, '15B': 24.2, '15C': 24.1}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585335,"{'12F': 96.9, '44': 93.6, '12B': 92.9, '12A': 80.6, '46': 77.5}",1,96.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291815,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001161165,"{'46': 98.7, '12A': 96.4, '12B': 84.3, '44': 82.3, '12F': 82.1}",1,98.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[4]],"{'wciI': [1, 100.0]}",{'wciI': 1},12A/12B/44/46,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307015,"{'14': 92.7, '36': 28.8, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001125665,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001154405,"{'35B': 98.1, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,98.1,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_015838875,"{'24F2': 99.6, '24B': 88.4, '24F': 86.9, '24A': 70.9, '07B': 56.8}",1,99.6,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318735,"{'15C': 87.9, '15B': 87.7, '15A': 64.6, '15F': 50.0, '23A': 30.2}",1,87.9,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001106025,"{'14': 89.9, '36': 28.0, '09L': 23.1, '19F-II': 22.2, '09N': 21.9}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191925,"{'06A-II': 94.8, '06A-VI': 94.8, '06A-III': 88.0, '06B-I': 87.3, '06B-II': 87.3}",1,94.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252995,"{'10A': 99.4, '10B': 67.1, '10C': 27.7, '10F': 18.1, '22F': 15.5}",1,99.4,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170925,"{'14': 92.7, '36': 28.9, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306525,"{'14': 99.9, '09L': 25.8, '09N': 24.7, '15B': 24.3, '15C': 24.2}",1,99.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288455,"{'15A': 98.2, '15F': 72.8, '15C': 61.6, '15B': 61.5, '23F': 32.2}",1,98.2,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304645,"{'17F': 99.5, '06B': 44.2, '06B-I': 44.0, '06A-III': 43.9, '06D': 43.6}",1,99.5,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311195,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.8, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337445,"{'04': 99.8, '45': 34.0, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336765,"{'13': 98.9, '09N': 29.1, '09L': 28.7, '20': 28.4, '36': 28.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289795,"{'34': 98.7, '33F2': 35.2, '35B': 33.5, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283705,"{'09A': 96.0, '09V': 95.8, '09N': 38.5, '09L': 37.4, '11F': 26.7}",1,96.0,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245455,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292855,"{'23F': 97.0, '23A': 63.9, '23B': 47.9, '28A': 47.7, '28F': 46.0}",1,97.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043495,"{'23F': 97.7, '23A': 63.3, '23B': 48.3, '28A': 48.3, '06A-IV': 46.9}",1,97.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322025,"{'19F-I': 97.8, '19F': 97.1, '19F-III': 96.6, '19F-II': 95.1, '19F-IV': 90.2}",1,97.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263355,"{'08': 99.8, '06A-II': 26.1, '06A-VI': 26.0, '06B-II': 25.4, '06A-V': 25.0}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001147065,"{'01': 7.1, '45': 5.9, '20': 4.8, '22F': 4.7, '38': 4.7}",3,7.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246845,"{'06A-V': 99.7, '06B-II': 94.8, '06A': 92.0, '06A-II': 90.3, '06A-VI': 90.3}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001118645,"{'40': 99.6, '07B': 93.9, '07C': 75.4, '24F2': 48.2, '24F': 47.9}",1,99.6,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304855,"{'13': 83.1, '36': 28.8, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.1,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001132525,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218855,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307925,"{'23F': 99.3, '23A': 65.5, '23B': 49.1, '28A': 48.2, '06A-IV': 47.3}",1,99.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001093365,"{'06C-I': 88.9, '06C': 88.8, '06D': 86.8, '06A-I': 77.9, '06B': 77.6}",1,88.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 94.1]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001161105,"{'15C': 87.8, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028865,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259945,"{'17F': 93.5, '06B-I': 45.7, '06A-III': 45.6, '06A-IV': 45.4, '06A': 44.5}",1,93.5,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313715,"{'19F-I': 95.9, '19F': 95.6, '19F-III': 94.0, '19F-II': 92.8, '19F-IV': 88.8}",1,95.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222655,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026175,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057465,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306085,"{'06A-II': 94.6, '06A-VI': 94.6, '06B-II': 88.6, '06A-V': 88.2, '06A': 87.5}",1,94.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341575,"{'15C': 87.9, '15B': 87.7, '15A': 64.6, '15F': 50.0, '23A': 30.2}",1,87.9,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312405,"{'09A': 95.8, '09V': 95.6, '09N': 38.7, '09L': 37.5, '11F': 26.7}",1,95.8,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226235,"{'18C': 99.5, '18B': 99.4, '18F': 76.0, '18A': 62.9, '16F': 39.5}",1,99.5,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001131165,"{'06A': 90.4, '06A-III': 89.4, '06A-II': 89.3, '06A-VI': 89.3, '06B-II': 89.3}",1,90.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215325,"{'06A-II': 94.8, '06A-VI': 94.8, '06A-III': 90.8, '06B-II': 89.9, '06B-I': 89.8}",1,94.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259325,"{'06E': 100.0, '06B-III': 97.9, '06B-I': 45.6, '06A-III': 45.1, '06A-II': 44.1}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001115885,"{'14': 89.9, '36': 28.8, '09L': 23.7, '09N': 22.4, '19F-II': 22.2}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248795,"{'10A': 98.1, '10B': 66.4, '10C': 27.5, '10F': 17.9, '06B-I': 14.4}",1,98.1,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311655,"{'15A': 98.4, '15F': 73.7, '15C': 62.1, '15B': 62.0, '23F': 31.7}",1,98.4,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232315,"{'12F': 95.8, '12B': 93.2, '44': 92.8, '12A': 84.7, '46': 81.6}",1,95.8,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213535,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001085565,"{'06A': 90.4, '06A-III': 89.3, '06A-II': 89.2, '06A-VI': 89.2, '06B-II': 89.2}",1,90.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290795,"{'11F': 61.8, '11D': 38.4, '11A': 36.8, '09V': 25.4, '09A': 25.3}",1,61.8,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057215,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900040645,"{'18C': 99.6, '18B': 99.5, '18F': 75.5, '18A': 62.3, '16F': 39.1}",1,99.6,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192265,"{'17F': 99.6, '06B': 44.3, '06D': 43.7, '06A-I': 43.1, '06B-I': 43.1}",1,99.6,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263445,"{'35A': 92.4, '35C': 86.5, '42': 85.7, '33A': 42.9, '33F': 42.8}",1,92.4,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242635,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346515,"{'45': 5.2, '22F': 5.1, '25F': 5.1, '20': 5.0, '25A': 5.0}",2,5.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256975,"{'09A': 99.6, '09V': 99.4, '09N': 38.7, '09L': 36.7, '11F': 26.6}",1,99.6,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333965,"{'23F': 99.0, '23A': 64.8, '23B': 47.6, '28A': 47.5, '06A-V': 45.8}",1,99.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241845,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249255,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339385,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_003351705,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002889835,"{'18C': 88.6, '18B': 88.5, '18F': 78.1, '18A': 59.9, '16F': 37.9}",1,88.6,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224065,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001343835,"{'15C': 95.2, '15B': 95.0, '15A': 60.9, '15F': 47.3, '23A': 34.4}",1,95.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001126105,"{'03': 95.2, '36': 16.9, '20': 15.8, '01': 14.3, '14': 14.1}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001584875,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337765,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240815,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585225,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001135445,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248905,"{'16F': 71.9, '28F': 43.4, '28A': 40.9, '18F': 33.9, '18A': 33.5}",1,71.9,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324955,"{'06E': 92.0, '06B-III': 91.4, '06B-I': 51.7, '06A-III': 51.3, '06A-II': 50.1}",1,92.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244035,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332805,"{'38': 99.0, '25F': 84.5, '25A': 83.5, '36': 11.8, '20': 8.4}",1,99.0,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340935,"{'35C': 99.1, '42': 98.5, '35A': 87.2, '33A': 45.6, '33F': 45.0}",1,99.1,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001195985,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269555,"{'19B': 92.9, '19C': 71.8, '19F-IV': 51.1, '19F-II': 51.0, '19F-I': 50.1}",1,92.9,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_909594625,"{'14': 92.7, '36': 28.9, '09L': 25.9, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312425,"{'06A-I': 99.9, '06B': 94.4, '06A-V': 89.7, '06A': 87.1, '06A-III': 86.4}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286865,"{'14': 91.8, '36': 27.9, '09L': 25.6, '09N': 24.5, '15B': 23.7}",1,91.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028635,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049725,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257375,"{'19A': 50.5, '19A-III': 50.4, '19F': 46.8, '19F-I': 46.6, '19F-III': 45.7}",1,50.5,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900459685,"{'15B': 100.0, '15C': 99.2, '15A': 62.4, '15F': 48.1, '23A': 32.9}",1,100.0,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254125,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057395,"{'15A': 98.5, '15F': 73.8, '15B': 62.0, '15C': 62.0, '23F': 31.9}",1,98.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217935,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336545,"{'01': 99.5, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001162425,"{'23A': 97.5, '23F': 68.8, '23B': 40.1, '19F-II': 39.2, '15B': 38.8}",1,97.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335705,"{'19F': 63.7, '19F-I': 63.7, '19F-III': 63.5, '19F-II': 62.6, '19F-IV': 61.8}",1,63.7,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253385,"{'01': 98.7, '19F': 31.8, '19F-I': 31.3, '19F-III': 31.1, '19F-II': 30.8}",1,98.7,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027735,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308835,"{'14': 92.6, '36': 28.7, '09L': 25.7, '09N': 24.6, '15B': 24.1}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287205,"{'14': 91.6, '36': 27.9, '09L': 25.6, '09N': 24.5, '15B': 23.7}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001202435,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228025,"{'14': 95.0, '36': 26.2, '09L': 25.2, '09N': 24.5, '15B': 24.3}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033815,"{'12F': 96.2, '12B': 93.1, '44': 92.9, '12A': 80.3, '46': 77.2}",1,96.2,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256435,"{'35B': 92.7, '34': 33.8, '33F': 33.4, '35C': 32.4, '33D': 32.1}",1,92.7,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168845,"{'09A': 99.7, '09V': 99.5, '09N': 36.8, '09L': 35.3, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001909515,"{'03': 95.2, '36': 17.4, '20': 15.8, '09N': 15.4, '09L': 15.3}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260215,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.1}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000762705,"{'03': 95.2, '36': 17.4, '01': 16.8, '20': 15.9, '09N': 15.6}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001090665,"{'45': 6.8, '01': 6.1, '36': 6.0, '20': 5.7, '25F': 5.6}",3,6.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298735,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.4, '06B-II': 34.7, '06A-V': 34.5}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191185,"{'35F': 99.1, '47F': 74.6, '34': 27.1, '35B': 25.9, '29': 22.5}",1,99.1,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303065,"{'10A': 98.9, '10B': 67.1, '10C': 27.5, '10F': 18.1, '22F': 15.3}",1,98.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285995,"{'06A': 99.3, '06A-IV': 99.0, '06B-II': 95.0, '06A-V': 93.1, '06A-III': 91.1}",1,99.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256945,"{'04': 99.6, '45': 33.5, '12A': 26.7, '46': 26.6, '12F': 23.3}",1,99.6,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341995,"{'06A-II': 95.0, '06A-VI': 95.0, '06B-II': 89.4, '06A-V': 88.9, '06A-III': 88.3}",1,95.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001144445,"{'34': 92.9, '33F2': 34.7, '35B': 31.5, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328045,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323125,"{'03': 75.1, '20': 7.9, '01': 7.2, '36': 7.1, '22F': 6.8}",1,75.1,,3,,,{},{},3,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262365,"{'14': 91.3, '19F-IV': 25.9, '09L': 25.0, '36': 25.0, '09N': 24.5}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279375,"{'06A-I': 99.4, '06B': 95.1, '06A-V': 89.0, '06A': 87.9, '06A-III': 85.3}",1,99.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262575,"{'18C': 88.3, '18B': 88.2, '18F': 77.8, '18A': 61.6, '16F': 37.6}",1,88.3,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264165,"{'19F': 97.4, '19F-I': 96.4, '19F-III': 95.6, '19F-II': 95.5, '19F-IV': 91.0}",1,97.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278755,"{'19B': 95.7, '19C': 70.0, '19F-II': 53.9, '19F-I': 53.1, '19F': 53.0}",1,95.7,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324645,"{'21': 99.7, '22F': 36.2, '06A-II': 33.2, '06A-VI': 33.1, '06A-III': 32.7}",1,99.7,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052175,"{'06C-I': 89.5, '06C': 89.4, '06D': 86.2, '06A-I': 78.4, '06B': 77.2}",1,89.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 94.1]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219835,"{'16F': 71.7, '28F': 43.2, '28A': 40.7, '18F': 33.7, '18A': 33.1}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300455,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274885,"{'01': 98.8, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,98.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031815,"{'06C-I': 100.0, '06C': 99.8, '06D': 84.6, '06A-II': 79.6, '06A-VI': 79.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001170425,"{'36': 11.4, '06A-IV': 6.7, '20': 5.9, '23B1': 5.7, '06B-I': 5.5}",1,11.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001111605,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001166325,"{'25F': 5.5, '45': 5.4, '25A': 5.3, '22F': 5.1, '20': 5.0}",1,5.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328745,"{'23B1': 98.7, '23B': 59.0, '19A-II': 36.7, '19A-I': 35.5, '19AF': 32.0}",1,98.7,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338655,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.3}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001860945,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299705,"{'22F': 93.9, '22A': 70.1, '06A-II': 45.2, '06A-VI': 45.1, '06B-I': 45.1}",1,93.9,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001584965,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001094565,"{'02': 80.9, '06A-I': 33.3, '06A-III': 33.1, '06B-I': 33.1, '06B': 33.0}",1,80.9,,2,,,{},{},2,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308775,"{'16F': 95.4, '28F': 41.8, '18F': 41.6, '28A': 40.1, '18A': 39.9}",1,95.4,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307155,"{'14': 94.1, '36': 26.3, '09L': 25.5, '09N': 24.4, '15B': 24.3}",1,94.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020975,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314805,"{'13': 97.6, '20': 28.9, '09L': 28.7, '09N': 28.6, '36': 28.0}",1,97.6,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277945,"{'06A-V': 92.3, '06A-I': 92.0, '06A-III': 89.9, '06B': 88.8, '06B-I': 88.5}",1,92.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307375,"{'34': 98.6, '33F2': 35.4, '35B': 33.7, '33F': 30.0, '33C': 28.7}",1,98.6,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020045,"{'23F': 99.2, '23A': 65.4, '23B': 49.0, '28A': 48.1, '06A-IV': 47.3}",1,99.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317685,"{'15C': 87.8, '15B': 87.7, '15A': 64.6, '15F': 50.0, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272015,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311505,"{'35C': 99.6, '42': 98.6, '35A': 85.8, '33A': 45.5, '33F': 45.1}",1,99.6,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900037625,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032225,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253575,"{'34': 93.0, '33F2': 34.7, '35B': 32.0, '33F': 29.0, '33C': 28.0}",1,93.0,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247025,"{'33D': 80.3, '33B': 75.4, '06A-I': 36.8, '06B': 35.4, '06A-IV': 35.2}",1,80.3,,"Mixed serotypes- {'33B', '33D'}",,,{},{},"Mixed serotypes- {'33B', '33D'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001299755,"{'15C': 95.9, '15B': 95.8, '15A': 61.5, '15F': 47.8, '23A': 34.5}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001090045,"{'06C': 85.2, '06C-I': 85.2, '06D': 84.2, '06A': 76.9, '06A-IV': 73.3}",1,85.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287325,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001137425,"{'35B': 99.5, '33F': 33.5, '35C': 33.4, '34': 33.1, '35A': 33.0}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338415,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230935,"{'23F': 96.9, '23A': 63.9, '23B': 48.0, '28A': 47.6, '06B-II': 46.0}",1,96.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255375,"{'14': 93.4, '36': 27.3, '09L': 25.7, '09N': 25.3, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270025,"{'20': 82.3, '47F': 25.9, '35A': 24.6, '09L': 24.4, '36': 24.1}",1,82.3,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001166265,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057145,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-I': 41.8}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192735,"{'06A-I': 98.5, '06B': 94.5, '06A-V': 87.8, '06A': 87.5, '06A-III': 84.4}",1,98.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332265,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287395,"{'14': 91.7, '36': 27.9, '09L': 25.6, '09N': 24.5, '15B': 23.7}",1,91.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214395,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254305,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001174145,"{'35B': 42.1, '33B': 40.2, '33D': 36.1, '34': 31.3, '22F': 29.7}",1,42.1,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020015,"{'03': 95.2, '01': 17.3, '36': 16.5, '20': 15.8, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335635,"{'04': 98.3, '45': 32.5, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304125,"{'24F': 96.9, '24B': 89.5, '24F2': 86.3, '24A': 62.6, '07C': 51.8}",1,96.9,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189085,"{'09A': 99.6, '09V': 99.4, '09N': 36.5, '09L': 35.3, '11F': 26.5}",1,99.6,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303435,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239255,"{'15A': 98.3, '15F': 72.9, '15C': 61.6, '15B': 61.5, '23F': 32.2}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325555,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329245,"{'08': 99.6, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.6,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277715,"{'14': 91.4, '19F-IV': 25.9, '36': 25.4, '09L': 25.0, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304635,"{'09A': 99.4, '09V': 99.2, '09N': 38.3, '09L': 36.5, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252385,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900038025,"{'08': 99.8, '06A-II': 26.3, '06A-VI': 26.2, '06B-II': 25.6, '06A-V': 25.2}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231555,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266755,"{'09L': 99.4, '09N': 89.8, '36': 32.7, '09A': 31.5, '09V': 31.5}",1,99.4,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339125,"{'19A-I': 99.2, '19A-II': 97.6, '19A': 87.8, '19A-III': 87.6, '19AF': 61.9}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026475,"{'22F': 93.2, '22A': 70.2, '06A-II': 44.7, '06A-VI': 44.7, '06A-IV': 44.6}",1,93.2,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297335,"{'09A': 99.3, '09V': 99.1, '09N': 38.5, '09L': 36.8, '11F': 27.0}",1,99.3,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254445,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900058185,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001199915,"{'09A': 99.7, '09V': 99.5, '09N': 38.3, '09L': 36.4, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340955,"{'03': 97.4, '01': 17.9, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290315,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303025,"{'05': 94.8, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,94.8,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189395,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001169705,"{'06E': 100.0, '06B-III': 99.3, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296735,"{'03': 95.2, '01': 17.1, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309835,"{'19F': 97.4, '19F-I': 96.4, '19F-III': 95.6, '19F-II': 95.5, '19F-IV': 91.0}",1,97.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027395,"{'14': 92.7, '36': 29.0, '09L': 25.7, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001348495,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585705,"{'12F': 96.7, '44': 93.4, '12B': 92.7, '12A': 80.4, '46': 77.3}",1,96.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232075,"{'09A': 99.2, '09V': 99.0, '09N': 38.2, '09L': 36.6, '11F': 27.0}",1,99.2,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227435,"{'19A-II': 97.8, '19A-I': 95.3, '19A': 83.8, '19A-III': 83.6, '19AF': 61.7}",1,97.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282805,"{'18A': 98.7, '18B': 54.0, '18C': 54.0, '18F': 53.6, '19F-II': 36.8}",1,98.7,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221575,"{'36': 10.5, '45': 6.7, '06A-IV': 6.7, '23B1': 6.5, '20': 5.9}",1,10.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001161205,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001110165,"{'16F': 96.7, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024015,"{'19A-II': 100.0, '19A-I': 96.6, '19A': 85.0, '19A-III': 84.8, '19AF': 62.1}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340185,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216075,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.5, '23B': 48.2, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310335,"{'18C': 88.4, '18B': 88.3, '18F': 77.7, '18A': 61.9, '16F': 37.8}",1,88.4,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000233185,"{'19A': 99.2, '19A-III': 99.0, '19A-I': 86.1, '19A-II': 83.8, '19AF': 57.1}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 98.08]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320395,"{'38': 99.4, '25F': 84.6, '25A': 83.6, '36': 11.1, '20': 7.5}",1,99.4,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232585,"{'18C': 99.7, '18B': 99.6, '18F': 75.6, '18A': 62.3, '16F': 39.3}",1,99.7,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273355,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276485,"{'23B': 90.3, '23B1': 61.2, '23F': 40.3, '23A': 34.4, '06A-IV': 33.3}",1,90.3,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252285,"{'14': 93.9, '36': 26.3, '09L': 25.5, '09N': 24.7, '15B': 24.3}",1,93.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299715,"{'13': 98.8, '20': 28.5, '09L': 28.4, '09N': 28.3, '14': 26.8}",1,98.8,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252035,"{'05': 95.1, '45': 22.5, '36': 21.7, '20': 20.1, '12A': 19.8}",1,95.1,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246485,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341035,"{'03': 95.1, '01': 15.2, '20': 15.1, '09N': 14.7, '09L': 14.6}",1,95.1,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001094705,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290145,"{'18C': 91.2, '18B': 91.1, '18F': 77.9, '18A': 63.9, '19F-II': 42.7}",1,91.2,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051225,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001098985,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001149265,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213185,"{'06B-III': 87.4, '06E': 87.0, '06A-V': 53.1, '06B-I': 52.7, '06B-II': 52.7}",1,87.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233635,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297135,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023235,"{'12F': 96.2, '12B': 93.1, '44': 92.9, '12A': 80.2, '46': 77.1}",1,96.2,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189695,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001205855,"{'06C-I': 87.8, '06C': 87.7, '06D': 84.7, '06A': 77.0, '06A-IV': 75.2}",1,87.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001088185,"{'06A': 100.0, '06A-IV': 99.6, '06B-II': 95.4, '06A-V': 93.7, '06A-III': 91.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321095,"{'23A': 99.4, '23F': 67.1, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.4,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030635,"{'09N': 100.0, '09L': 89.1, '09A': 32.7, '09V': 32.7, '36': 32.2}",1,100.0,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030865,"{'14': 100.0, '09L': 26.8, '36': 25.7, '09N': 24.9, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900188685,"{'06A-I': 98.2, '06B': 94.2, '06A-V': 87.4, '06A': 87.2, '06A-III': 84.0}",1,98.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335435,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023415,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346775,"{'15A': 97.4, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.2}",1,97.4,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331225,"{'11D': 96.4, '11A': 95.2, '11F': 43.3, '11C': 36.2, '11B': 34.8}",1,96.4,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190355,"{'23F': 99.0, '23A': 64.8, '23B': 47.6, '28A': 47.5, '06A-V': 45.8}",1,99.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242695,"{'03': 98.2, '36': 18.7, '20': 17.7, '01': 16.2, '09N': 15.5}",1,98.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001166145,"{'19F': 94.7, '19F-I': 94.2, '19F-III': 93.1, '19F-II': 91.8, '19F-IV': 88.1}",1,94.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247305,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292025,"{'19A': 96.8, '19A-III': 96.6, '19A-I': 85.4, '19A-II': 83.4, '19AF': 56.7}",1,96.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295485,"{'19A': 99.5, '19A-III': 99.3, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900088895,"{'15C': 93.9, '15B': 93.8, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313405,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321285,"{'31': 99.7, '41A': 57.2, '41F': 49.3, '06A-II': 36.5, '06A-VI': 36.5}",1,99.7,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213795,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307575,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001160465,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275155,"{'14': 91.3, '19F-IV': 25.9, '36': 25.2, '09L': 24.9, '09N': 24.5}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215995,"{'19A-II': 98.1, '19A-I': 95.6, '19A': 84.1, '19A-III': 83.9, '19AF': 61.7}",1,98.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001158245,"{'19F-III': 99.9, '19F': 97.9, '19F-I': 97.2, '19F-II': 94.7, '19F-IV': 89.4}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020140515,"{'35B': 98.9, '33F': 33.6, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,98.9,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900795145,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304865,"{'14': 99.9, '09L': 26.9, '36': 26.1, '09N': 25.0, '15B': 24.3}",1,99.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249295,"{'05': 95.1, '45': 22.5, '36': 21.7, '20': 20.1, '12A': 19.8}",1,95.1,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315055,"{'14': 93.4, '09L': 27.5, '36': 27.3, '09N': 25.4, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297695,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275365,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024515,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222785,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001205095,"{'23F': 94.5, '23A': 63.5, '06A-IV': 53.2, '06B-II': 51.6, '23B': 50.8}",1,94.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226175,"{'16F': 71.7, '28F': 43.2, '28A': 40.7, '18F': 33.7, '18A': 33.6}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001113125,"{'06A-II': 97.9, '06A-VI': 97.9, '06B-II': 90.4, '06A-V': 89.6, '06A-III': 89.2}",1,97.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285775,"{'35C': 99.7, '42': 98.7, '35A': 85.9, '33A': 45.5, '33F': 45.1}",1,99.7,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031205,"{'34': 93.0, '33F2': 34.6, '35B': 32.1, '33F': 29.0, '33C': 28.0}",1,93.0,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302055,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257915,"{'19A-I': 99.0, '19A-II': 97.2, '19A': 87.8, '19A-III': 87.6, '19AF': 61.7}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253925,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270865,"{'34': 98.7, '33F2': 35.2, '35B': 33.5, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318705,"{'23F': 92.6, '23A': 61.3, '28A': 48.0, '23B': 46.8, '06A-IV': 46.5}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328525,"{'06E': 100.0, '06B-III': 98.7, '06B-I': 46.1, '06A-III': 45.6, '06A-II': 44.9}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235845,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261775,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234145,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001089125,"{'07A': 98.2, '07F': 98.0, '19F-II': 36.7, '19F': 35.0, '19F-I': 34.9}",1,98.2,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900693045,"{'09A': 95.8, '09V': 95.6, '09N': 38.4, '09L': 37.4, '11F': 26.5}",1,95.8,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331145,"{'03': 75.1, '36': 9.3, '20': 7.8, '01': 7.2, '22F': 6.8}",1,75.1,,3,,,{},{},3,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307745,"{'15C': 95.6, '15B': 95.5, '15A': 61.2, '15F': 47.6, '23A': 34.5}",1,95.6,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321255,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027195,"{'04': 99.5, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.5,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228595,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028525,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320205,"{'01': 7.5, '45': 6.3, '25F': 5.8, '25A': 5.6, '22F': 5.0}",5,7.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244615,"{'23F': 96.9, '23A': 63.9, '23B': 48.4, '28A': 47.6, '06A-IV': 46.6}",1,96.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266095,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266145,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001097125,"{'36': 10.1, '06A-IV': 7.3, '01': 7.2, '20': 7.0, '06B-I': 6.1}",1,10.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334685,"{'06A-III': 88.8, '06B-I': 87.7, '06A-II': 87.3, '06A-V': 87.3, '06A-VI': 87.3}",1,88.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297015,"{'06E': 83.5, '06B-III': 82.4, '06B-I': 55.6, '06A-III': 54.1, '06A-II': 53.5}",1,83.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341045,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001087485,"{'11F': 61.7, '11D': 38.3, '11A': 36.8, '09A': 25.3, '09V': 25.3}",1,61.7,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322385,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327815,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.2, '23B': 47.9, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264845,"{'33F2': 99.4, '33F': 74.3, '33A': 70.0, '34': 41.8, '35B': 32.4}",1,99.4,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900038005,"{'22F': 91.9, '22A': 74.2, '06A-IV': 45.1, '06A-II': 44.7, '06A-VI': 44.6}",1,91.9,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020139965,"{'35B': 99.6, '33F': 33.4, '35C': 33.2, '34': 32.9, '35A': 32.8}",1,99.6,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251425,"{'03': 95.2, '36': 17.4, '01': 16.5, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298885,"{'06D': 91.1, '06C-I': 89.9, '06C': 89.8, '06B-I': 77.1, '06A-III': 76.8}",1,91.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346935,"{'14': 94.1, '36': 26.2, '09L': 24.7, '15B': 24.3, '15C': 24.2}",1,94.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295745,"{'03': 96.8, '01': 17.8, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,96.8,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332455,"{'19A-I': 99.2, '19A-II': 97.5, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324095,"{'22F': 96.4, '22A': 73.4, '06A': 42.6, '06A-II': 42.3, '06A-VI': 42.2}",1,96.4,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248465,"{'23F': 92.4, '23A': 61.1, '28A': 48.1, '23B': 46.6, '06A-IV': 46.6}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335815,"{'01': 7.7, '25F': 6.0, '45': 5.9, '25A': 5.8, '22F': 4.9}",4,7.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_902652855,"{'01': 99.8, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030115,"{'19F-II': 99.2, '19F': 95.0, '19F-III': 94.0, '19F-I': 93.7, '19F-IV': 92.9}",1,99.2,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229975,"{'06A-V': 93.6, '06B-II': 93.2, '06A': 92.0, '06A-II': 91.3, '06A-VI': 91.3}",1,93.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237275,"{'01': 7.6, '25F': 7.5, '25A': 7.3, '45': 6.4, '22F': 5.4}",5,7.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263825,"{'22F': 99.0, '22A': 73.3, '06A': 42.6, '06A-IV': 42.5, '06B': 42.1}",1,99.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321275,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319005,"{'15C': 85.5, '15B': 85.4, '15A': 61.0, '15F': 47.8, '23A': 31.3}",1,85.5,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303205,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001117385,"{'35B': 99.3, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.3,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329945,"{'04': 99.8, '45': 33.7, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001173465,"{'06A': 90.4, '06A-III': 89.4, '06A-II': 89.3, '06A-VI': 89.3, '06B-II': 89.3}",1,90.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323025,"{'01': 99.1, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001330735,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309955,"{'24F2': 99.8, '24B': 88.6, '24F': 87.1, '24A': 71.3, '07B': 55.3}",1,99.8,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299305,"{'01': 99.3, '19F': 32.2, '19F-I': 31.7, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321625,"{'19F-I': 97.6, '19F': 96.9, '19F-III': 96.4, '19F-II': 94.9, '19F-IV': 90.0}",1,97.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213995,"{'06A-II': 88.3, '06A-VI': 88.3, '06A-III': 88.2, '06A': 87.4, '06B-II': 87.4}",1,88.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311865,"{'09A': 99.6, '09V': 99.4, '09N': 38.6, '09L': 36.7, '11F': 26.6}",1,99.6,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232225,"{'15C': 87.8, '15B': 87.7, '15A': 64.6, '15F': 50.0, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227385,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263405,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300075,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281115,"{'06A-I': 98.1, '06B': 95.1, '06A': 88.3, '06A-V': 84.9, '06A-III': 83.1}",1,98.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001105165,"{'09A': 95.3, '09V': 95.1, '09N': 37.7, '09L': 36.3, '11F': 26.6}",1,95.3,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302905,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241735,"{'05': 95.2, '45': 22.2, '36': 21.8, '20': 20.3, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227065,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 89.6, '06A': 87.7, '06A-III': 86.1}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310615,"{'06E': 100.0, '06B-III': 95.9, '06B-I': 43.8, '06A-III': 43.3, '06A-I': 42.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032295,"{'12F': 96.7, '44': 93.4, '12B': 92.7, '12A': 80.4, '46': 77.3}",1,96.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298105,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251755,"{'24F': 97.1, '24B': 89.8, '24F2': 86.5, '24A': 63.0, '07C': 52.1}",1,97.1,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001112625,"{'04': 98.2, '45': 30.5, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256325,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284175,"{'04': 99.4, '45': 33.8, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.4,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279965,"{'19A-II': 98.1, '19A-I': 95.6, '19A': 84.1, '19A-III': 83.9, '19AF': 61.7}",1,98.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234965,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320175,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312045,"{'19A': 99.0, '19A-III': 98.8, '19A-I': 85.9, '19A-II': 83.6, '19AF': 57.0}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218955,"{'15C': 90.7, '15B': 90.6, '15A': 63.0, '15F': 48.8, '23A': 31.1}",1,90.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244815,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001136705,"{'35B': 99.6, '33F': 33.6, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.6,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001125105,"{'19B': 95.5, '19C': 69.9, '19F-II': 54.0, '19F-I': 53.0, '19F': 52.9}",1,95.5,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024295,"{'06B-II': 99.5, '06A-V': 95.4, '06A': 94.5, '06A-IV': 92.0, '06A-II': 91.8}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055915,"{'01': 98.5, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,98.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192385,"{'11D': 99.6, '11A': 96.8, '11F': 41.8, '11C': 35.5, '11B': 34.2}",1,99.6,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306795,"{'19F': 94.8, '19F-I': 94.3, '19F-III': 93.2, '19F-II': 92.0, '19F-IV': 88.3}",1,94.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322445,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320965,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322845,"{'15A': 99.2, '15F': 73.7, '15C': 61.8, '15B': 61.7, '23F': 31.5}",1,99.2,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282035,"{'06A-II': 95.3, '06A-VI': 95.3, '06B-II': 89.2, '06A-V': 88.8, '06A-III': 88.2}",1,95.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194835,"{'15A': 99.8, '15F': 74.1, '15C': 61.8, '15B': 61.7, '23F': 31.5}",1,99.8,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299155,"{'23B': 99.5, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.8}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021398265,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308065,"{'18C': 88.5, '18B': 88.4, '18F': 77.8, '18A': 61.6, '16F': 37.6}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262155,"{'09A': 99.4, '09V': 99.2, '09N': 38.5, '09L': 36.8, '11F': 27.0}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233875,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.4, '23A': 34.5}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322345,"{'06E': 99.6, '06B-III': 99.3, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190265,"{'19F-II': 99.4, '19F': 95.3, '19F-III': 94.3, '19F-I': 93.9, '19F-IV': 93.1}",1,99.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001160545,"{'06D': 95.4, '06C': 87.5, '06C-I': 87.5, '06B-I': 75.6, '06A-III': 75.2}",1,95.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 89.0']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001117885,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258495,"{'06A-II': 95.4, '06A-VI': 95.4, '06B-II': 89.4, '06A-V': 89.0, '06A-III': 88.3}",1,95.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347195,"{'34': 92.9, '33F2': 34.7, '35B': 31.0, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298815,"{'14': 93.9, '36': 26.1, '09L': 25.3, '09N': 24.1, '15B': 24.0}",1,93.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304045,"{'19A': 92.4, '19A-III': 92.2, '19A-II': 83.1, '19A-I': 81.1, '19AF': 55.8}",1,92.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029545,"{'35F': 98.8, '47F': 74.3, '34': 27.1, '35B': 26.5, '29': 22.5}",1,98.8,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302095,"{'23A': 95.1, '23F': 68.0, '23B': 43.2, '19F-II': 40.0, '15B': 39.1}",1,95.1,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336435,"{'35F': 99.6, '47F': 74.5, '35B': 26.5, '34': 26.4, '36': 23.6}",1,99.6,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020885,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001154385,"{'06C': 85.6, '06C-I': 85.6, '06D': 84.7, '06A': 77.0, '06A-IV': 73.3}",1,85.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341985,"{'15C': 95.2, '15B': 95.0, '15A': 61.0, '15F': 47.5, '23A': 34.5}",1,95.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243815,"{'18C': 99.3, '18B': 99.2, '18F': 76.0, '18A': 62.6, '16F': 39.3}",1,99.3,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019931265,"{'19F-I': 95.4, '19F': 95.1, '19F-III': 93.5, '19F-II': 92.3, '19F-IV': 88.3}",1,95.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900088815,"{'15B': 99.6, '15C': 99.4, '15A': 62.4, '15F': 48.2, '23A': 32.9}",1,99.6,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020745,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235855,"{'09N': 100.0, '09L': 89.1, '09A': 32.7, '09V': 32.7, '36': 32.5}",1,100.0,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026225,"{'08': 99.4, '06A-II': 24.5, '06A-VI': 24.4, '02': 24.2, '06B-II': 23.9}",1,99.4,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327075,"{'18C': 88.5, '18B': 88.4, '18F': 77.9, '18A': 61.8, '16F': 37.9}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241495,"{'15C': 95.9, '15B': 95.8, '15A': 61.5, '15F': 47.8, '23A': 34.5}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001604765,"{'22F': 98.9, '22A': 73.2, '06A': 42.3, '06B': 41.9, '06A-I': 41.6}",1,98.9,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900046665,"{'06C-I': 100.0, '06C': 99.8, '06D': 84.6, '06A-II': 79.6, '06A-VI': 79.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001329035,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 94.0, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216505,"{'04': 98.3, '45': 34.5, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001170305,"{'06A': 89.7, '06A-III': 89.3, '06B-I': 88.0, '06B-II': 87.8, '06A-II': 87.3}",1,89.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216735,"{'06B-I': 99.7, '06A-III': 97.6, '06B-II': 90.3, '06A': 89.8, '06A-IV': 89.1}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272975,"{'14': 99.8, '36': 26.9, '09L': 25.9, '09N': 24.7, '15B': 24.3}",1,99.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214505,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227315,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189985,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249475,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028505,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001201195,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265275,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279975,"{'14': 96.8, '36': 26.1, '09L': 25.5, '09N': 24.7, '15B': 24.0}",1,96.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237835,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001138525,"{'23B1': 98.8, '23B': 55.9, '19A-II': 36.0, '19A-I': 35.7, '19AF': 31.5}",1,98.8,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252905,"{'04': 99.4, '45': 33.8, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.4,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233545,"{'06A-II': 85.6, '06A-VI': 85.6, '06A-III': 85.5, '06A-V': 85.0, '06B-I': 84.1}",1,85.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294685,"{'14': 91.3, '19F-IV': 25.9, '36': 25.4, '09L': 25.1, '09N': 24.7}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226345,"{'06A-I': 99.4, '06B': 93.9, '06A-V': 89.2, '06A': 86.6, '06A-III': 85.9}",1,99.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275345,"{'06A-I': 98.8, '06B': 94.6, '06A-V': 89.0, '06A': 87.7, '06A-III': 85.6}",1,98.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001109565,"{'32F': 95.9, '32A': 95.8, '06A-IV': 41.8, '06A-II': 41.5, '06A-VI': 41.4}",1,95.9,,32F/32A,,,{},{},32F/32A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333795,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237845,"{'10A': 99.4, '10B': 67.1, '10C': 27.7, '10F': 18.1, '22F': 15.5}",1,99.4,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258275,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311155,"{'23F': 91.3, '23A': 59.9, '06A-IV': 46.9, '28A': 46.8, '23B': 46.2}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023475,"{'18C': 99.6, '18B': 99.5, '18F': 75.5, '18A': 62.3, '16F': 39.1}",1,99.6,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027665,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254705,"{'24F': 97.1, '24B': 89.8, '24F2': 86.5, '24A': 63.0, '07C': 52.1}",1,97.1,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314975,"{'19A-I': 99.0, '19A-II': 97.3, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 94.79]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219175,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 88.0, '19A-III': 87.8, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313755,"{'14': 92.5, '36': 28.8, '09L': 25.5, '09N': 24.3, '15B': 24.1}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281755,"{'14': 92.7, '36': 28.9, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002889535,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019397425,"{'06A': 91.4, '06A-III': 89.4, '06B-II': 88.5, '06B-I': 88.1, '06A-V': 87.9}",1,91.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 83.83']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001153425,"{'35F': 80.2, '47F': 56.8, '35B': 26.9, '34': 21.0, '36': 18.3}",1,80.2,,35F,,,{},{},35F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302775,"{'06A-I': 99.4, '06B': 95.1, '06A-V': 88.7, '06A': 87.9, '06A-III': 84.8}",1,99.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001143285,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001122485,"{'28F': 98.3, '28A': 91.9, '23F': 47.5, '16F': 46.0, '06B-I': 42.5}",1,98.3,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300365,"{'01': 6.9, '20': 6.1, '06A-IV': 6.1, '25F': 5.9, '25A': 5.7}",3,6.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281125,"{'01': 98.7, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.7,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001146505,"{'34': 93.3, '33F2': 35.3, '35B': 31.8, '33F': 29.3, '33C': 28.8}",1,93.3,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257195,"{'23A': 99.6, '23F': 67.2, '23B': 43.5, '19F-II': 37.9, '19F-IV': 37.2}",1,99.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001158525,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220315,"{'06E': 99.5, '06B-III': 99.1, '06B-I': 46.7, '06A-III': 46.2, '06A-II': 45.2}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251435,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335035,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327425,"{'06D': 87.2, '06C': 85.5, '06C-I': 85.5, '06A-I': 78.0, '06B': 77.7}",1,87.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322075,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230825,"{'39': 97.9, '29': 28.6, '34': 22.6, '43': 19.3, '33C': 18.6}",1,97.9,,39,,,{},{},39,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274285,"{'01': 99.1, '19F': 32.5, '19F-I': 32.1, '19F-III': 31.8, '19F-II': 31.5}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217325,"{'03': 94.6, '36': 16.6, '01': 16.4, '20': 15.9, '09N': 15.8}",1,94.6,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171005,"{'14': 92.2, '36': 28.9, '09L': 25.5, '09N': 24.4, '15B': 23.9}",1,92.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001114025,"{'06E': 100.0, '06B-III': 99.1, '06B-I': 46.7, '06A-III': 46.2, '06A-II': 45.2}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298955,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001096205,"{'13': 98.7, '09N': 28.2, '09L': 27.9, '14': 26.8, '20': 26.0}",1,98.7,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193335,"{'33F2': 99.8, '33F': 74.4, '33A': 70.1, '34': 41.4, '35B': 30.7}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327655,"{'19A-I': 99.2, '19A-II': 97.5, '19A': 87.8, '19A-III': 87.6, '19AF': 61.8}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342465,"{'13': 83.3, '36': 28.8, '09N': 26.0, '09L': 25.7, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269835,"{'13': 83.3, '36': 32.8, '14': 27.2, '15B': 26.7, '15C': 26.3}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265675,"{'06A-II': 91.4, '06A-VI': 91.4, '06A-V': 90.1, '06B-II': 89.7, '06A-III': 89.6}",1,91.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310015,"{'06A': 83.3, '06A-IV': 82.2, '06A-V': 81.8, '06B-II': 81.7, '06B-I': 81.5}",1,83.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 83.83']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001162265,"{'36': 13.0, '20': 8.1, '06A-IV': 7.6, '06C': 6.2, '45': 6.2}",2,13.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315385,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266795,"{'35F': 99.2, '47F': 74.5, '34': 26.7, '35B': 26.7, '36': 22.7}",1,99.2,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900795245,"{'03': 97.4, '01': 17.4, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001145845,"{'23F': 94.6, '23A': 63.7, '28A': 47.7, '23B': 47.0, '06A': 46.4}",1,94.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264495,"{'14': 92.5, '36': 28.7, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276595,"{'08': 99.1, '06A-II': 25.0, '06A-VI': 24.9, '02': 24.3, '06B-II': 24.3}",1,99.1,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330495,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220225,"{'38': 90.7, '25F': 86.8, '25A': 85.8, '36': 16.0, '20': 7.5}",1,90.7,25F_25A_38,25F_25A_38,,"[[0], [18]]","{'wcyD': ['b: 22.59'], 'wcyV': 4.69}","{'wcyD': 0, 'wcyV': 'not_detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169645,"{'14': 91.7, '36': 27.9, '09L': 25.6, '09N': 24.5, '15B': 23.7}",1,91.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001146165,"{'34': 93.1, '33F2': 35.3, '35B': 31.0, '33F': 29.3, '33C': 28.8}",1,93.1,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217665,"{'16F': 71.7, '28F': 43.2, '28A': 40.7, '18F': 33.7, '18A': 33.6}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001199795,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309505,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026005,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.0, '19A-II': 83.9, '19AF': 57.1}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001326855,"{'03': 94.8, '36': 16.9, '01': 15.6, '20': 15.5, '14': 14.1}",1,94.8,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303465,"{'14': 93.4, '36': 27.3, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001113645,"{'18C': 88.6, '18B': 88.5, '18F': 78.1, '18A': 61.4, '16F': 37.9}",1,88.6,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001137905,"{'23F': 96.8, '23A': 66.4, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317625,"{'03': 97.4, '01': 17.7, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192105,"{'21': 99.8, '22F': 33.7, '06A-IV': 32.0, '06A-II': 31.3, '06A-VI': 31.2}",1,99.8,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304575,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065375,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339805,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192795,"{'06C-I': 99.9, '06C': 99.7, '06D': 84.6, '06A-II': 79.6, '06A-VI': 79.6}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263455,"{'04': 99.2, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065225,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001301815,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020005,"{'22F': 98.5, '22A': 73.4, '06A': 42.6, '06A-II': 41.9, '06B-II': 41.9}",1,98.5,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001120525,"{'20': 5.4, '45': 4.8, '22F': 4.6, '25F': 4.4, '25A': 4.3}",1,5.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289725,"{'03': 95.2, '01': 17.5, '09L': 15.5, '09N': 15.1, '14': 13.9}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223545,"{'06A-II': 95.6, '06A-VI': 95.6, '06B-II': 89.5, '06A-V': 89.1, '06A-III': 88.5}",1,95.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239265,"{'18C': 99.6, '18B': 99.5, '18F': 75.5, '18A': 62.2, '16F': 39.3}",1,99.6,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238665,"{'03': 97.4, '01': 18.0, '20': 17.0, '36': 15.9, '09L': 15.3}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319835,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001326515,"{'09A': 99.5, '09V': 99.1, '09N': 36.3, '09L': 34.9, '11F': 26.3}",1,99.5,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001129865,"{'06E': 100.0, '06B-III': 98.9, '06B-I': 46.5, '06A-III': 46.0, '06A-II': 45.0}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023785,"{'17F': 98.2, '06A-III': 43.7, '06D': 43.4, '06B-I': 43.3, '06A-I': 43.1}",1,98.2,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282085,"{'07A': 99.5, '07F': 99.3, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319055,"{'19B': 99.7, '19C': 70.2, '19F-IV': 54.1, '19F-II': 53.9, '19F-I': 53.4}",1,99.7,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292355,"{'15C': 95.8, '15B': 95.7, '15A': 61.4, '15F': 47.8, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214055,"{'09A': 99.4, '09V': 99.2, '09N': 38.6, '09L': 36.5, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236515,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322785,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257385,"{'13': 83.1, '36': 29.2, '09L': 26.1, '09N': 25.6, '15B': 25.4}",1,83.1,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213895,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306145,"{'07A': 91.0, '07F': 90.8, '19F-II': 39.1, '19F': 37.6, '19F-IV': 37.6}",1,91.0,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307855,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309075,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.7, '19A-III': 87.5, '19AF': 61.8}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255355,"{'17F': 99.6, '06B': 44.3, '06B-I': 43.9, '06A-III': 43.8, '06D': 43.7}",1,99.6,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282755,"{'15C': 87.7, '15B': 87.6, '15A': 60.9, '15F': 48.0, '23A': 31.3}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332725,"{'12F': 96.4, '44': 93.4, '12B': 93.3, '12A': 84.8, '46': 81.7}",1,96.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250045,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001106225,"{'25F': 5.7, '45': 5.6, '25A': 5.5, '20': 5.1, '22F': 5.1}",3,5.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234075,"{'15A': 99.6, '15F': 73.9, '15C': 62.3, '15B': 62.2, '23F': 31.3}",1,99.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248315,"{'23A': 97.5, '23F': 68.8, '23B': 40.1, '19F-II': 39.2, '15B': 38.8}",1,97.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336295,"{'05': 95.1, '45': 22.4, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.1,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001105785,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001132485,"{'39': 97.9, '29': 28.6, '34': 22.6, '43': 19.3, '33C': 18.6}",1,97.9,,39,,,{},{},39,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020655,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026435,"{'23F': 97.0, '23A': 63.9, '23B': 48.0, '28A': 47.7, '06B-II': 46.1}",1,97.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276185,"{'18C': 88.5, '18B': 88.4, '18F': 77.8, '18A': 61.4, '16F': 37.6}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001093565,"{'10F': 98.2, '10C': 80.9, '10B': 22.4, '10A': 19.2, '22F': 14.9}",1,98.2,,10F,,,{},{},10F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001909355,"{'03': 95.2, '36': 17.4, '20': 15.9, '09N': 15.0, '09L': 14.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028315,"{'03': 95.2, '01': 17.2, '36': 17.1, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215455,"{'34': 98.8, '33F2': 35.1, '35B': 33.3, '33F': 29.9, '33C': 28.7}",1,98.8,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900188655,"{'06B-I': 99.3, '06A-III': 97.2, '06B-II': 89.9, '06A': 89.8, '06A-V': 88.0}",1,99.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298235,"{'12F': 96.9, '44': 93.6, '12B': 92.9, '12A': 80.6, '46': 77.5}",1,96.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227795,"{'03': 97.4, '36': 18.4, '01': 17.1, '09N': 15.7, '09L': 15.6}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341355,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301225,"{'19F-I': 97.8, '19F': 97.1, '19F-III': 96.6, '19F-II': 95.1, '19F-IV': 90.2}",1,97.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249805,"{'06A-II': 94.8, '06A-VI': 94.8, '06A-III': 90.8, '06B-II': 89.9, '06B-I': 89.8}",1,94.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269275,"{'35B': 99.4, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001100865,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001197255,"{'11F': 61.0, '11D': 37.8, '11A': 36.3, '09A': 25.3, '09V': 25.3}",1,61.0,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272045,"{'23F': 92.0, '23A': 59.0, '28F': 46.3, '06B-II': 45.9, '06A-IV': 45.8}",1,92.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001143185,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344975,"{'24F': 97.1, '24B': 89.8, '24F2': 86.6, '24A': 62.9, '07C': 52.0}",1,97.1,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001117265,"{'01': 7.0, '45': 6.8, '06A-IV': 5.8, '20': 5.4, '25F': 5.4}",2,7.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055755,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234065,"{'09A': 99.7, '09V': 99.5, '09N': 38.6, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001340975,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029215,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001168865,"{'38': 89.5, '25F': 85.5, '25A': 84.5, '36': 11.8, '20': 7.9}",1,89.5,25F_25A_38,25F_25A_38,,"[[0], [18]]","{'wcyD': ['b: 22.59'], 'wcyV': 4.69}","{'wcyD': 0, 'wcyV': 'not_detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001139265,"{'06E': 100.0, '06B-III': 97.4, '06B-I': 44.9, '06A-III': 44.4, '06B-II': 43.8}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259805,"{'17F': 99.8, '06B': 44.5, '06B-I': 44.1, '06A-III': 44.0, '06D': 43.7}",1,99.8,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021022155,"{'02': 57.6, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001302035,"{'15C': 96.0, '15B': 95.9, '15A': 61.5, '15F': 47.8, '23A': 34.6}",1,96.0,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026665,"{'23F': 99.2, '23A': 65.4, '23B': 49.0, '28A': 48.1, '06A-IV': 47.3}",1,99.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317255,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000251265,"{'06A-II': 97.9, '06A-VI': 97.9, '06B-II': 90.4, '06A-V': 89.6, '06A-III': 89.2}",1,97.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053765,"{'03': 95.2, '01': 17.3, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063445,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256955,"{'20': 82.1, '47F': 25.9, '35A': 24.6, '09L': 24.5, '36': 24.2}",1,82.1,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168395,"{'09A': 99.6, '09V': 99.4, '09N': 38.2, '09L': 36.8, '35B': 26.7}",1,99.6,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001343855,"{'33B': 89.8, '33D': 89.7, '35B': 34.6, '33F2': 30.3, '22F': 27.1}",1,89.8,,"Mixed serotypes- {'33B', '33D'}",,,{},{},"Mixed serotypes- {'33B', '33D'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294455,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171565,"{'14': 92.6, '36': 28.4, '09L': 24.8, '15B': 24.2, '15C': 24.1}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171845,"{'14': 92.5, '36': 28.7, '09L': 24.8, '15B': 24.2, '15C': 24.1}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310185,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276525,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028735,"{'35F': 99.1, '47F': 74.6, '34': 27.1, '35B': 26.7, '36': 22.9}",1,99.1,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283905,"{'01': 99.0, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301165,"{'18C': 85.0, '18B': 84.9, '18F': 78.3, '18A': 62.1, '16F': 38.1}",1,85.0,,"Mixed serotypes- {'18C/18B', '18F'}",,,{},{},"Mixed serotypes- {'18C/18B', '18F'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222095,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295435,"{'23B': 82.7, '23B1': 62.9, '23F': 31.7, '28A': 28.6, '06B-III': 27.9}",1,82.7,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001301695,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296895,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251715,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265475,"{'19F': 94.9, '19F-I': 94.4, '19F-III': 93.3, '19F-II': 92.0, '19F-IV': 88.3}",1,94.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302525,"{'18C': 99.7, '18B': 99.6, '18F': 75.6, '18A': 62.4, '16F': 39.2}",1,99.7,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225945,"{'19B': 92.9, '19C': 71.8, '19F-IV': 51.1, '19F-II': 51.0, '19F-I': 50.1}",1,92.9,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275955,"{'10A': 99.4, '10B': 67.1, '10C': 27.7, '10F': 18.1, '22F': 15.5}",1,99.4,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249875,"{'06A-II': 85.6, '06A-VI': 85.6, '06A-III': 85.5, '06A-V': 84.8, '06B-I': 84.1}",1,85.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291035,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032995,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273635,"{'16F': 71.9, '28F': 43.8, '28A': 41.0, '18F': 34.1, '18A': 34.0}",1,71.9,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315185,"{'19F-I': 99.7, '19F': 96.7, '19F-III': 96.7, '19F-II': 93.9, '19F-IV': 89.5}",1,99.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340125,"{'19F-III': 99.9, '19F': 97.9, '19F-I': 97.2, '19F-II': 94.7, '19F-IV': 89.4}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900064815,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001348075,"{'14': 94.2, '36': 26.0, '09L': 24.8, '15B': 24.3, '15C': 24.2}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331465,"{'14': 93.2, '09L': 27.5, '36': 27.3, '09N': 25.4, '15B': 24.3}",1,93.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278895,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267605,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273605,"{'23F': 84.2, '23A': 55.8, '23B': 43.6, '28A': 41.3, '06A-IV': 39.5}",1,84.2,,23F,,,{},{},23F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001113785,"{'17F': 98.1, '06A-III': 43.7, '06D': 43.4, '06B-I': 43.3, '06A-I': 43.1}",1,98.1,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291505,"{'06A-V': 96.2, '06A': 94.9, '06A-IV': 94.6, '06B-II': 93.4, '06A-II': 89.1}",1,96.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335325,"{'14': 99.7, '09L': 27.0, '36': 25.9, '09N': 24.8, '15B': 24.1}",1,99.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230515,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001301395,"{'06C-I': 89.1, '06C': 89.0, '06D': 86.9, '06A-I': 77.7, '06B': 77.4}",1,89.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190895,"{'06C-I': 98.9, '06C': 98.8, '06D': 84.6, '06A-II': 78.6, '06A-VI': 78.6}",1,98.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283485,"{'07A': 99.6, '07F': 99.4, '19F-II': 36.3, '19F-IV': 35.7, '19F': 34.8}",1,99.6,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275405,"{'03': 75.1, '20': 7.9, '01': 7.1, '36': 7.1, '22F': 6.8}",1,75.1,,3,,,{},{},3,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239455,"{'35B': 91.2, '33F': 32.1, '34': 31.4, '33B': 30.8, '33A': 30.4}",1,91.2,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907172305,"{'14': 92.2, '36': 25.9, '09L': 25.6, '09N': 24.7, '15B': 24.2}",1,92.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020140085,"{'35B': 99.9, '33F': 33.6, '35C': 33.4, '34': 33.2, '35A': 33.0}",1,99.9,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261905,"{'23A': 99.4, '23F': 67.1, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.4,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259975,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020585,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304425,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028555,"{'19F-I': 99.7, '19F': 96.7, '19F-III': 96.7, '19F-II': 93.9, '19F-IV': 89.3}",1,99.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001127025,"{'19F': 94.7, '19F-I': 94.2, '19F-III': 93.1, '19F-II': 91.8, '19F-IV': 88.1}",1,94.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319065,"{'10A': 99.4, '10B': 67.1, '10C': 27.7, '10F': 18.1, '22F': 15.5}",1,99.4,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294285,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242685,"{'20': 82.0, '47F': 25.9, '35A': 24.6, '09L': 24.5, '36': 24.2}",1,82.0,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232185,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250215,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.0, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900061765,"{'15C': 95.9, '15B': 95.8, '15A': 63.3, '15F': 50.7, '19A': 50.2}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033685,"{'23B': 99.5, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.8}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275905,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330765,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314335,"{'03': 97.4, '01': 17.4, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001123225,"{'23F': 93.9, '23A': 63.4, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,93.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001909995,"{'03': 95.2, '36': 17.4, '20': 15.7, '09N': 15.4, '09L': 15.1}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308335,"{'21': 95.8, '22F': 38.4, '06A-II': 34.6, '06A-VI': 34.5, '06A-III': 33.9}",1,95.8,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339745,"{'05': 95.1, '45': 22.4, '36': 21.8, '20': 20.4, '12A': 19.8}",1,95.1,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001129745,"{'15C': 95.7, '15B': 95.6, '15A': 61.5, '15F': 47.8, '23A': 34.5}",1,95.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001109385,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338165,"{'15C': 87.3, '15B': 87.2, '15A': 64.0, '15F': 49.8, '23A': 30.2}",1,87.3,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347175,"{'36': 12.1, '20': 7.6, '06A-IV': 7.5, '06C': 6.1, '06B-I': 6.1}",2,12.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051475,"{'06C-I': 92.9, '06C': 92.8, '06D': 84.7, '06B-I': 81.8, '06A-III': 81.1}",1,92.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900323475,"{'12F': 96.2, '12B': 93.1, '44': 93.0, '12A': 80.2, '46': 77.2}",1,96.2,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_008423525,"{'06E': 99.8, '06B-III': 99.3, '06B-I': 46.7, '06A-III': 46.2, '06A-II': 45.2}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000170035,"{'06A': 100.0, '06A-IV': 99.6, '06B-II': 95.4, '06A-V': 93.7, '06A-III': 91.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170595,"{'14': 91.9, '36': 28.1, '09L': 24.7, '15B': 24.1, '15C': 24.0}",1,91.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001343015,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234795,"{'14': 92.5, '36': 28.9, '09L': 25.5, '09N': 24.6, '15B': 24.1}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302875,"{'14': 92.4, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268395,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340575,"{'13': 83.3, '36': 28.8, '09N': 25.9, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294595,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001161285,"{'21': 92.2, '22F': 35.3, '06A-IV': 34.3, '06A-II': 34.0, '06A-VI': 34.0}",1,92.2,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248925,"{'16F': 71.7, '28F': 43.6, '28A': 40.8, '18F': 33.9, '18A': 33.7}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001169465,"{'20': 6.9, '45': 6.7, '25F': 5.7, '01': 5.5, '25A': 5.5}",1,6.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900059685,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057115,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225205,"{'14': 92.7, '36': 28.4, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224775,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032395,"{'12F': 96.7, '44': 93.4, '12B': 92.7, '12A': 80.4, '46': 77.3}",1,96.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247015,"{'10B': 93.7, '10A': 69.9, '10F': 20.0, '10C': 18.7, '22F': 14.2}",1,93.7,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297475,"{'08': 97.8, '06A-II': 25.7, '06A-VI': 25.6, '06B-II': 25.0, '06A-V': 24.7}",1,97.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236445,"{'23F': 92.4, '23A': 61.1, '28A': 48.1, '23B': 46.6, '06A-IV': 46.6}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190915,"{'09A': 96.0, '09V': 95.8, '09N': 37.2, '09L': 36.3, '11F': 26.7}",1,96.0,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192965,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 25.8, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001087785,"{'35B': 42.3, '33B': 40.2, '33D': 36.1, '34': 31.3, '33F': 29.7}",1,42.3,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020140465,"{'35B': 99.7, '33F': 33.8, '35C': 33.6, '34': 33.4, '35A': 33.2}",1,99.7,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001131465,"{'06C': 85.6, '06C-I': 85.6, '06D': 84.7, '06A': 77.0, '06A-IV': 73.3}",1,85.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001299955,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.0, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001136165,"{'06A-II': 97.9, '06A-VI': 97.9, '06B-II': 90.4, '06A-V': 89.6, '06A-III': 89.2}",1,97.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239205,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001124965,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001092345,"{'14': 89.6, '36': 27.7, '09L': 22.8, '19F-II': 22.2, '09N': 21.7}",1,89.6,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295245,"{'16F': 71.5, '28F': 43.1, '28A': 40.6, '18F': 33.6, '18A': 32.9}",1,71.5,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337565,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327405,"{'02': 92.4, '22F': 39.9, '06B-I': 38.7, '06A-III': 38.6, '06A-II': 38.5}",1,92.4,,2,,,{},{},2,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313555,"{'19A': 99.0, '19A-III': 98.8, '19A-I': 85.9, '19A-II': 83.6, '19AF': 57.2}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001208045,"{'36': 10.8, '20': 8.1, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",2,10.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321175,"{'18C': 99.3, '18B': 99.2, '18F': 76.0, '18A': 62.9, '16F': 39.3}",1,99.3,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018965,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280345,"{'17F': 99.6, '06B': 44.3, '06B-I': 44.1, '06A-III': 44.0, '06D': 43.7}",1,99.6,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001102345,"{'14': 94.7, '36': 25.5, '15B': 23.9, '15C': 23.8, '09L': 23.1}",1,94.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024185,"{'07A': 99.6, '07F': 99.4, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.6,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001334555,"{'36': 6.1, '45': 5.3, '20': 5.1, '25F': 4.8, '25A': 4.7}",1,6.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001090545,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031795,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241065,"{'21': 99.8, '22F': 36.1, '06A-IV': 32.9, '06A-II': 32.1, '06A-VI': 32.0}",1,99.8,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001165965,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.7, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314875,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.5}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281535,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001159905,"{'36': 13.3, '20': 8.8, '23B1': 7.9, '06A-IV': 7.1, '06B-I': 5.9}",1,13.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051435,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214515,"{'23F': 93.9, '23A': 63.4, '28A': 48.2, '23B': 46.9, '06A-III': 46.2}",1,93.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001137345,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317035,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001301315,"{'15B': 99.8, '15C': 99.7, '15A': 62.7, '15F': 48.3, '23A': 32.9}",1,99.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312935,"{'14': 91.4, '19F-IV': 25.9, '09L': 24.8, '09N': 24.7, '36': 24.4}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901212855,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335565,"{'11B': 98.0, '11C': 87.6, '11A': 31.8, '11D': 31.5, '11F': 25.9}",1,98.0,,11B/11C,,,{},{},11B/11C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001205695,"{'20': 86.5, '36': 27.7, '13': 25.6, '09L': 24.6, '47F': 24.6}",1,86.5,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337175,"{'01': 7.7, '25F': 6.0, '45': 5.9, '25A': 5.8, '22F': 5.2}",3,7.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306355,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001193995,"{'09N': 97.9, '09L': 87.9, '09A': 32.4, '09V': 32.4, '36': 30.5}",1,97.9,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261665,"{'03': 94.7, '01': 17.4, '36': 17.4, '20': 16.1, '09N': 15.8}",1,94.7,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171325,"{'14': 92.5, '36': 28.7, '09L': 24.8, '15B': 24.2, '15C': 24.1}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253215,"{'05': 40.1, '36': 21.4, '20': 19.8, '01': 17.9, '14': 17.0}",1,40.1,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315775,"{'15A': 97.2, '15F': 75.0, '15C': 61.6, '15B': 61.5, '23F': 31.7}",1,97.2,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218395,"{'06E': 85.3, '06B-III': 84.6, '06B-I': 51.1, '06A-III': 50.3, '06A-V': 49.8}",1,85.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001171705,"{'19F-I': 95.5, '19F': 95.2, '19F-III': 93.7, '19F-II': 92.4, '19F-IV': 88.4}",1,95.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019457155,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001112825,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 89.4, '06A': 87.7, '06A-III': 86.1}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191345,"{'33F': 99.5, '33A': 97.0, '33F2': 70.4, '35C': 42.4, '42': 41.4}",1,99.5,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234505,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.7, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189645,"{'06B-I': 99.4, '06A-III': 97.3, '06B-II': 90.0, '06A': 89.8, '06A-V': 88.1}",1,99.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001120345,"{'36': 13.0, '20': 8.0, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",1,13.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216725,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219305,"{'13': 83.7, '36': 32.3, '14': 27.2, '15B': 26.7, '15C': 26.3}",1,83.7,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266375,"{'01': 7.4, '45': 6.3, '25F': 5.8, '25A': 5.6, '22F': 5.3}",3,7.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001203035,"{'11F': 61.8, '11D': 38.4, '11A': 36.8, '09V': 25.4, '09A': 25.3}",1,61.8,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286125,"{'06A-I': 95.2, '06B': 92.8, '06A-V': 89.5, '06A': 87.4, '06B-II': 86.0}",1,95.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326375,"{'15C': 96.1, '15B': 96.0, '15A': 61.5, '15F': 47.8, '23A': 34.9}",1,96.1,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213525,"{'14': 91.4, '19F-IV': 25.9, '36': 25.1, '09L': 24.7, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262165,"{'23F': 96.7, '23A': 63.8, '06A-IV': 50.8, '23B': 50.3, '06B-II': 48.5}",1,96.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239775,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267145,"{'09A': 99.6, '09V': 99.4, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.6,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054805,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301385,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020139635,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024915,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191425,"{'15C': 93.9, '15B': 93.8, '15A': 62.1, '15F': 48.6, '23A': 32.9}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168135,"{'09A': 99.3, '09V': 99.1, '09N': 36.7, '09L': 35.2, '11F': 26.5}",1,99.3,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900461665,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315215,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001089025,"{'11F': 61.8, '11D': 38.4, '11A': 36.8, '09V': 25.4, '09A': 25.3}",1,61.8,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169025,"{'09A': 99.7, '09V': 99.5, '09N': 37.9, '09L': 36.7, '35B': 26.7}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329065,"{'01': 7.8, '25F': 6.1, '25A': 5.9, '36': 5.8, '38': 5.2}",4,7.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001105325,"{'09A': 95.9, '09V': 95.7, '09N': 38.1, '09L': 36.8, '11F': 26.7}",1,95.9,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318185,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900692685,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225685,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299975,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028465,"{'01': 98.6, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.3}",1,98.6,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275485,"{'06A-II': 87.7, '06A-VI': 87.7, '06A': 87.6, '06A-III': 87.6, '06B-II': 86.8}",1,87.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024085,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901212975,"{'14': 93.4, '36': 27.3, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297615,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331825,"{'23A': 99.7, '23F': 67.3, '23B': 43.7, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001110225,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001142005,"{'35B': 99.2, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.2,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260775,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280445,"{'06A-II': 85.5, '06A-VI': 85.5, '06A-III': 85.4, '06A-V': 84.8, '06A': 84.0}",1,85.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306915,"{'06A-III': 94.6, '06B-I': 93.2, '06A': 90.1, '06A-IV': 89.3, '06B-II': 89.2}",1,94.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268985,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326975,"{'13': 83.3, '36': 28.8, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002947575,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.9, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192195,"{'19A-II': 100.0, '19A-I': 96.6, '19A': 85.0, '19A-III': 84.8, '19AF': 62.1}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249745,"{'33D': 71.2, '33B': 66.5, '19A-II': 28.8, '06A-I': 26.3, '19A': 25.8}",1,71.2,,"Mixed serotypes- {'33B', '33D'}",,,{},{},"Mixed serotypes- {'33B', '33D'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900188855,"{'06E': 99.9, '06B-III': 99.3, '06B-I': 46.7, '06A-III': 46.2, '06A-II': 45.2}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325805,"{'23B': 81.0, '23B1': 65.0, '06B-II': 34.6, '06A-V': 34.4, '06A-IV': 34.0}",1,81.0,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171715,"{'14': 92.5, '36': 28.6, '09L': 24.7, '15B': 24.2, '15C': 24.1}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299945,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278885,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299045,"{'01': 99.3, '19F': 32.2, '19F-I': 31.7, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242885,"{'14': 93.9, '36': 26.1, '09L': 25.3, '09N': 24.1, '15B': 24.0}",1,93.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337545,"{'03': 95.6, '01': 17.3, '36': 17.3, '09N': 15.9, '20': 15.8}",1,95.6,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227885,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.0, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001148985,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236305,"{'14': 93.4, '36': 26.0, '09L': 25.1, '09N': 24.0, '15B': 24.0}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001299915,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347355,"{'14': 94.1, '36': 26.3, '09L': 25.5, '09N': 24.6, '15B': 24.3}",1,94.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001101985,"{'32F': 97.5, '32A': 97.4, '06A-II': 40.3, '06A-IV': 40.3, '06A-VI': 40.2}",1,97.5,,32F/32A,,,{},{},32F/32A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001141565,"{'07B': 99.9, '40': 92.9, '07C': 77.2, '24F2': 48.1, '24F': 47.7}",1,99.9,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218625,"{'35B': 99.9, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.9,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315075,"{'15C': 87.7, '15B': 87.6, '15A': 60.9, '15F': 48.0, '23A': 31.3}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398455,"{'23F': 90.8, '23A': 64.2, '06B-I': 50.0, '06A-III': 49.6, '06D': 47.9}",1,90.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245595,"{'06A-II': 95.3, '06A-VI': 95.3, '06B-II': 89.2, '06A-V': 88.8, '06A-III': 88.2}",1,95.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295605,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297925,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001244585,"{'06E': 99.1, '06B-III': 97.4, '06B-I': 45.7, '06A-III': 45.1, '06A-II': 44.1}",1,99.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001144785,"{'06A-III': 99.8, '06B-I': 98.2, '06B-II': 91.1, '06A': 90.8, '06A-V': 90.2}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337835,"{'35F': 91.0, '47F': 67.6, '29': 25.7, '34': 25.3, '35B': 24.1}",1,91.0,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192085,"{'22F': 96.8, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,96.8,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239605,"{'23F': 92.3, '23A': 61.3, '28A': 47.8, '23B': 46.8, '06A-IV': 46.3}",1,92.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052725,"{'19A': 99.8, '19A-III': 99.6, '19A-I': 86.0, '19A-II': 83.5, '19AF': 57.1}",1,99.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217605,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001159645,"{'33B': 89.8, '33D': 89.7, '35B': 34.7, '33F2': 30.3, '22F': 28.0}",1,89.8,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001136185,"{'06A-II': 87.3, '06A-VI': 87.3, '06A': 86.0, '06A-IV': 85.2, '06A-V': 85.0}",1,87.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223345,"{'35B': 99.4, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056635,"{'24F': 97.1, '24B': 89.8, '24F2': 86.5, '24A': 63.0, '07C': 52.1}",1,97.1,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189165,"{'31': 99.7, '41A': 57.3, '41F': 49.0, '06A-II': 36.5, '06A-VI': 36.5}",1,99.7,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288475,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001089585,"{'23F': 94.6, '23A': 63.7, '28A': 47.7, '23B': 47.0, '06A': 46.4}",1,94.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287495,"{'34': 98.7, '33F2': 35.2, '35B': 33.6, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246085,"{'04': 99.7, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256125,"{'15C': 87.8, '15B': 87.7, '15A': 64.6, '15F': 50.0, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322795,"{'23B1': 100.0, '23B': 55.8, '19A-II': 36.2, '19A-I': 35.9, '19AF': 31.3}",1,100.0,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264665,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225985,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001110945,"{'20': 5.5, '45': 4.8, '22F': 4.7, '25A': 4.5, '25F': 4.5}",1,5.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900039395,"{'12F': 96.7, '44': 93.4, '12B': 92.7, '12A': 80.4, '46': 77.3}",1,96.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900199295,"{'15A': 100.0, '15F': 74.3, '15C': 62.0, '15B': 61.9, '23F': 31.7}",1,100.0,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000495395,"{'06B-I': 99.7, '06A-III': 97.6, '06B-II': 90.3, '06A': 89.8, '06A-V': 88.4}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265095,"{'05': 95.3, '45': 22.1, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023315,"{'06B-I': 99.7, '06A-III': 97.6, '06B-II': 90.2, '06A': 89.8, '06A-V': 88.3}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238405,"{'35F': 99.2, '47F': 74.5, '34': 26.7, '35B': 26.7, '36': 24.1}",1,99.2,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294075,"{'07B': 99.9, '40': 92.9, '07C': 77.2, '24F2': 48.1, '24F': 47.7}",1,99.9,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236325,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170485,"{'14': 91.5, '36': 28.0, '09L': 24.4, '09N': 23.9, '15B': 23.9}",1,91.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247465,"{'05': 95.0, '45': 22.4, '36': 21.7, '20': 20.2, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342855,"{'18A': 90.3, '18B': 54.1, '18C': 54.1, '18F': 53.5, '16F': 35.5}",1,90.3,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237175,"{'06A-II': 92.9, '06A-VI': 92.9, '06B-II': 87.5, '06A-V': 86.9, '06A-III': 86.4}",1,92.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215415,"{'06A': 83.7, '06A-IV': 82.6, '06B-I': 82.1, '06A-III': 82.0, '06A-V': 82.0}",1,83.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 83.83']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
PHESPD0816,"{'41A': 98.9, '41F': 67.5, '31': 56.8, '06A-II': 45.7, '06A-VI': 45.6}",1,98.9,,41A,,,{},{},41A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325965,"{'14': 91.7, '36': 27.9, '09L': 25.6, '09N': 24.5, '15B': 23.7}",1,91.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338525,"{'18C': 99.5, '18B': 99.4, '18F': 76.0, '18A': 63.2, '16F': 39.5}",1,99.5,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_009664475,"{'19A-II': 99.9, '19A-I': 96.5, '19A': 84.9, '19A-III': 84.7, '19AF': 62.4}",1,99.9,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055845,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900692695,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_015840115,"{'24F2': 99.7, '24B': 88.5, '24F': 87.0, '24A': 71.0, '07B': 56.8}",1,99.7,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001156245,"{'18A': 97.6, '18B': 53.8, '18C': 53.8, '18F': 53.5, '19F-IV': 37.3}",1,97.6,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273765,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001194805,"{'23A': 96.6, '23F': 67.7, '23B': 45.9, '19F-II': 39.4, '15B': 38.5}",1,96.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242645,"{'06A-II': 85.8, '06A-VI': 85.8, '06A-III': 85.7, '06A-V': 85.1, '06B-I': 84.3}",1,85.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301235,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900692765,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277115,"{'06C-I': 92.9, '06C': 92.8, '06D': 84.9, '06B-I': 77.8, '06A-III': 77.3}",1,92.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310585,"{'24F2': 99.7, '24B': 88.5, '24F': 87.0, '24A': 71.0, '07B': 56.8}",1,99.7,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306875,"{'18C': 88.4, '18B': 88.3, '18F': 77.7, '18A': 62.0, '16F': 37.8}",1,88.4,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273365,"{'05': 95.3, '45': 22.5, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192055,"{'15A': 99.8, '15F': 74.1, '15C': 61.9, '15B': 61.8, '23F': 31.6}",1,99.8,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342105,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246095,"{'12F': 95.5, '12B': 92.9, '44': 92.5, '12A': 84.4, '46': 81.3}",1,95.5,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342435,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029635,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225135,"{'10A': 93.9, '10B': 64.7, '10C': 29.0, '10F': 19.4, '22F': 16.4}",1,93.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222085,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320565,"{'34': 98.7, '33F2': 35.2, '35B': 33.5, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001172025,"{'20': 5.4, '45': 5.0, '25A': 4.5, '25F': 4.5, '22F': 4.1}",1,5.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242525,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250835,"{'06B-III': 89.7, '06E': 89.0, '06A-II': 54.4, '06A-VI': 54.4, '06B-I': 53.8}",1,89.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310455,"{'15C': 96.0, '15B': 95.8, '15A': 61.4, '15F': 47.7, '23A': 34.8}",1,96.0,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341565,"{'45': 94.0, '04': 38.8, '06A-II': 29.8, '06A-VI': 29.7, '06C': 29.3}",1,94.0,,45,,,{},{},45,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171085,"{'14': 92.6, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331515,"{'19F-I': 99.6, '19F': 96.6, '19F-III': 96.6, '19F-II': 93.8, '19F-IV': 89.2}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001166105,"{'04': 98.1, '45': 32.3, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.1,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224335,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052495,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325125,"{'10A': 99.4, '10B': 67.1, '10C': 27.7, '10F': 18.1, '22F': 15.5}",1,99.4,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274055,"{'14': 93.2, '36': 27.3, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267875,"{'17F': 99.5, '06B': 44.2, '06B-I': 44.1, '06A-III': 44.0, '06D': 43.7}",1,99.5,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346195,"{'07B': 99.8, '40': 92.8, '07C': 77.1, '24F2': 48.0, '24F': 47.6}",1,99.8,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260785,"{'14': 91.4, '19F-IV': 25.9, '09L': 25.2, '09N': 24.6, '36': 24.2}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900062215,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287835,"{'06E': 97.2, '06B-III': 96.7, '06B-I': 47.6, '06A-III': 47.1, '06A-II': 45.7}",1,97.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281625,"{'06A-II': 88.3, '06A-VI': 88.3, '06A-III': 88.2, '06A': 87.5, '06B-II': 87.3}",1,88.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290885,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300495,"{'19F-I': 99.6, '19F': 96.6, '19F-III': 96.6, '19F-II': 93.8, '19F-IV': 89.2}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213075,"{'14': 91.3, '19F-IV': 25.9, '09L': 25.2, '36': 24.9, '09N': 24.7}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266315,"{'07C': 97.9, '07B': 76.5, '40': 75.2, '24B': 48.2, '24F': 47.8}",1,97.9,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235265,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019457025,"{'15C': 93.9, '15B': 93.8, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001146185,"{'01': 6.4, '25F': 5.7, '45': 5.7, '25A': 5.5, '20': 5.4}",2,6.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269875,"{'23B1': 99.9, '23B': 55.8, '19A-II': 36.2, '19A-I': 35.9, '19AF': 31.7}",1,99.9,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280085,"{'04': 98.1, '45': 34.1, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.1,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171605,"{'14': 92.4, '36': 28.6, '09L': 24.7, '15B': 24.2, '15C': 24.1}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001172845,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189175,"{'06B-I': 99.3, '06A-III': 97.2, '06B-II': 89.9, '06A': 89.6, '06A-V': 88.0}",1,99.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191465,"{'23B': 99.4, '23B1': 64.6, '23F': 45.7, '23A': 39.9, '06A-IV': 36.7}",1,99.4,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218805,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249665,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289865,"{'33C': 98.5, '34': 29.9, '35B': 26.6, '33F2': 23.8, '33F': 23.0}",1,98.5,,33C,,,{},{},33C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231535,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001136785,"{'34': 92.9, '33F2': 34.7, '35B': 30.2, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267335,"{'14': 99.7, '09L': 26.6, '36': 25.5, '09N': 24.8, '15B': 24.1}",1,99.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001196535,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.3}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900041765,"{'16F': 95.4, '28F': 44.0, '28A': 42.5, '19A': 41.8, '18F': 41.7}",1,95.4,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002889195,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213845,"{'03': 97.4, '01': 17.7, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334925,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318625,"{'23F': 78.0, '23A': 57.7, '23B': 51.5, '28A': 38.9, '28F': 36.3}",1,78.0,,23F,,,{},{},23F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290615,"{'11A': 99.3, '11D': 96.9, '11F': 40.1, '11C': 36.2, '11B': 34.8}",1,99.3,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230595,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001160305,"{'03': 95.2, '36': 17.2, '20': 15.6, '01': 14.3, '14': 13.9}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320215,"{'15C': 87.6, '15B': 87.5, '15A': 64.4, '15F': 49.8, '23A': 30.0}",1,87.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222735,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298345,"{'07A': 97.9, '07F': 97.7, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,97.9,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291835,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289315,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001134765,"{'03': 95.1, '20': 15.1, '01': 14.5, '09N': 14.4, '09L': 14.3}",1,95.1,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000251605,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901212925,"{'06E': 89.8, '06B-III': 88.0, '06B-I': 51.5, '06A-III': 50.4, '06A-II': 49.0}",1,89.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300355,"{'23B': 99.2, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.5}",1,99.2,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342975,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001134285,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 94.0, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272225,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217015,"{'06E': 89.8, '06B-III': 87.8, '06B-I': 51.3, '06A-III': 50.2, '06A-II': 48.8}",1,89.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316355,"{'14': 93.4, '36': 27.3, '09L': 25.9, '09N': 25.3, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298585,"{'34': 98.7, '33F2': 35.2, '35B': 33.5, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001149505,"{'09N': 97.0, '09L': 86.6, '09A': 32.4, '09V': 32.4, '36': 30.5}",1,97.0,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227745,"{'23A': 99.4, '23F': 67.1, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.4,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270325,"{'07C': 94.0, '07B': 77.1, '40': 76.7, '24B': 48.6, '24F': 47.6}",1,94.0,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049925,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312345,"{'12F': 96.4, '44': 93.4, '12B': 93.3, '12A': 84.8, '46': 81.7}",1,96.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026445,"{'04': 99.8, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001093145,"{'11D': 99.8, '11A': 97.0, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,99.8,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001114585,"{'19F-I': 95.4, '19F': 95.1, '19F-III': 93.6, '19F-II': 92.3, '19F-IV': 88.3}",1,95.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001195565,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055255,"{'09A': 99.0, '09V': 98.8, '09N': 38.3, '09L': 36.2, '11F': 27.0}",1,99.0,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001167385,"{'16F': 95.7, '19F-II': 42.6, '19F-IV': 42.6, '28F': 42.4, '19F': 41.6}",1,95.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328835,"{'12F': 96.3, '44': 93.3, '12B': 93.2, '12A': 84.8, '46': 81.7}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[0]],{'wciI': ['2: 88.77']},{'wciI': 0},12F_12A_12B_44_46,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001125405,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167245,"{'13': 98.6, '20': 29.6, '36': 28.3, '09L': 27.6, '09N': 27.0}",1,98.6,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339885,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323985,"{'09A': 94.6, '09V': 94.4, '09N': 38.3, '09L': 37.6, '11F': 26.7}",1,94.6,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900064625,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341655,"{'09A': 95.8, '09V': 95.6, '09N': 38.5, '09L': 37.2, '11F': 26.5}",1,95.8,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251345,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057085,"{'06E': 76.8, '06B-III': 76.8, '06A-II': 65.2, '06A-VI': 65.2, '06B-II': 61.2}",1,76.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270205,"{'34': 97.2, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,97.2,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342685,"{'16F': 71.5, '28F': 43.1, '28A': 40.6, '18F': 33.6, '18A': 32.7}",1,71.5,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900195135,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.6, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323975,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301935,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000251425,"{'07A': 90.9, '07F': 90.7, '19F-II': 39.2, '19F': 37.7, '19F-IV': 37.7}",1,90.9,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002093455,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274895,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.7, '06B-II': 35.1, '06A-V': 34.9}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296065,"{'06E': 99.3, '06B-III': 98.9, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,99.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269395,"{'15C': 87.8, '15B': 87.6, '15A': 60.9, '15F': 48.0, '23A': 31.3}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332485,"{'23A': 95.0, '23F': 68.0, '23B': 43.2, '19F-II': 39.8, '15B': 39.0}",1,95.0,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336035,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001116085,"{'23A': 96.6, '23F': 67.7, '23B': 45.9, '19F-II': 39.4, '15B': 38.5}",1,96.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226445,"{'11D': 96.5, '11A': 95.3, '11F': 43.3, '11C': 36.2, '11B': 34.8}",1,96.5,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213135,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.2, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225545,"{'15C': 95.5, '15B': 95.3, '15A': 60.8, '15F': 47.3, '23A': 34.4}",1,95.5,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317405,"{'01': 99.2, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001152605,"{'10B': 91.4, '10A': 73.4, '10F': 20.1, '10C': 18.8, '22F': 14.1}",1,91.4,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270075,"{'16F': 98.9, '28F': 42.4, '19F-IV': 41.1, '18A': 41.0, '18F': 40.7}",1,98.9,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398885,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225525,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 96.61]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001121245,"{'35B': 99.6, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.6,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284735,"{'05': 95.2, '45': 22.2, '36': 21.2, '12A': 19.7, '46': 19.6}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286585,"{'06C-I': 88.5, '06C': 88.4, '06D': 84.7, '06A': 77.0, '06B-I': 75.7}",1,88.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002889135,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001095405,"{'06A-II': 97.9, '06A-VI': 97.9, '06B-II': 90.4, '06A-V': 89.6, '06A-III': 89.2}",1,97.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000278925,"{'18C': 99.0, '18B': 98.9, '18F': 75.0, '18A': 61.9, '16F': 38.7}",1,99.0,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001084065,"{'32A': 97.5, '32F': 97.4, '06A-II': 40.7, '06A-VI': 40.6, '06B-II': 39.9}",1,97.5,,32F/32A,,,{},{},32F/32A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001108605,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052185,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026275,"{'18C': 99.5, '18B': 99.4, '18F': 75.4, '18A': 62.4, '16F': 39.2}",1,99.5,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287095,"{'14': 99.9, '09L': 27.2, '36': 26.1, '09N': 24.9, '15B': 24.3}",1,99.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001201515,"{'19F': 94.7, '19F-I': 94.2, '19F-III': 93.1, '19F-II': 91.8, '19F-IV': 88.1}",1,94.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298355,"{'22F': 92.4, '22A': 74.2, '06A-IV': 44.3, '06A-II': 43.9, '06A-VI': 43.8}",1,92.4,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225905,"{'01': 99.4, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001100585,"{'23B': 99.5, '23B1': 64.5, '23F': 45.8, '23A': 40.0, '06A-IV': 36.9}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342475,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300675,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023375,"{'04': 99.7, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268755,"{'15C': 90.4, '15B': 90.3, '15A': 62.7, '15F': 48.5, '23A': 31.1}",1,90.4,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001126065,"{'36': 10.6, '06A-IV': 7.1, '06B-I': 5.9, '06C': 5.8, '06C-I': 5.8}",1,10.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306755,"{'15A': 99.5, '15F': 73.8, '15C': 62.2, '15B': 62.1, '23F': 31.3}",1,99.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287345,"{'14': 92.7, '36': 29.0, '09L': 25.9, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024825,"{'19AF': 100.0, '19A-II': 62.3, '19A-I': 61.6, '19A': 53.2, '19A-III': 53.0}",1,100.0,19A_19AF,19A_19AF,,[[7]],"{'wzy': [2, 100.0]}",{'wzy': 2},19A_19AF,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900038615,"{'14': 92.6, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901212735,"{'24F': 96.9, '24B': 89.5, '24F2': 85.7, '24A': 67.2, '07C': 56.8}",1,96.9,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251875,"{'06E': 99.5, '06B-III': 99.0, '06B-I': 46.7, '06A-III': 46.3, '06A-II': 45.3}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221205,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001094225,"{'35F': 99.0, '47F': 74.3, '34': 26.7, '35B': 26.2, '29': 22.4}",1,99.0,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225735,"{'06E': 96.8, '06B-III': 96.0, '06B-I': 46.5, '06A-III': 45.9, '06A-IV': 45.2}",1,96.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 96.61]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261635,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001169125,"{'33C': 98.7, '34': 29.9, '35B': 25.3, '33F2': 23.8, '33F': 23.0}",1,98.7,,33C,,,{},{},33C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322325,"{'04': 97.7, '45': 33.6, '12F': 23.6, '44': 23.4, '12A': 22.4}",1,97.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281335,"{'06A-III': 94.1, '06B-I': 92.4, '06A': 90.3, '06A-IV': 89.2, '06B-II': 89.0}",1,94.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001193575,"{'35F': 80.2, '47F': 56.8, '35B': 27.2, '34': 21.0, '36': 18.3}",1,80.2,,35F,,,{},{},35F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030725,"{'24F2': 99.8, '24B': 88.6, '24F': 87.1, '24A': 71.3, '07B': 55.3}",1,99.8,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289815,"{'15C': 96.1, '15B': 95.9, '15A': 61.4, '15F': 47.7, '23A': 34.8}",1,96.1,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019399705,"{'06A': 89.0, '06A-III': 88.2, '06B-I': 86.9, '06B-II': 86.7, '06A-II': 86.2}",1,89.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053245,"{'01': 97.9, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,97.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286525,"{'06C-I': 88.5, '06C': 88.4, '06D': 84.7, '06A': 77.0, '06B-I': 75.7}",1,88.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001212925,"{'03': 95.2, '36': 16.9, '01': 16.2, '20': 15.6, '14': 14.1}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218715,"{'06A-I': 99.0, '06B': 94.7, '06A-V': 88.6, '06A': 88.1, '06A-III': 84.8}",1,99.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339025,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217455,"{'15A': 98.3, '15F': 73.0, '15C': 61.8, '15B': 61.7, '23F': 32.3}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304455,"{'18B': 85.9, '18C': 85.7, '18F': 77.9, '18A': 62.1, '16F': 37.8}",1,85.9,,"Mixed serotypes- {'18C/18B', '18F'}",,,{},{},"Mixed serotypes- {'18C/18B', '18F'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225195,"{'06C-I': 90.6, '06C': 90.4, '06D': 85.7, '06A-II': 75.1, '06A-VI': 75.1}",1,90.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001343135,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001120265,"{'17F': 93.5, '06A-III': 45.6, '06B-I': 45.4, '06A-IV': 45.3, '06A': 44.5}",1,93.5,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001122545,"{'17F': 99.7, '06B': 44.4, '06B-I': 43.7, '06D': 43.6, '06A-III': 43.6}",1,99.7,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318975,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260185,"{'02': 92.6, '22F': 40.2, '06B-I': 38.9, '06A-III': 38.8, '06A-II': 38.6}",1,92.6,,2,,,{},{},2,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001133145,"{'34': 92.6, '33F2': 34.4, '35B': 31.1, '33F': 28.7, '33C': 27.7}",1,92.6,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246765,"{'15C': 87.8, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316115,"{'01': 99.6, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.6,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001145625,"{'36': 10.2, '06A-IV': 6.8, '01': 5.6, '06B-I': 5.6, '06C': 5.4}",1,10.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001302135,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305635,"{'14': 93.2, '36': 27.3, '09L': 25.7, '09N': 25.2, '15B': 24.3}",1,93.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336465,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214025,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278275,"{'45': 94.3, '04': 38.8, '06A-II': 29.9, '06A-VI': 29.8, '06C': 29.4}",1,94.3,,45,,,{},{},45,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251945,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001131025,"{'35B': 98.3, '33F': 33.6, '35C': 33.4, '34': 33.2, '35A': 33.0}",1,98.3,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194855,"{'23B': 99.5, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.6}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001200335,"{'06C': 85.4, '06C-I': 85.4, '06D': 84.5, '06A': 76.8, '06A-IV': 73.1}",1,85.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028875,"{'11A': 98.9, '11D': 96.5, '11F': 40.0, '11C': 36.2, '11B': 34.7}",1,98.9,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331205,"{'05': 95.3, '45': 22.5, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232685,"{'19F-I': 97.2, '19F': 96.5, '19F-III': 95.7, '19F-II': 94.7, '19F-IV': 90.1}",1,97.2,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215725,"{'10B': 99.6, '10A': 65.3, '10F': 19.9, '10C': 18.8, '22F': 14.1}",1,99.6,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000279735,"{'22F': 98.8, '22A': 73.4, '06A': 42.5, '06A-II': 41.9, '06B-II': 41.9}",1,98.8,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029455,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273285,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170305,"{'14': 92.3, '36': 28.3, '09L': 24.2, '15B': 24.2, '15C': 24.1}",1,92.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256395,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.6, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223965,"{'04': 99.7, '45': 33.9, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226255,"{'22F': 99.0, '22A': 73.3, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194915,"{'21': 99.8, '22F': 36.0, '06A-IV': 34.0, '06A-II': 33.3, '06A-VI': 33.2}",1,99.8,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315815,"{'11D': 80.1, '11A': 78.8, '11F': 45.2, '11B': 34.5, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253695,"{'39': 97.9, '29': 28.6, '34': 22.6, '43': 19.3, '33C': 18.6}",1,97.9,,39,,,{},{},39,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315475,"{'18B': 88.1, '18C': 88.1, '18F': 77.4, '18A': 61.9, '16F': 37.8}",1,88.1,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336045,"{'22F': 96.4, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 42.1}",1,96.4,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231505,"{'06A-V': 84.8, '06A-III': 83.7, '06A-I': 83.0, '06A': 82.9, '06A-II': 82.8}",1,84.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290065,"{'10A': 99.9, '10B': 66.7, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,99.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900058945,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333085,"{'35B': 99.4, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001101125,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254835,"{'14': 93.3, '36': 27.3, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223035,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339455,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245045,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900195045,"{'34': 98.9, '33F2': 35.3, '35B': 33.8, '33F': 30.0, '33C': 28.7}",1,98.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001860545,"{'22F': 99.0, '22A': 73.3, '06A': 42.5, '06B': 42.0, '06A-II': 41.8}",1,99.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237135,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000817005,"{'01': 7.5, '45': 6.5, '25F': 5.8, '25A': 5.6, '22F': 5.0}",7,7.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327385,"{'15A': 98.5, '15F': 73.1, '15C': 61.8, '15B': 61.7, '23F': 32.2}",1,98.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001860625,"{'22F': 98.7, '22A': 73.1, '06A': 42.3, '06B': 41.9, '06A-II': 41.7}",1,98.7,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286745,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.8, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314735,"{'06A-I': 98.4, '06B': 94.4, '06A-V': 89.4, '06A': 87.4, '06A-III': 85.9}",1,98.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273345,"{'16F': 71.9, '28F': 43.8, '28A': 41.0, '18F': 34.1, '18A': 33.8}",1,71.9,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340225,"{'19F': 100.0, '19F-III': 97.5, '19F-I': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,100.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065555,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001101265,"{'14': 77.6, '15B': 32.7, '15C': 32.6, '36': 28.3, '09L': 25.6}",1,77.6,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001154445,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001299775,"{'23F': 98.8, '23A': 65.2, '23B': 47.6, '28A': 47.3, '06A-V': 45.2}",1,98.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051495,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237245,"{'14': 99.7, '09L': 26.6, '36': 26.1, '09N': 25.0, '15B': 24.3}",1,99.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286805,"{'10B': 99.3, '10A': 65.2, '10F': 20.1, '10C': 18.8, '22F': 14.0}",1,99.3,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023335,"{'03': 94.9, '01': 17.4, '36': 16.5, '09N': 15.8, '20': 15.8}",1,94.9,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251125,"{'08': 99.5, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.5,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001106385,"{'06B-III': 87.2, '06E': 86.5, '06B-I': 50.8, '06A-III': 50.4, '06C': 50.3}",1,87.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319775,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.5}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217915,"{'06E': 78.9, '06B-III': 73.7, '19AF': 30.0, '23B1': 29.8, '19A-II': 29.6}",1,78.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027215,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001136485,"{'03': 97.4, '20': 15.5, '09N': 15.0, '09L': 14.6, '14': 13.7}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216465,"{'06E': 100.0, '06B-III': 99.0, '06B-I': 46.7, '06A-III': 46.2, '06A-II': 45.2}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338055,"{'11D': 96.5, '11A': 95.3, '11F': 43.3, '11C': 36.2, '11B': 34.8}",1,96.5,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245435,"{'06A-II': 95.5, '06A-VI': 95.5, '06B-II': 89.4, '06A-V': 89.0, '06A-III': 88.4}",1,95.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001122245,"{'23F': 92.4, '23A': 61.3, '28A': 47.9, '23B': 46.7, '06A-IV': 46.4}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281925,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331705,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190335,"{'19F-III': 100.0, '19F': 98.0, '19F-I': 97.3, '19F-II': 94.8, '19F-IV': 89.5}",1,100.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052565,"{'01': 98.1, '19F': 32.1, '19F-I': 31.7, '19F-III': 31.4, '19F-II': 31.1}",1,98.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001328895,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.8, '19F-IV': 88.8}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001162725,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231675,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.2, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900034385,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.4, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287725,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325325,"{'19F-I': 97.5, '19F': 96.8, '19F-III': 96.3, '19F-II': 94.8, '19F-IV': 89.9}",1,97.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292645,"{'33F2': 98.1, '33F': 75.1, '33A': 70.7, '34': 42.4, '35B': 32.6}",1,98.1,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312395,"{'18C': 88.3, '18B': 88.2, '18F': 77.8, '18A': 61.6, '16F': 37.6}",1,88.3,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254875,"{'35A': 93.8, '35C': 84.3, '42': 83.5, '33A': 41.8, '33F': 41.6}",1,93.8,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244805,"{'15A': 98.3, '15F': 72.9, '15C': 61.6, '15B': 61.5, '23F': 32.2}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224675,"{'10B': 93.7, '10A': 69.8, '10F': 20.0, '10C': 18.7, '22F': 14.0}",1,93.7,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225105,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276795,"{'17F': 82.3, '06A-I': 42.2, '06B': 41.8, '06A': 41.2, '06A-III': 40.5}",1,82.3,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001329755,"{'06E': 100.0, '06B-III': 99.1, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167945,"{'14': 93.1, '36': 27.1, '09L': 24.9, '15B': 24.3, '15C': 24.2}",1,93.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245285,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001145025,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233615,"{'06A-III': 94.8, '06B-I': 93.4, '06A': 90.3, '06A-IV': 89.5, '06B-II': 89.4}",1,94.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001173805,"{'09A': 99.7, '09V': 99.5, '09N': 37.7, '09L': 36.1, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219195,"{'19AF': 96.9, '19A-II': 61.3, '19A-I': 60.7, '19A': 52.0, '19A-III': 51.8}",1,96.9,19A_19AF,19A_19AF,,[[7]],"{'wzy': [2, 92.87]}",{'wzy': 2},19A_19AF,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262665,"{'05': 95.2, '45': 22.3, '36': 21.7, '12A': 19.7, '20': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033565,"{'23B1': 100.0, '23B': 55.8, '19A-II': 36.2, '19A-I': 35.9, '19AF': 31.3}",1,100.0,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049105,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001141325,"{'23A': 97.5, '23F': 68.8, '23B': 40.1, '19F-II': 39.2, '15B': 38.8}",1,97.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328365,"{'06C': 86.3, '06C-I': 86.3, '06D': 84.6, '06A': 76.9, '06A-IV': 74.0}",1,86.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169405,"{'14': 92.7, '36': 28.5, '09L': 24.5, '15B': 24.2, '15C': 24.1}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294045,"{'06C-I': 99.2, '06C': 99.0, '06D': 84.0, '06A-II': 79.5, '06A-VI': 79.5}",1,99.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 88.9']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228175,"{'06A-II': 88.6, '06A-VI': 88.6, '06A-III': 88.5, '06B-II': 87.7, '06A': 87.4}",1,88.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341095,"{'15C': 89.6, '15B': 89.5, '15A': 62.5, '15F': 49.3, '23A': 31.0}",1,89.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900061855,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259645,"{'10A': 99.4, '10B': 67.1, '10C': 27.7, '10F': 18.1, '22F': 15.5}",1,99.4,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274125,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001203495,"{'36': 13.0, '20': 8.1, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",2,13.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169635,"{'14': 92.8, '36': 26.6, '09L': 25.7, '09N': 24.6, '15B': 24.3}",1,92.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001136285,"{'11F': 61.8, '11D': 38.4, '11A': 36.8, '09V': 25.4, '09A': 25.3}",1,61.8,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326915,"{'05': 95.2, '45': 22.2, '36': 20.7, '12A': 19.7, '46': 19.6}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347655,"{'11F': 61.8, '11D': 38.4, '11A': 36.8, '09V': 25.4, '09A': 25.3}",1,61.8,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321785,"{'19A-II': 99.9, '19A-I': 96.5, '19A': 84.9, '19A-III': 84.7, '19AF': 62.1}",1,99.9,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244275,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235385,"{'04': 99.2, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001083145,"{'13': 98.9, '09L': 28.1, '20': 28.1, '09N': 27.8, '14': 26.8}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001168705,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300725,"{'09N': 100.0, '09L': 89.1, '09A': 32.7, '09V': 32.7, '36': 32.4}",1,100.0,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279195,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A': 46.2}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261385,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.0, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325565,"{'31': 99.7, '41A': 57.2, '41F': 49.3, '06A-II': 36.5, '06A-VI': 36.5}",1,99.7,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241165,"{'28F': 95.2, '28A': 88.4, '23F': 51.1, '06B-II': 49.1, '06A-IV': 48.7}",1,95.2,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237105,"{'01': 99.3, '19F': 32.5, '19F-I': 32.0, '19F-III': 31.8, '19F-II': 31.5}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222415,"{'01': 99.3, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259135,"{'03': 94.7, '01': 18.1, '20': 16.6, '09N': 15.7, '09L': 15.5}",1,94.7,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272465,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020065,"{'38': 90.2, '25F': 86.1, '25A': 85.1, '36': 11.9, '20': 8.4}",1,90.2,25F_25A_38,25F_25A_38,,"[[0], [18]]","{'wcyD': ['b: 22.59'], 'wcyV': 4.69}","{'wcyD': 0, 'wcyV': 'not_detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326175,"{'14': 92.6, '09L': 22.4, '36': 21.6, '09N': 21.2, '15B': 20.8}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023555,"{'23B': 99.5, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.8}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323145,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246105,"{'11D': 80.2, '11A': 78.9, '11F': 45.1, '11B': 34.6, '11C': 31.0}",1,80.2,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214115,"{'34': 98.3, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.3,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221875,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324515,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.0, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001156565,"{'06C-I': 87.3, '06C': 87.2, '06D': 84.6, '06A': 76.9, '06A-IV': 74.8}",1,87.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170325,"{'14': 92.4, '36': 28.5, '09L': 25.3, '15B': 24.2, '15C': 24.1}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216345,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320785,"{'07C': 98.3, '07B': 72.4, '40': 70.2, '24B': 47.8, '24F': 47.6}",1,98.3,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398705,"{'24B': 92.7, '24F': 87.0, '24F2': 83.5, '24A': 63.6, '07C': 56.8}",1,92.7,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301475,"{'01': 98.9, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218605,"{'01': 92.2, '19F': 33.3, '19F-I': 32.6, '19F-III': 32.5, '19F-II': 32.4}",1,92.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218415,"{'13': 83.3, '36': 28.8, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001173385,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.5, '06A-III': 46.6, '06A-IV': 45.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001171465,"{'18F': 79.7, '18B': 73.1, '18C': 73.1, '18A': 61.2, '16F': 45.5}",1,79.7,,"Mixed serotypes- {'18C/18B', '18F'}",,,{},{},"Mixed serotypes- {'18C/18B', '18F'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169725,"{'14': 91.8, '36': 27.9, '09L': 25.6, '09N': 24.5, '15B': 23.7}",1,91.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219965,"{'06C-I': 89.1, '06C': 89.0, '06D': 86.8, '06A-I': 77.6, '06B': 77.3}",1,89.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001120125,"{'06E': 99.6, '06B-III': 97.0, '06B-I': 44.5, '06A-III': 44.0, '06B-II': 43.4}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298635,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001114705,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256865,"{'04': 99.2, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_005780105,"{'23F': 96.5, '23A': 63.3, '28A': 48.8, '23B': 48.7, '06A-IV': 47.6}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194735,"{'23B': 99.5, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.8}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001153105,"{'36': 13.0, '20': 8.1, '06A-IV': 7.6, '01': 7.1, '45': 6.3}",1,13.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341485,"{'34': 98.6, '33F2': 35.2, '35B': 33.5, '33F': 29.8, '33C': 28.5}",1,98.6,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237005,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266935,"{'18C': 99.5, '18B': 99.4, '18F': 76.0, '18A': 63.2, '16F': 39.5}",1,99.5,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338975,"{'07A': 98.0, '07F': 97.8, '19F-II': 36.7, '19F': 35.0, '19F-I': 34.9}",1,98.0,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230415,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218665,"{'03': 98.2, '01': 18.1, '09N': 15.8, '20': 15.6, '09L': 15.2}",1,98.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291785,"{'03': 95.2, '01': 17.5, '09L': 15.5, '09N': 15.1, '14': 13.9}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325595,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310915,"{'20': 78.7, '47F': 28.0, '09L': 25.7, '09N': 25.3, '13': 25.2}",1,78.7,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241875,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332075,"{'07C': 97.7, '07B': 76.5, '40': 75.2, '24B': 48.2, '24F': 47.8}",1,97.7,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326225,"{'06C-I': 87.8, '06C': 87.7, '06D': 87.1, '06A-I': 77.9, '06B': 77.6}",1,87.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223075,"{'23F': 98.2, '23A': 65.3, '28A': 47.8, '23B': 47.5, '06A-V': 45.5}",1,98.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337815,"{'18C': 88.6, '18B': 88.5, '18F': 78.1, '18A': 61.0, '16F': 37.9}",1,88.6,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269515,"{'20': 82.2, '47F': 25.9, '35A': 24.6, '09L': 24.5, '36': 24.2}",1,82.2,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001106465,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223995,"{'14': 96.7, '36': 26.1, '09L': 25.4, '09N': 24.4, '15B': 24.3}",1,96.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001134145,"{'28F': 98.3, '28A': 91.9, '23F': 47.5, '16F': 46.0, '06B-I': 42.5}",1,98.3,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018485,"{'18C': 93.7, '18B': 93.6, '18F': 75.6, '18A': 62.7, '16F': 39.6}",1,93.7,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264135,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339875,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001160325,"{'19F-I': 95.3, '19F': 95.0, '19F-III': 93.5, '19F-II': 92.2, '19F-IV': 88.2}",1,95.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053505,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275505,"{'03': 95.2, '36': 17.1, '01': 16.8, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001095565,"{'06D': 95.4, '06C': 87.5, '06C-I': 87.5, '06B-I': 75.6, '06A-III': 75.2}",1,95.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 89.0']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331395,"{'15C': 87.8, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282915,"{'18C': 88.5, '18B': 88.4, '18F': 77.8, '18A': 61.5, '16F': 37.6}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256695,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001111585,"{'36': 11.4, '20': 7.8, '01': 6.9, '45': 6.7, '23B1': 5.6}",1,11.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325275,"{'05': 95.2, '45': 22.0, '36': 20.9, '12A': 19.5, '46': 19.4}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307615,"{'33F2': 100.0, '33F': 74.6, '33A': 70.3, '34': 41.7, '35B': 32.5}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001129845,"{'23F': 97.0, '23A': 63.9, '23B': 48.0, '28A': 47.7, '06B-II': 46.1}",1,97.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001100925,"{'10B': 99.5, '10A': 65.3, '10F': 20.1, '10C': 18.8, '22F': 13.7}",1,99.5,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214075,"{'23F': 96.4, '23A': 63.9, '23B': 47.9, '06A-IV': 47.4, '28A': 47.1}",1,96.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332315,"{'23B': 99.5, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.8}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244225,"{'06A-II': 95.1, '06A-VI': 95.1, '06B-II': 89.1, '06A-V': 88.6, '06A-III': 87.9}",1,95.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292155,"{'36': 7.2, '45': 6.6, '01': 6.3, '22F': 5.8, '38': 4.8}",1,7.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220125,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171545,"{'14': 92.1, '36': 28.6, '09L': 24.9, '09N': 23.9, '15B': 23.9}",1,92.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292655,"{'17F': 82.2, '06A-III': 43.5, '06B-I': 43.5, '06C': 42.4, '06C-I': 42.4}",1,82.2,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240665,"{'23B': 88.7, '23B1': 62.4, '23F': 38.7, '06A-IV': 33.9, '23A': 33.2}",1,88.7,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336365,"{'09A': 99.4, '09V': 99.2, '09N': 38.5, '09L': 36.6, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001193735,"{'23A': 97.5, '23F': 68.8, '23B': 40.1, '19F-II': 39.2, '15B': 38.8}",1,97.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001158185,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314405,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270425,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322765,"{'23F': 97.0, '23A': 63.9, '06A-IV': 48.5, '23B': 48.2, '28A': 47.7}",1,97.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001144885,"{'05': 95.2, '45': 21.8, '36': 21.5, '20': 20.0, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225465,"{'10A': 99.2, '10B': 67.1, '10C': 27.7, '10F': 18.1, '22F': 15.3}",1,99.2,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192725,"{'19A-II': 99.7, '19A-I': 96.3, '19A': 84.7, '19A-III': 84.5, '19AF': 62.1}",1,99.7,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299845,"{'06A': 93.5, '06A-V': 92.1, '06B-II': 90.9, '06A-III': 89.0, '06A-IV': 89.0}",1,93.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318375,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332695,"{'35A': 94.4, '35C': 89.7, '42': 89.1, '33A': 46.4, '33F': 45.9}",1,94.4,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242795,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001136145,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001133465,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001343675,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337205,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279795,"{'06E': 100.0, '06B-III': 99.0, '06B-I': 46.7, '06A-III': 46.2, '06B-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219915,"{'31': 99.8, '41A': 57.3, '41F': 49.0, '06A-II': 36.5, '06A-VI': 36.5}",1,99.8,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901343145,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328505,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001109845,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001171945,"{'23A': 97.2, '23F': 68.5, '23B': 39.8, '19F-II': 38.9, '15B': 38.8}",1,97.2,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001121525,"{'06C-I': 88.8, '06C': 88.7, '06D': 86.7, '06A-I': 77.8, '06B': 77.5}",1,88.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 94.1]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900036475,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231015,"{'13': 83.8, '36': 32.9, '14': 27.2, '15B': 26.7, '15C': 26.3}",1,83.8,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220895,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295775,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.7, '19A-III': 87.5, '19AF': 61.9}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001195545,"{'10B': 99.5, '10A': 65.3, '10F': 20.1, '10C': 18.8, '22F': 13.6}",1,99.5,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260005,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.4, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337475,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248445,"{'10A': 98.9, '10B': 66.6, '10C': 27.7, '10F': 18.1, '22F': 15.4}",1,98.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001127925,"{'19F-I': 95.4, '19F': 95.1, '19F-III': 93.6, '19F-II': 92.3, '19F-IV': 88.3}",1,95.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001114645,"{'23B1': 98.8, '23B': 55.9, '19A-II': 36.0, '19A-I': 35.7, '19AF': 31.5}",1,98.8,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338575,"{'09A': 99.4, '09V': 99.2, '09N': 38.5, '09L': 36.6, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259625,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213635,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.3, '23B': 48.1, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245355,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317305,"{'15A': 98.3, '15F': 72.9, '15C': 61.6, '15B': 61.5, '23F': 32.2}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001205975,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341495,"{'24F': 97.0, '24B': 89.6, '24F2': 85.8, '24A': 67.3, '07C': 56.7}",1,97.0,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338065,"{'10A': 98.9, '10B': 67.1, '10C': 27.5, '10F': 18.1, '22F': 15.5}",1,98.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001145525,"{'32A': 97.5, '32F': 97.4, '06A-II': 40.4, '06A-VI': 40.3, '06B-II': 39.6}",1,97.5,,32F/32A,,,{},{},32F/32A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000251505,"{'23F': 96.9, '23A': 63.8, '23B': 48.0, '28A': 47.7, '06B-II': 46.1}",1,96.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237405,"{'07A': 99.4, '07F': 99.2, '19F-II': 36.7, '19F-IV': 36.1, '19F': 35.2}",1,99.4,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338455,"{'45': 7.0, '25F': 6.9, '25A': 6.7, '38': 4.7, '35B': 4.3}",2,7.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225095,"{'34': 98.7, '33F2': 35.2, '35B': 33.5, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296145,"{'10A': 96.2, '10B': 65.1, '10C': 27.4, '10F': 17.8, '22F': 16.9}",1,96.2,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237395,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330225,"{'14': 94.6, '36': 26.3, '09L': 25.3, '09N': 24.7, '15B': 24.3}",1,94.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238055,"{'34': 98.5, '33F2': 35.0, '35B': 33.5, '33F': 29.7, '33C': 28.5}",1,98.5,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001096425,"{'10F': 98.2, '10C': 80.9, '10B': 22.4, '10A': 19.2, '20': 14.2}",1,98.2,,10F,,,{},{},10F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054895,"{'18C': 88.4, '18B': 88.3, '18F': 77.7, '18A': 61.1, '16F': 37.6}",1,88.4,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001096865,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300375,"{'10A': 99.4, '10B': 67.1, '10C': 27.7, '10F': 18.1, '22F': 15.5}",1,99.4,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330115,"{'06C': 87.9, '06C-I': 87.9, '06D': 87.1, '06A-I': 77.9, '06B': 77.6}",1,87.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272615,"{'01': 7.7, '25F': 6.0, '25A': 5.8, '45': 5.7, '06A-IV': 4.9}",3,7.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311025,"{'04': 98.3, '45': 34.0, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303685,"{'11D': 99.8, '11A': 97.0, '11F': 41.9, '11C': 35.7, '11B': 34.1}",1,99.8,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001192295,"{'23F': 93.9, '23A': 63.4, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,93.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237165,"{'38': 99.4, '25F': 84.6, '25A': 83.6, '36': 11.8, '20': 8.2}",1,99.4,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262495,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.0, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331495,"{'10A': 98.9, '10B': 67.1, '10C': 27.5, '10F': 18.1, '22F': 15.5}",1,98.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253055,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001128905,"{'03': 95.2, '36': 16.9, '20': 15.6, '09N': 15.2, '09L': 15.0}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260145,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057175,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241975,"{'18C': 97.2, '18B': 97.1, '18F': 75.3, '18A': 61.9, '16F': 38.8}",1,97.2,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222165,"{'06A-II': 95.0, '06A-VI': 95.0, '06B-II': 88.9, '06A-V': 88.5, '06A-III': 87.9}",1,95.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224485,"{'06E': 100.0, '06B-III': 99.0, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053535,"{'23B': 99.2, '23B1': 64.4, '23F': 45.8, '23A': 40.0, '06A-IV': 36.9}",1,99.2,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001131485,"{'40': 99.6, '07B': 93.9, '07C': 75.4, '24F2': 48.2, '24F': 47.9}",1,99.6,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235085,"{'06A-II': 86.1, '06A-VI': 86.1, '06A-III': 85.8, '06B-I': 84.7, '06A': 84.6}",1,86.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274785,"{'03': 97.4, '01': 17.8, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274545,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020895,"{'09A': 99.7, '09V': 99.5, '09N': 38.2, '09L': 36.8, '35B': 26.7}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050665,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296815,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246745,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053815,"{'01': 99.2, '19F': 32.0, '19F-I': 31.6, '19F-III': 31.3, '19F-II': 31.0}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222035,"{'03': 95.8, '20': 17.9, '01': 17.8, '36': 16.4, '09L': 16.0}",1,95.8,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001108925,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304035,"{'17F': 99.7, '06B': 44.4, '06B-I': 43.7, '06D': 43.6, '06A-III': 43.6}",1,99.7,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900188815,"{'09N': 98.8, '09L': 87.6, '09A': 32.7, '09V': 32.7, '36': 29.1}",1,98.8,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285565,"{'03': 95.2, '01': 18.2, '36': 17.4, '20': 16.1, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342315,"{'14': 89.9, '36': 28.1, '09L': 23.1, '19F-II': 22.2, '09N': 21.9}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213555,"{'01': 99.0, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295685,"{'05': 95.3, '45': 22.6, '36': 21.8, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170585,"{'14': 92.6, '36': 28.7, '09L': 24.7, '15B': 24.2, '15C': 24.1}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261485,"{'18C': 88.3, '18B': 88.2, '18F': 77.8, '18A': 61.6, '16F': 37.6}",1,88.3,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261405,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001860635,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308985,"{'14': 92.4, '36': 29.0, '09L': 25.7, '09N': 24.7, '15B': 24.2}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001149585,"{'36': 11.4, '20': 8.0, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",1,11.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001156905,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247925,"{'12F': 96.4, '44': 93.4, '12B': 93.3, '12A': 84.8, '46': 81.7}",1,96.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
PHESPD0075,"{'43': 100.0, '39': 23.0, '29': 20.7, '36': 14.0, '01': 12.3}",1,100.0,,43,,,{},{},43,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328335,"{'06E': 99.5, '06B-III': 99.1, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.7}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219755,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001330935,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001086225,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194595,"{'15A': 99.8, '15F': 74.1, '15C': 61.9, '15B': 61.8, '23F': 31.6}",1,99.8,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900061885,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323085,"{'14': 91.4, '19F-IV': 25.9, '36': 25.6, '09L': 25.0, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249955,"{'19A': 88.7, '19A-III': 88.5, '19A-II': 78.8, '19A-I': 78.0, '19AF': 59.6}",1,88.7,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324145,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171865,"{'14': 92.7, '36': 28.9, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261725,"{'01': 99.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236625,"{'12F': 96.4, '44': 93.4, '12B': 93.3, '12A': 84.8, '46': 81.7}",1,96.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250505,"{'06A-II': 85.4, '06A-VI': 85.4, '06A-III': 85.3, '06A-V': 84.7, '06B-I': 83.9}",1,85.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269635,"{'06E': 99.9, '06B-III': 97.9, '06B-I': 46.8, '06A-III': 45.5, '06A-II': 44.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_909594545,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170415,"{'14': 92.3, '36': 28.6, '09L': 25.0, '15B': 24.2, '15C': 24.1}",1,92.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055815,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001153225,"{'23F': 94.5, '23A': 63.6, '28A': 47.7, '23B': 46.9, '06A': 46.4}",1,94.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302335,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338855,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260165,"{'18C': 97.4, '18B': 97.3, '18F': 75.5, '18A': 62.1, '16F': 38.8}",1,97.4,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050495,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306385,"{'14': 92.6, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311945,"{'04': 99.7, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001112585,"{'36': 10.1, '06A-IV': 7.2, '23B1': 7.1, '20': 7.0, '06C': 5.7}",1,10.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233795,"{'19A': 77.1, '19A-III': 77.0, '19A-II': 68.9, '19A-I': 66.1, '19AF': 49.8}",1,77.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217315,"{'31': 99.4, '41A': 56.9, '41F': 49.0, '06A-II': 36.2, '06A-VI': 36.2}",1,99.4,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001348235,"{'10F': 98.2, '10C': 80.9, '10B': 22.4, '10A': 19.2, '22F': 14.9}",1,98.2,,10F,,,{},{},10F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314125,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309045,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276325,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213695,"{'12F': 96.4, '44': 93.4, '12B': 93.3, '12A': 84.8, '46': 81.7}",1,96.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900036595,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027675,"{'23F': 99.2, '23A': 65.4, '23B': 49.0, '28A': 48.1, '06A-IV': 47.3}",1,99.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236365,"{'01': 98.8, '19F': 31.9, '19F-I': 31.4, '19F-III': 31.2, '19F-II': 30.9}",1,98.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001205355,"{'33B': 89.6, '33D': 89.5, '35B': 34.7, '33F2': 30.1, '22F': 26.7}",1,89.6,,"Mixed serotypes- {'33B', '33D'}",,,{},{},"Mixed serotypes- {'33B', '33D'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001149545,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287745,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337055,"{'12F': 96.1, '12B': 93.2, '44': 92.8, '12A': 80.3, '46': 77.2}",1,96.1,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[0]],{'wciI': ['2: 89.12']},{'wciI': 0},12F_12A_12B_44_46,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278655,"{'19F-I': 97.7, '19F': 97.0, '19F-III': 96.5, '19F-II': 95.0, '19F-IV': 90.1}",1,97.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001148745,"{'19B': 91.7, '19C': 70.5, '19F-II': 49.3, '19F-IV': 49.3, '19F-I': 48.5}",1,91.7,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216795,"{'04': 98.3, '45': 34.3, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295865,"{'05': 95.0, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326465,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216175,"{'09N': 100.0, '09L': 88.9, '09A': 32.7, '09V': 32.7, '36': 32.2}",1,100.0,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305855,"{'03': 97.4, '01': 17.7, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332435,"{'05': 95.3, '45': 22.4, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255765,"{'06A-I': 98.8, '06B': 94.6, '06A-V': 89.0, '06A': 87.7, '06A-III': 85.6}",1,98.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001095385,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215715,"{'05': 95.0, '45': 22.6, '36': 21.7, '20': 20.3, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326475,"{'05': 95.2, '36': 21.9, '45': 21.9, '20': 20.3, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314345,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001158925,"{'03': 95.1, '20': 15.1, '09L': 14.8, '09N': 14.7, '01': 14.5}",1,95.1,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305825,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303615,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001104405,"{'11D': 99.7, '11A': 96.9, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,99.7,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282325,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311105,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001088445,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001127265,"{'19F': 94.7, '19F-I': 94.2, '19F-III': 93.1, '19F-II': 91.8, '19F-IV': 88.1}",1,94.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900058935,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223705,"{'18C': 88.5, '18B': 88.4, '18F': 77.8, '18A': 61.6, '16F': 37.6}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001301955,"{'23A': 99.0, '23F': 67.3, '23B': 43.6, '19F-II': 37.4, '19F-IV': 37.0}",1,99.0,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281355,"{'23F': 92.4, '23A': 61.1, '28A': 48.1, '23B': 46.6, '06A-IV': 46.6}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337635,"{'11A': 97.6, '11D': 95.2, '11F': 39.3, '11C': 36.4, '11B': 35.0}",1,97.6,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291625,"{'19F-I': 99.7, '19F': 96.7, '19F-III': 96.7, '19F-II': 93.9, '19F-IV': 89.3}",1,99.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319395,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001086505,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319285,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907172345,"{'19A': 99.4, '19A-III': 99.2, '19A-I': 86.1, '19A-II': 83.9, '19AF': 57.1}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242725,"{'09A': 99.4, '09V': 99.2, '09N': 38.5, '09L': 36.5, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283305,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.7, '06B-II': 35.1, '06A-V': 34.9}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000278745,"{'22F': 98.8, '22A': 73.4, '06A': 42.6, '06B': 42.0, '06A-II': 41.9}",1,98.8,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190435,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335275,"{'19A-II': 99.0, '19A-I': 97.1, '19A': 85.7, '19A-III': 85.5, '19AF': 62.0}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194045,"{'11D': 95.7, '11A': 93.0, '11F': 39.8, '11C': 33.9, '11B': 32.5}",1,95.7,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277495,"{'01': 99.0, '19F': 31.9, '19F-I': 31.4, '19F-III': 31.2, '19F-II': 30.9}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324085,"{'14': 94.6, '36': 26.3, '09L': 25.3, '09N': 24.7, '15B': 24.3}",1,94.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293305,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347995,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334195,"{'15A': 99.9, '15F': 74.2, '15C': 62.0, '15B': 61.9, '23F': 31.7}",1,99.9,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258575,"{'23A': 99.7, '23F': 67.3, '23B': 43.7, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297445,"{'14': 93.4, '36': 27.3, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341895,"{'07C': 94.0, '07B': 77.1, '40': 76.7, '24B': 48.6, '24F': 47.6}",1,94.0,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247725,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329665,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335685,"{'46': 98.7, '12A': 96.4, '12B': 84.2, '44': 82.2, '12F': 82.0}",1,98.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[4]],"{'wciI': [1, 100.0]}",{'wciI': 1},12A/12B/44/46,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238265,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252695,"{'06A-II': 85.8, '06A-VI': 85.8, '06A-III': 85.7, '06A-V': 85.1, '06B-I': 84.3}",1,85.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272405,"{'06C-I': 89.3, '06C': 89.2, '06D': 87.0, '06A-I': 77.8, '06B': 77.5}",1,89.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193655,"{'15C': 93.9, '15B': 93.8, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218915,"{'09A': 93.0, '09V': 92.8, '09N': 39.6, '09L': 38.3, '08': 24.4}",1,93.0,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313155,"{'06A': 83.3, '06A-IV': 82.2, '06A-V': 81.8, '06B-II': 81.7, '06B-I': 81.5}",1,83.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 83.83']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_003493165,"{'06C-I': 84.4, '06C': 84.3, '06D': 82.9, '06A-I': 78.1, '06B': 77.9}",1,84.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342535,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273025,"{'03': 95.2, '01': 17.2, '36': 17.1, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342065,"{'21': 100.0, '22F': 36.1, '06A-IV': 32.9, '06A-II': 32.2, '06A-VI': 32.1}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221585,"{'25F': 87.7, '25A': 86.9, '38': 82.3, '36': 7.9, '01': 7.5}",1,87.7,25F_25A_38,25F_25A_38,,"[[0], [18]]","{'wcyD': ['b: 22.59'], 'wcyV': 8.45}","{'wcyD': 0, 'wcyV': 'not_detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242215,"{'14': 93.6, '36': 25.9, '09L': 25.0, '09N': 24.4, '15B': 23.8}",1,93.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316645,"{'13': 83.1, '36': 29.0, '09L': 26.0, '09N': 25.6, '15B': 25.4}",1,83.1,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001301275,"{'11A': 99.7, '11D': 96.6, '11F': 40.0, '11C': 36.0, '11B': 34.5}",1,99.7,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347115,"{'14': 89.9, '36': 29.3, '09L': 23.2, '19F-II': 22.2, '09N': 22.1}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296115,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032825,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289855,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316005,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232605,"{'33F': 99.7, '33A': 97.2, '33F2': 70.7, '35C': 42.8, '42': 41.8}",1,99.7,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297835,"{'09N': 100.0, '09L': 89.1, '09A': 32.7, '09V': 32.7, '36': 31.7}",1,100.0,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304615,"{'09A': 95.9, '09V': 95.7, '09N': 38.8, '09L': 37.4, '11F': 26.6}",1,95.9,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001118565,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001092705,"{'11D': 99.5, '11A': 96.9, '11F': 41.5, '11C': 35.6, '11B': 34.1}",1,99.5,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327355,"{'20': 78.8, '47F': 28.0, '09L': 25.8, '13': 25.2, '09N': 25.1}",1,78.8,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001301735,"{'23A': 97.6, '23F': 68.9, '23B': 40.1, '19F-II': 39.3, '15B': 38.7}",1,97.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247175,"{'23F': 78.4, '23A': 58.1, '23B': 52.1, '28A': 39.2, '28F': 36.6}",1,78.4,,23F,,,{},{},23F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312515,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293115,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001299935,"{'19A-II': 98.9, '19A-I': 97.0, '19A': 85.6, '19A-III': 85.4, '19AF': 61.9}",1,98.9,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304905,"{'03': 95.2, '36': 17.4, '01': 16.8, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001158665,"{'07B': 99.8, '40': 92.8, '07C': 77.1, '24F2': 48.1, '24F': 47.7}",1,99.8,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219275,"{'10A': 99.1, '10B': 66.8, '10C': 27.7, '10F': 18.1, '22F': 15.5}",1,99.1,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269005,"{'19A-I': 99.2, '19A-II': 97.5, '19A': 87.7, '19A-III': 87.5, '19AF': 62.0}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286055,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237325,"{'23F': 97.0, '23A': 63.9, '23B': 48.0, '28A': 47.7, '06B-II': 46.1}",1,97.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214445,"{'35F': 99.0, '47F': 74.5, '34': 26.6, '35B': 26.1, '29': 22.3}",1,99.0,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001697085,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310235,"{'11D': 99.7, '11A': 97.0, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,99.7,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266395,"{'14': 93.4, '36': 27.3, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227615,"{'19A-I': 98.5, '19A-II': 96.8, '19A': 87.1, '19A-III': 86.9, '19AF': 61.5}",1,98.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001170765,"{'06C-I': 87.8, '06C': 87.7, '06D': 84.7, '06A': 77.0, '06A-IV': 75.2}",1,87.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256585,"{'08': 97.7, '02': 24.2, '22F': 23.1, '06A-IV': 23.1, '06A': 22.6}",1,97.7,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260645,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257055,"{'24F': 97.0, '24B': 89.7, '24F2': 86.4, '24A': 63.0, '07C': 52.0}",1,97.0,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_902652845,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251895,"{'19A-I': 99.2, '19A-II': 97.5, '19A': 87.8, '19A-III': 87.6, '19AF': 61.8}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242545,"{'01': 99.4, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335075,"{'19F': 94.6, '19F-I': 94.1, '19F-III': 93.0, '19F-II': 91.7, '19F-IV': 88.0}",1,94.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300735,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249705,"{'19A': 99.5, '19A-III': 99.3, '19A-I': 85.7, '19A-II': 83.2, '19AF': 57.0}",1,99.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291985,"{'23F': 97.0, '23A': 63.9, '28A': 47.7, '28F': 46.0, '06A': 45.0}",1,97.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258555,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001132245,"{'20': 5.4, '36': 5.1, '45': 4.4, '25F': 4.1, '25A': 4.0}",1,5.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273575,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335025,"{'19A-I': 99.2, '19A-II': 97.7, '19A': 87.7, '19A-III': 87.5, '19AF': 62.1}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 93.1]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001329175,"{'23F': 92.4, '23A': 61.3, '28A': 48.0, '23B': 46.7, '06A-IV': 45.9}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312325,"{'07B': 99.9, '40': 92.9, '07C': 77.2, '24F2': 48.1, '24F': 47.7}",1,99.9,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261505,"{'23F': 92.8, '23A': 62.0, '06A-IV': 50.3, '23B': 49.2, '06B-II': 48.6}",1,92.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001152765,"{'07A': 98.3, '07F': 98.1, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,98.3,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260845,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301335,"{'01': 7.4, '45': 6.3, '25F': 5.8, '25A': 5.6, '22F': 5.1}",3,7.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049055,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585025,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050755,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260945,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.4, '06B-II': 34.7, '06A-V': 34.5}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001170645,"{'45': 6.8, '01': 6.4, '25F': 5.6, '20': 5.5, '25A': 5.4}",3,6.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167855,"{'14': 91.3, '36': 26.4, '09L': 25.6, '09N': 24.9, '15B': 23.3}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021022675,"{'02': 57.6, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001156585,"{'36': 11.4, '06A-IV': 6.7, '20': 5.9, '23B1': 5.7, '45': 5.5}",1,11.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001149605,"{'15B': 99.8, '15C': 99.7, '15A': 62.7, '15F': 48.3, '23A': 32.9}",1,99.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001128605,"{'07A': 99.5, '07F': 99.3, '19F-II': 36.7, '19F-IV': 36.1, '19F': 35.2}",1,99.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065535,"{'19A': 99.1, '19A-III': 98.9, '19A-I': 86.0, '19A-II': 84.4, '19AF': 57.5}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168905,"{'09A': 99.6, '09V': 99.4, '09N': 38.5, '09L': 36.5, '11F': 26.5}",1,99.6,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315035,"{'06B-I': 99.1, '06A-III': 97.0, '06B-II': 90.0, '06A': 89.8, '06A-V': 88.1}",1,99.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309365,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222865,"{'04': 99.8, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250085,"{'23F': 97.8, '23A': 63.3, '23B': 48.3, '28A': 48.3, '06A-IV': 47.0}",1,97.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001123265,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223875,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282735,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269225,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332035,"{'29': 59.6, '35B': 37.5, '35F': 26.8, '22F': 23.2, '33B': 23.1}",1,59.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236505,"{'19F': 97.4, '19F-I': 96.4, '19F-III': 95.6, '19F-II': 95.5, '19F-IV': 91.0}",1,97.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169965,"{'14': 92.6, '36': 28.6, '09L': 24.5, '15B': 24.2, '15C': 24.1}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279565,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000019025,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249825,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242855,"{'01': 99.3, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340415,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312465,"{'19A-I': 99.0, '19A-II': 97.3, '19A': 87.6, '19A-III': 87.4, '19AF': 61.8}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 92.87]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297665,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329855,"{'09L': 99.7, '09N': 89.4, '36': 31.9, '09A': 31.2, '09V': 31.2}",1,99.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001146545,"{'19F-I': 95.9, '19F': 95.6, '19F-III': 94.0, '19F-II': 92.8, '19F-IV': 88.8}",1,95.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225365,"{'01': 99.2, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194925,"{'23B': 99.5, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.6}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269335,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215665,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321225,"{'11D': 80.2, '11A': 78.9, '11F': 45.3, '11B': 34.7, '11C': 31.0}",1,80.2,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241795,"{'06E': 100.0, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333285,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289845,"{'21': 91.7, '22F': 36.8, '06A-IV': 31.6, '06A-II': 31.2, '06A-VI': 31.2}",1,91.7,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001174805,"{'15C': 95.2, '15B': 95.0, '15A': 60.9, '15F': 47.3, '23A': 34.4}",1,95.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258025,"{'06A': 93.5, '06A-III': 91.5, '06B-I': 91.4, '06B-II': 91.2, '06A-V': 90.7}",1,93.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245965,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285245,"{'15B': 99.5, '15C': 99.2, '15A': 62.7, '15F': 48.3, '23A': 32.7}",1,99.5,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031375,"{'08': 99.5, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.2, '06B-II': 24.1}",1,99.5,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001169825,"{'22F': 98.7, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-I': 41.8}",1,98.7,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225025,"{'20': 99.1, '13': 26.1, '09L': 25.0, '36': 24.9, '09N': 24.3}",1,99.1,,20,,,{},{},20,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900693075,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 89.6, '06A': 87.7, '06A-III': 86.1}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273675,"{'07C': 94.0, '07B': 77.1, '40': 76.7, '24B': 48.6, '24F': 47.6}",1,94.0,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001192995,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001134685,"{'19B': 91.7, '19C': 70.5, '19F-II': 49.3, '19F-IV': 49.3, '19F-I': 48.5}",1,91.7,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001860735,"{'22F': 98.7, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-I': 41.8}",1,98.7,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261975,"{'21': 100.0, '22F': 36.0, '06A-IV': 32.9, '06A-II': 32.2, '06A-VI': 32.1}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267385,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063765,"{'03': 75.1, '20': 7.9, '01': 7.2, '36': 7.1, '22F': 6.8}",1,75.1,,3,,,{},{},3,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229805,"{'38': 98.8, '25F': 84.4, '25A': 83.4, '36': 11.8, '20': 8.2}",1,98.8,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256205,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001174765,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243795,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235375,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001159285,"{'15A': 97.0, '15F': 73.4, '15C': 61.2, '15B': 61.1, '23F': 31.1}",1,97.0,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307045,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.8, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253065,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273805,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267915,"{'19A': 99.4, '19A-III': 99.2, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.4}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226815,"{'06A': 83.3, '06A-IV': 82.2, '06A-V': 81.8, '06B-II': 81.7, '06B-I': 81.5}",1,83.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 83.83']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900188635,"{'09A': 99.7, '09V': 99.5, '09N': 37.1, '09L': 35.8, '06A-IV': 27.1}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029565,"{'04': 99.8, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274395,"{'23F': 94.0, '23A': 63.5, '28A': 48.3, '23B': 47.0, '06A-III': 46.2}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230275,"{'14': 99.9, '09L': 27.2, '36': 25.9, '09N': 24.9, '15B': 24.3}",1,99.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239515,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001336675,"{'11F': 61.6, '11D': 38.4, '11A': 36.8, '09V': 25.4, '09A': 25.3}",1,61.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309105,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171825,"{'14': 92.2, '36': 28.6, '09L': 24.9, '15B': 24.2, '15C': 24.1}",1,92.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024105,"{'09N': 100.0, '09L': 89.1, '09A': 32.7, '09V': 32.7, '36': 32.3}",1,100.0,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020775,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019446345,"{'20': 5.5, '01': 5.0, '45': 4.9, '22F': 4.2, '25A': 4.2}",1,5.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288965,"{'03': 95.2, '36': 17.4, '01': 17.0, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283625,"{'21': 100.0, '22F': 36.1, '06A-IV': 32.8, '06A-II': 32.1, '06A-VI': 32.0}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001198915,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320305,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312685,"{'09A': 99.7, '09V': 99.5, '09N': 38.6, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331295,"{'15C': 89.4, '15B': 89.3, '15A': 61.8, '15F': 48.5, '23A': 31.7}",1,89.4,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260125,"{'21': 91.7, '22F': 36.7, '06A-IV': 31.6, '06A-II': 31.2, '06A-VI': 31.2}",1,91.7,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001195705,"{'03': 95.2, '36': 16.8, '01': 15.9, '20': 15.7, '09N': 14.6}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001115125,"{'21': 93.2, '22F': 38.1, '06A-II': 31.3, '06A-IV': 31.3, '06A-VI': 31.2}",1,93.2,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233045,"{'10A': 99.4, '10B': 67.1, '10C': 27.7, '10F': 18.1, '22F': 15.5}",1,99.4,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239635,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001131665,"{'45': 6.8, '25F': 5.7, '25A': 5.5, '20': 5.4, '36': 5.4}",2,6.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265205,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001199215,"{'40': 99.6, '07B': 93.9, '07C': 75.4, '24F2': 48.2, '24F': 47.9}",1,99.6,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289915,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001197055,"{'10F': 98.2, '10C': 80.9, '10B': 22.4, '10A': 19.2, '22F': 15.1}",1,98.2,,10F,,,{},{},10F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023705,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216185,"{'19F': 94.8, '19F-I': 94.3, '19F-III': 93.2, '19F-II': 91.9, '19F-IV': 88.3}",1,94.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228585,"{'23F': 99.0, '23A': 65.2, '23B': 48.8, '28A': 47.9, '06A-IV': 47.1}",1,99.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019670795,"{'13': 98.9, '20': 28.6, '09L': 28.4, '09N': 28.1, '14': 26.9}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342655,"{'32A': 97.5, '32F': 97.4, '06A-II': 40.6, '06A-VI': 40.5, '06B-II': 39.8}",1,97.5,,32F/32A,,,{},{},32F/32A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253725,"{'17F': 99.8, '06B': 44.5, '06B-I': 43.9, '06A-III': 43.8, '06D': 43.7}",1,99.8,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245135,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021445,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338875,"{'03': 97.4, '01': 17.6, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270705,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235465,"{'23F': 96.3, '23A': 63.2, '06A-IV': 49.1, '23B': 48.4, '28A': 47.6}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238365,"{'19F-I': 97.8, '19F': 97.1, '19F-III': 96.6, '19F-II': 95.1, '19F-IV': 90.2}",1,97.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026645,"{'23F': 99.0, '23A': 64.8, '28A': 47.5, '23B': 47.4, '06A-V': 45.6}",1,99.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272195,"{'03': 95.2, '01': 17.8, '36': 17.4, '20': 16.1, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305255,"{'19F': 94.9, '19F-I': 94.4, '19F-III': 93.3, '19F-II': 92.0, '19F-IV': 88.3}",1,94.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001086385,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214785,"{'01': 99.0, '19F': 31.9, '19F-I': 31.4, '19F-III': 31.2, '19F-II': 30.9}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286565,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001100185,"{'23F': 96.8, '23A': 66.4, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267185,"{'06E': 99.4, '06B-III': 99.0, '06B-I': 46.6, '06A-III': 46.1, '06A-II': 45.1}",1,99.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322955,"{'18A': 90.5, '18B': 54.1, '18C': 54.1, '18F': 53.5, '16F': 35.5}",1,90.5,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900060845,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900059305,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900042975,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285315,"{'14': 91.4, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266325,"{'05': 95.3, '45': 22.4, '36': 21.7, '20': 20.3, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305295,"{'03': 95.1, '01': 18.2, '36': 17.4, '20': 16.1, '09N': 15.8}",1,95.1,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338665,"{'05': 95.2, '45': 22.2, '36': 21.2, '12A': 19.7, '46': 19.6}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302405,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193055,"{'15C': 93.4, '15B': 93.3, '15A': 61.7, '15F': 48.2, '14': 32.7}",1,93.4,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001163945,"{'20': 5.0, '22F': 4.8, '45': 4.6, '25A': 3.8, '25F': 3.8}",1,5.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001159485,"{'34': 92.8, '33F2': 34.7, '35B': 30.7, '33F': 29.0, '33C': 28.1}",1,92.8,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025125,"{'22A': 94.0, '22F': 81.1, '06A-I': 41.1, '06A-IV': 40.8, '06B': 40.6}",1,94.0,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222145,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302365,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232875,"{'15A': 99.2, '15F': 73.7, '15C': 61.8, '15B': 61.7, '23F': 31.5}",1,99.2,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224925,"{'23F': 92.4, '23A': 61.1, '28A': 48.1, '23B': 46.6, '06A-IV': 46.6}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306495,"{'03': 95.3, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.3,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001102085,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001200815,"{'36': 10.7, '20': 5.9, '06B-I': 5.5, '06C': 5.4, '06C-I': 5.4}",1,10.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322865,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251965,"{'15C': 87.8, '15B': 87.7, '15A': 64.6, '15F': 50.0, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337955,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001122405,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001119285,"{'10A': 94.2, '10B': 64.8, '10C': 29.3, '10F': 19.7, '47A': 16.8}",1,94.2,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001109105,"{'35F': 91.1, '47F': 67.7, '29': 25.7, '34': 25.3, '35B': 24.3}",1,91.1,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282585,"{'19F': 93.9, '19F-I': 93.7, '19F-III': 92.5, '19F-IV': 91.4, '19F-II': 91.3}",1,93.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286145,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298685,"{'14': 94.9, '36': 27.7, '09L': 25.3, '09N': 24.4, '15B': 24.1}",1,94.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257695,"{'09L': 99.5, '09N': 89.5, '09A': 31.2, '09V': 31.2, '36': 30.7}",1,99.5,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310145,"{'04': 97.7, '45': 33.6, '12F': 23.6, '44': 23.4, '12A': 22.4}",1,97.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000251565,"{'04': 99.7, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283995,"{'14': 89.4, '15B': 24.3, '15C': 24.2, '36': 23.6, '09L': 22.6}",1,89.4,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243585,"{'35A': 92.3, '35C': 89.6, '42': 89.0, '33A': 45.0, '33F': 44.4}",1,92.3,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329715,"{'13': 84.9, '09L': 27.5, '14': 27.2, '09N': 27.0, '36': 26.7}",1,84.9,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277125,"{'14': 92.7, '36': 30.9, '09L': 25.7, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051205,"{'23A': 97.5, '23F': 68.8, '23B': 40.0, '19F-II': 39.2, '15B': 38.7}",1,97.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294475,"{'18C': 99.7, '18B': 99.6, '18F': 75.6, '18A': 62.2, '16F': 39.1}",1,99.7,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327615,"{'14': 91.4, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228725,"{'15C': 87.7, '15B': 87.6, '15A': 60.9, '15F': 48.0, '23A': 31.3}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296055,"{'01': 99.2, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321325,"{'14': 99.6, '09L': 26.7, '36': 25.6, '09N': 24.4, '15B': 24.1}",1,99.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001085985,"{'36': 11.3, '20': 7.9, '45': 6.8, '06B-I': 6.0, '06C': 5.8}",1,11.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278065,"{'17F': 82.5, '06A-III': 43.1, '06B-I': 42.8, '06A-I': 42.2, '06B': 41.8}",1,82.5,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321975,"{'19F-III': 99.7, '19F': 97.7, '19F-I': 97.0, '19F-II': 94.5, '19F-IV': 89.2}",1,99.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022175,"{'09A': 99.7, '09V': 99.5, '09N': 38.2, '09L': 36.8, '35B': 26.7}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241515,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230505,"{'09A': 99.4, '09V': 99.2, '09N': 37.6, '09L': 36.9, '06A-IV': 27.3}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338265,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331255,"{'14': 94.3, '36': 26.0, '09L': 25.3, '09N': 24.7, '15B': 24.3}",1,94.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247995,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001174585,"{'36': 10.7, '06A-IV': 6.7, '01': 6.5, '45': 6.1, '20': 5.9}",1,10.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047755,"{'14': 92.6, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333435,"{'10A': 98.6, '10B': 66.3, '10C': 27.7, '10F': 18.1, '22F': 15.5}",1,98.6,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316565,"{'15C': 85.6, '15B': 85.5, '15A': 61.1, '15F': 47.9, '23A': 31.4}",1,85.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247255,"{'11D': 80.2, '11A': 78.9, '11F': 45.1, '11B': 34.6, '11C': 31.0}",1,80.2,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224295,"{'19A': 99.0, '19A-III': 98.8, '19A-I': 85.9, '19A-II': 83.6, '19AF': 57.2}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021385,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254265,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030155,"{'22F': 92.0, '22A': 74.2, '06A-IV': 44.3, '06A-II': 43.9, '06A-VI': 43.8}",1,92.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263815,"{'05': 95.2, '45': 22.2, '36': 21.8, '20': 20.3, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001165945,"{'36': 11.8, '20': 8.1, '06A-IV': 7.6, '06C': 6.2, '45': 6.2}",2,11.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001141985,"{'17F': 93.5, '06A-III': 45.5, '06B-I': 45.3, '06A-IV': 45.2, '06A': 44.5}",1,93.5,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239835,"{'22F': 96.4, '22A': 73.4, '06A': 42.6, '06A-II': 42.3, '06A-VI': 42.2}",1,96.4,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312265,"{'15A': 97.4, '15F': 73.5, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.4,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001204075,"{'06A': 89.7, '06A-III': 89.3, '06B-I': 88.0, '06B-II': 87.8, '06A-II': 87.3}",1,89.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290595,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002093445,"{'19A': 99.4, '19A-III': 99.2, '19A-I': 86.1, '19A-II': 83.6, '19AF': 57.2}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322575,"{'03': 97.4, '01': 17.7, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334585,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229925,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288665,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330535,"{'33F': 99.9, '33A': 99.7, '33F2': 70.9, '35C': 42.9, '42': 41.9}",1,99.9,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170835,"{'14': 92.0, '36': 28.0, '09L': 24.6, '09N': 23.9, '15B': 23.9}",1,92.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019446735,"{'31': 99.6, '41A': 57.1, '41F': 48.9, '06A-II': 36.6, '06A-VI': 36.6}",1,99.6,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279025,"{'14': 94.2, '36': 25.7, '09L': 25.5, '09N': 24.7, '15B': 24.3}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001109085,"{'15A': 98.5, '15F': 73.7, '15C': 62.0, '15B': 61.9, '23F': 31.9}",1,98.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268595,"{'01': 99.0, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288605,"{'11A': 99.8, '11D': 96.7, '11F': 40.0, '11C': 36.0, '11B': 34.5}",1,99.8,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252645,"{'10B': 93.5, '10A': 70.2, '10F': 20.1, '10C': 18.8, '22F': 14.3}",1,93.5,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029785,"{'14': 100.0, '09L': 26.8, '36': 26.1, '09N': 24.9, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901343075,"{'24F': 97.0, '24B': 89.7, '24F2': 86.4, '24A': 62.9, '07C': 51.9}",1,97.0,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001159325,"{'05': 95.2, '45': 20.9, '36': 20.2, '12A': 19.7, '46': 19.6}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335195,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306605,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001142545,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234715,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231275,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.4, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281945,"{'11A': 97.7, '11D': 95.3, '11F': 39.3, '11C': 36.5, '11B': 35.0}",1,97.7,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001156825,"{'19F-I': 89.2, '19F': 88.7, '19F-III': 87.5, '19F-II': 86.1, '19F-IV': 82.1}",1,89.2,,19F,,,{},{},19F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043195,"{'33F2': 99.9, '33F': 74.7, '33A': 70.3, '34': 41.6, '35B': 32.5}",1,99.9,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001155505,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321305,"{'03': 95.2, '01': 17.2, '36': 17.1, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167535,"{'14': 97.6, '36': 27.0, '09L': 24.9, '15B': 24.3, '15C': 24.2}",1,97.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194665,"{'15A': 99.7, '15F': 74.0, '15C': 61.9, '15B': 61.8, '23F': 31.6}",1,99.7,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335175,"{'14': 95.1, '36': 26.3, '09L': 25.2, '15B': 24.3, '15C': 24.2}",1,95.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314025,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310935,"{'16F': 96.7, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000334735,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001103705,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249755,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189905,"{'06C-I': 99.8, '06C': 99.6, '06D': 84.6, '06A-II': 79.5, '06A-VI': 79.5}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239295,"{'06A': 90.1, '06A-III': 89.5, '06B-II': 89.5, '06A-II': 89.4, '06A-VI': 89.4}",1,90.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313815,"{'01': 99.3, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261915,"{'01': 99.8, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259125,"{'35B': 91.2, '33F': 32.1, '34': 31.4, '33B': 30.8, '33A': 30.4}",1,91.2,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221095,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.7, '06B-II': 35.1, '06A-V': 34.9}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217815,"{'23F': 94.0, '23A': 63.5, '06A-IV': 48.6, '28A': 48.5, '23B': 47.6}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019457215,"{'03': 95.5, '20': 17.6, '36': 16.4, '09L': 16.1, '09N': 15.7}",1,95.5,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236165,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051185,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266475,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247535,"{'21': 99.1, '22F': 35.9, '06A-IV': 30.9, '06B': 30.2, '06A': 30.1}",1,99.1,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276805,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001343335,"{'36': 12.7, '20': 7.9, '06A-IV': 7.6, '06C': 6.2, '06C-I': 6.2}",1,12.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293695,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001715525,"{'23F': 95.4, '23A': 62.5, '28A': 47.1, '23B': 46.9, '28F': 45.4}",1,95.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232445,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254605,"{'09A': 93.0, '09V': 92.8, '09N': 39.6, '09L': 38.3, '08': 24.4}",1,93.0,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272205,"{'23A': 97.5, '23F': 68.8, '23B': 40.1, '19F-II': 39.2, '15B': 38.8}",1,97.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900692905,"{'18C': 93.7, '18B': 93.6, '18F': 75.6, '18A': 62.7, '16F': 39.6}",1,93.7,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324945,"{'07A': 90.5, '07F': 90.3, '19F-II': 43.3, '19F': 41.8, '19F-IV': 41.7}",1,90.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021675,"{'06B-I': 99.3, '06A-III': 97.2, '06B-II': 89.9, '06A': 89.8, '06A-V': 88.0}",1,99.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281885,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281275,"{'01': 98.9, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001343875,"{'25F': 5.7, '45': 5.6, '25A': 5.5, '20': 5.1, '22F': 5.1}",2,5.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900042805,"{'33F2': 99.6, '33F': 74.6, '33A': 70.2, '34': 41.9, '35B': 32.5}",1,99.6,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217475,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.7}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286505,"{'10A': 99.2, '10B': 67.1, '10C': 27.7, '10F': 18.1, '22F': 15.6}",1,99.2,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331325,"{'06A-I': 100.0, '06B': 94.5, '06A-V': 89.6, '06A': 87.1, '06A-III': 86.3}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242745,"{'03': 97.4, '01': 17.8, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001147925,"{'24F': 97.1, '24B': 89.8, '24F2': 86.6, '24A': 62.9, '07C': 52.0}",1,97.1,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272375,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031535,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020135,"{'07A': 99.6, '07F': 99.4, '19F-II': 36.3, '19F-IV': 35.7, '19F': 34.8}",1,99.6,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032765,"{'03': 95.4, '20': 17.6, '01': 16.9, '36': 16.4, '09L': 16.1}",1,95.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001155465,"{'11F': 61.8, '11D': 38.4, '11A': 36.8, '09V': 25.4, '09A': 25.3}",1,61.8,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063685,"{'01': 99.2, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169745,"{'19F-III': 98.4, '19F': 98.0, '19F-I': 98.0, '19F-II': 93.8, '19F-IV': 89.2}",1,98.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301685,"{'09N': 97.7, '09L': 87.6, '09A': 32.6, '09V': 32.6, '36': 29.3}",1,97.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001107825,"{'18C': 88.6, '18B': 88.5, '18F': 78.1, '18A': 60.7, '16F': 37.9}",1,88.6,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001151245,"{'15C': 87.4, '15B': 87.3, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.4,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224575,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.0, '23B': 47.7, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190035,"{'06B-I': 99.5, '06A-III': 97.4, '06B-II': 90.1, '06A': 89.8, '06A-V': 88.2}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296865,"{'19AF': 85.3, '19A-II': 60.0, '19A-I': 59.0, '19A': 52.5, '19A-III': 52.3}",1,85.3,19A_19AF,19A_19AF,,[[7]],"{'wzy': [2, 94.48]}",{'wzy': 2},19A_19AF,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027705,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279695,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303365,"{'08': 97.3, '02': 23.9, '06A-II': 23.7, '06A-VI': 23.6, '06B-II': 23.2}",1,97.3,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337875,"{'14': 89.9, '36': 28.8, '09L': 22.8, '19F-II': 22.2, '09N': 21.7}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398925,"{'06A': 89.0, '06A-III': 88.2, '06B-I': 86.9, '06B-II': 86.7, '06A-II': 86.2}",1,89.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323735,"{'23F': 96.8, '23A': 63.9, '23B': 48.1, '28A': 47.5, '06B-II': 46.0}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296155,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292875,"{'15C': 95.2, '15B': 95.1, '15A': 60.8, '15F': 47.3, '23A': 34.0}",1,95.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193595,"{'22F': 92.9, '22A': 70.2, '06A-II': 45.3, '06A-VI': 45.2, '06B-I': 45.2}",1,92.9,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001168885,"{'06E': 100.0, '06B-III': 99.1, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226065,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001092325,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307955,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001198895,"{'36': 9.1, '20': 6.3, '23B1': 6.1, '45': 5.7, '06A-IV': 5.1}",1,9.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259695,"{'04': 99.2, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001160845,"{'36': 11.7, '20': 7.8, '06A-IV': 7.5, '06B-I': 6.4, '06C': 6.2}",1,11.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001095505,"{'25F': 6.6, '45': 6.6, '25A': 6.2, '01': 4.3, '38': 4.3}",2,6.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280265,"{'04': 99.8, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001109905,"{'45': 6.4, '01': 5.7, '25F': 5.0, '25A': 4.8, '38': 4.1}",2,6.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265075,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330365,"{'05': 95.2, '45': 22.2, '36': 21.1, '12A': 19.7, '46': 19.6}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283605,"{'05': 95.3, '45': 22.5, '36': 21.7, '20': 20.3, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262065,"{'38': 97.6, '25F': 84.3, '25A': 83.3, '36': 15.7, '20': 7.5}",1,97.6,25F_25A_38,25F_25A_38,,"[[0], [19]]","{'wcyD': ['b: 80.0'], 'wcyV': 100.0}","{'wcyD': 0, 'wcyV': 'detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293925,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279815,"{'06A-I': 98.1, '06B': 95.1, '06A': 88.3, '06A-V': 84.9, '06A-III': 83.1}",1,98.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001094305,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310625,"{'18C': 99.8, '18B': 99.7, '18F': 75.7, '18A': 62.6, '16F': 39.2}",1,99.8,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001120545,"{'37': 98.8, '33F': 77.1, '33A': 75.8, '33F2': 70.9, '35B': 32.0}",1,98.8,,37,,,{},{},37,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254455,"{'06E': 92.5, '06B-III': 91.4, '06B-I': 48.0, '06A-III': 47.6, '06B-II': 47.2}",1,92.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168695,"{'09A': 99.6, '09V': 99.4, '09N': 36.7, '09L': 35.1, '11F': 26.6}",1,99.6,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317945,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263615,"{'16F': 73.0, '28F': 44.4, '28A': 41.6, '18F': 35.3, '18A': 35.1}",1,73.0,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001160965,"{'09L': 98.4, '09N': 88.9, '36': 31.7, '09A': 31.4, '09V': 31.4}",1,98.4,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275285,"{'06A-II': 85.8, '06A-VI': 85.8, '06A-III': 85.7, '06A-V': 84.9, '06B-I': 84.3}",1,85.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307395,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 96.61]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218495,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278005,"{'06A-I': 99.2, '06B': 94.9, '06A': 87.7, '06A-V': 86.7, '06A-III': 82.9}",1,99.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266705,"{'14': 91.4, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055965,"{'03': 95.2, '01': 17.1, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214325,"{'23A': 94.9, '23F': 68.0, '23B': 43.2, '19F-II': 40.0, '15B': 39.1}",1,94.9,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056465,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001334835,"{'15C': 95.2, '15B': 95.1, '15A': 60.9, '15F': 47.3, '23A': 34.5}",1,95.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262195,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001110765,"{'37': 57.3, '36': 12.5, '20': 7.5, '45': 6.8, '06B-I': 6.4}",1,57.3,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001909345,"{'03': 95.2, '36': 17.4, '20': 15.9, '09N': 15.4, '09L': 15.0}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284055,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331965,"{'01': 7.4, '45': 6.4, '25F': 5.7, '25A': 5.5, '22F': 5.2}",5,7.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258315,"{'19AF': 97.1, '19A-II': 61.5, '19A-I': 60.9, '19A': 52.1, '19A-III': 51.9}",1,97.1,19A_19AF,19A_19AF,,[[7]],"{'wzy': [2, 92.87]}",{'wzy': 2},19A_19AF,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260325,"{'12F': 96.4, '44': 93.4, '12B': 93.3, '12A': 84.8, '46': 81.7}",1,96.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190305,"{'06A-II': 94.4, '06A-VI': 94.4, '06B-II': 88.0, '06A-V': 87.8, '06A-III': 87.3}",1,94.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171795,"{'14': 92.4, '36': 28.6, '09L': 25.2, '09N': 24.3, '15B': 24.2}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323475,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300065,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317635,"{'09A': 99.7, '09V': 99.5, '09N': 38.6, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334415,"{'28A': 99.5, '28F': 92.4, '23F': 49.6, '16F': 43.7, '06B-I': 39.2}",1,99.5,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268525,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222465,"{'23F': 97.0, '23A': 63.9, '23B': 48.0, '28A': 47.7, '28F': 46.0}",1,97.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021022405,"{'02': 57.6, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193255,"{'19A': 99.4, '19A-III': 99.2, '19A-I': 86.1, '19A-II': 83.9, '19AF': 57.2}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171625,"{'14': 91.8, '36': 28.3, '09L': 24.7, '15B': 24.1, '15C': 24.0}",1,91.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293795,"{'07A': 56.7, '07F': 56.4, '22F': 24.9, '06A-I': 20.7, '01': 20.0}",1,56.7,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002813535,"{'19F': 99.8, '19F-III': 97.3, '19F-I': 96.6, '19F-II': 95.1, '19F-IV': 90.2}",1,99.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021295,"{'19A-II': 100.0, '19A-I': 96.6, '19A': 85.0, '19A-III': 84.8, '19AF': 62.1}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324835,"{'09L': 99.1, '09N': 89.4, '36': 32.3, '09A': 31.5, '09V': 31.5}",1,99.1,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900195225,"{'01': 7.2, '45': 6.4, '20': 5.9, '25F': 5.6, '25A': 5.4}",3,7.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333995,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053785,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001162525,"{'09N': 97.3, '09L': 87.7, '09A': 32.7, '09V': 32.7, '36': 31.6}",1,97.3,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031155,"{'23B': 99.5, '23B1': 64.6, '23F': 45.8, '23A': 40.0, '06A-IV': 36.9}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280185,"{'04': 99.2, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298865,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.7, '06B-II': 35.1, '06A-V': 34.9}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280865,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289705,"{'01': 99.8, '19F': 32.1, '19F-I': 31.7, '19F-III': 31.4, '19F-II': 31.2}",1,99.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193585,"{'23A': 99.4, '23F': 67.2, '23B': 43.6, '19F-II': 37.8, '15B': 37.1}",1,99.4,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001108365,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230265,"{'09A': 99.1, '09V': 98.9, '09N': 38.5, '09L': 36.6, '11F': 27.0}",1,99.1,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281075,"{'23F': 95.2, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,95.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258785,"{'15C': 95.0, '15B': 94.9, '15A': 60.7, '15F': 47.1, '23A': 34.7}",1,95.0,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341945,"{'19B': 92.9, '19C': 71.8, '19F-IV': 51.1, '19F-II': 51.0, '19F-I': 50.1}",1,92.9,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294185,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001164645,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300775,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298095,"{'20': 96.5, '13': 26.0, '09L': 25.3, '09N': 24.7, '36': 24.4}",1,96.5,,20,,,{},{},20,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_006376335,"{'06E': 100.0, '06B-III': 98.9, '06B-I': 46.5, '06A-III': 46.0, '06A-II': 45.0}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900037185,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311995,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.5, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213105,"{'06A-II': 95.6, '06A-VI': 95.6, '06B-II': 89.5, '06A-V': 89.1, '06A-III': 88.6}",1,95.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001116585,"{'14': 94.6, '36': 26.0, '09L': 24.5, '15B': 24.2, '15C': 24.1}",1,94.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315495,"{'23F': 97.0, '23A': 63.9, '28A': 47.7, '28F': 46.0, '06A': 45.0}",1,97.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900692985,"{'24A': 98.9, '24F2': 62.4, '24F': 59.9, '24B': 57.4, '48': 46.3}",1,98.9,,24A,,,{},{},24A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001159205,"{'34': 92.9, '33F2': 34.7, '35B': 30.9, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324825,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316855,"{'34': 98.4, '33F2': 35.0, '35B': 33.5, '33F': 29.6, '33C': 28.5}",1,98.4,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001336635,"{'10B': 99.5, '10A': 65.3, '10F': 20.1, '10C': 18.8, '22F': 13.6}",1,99.5,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230195,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054955,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324755,"{'07C': 94.0, '07B': 77.1, '40': 76.7, '24B': 48.6, '24F': 47.6}",1,94.0,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002093355,"{'19A': 94.0, '19A-III': 93.8, '19A-II': 85.3, '19A-I': 82.8, '19AF': 56.8}",1,94.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341695,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341035,"{'23A': 96.6, '23F': 67.7, '23B': 45.9, '19F-II': 39.4, '15B': 38.5}",1,96.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224315,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001105545,"{'14': 94.3, '36': 25.9, '09L': 24.8, '15B': 24.2, '15C': 24.1}",1,94.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323585,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283925,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192235,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.2, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340285,"{'19A-I': 99.0, '19A-II': 97.3, '19A': 88.0, '19A-III': 87.8, '19AF': 61.8}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247405,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023145,"{'03': 95.2, '01': 17.3, '36': 17.0, '20': 15.8, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043735,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900036665,"{'23F': 97.8, '23A': 63.3, '23B': 48.4, '28A': 48.3, '06A-IV': 47.0}",1,97.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266865,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258615,"{'14': 92.4, '36': 27.2, '09L': 25.5, '09N': 25.0, '15B': 24.0}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260535,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031345,"{'01': 99.6, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.6,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025245,"{'06B-I': 99.5, '06A-III': 97.4, '06B-II': 90.1, '06A': 89.8, '06A-V': 88.2}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224425,"{'06A-V': 93.1, '06A-III': 90.1, '06A-II': 89.7, '06A-VI': 89.7, '06B-I': 89.3}",1,93.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280195,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000273445,"{'04': 99.8, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
PHESPD0013,"{'11D': 100.0, '11A': 96.7, '11F': 42.0, '11C': 35.7, '11B': 34.2}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025795,"{'12F': 96.7, '44': 93.4, '12B': 92.7, '12A': 80.4, '46': 77.3}",1,96.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261645,"{'06A': 89.3, '06A-II': 89.2, '06A-VI': 89.2, '06A-III': 88.9, '06B-II': 88.6}",1,89.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190805,"{'06B-I': 99.3, '06A-III': 97.2, '06B-II': 89.8, '06A': 89.6, '06A-IV': 88.6}",1,99.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307225,"{'19A': 99.5, '19A-III': 99.3, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001159745,"{'36': 12.4, '20': 8.0, '06A-IV': 7.6, '06C': 6.2, '45': 6.2}",1,12.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398765,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341505,"{'21': 100.0, '22F': 36.0, '06A-IV': 32.9, '06A-II': 32.2, '06A-VI': 32.1}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275545,"{'23F': 96.0, '23A': 65.9, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043725,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001147345,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214685,"{'10A': 99.2, '10B': 67.1, '10C': 27.7, '10F': 18.1, '22F': 15.3}",1,99.2,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319035,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900062965,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228895,"{'06E': 99.9, '06B-III': 98.9, '06B-I': 46.6, '06A-III': 46.1, '06A-II': 45.1}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214135,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.4}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001109165,"{'06E': 100.0, '06B-III': 98.6, '06B-I': 46.3, '06A-III': 45.8, '06A-II': 44.8}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001334875,"{'05': 95.2, '12A': 19.7, '36': 19.7, '46': 19.6, '04': 19.3}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900062205,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339035,"{'35B': 99.4, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_902652835,"{'01': 99.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213035,"{'14': 93.4, '36': 27.3, '09L': 25.9, '09N': 25.1, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001329675,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295515,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276495,"{'10A': 99.1, '10B': 66.8, '10C': 27.6, '10F': 18.1, '22F': 15.4}",1,99.1,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001196755,"{'28F': 98.3, '28A': 91.9, '23F': 47.5, '16F': 46.0, '06B-I': 42.2}",1,98.3,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169485,"{'14': 92.7, '36': 28.8, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316195,"{'14': 93.3, '36': 27.2, '09L': 25.8, '09N': 25.3, '15B': 24.2}",1,93.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334835,"{'11D': 99.9, '11A': 97.2, '11F': 41.9, '11C': 35.9, '11B': 34.4}",1,99.9,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224365,"{'14': 94.2, '36': 25.9, '09L': 25.0, '09N': 24.3, '15B': 24.3}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900088805,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001172965,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313545,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.8, '19A-III': 87.6, '19AF': 61.7}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193965,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001301875,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167715,"{'09A': 99.7, '09V': 99.5, '09N': 37.5, '09L': 36.0, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340925,"{'23F': 97.4, '23A': 65.7, '28A': 47.1, '23B': 46.3, '06A': 46.1}",1,97.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277055,"{'15C': 87.8, '15B': 87.7, '15A': 64.6, '15F': 50.0, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189425,"{'15C': 93.6, '15B': 93.5, '15A': 61.8, '15F': 48.4, '23A': 32.8}",1,93.6,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235795,"{'34': 98.7, '33F2': 35.2, '35B': 33.5, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301845,"{'35F': 99.6, '47F': 74.5, '35B': 26.5, '34': 26.4, '36': 23.6}",1,99.6,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244955,"{'19A': 99.7, '19A-III': 99.5, '19A-I': 86.1, '19A-II': 83.8, '19AF': 57.5}",1,99.7,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001093325,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001164085,"{'15C': 86.9, '15B': 86.8, '15A': 64.1, '15F': 49.4, '23A': 30.2}",1,86.9,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327145,"{'06A-II': 95.5, '06A-VI': 95.5, '06B-II': 89.4, '06A-V': 89.0, '06A-III': 88.4}",1,95.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246005,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 46.7, '06A-III': 46.4, '06A-II': 45.4}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277595,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221625,"{'04': 99.8, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900618555,"{'14': 92.6, '36': 29.0, '09L': 25.6, '09N': 24.7, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028595,"{'03': 94.9, '01': 17.3, '36': 17.0, '20': 15.8, '09N': 15.7}",1,94.9,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246725,"{'23F': 96.1, '23A': 66.2, '28A': 47.2, '06A': 45.8, '28F': 44.9}",1,96.1,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900016925,"{'20': 91.4, '09L': 25.1, '13': 24.9, '09N': 24.2, '47F': 23.6}",1,91.4,,20,,,{},{},20,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304375,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333935,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337795,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317325,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243805,"{'06E': 100.0, '06B-III': 99.2, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_009721065,"{'11D': 99.8, '11A': 97.0, '15B': 47.4, '15C': 47.4, '11F': 43.4}",1,99.8,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279465,"{'05': 95.2, '45': 21.9, '36': 21.7, '20': 20.0, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257415,"{'03': 95.1, '20': 17.9, '01': 17.8, '36': 16.4, '09L': 16.3}",1,95.1,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313565,"{'01': 7.3, '45': 6.3, '25F': 5.8, '25A': 5.6, '22F': 5.5}",3,7.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268995,"{'18A': 98.9, '18B': 54.0, '18C': 54.0, '18F': 53.8, '19F-II': 37.0}",1,98.9,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319935,"{'01': 99.1, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275305,"{'06E': 100.0, '06B-III': 99.3, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047665,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001097945,"{'06A-III': 88.8, '06B-I': 86.5, '06A-II': 83.2, '06A-VI': 83.2, '06B-II': 83.2}",1,88.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047005,"{'19AF': 100.0, '19A-II': 62.3, '19A-I': 61.6, '19A': 53.2, '19A-III': 53.0}",1,100.0,19A_19AF,19A_19AF,,[[7]],"{'wzy': [2, 100.0]}",{'wzy': 2},19A_19AF,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319145,"{'06B-III': 90.0, '06E': 89.5, '06B-I': 50.9, '06A-III': 50.4, '06A-II': 49.4}",1,90.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907166955,"{'14': 98.2, '36': 27.1, '15B': 24.3, '15C': 24.2, '09L': 23.9}",1,98.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236115,"{'19F': 99.8, '19F-III': 97.3, '19F-I': 96.6, '19F-II': 95.1, '19F-IV': 90.2}",1,99.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232155,"{'06A': 97.5, '06B': 88.2, '06A-IV': 87.7, '06B-II': 87.2, '06A-I': 87.1}",1,97.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227365,"{'06B-I': 99.7, '06A-III': 97.6, '06B-II': 90.3, '06A': 89.8, '06A-V': 88.4}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001345935,"{'36': 10.6, '06A-IV': 7.1, '01': 7.0, '45': 6.3, '20': 6.2}",1,10.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001134665,"{'06E': 100.0, '06B-III': 97.6, '06B-I': 44.9, '06A-III': 44.4, '06B-II': 43.8}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255985,"{'21': 92.0, '22F': 36.5, '06A-IV': 34.7, '06A-II': 34.5, '06A-VI': 34.5}",1,92.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001209865,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309805,"{'07A': 99.6, '07F': 99.4, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.6,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900089015,"{'15C': 94.0, '15B': 93.8, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,94.0,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221425,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.7, '19A-III': 87.5, '19AF': 61.8}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237335,"{'14': 94.1, '36': 26.3, '09L': 25.4, '09N': 24.6, '15B': 24.3}",1,94.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280885,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001566135,"{'03': 95.1, '01': 15.9, '20': 15.1, '09N': 14.5, '09L': 14.3}",1,95.1,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303495,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001143705,"{'06A': 100.0, '06A-IV': 99.6, '06B-II': 95.4, '06A-V': 93.7, '06A-III': 91.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338435,"{'45': 6.7, '25F': 5.6, '20': 5.4, '25A': 5.4, '36': 5.4}",2,6.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219595,"{'14': 95.1, '36': 26.2, '09L': 25.5, '09N': 24.4, '15B': 24.3}",1,95.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219825,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336315,"{'27': 99.6, '06B-I': 42.0, '06A-III': 41.7, '22F': 41.2, '06C': 41.1}",1,99.6,,27,,,{},{},27,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216715,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254195,"{'10A': 99.8, '10B': 66.8, '10C': 27.3, '10F': 17.9, '22F': 15.4}",1,99.8,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022155,"{'04': 99.5, '45': 33.2, '12F': 23.2, '44': 23.0, '12A': 22.1}",1,99.5,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342135,"{'01': 7.3, '45': 6.0, '25F': 5.8, '20': 5.7, '25A': 5.6}",3,7.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900064145,"{'06D': 87.1, '06C': 85.2, '06C-I': 85.2, '06A-I': 77.9, '06B': 77.6}",1,87.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307875,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170995,"{'14': 92.3, '36': 28.8, '09L': 25.6, '09N': 24.5, '15B': 24.0}",1,92.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258065,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228945,"{'23B': 88.1, '23B1': 61.3, '23F': 38.5, '28A': 33.3, '23A': 33.0}",1,88.1,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001144285,"{'23F': 96.8, '23A': 66.4, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240435,"{'06C-I': 92.4, '06C': 92.3, '06D': 84.6, '06B-I': 77.3, '06A-III': 76.8}",1,92.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335145,"{'17F': 99.1, '06B': 44.4, '06B-I': 43.8, '06A-III': 43.7, '06D': 43.6}",1,99.1,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050735,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240515,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314745,"{'14': 93.3, '36': 27.3, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019456905,"{'17F': 93.5, '06A-III': 45.6, '06B-I': 45.4, '06A-IV': 45.3, '06A': 44.5}",1,93.5,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001137965,"{'06E': 100.0, '06B-III': 96.0, '06B-I': 43.5, '06A-III': 43.0, '06A-I': 42.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300855,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257485,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316885,"{'18C': 99.8, '18B': 99.7, '18F': 75.7, '18A': 62.5, '16F': 39.2}",1,99.8,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249395,"{'14': 94.9, '36': 28.4, '09L': 25.5, '09N': 24.3, '15B': 24.2}",1,94.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220345,"{'01': 99.2, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303245,"{'27': 99.6, '22F': 42.1, '06B-I': 42.1, '06A-III': 41.8, '06C': 41.2}",1,99.6,,27,,,{},{},27,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269965,"{'01': 7.2, '36': 6.3, '45': 6.0, '25F': 5.8, '25A': 5.6}",3,7.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323345,"{'01': 92.2, '19F': 33.3, '19F-I': 32.6, '19F-III': 32.5, '19F-II': 32.4}",1,92.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263675,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333695,"{'33F': 99.9, '33A': 99.5, '33F2': 70.9, '35C': 42.9, '42': 41.9}",1,99.9,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341085,"{'06A-V': 97.2, '06A-IV': 94.6, '06A': 94.1, '06B-II': 92.7, '06A-II': 89.9}",1,97.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308265,"{'19A-II': 100.0, '19A-I': 96.6, '19A': 85.0, '19A-III': 84.8, '19AF': 62.1}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001127045,"{'03': 95.1, '01': 16.1, '20': 15.1, '09L': 15.0, '09N': 15.0}",1,95.1,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190965,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001120985,"{'25F': 5.7, '45': 5.7, '25A': 5.5, '20': 5.1, '22F': 4.9}",2,5.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284875,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329165,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214485,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900036605,"{'09A': 99.7, '09V': 99.5, '09N': 38.2, '09L': 36.7, '06A-IV': 27.4}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245815,"{'23F': 97.6, '23A': 64.2, '23B': 48.4, '28A': 47.9, '06B-II': 46.2}",1,97.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900089475,"{'15C': 93.9, '15B': 93.8, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266685,"{'15C': 90.7, '15B': 90.6, '15A': 63.0, '15F': 48.8, '23A': 31.1}",1,90.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193805,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218055,"{'14': 92.7, '36': 28.8, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001088905,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238735,"{'09A': 99.7, '09V': 99.5, '09N': 38.5, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249115,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298165,"{'15A': 99.3, '15F': 73.9, '15C': 61.6, '15B': 61.5, '23F': 31.7}",1,99.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332595,"{'35B': 99.8, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302255,"{'19A': 99.4, '19A-III': 99.2, '19A-I': 86.1, '19A-II': 83.9, '19AF': 57.2}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336245,"{'23A': 95.0, '23F': 67.9, '23B': 43.2, '19F-II': 40.0, '15B': 39.1}",1,95.0,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339815,"{'23F': 94.6, '23A': 63.7, '28A': 47.7, '23B': 47.0, '06A': 46.4}",1,94.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019397865,"{'06A': 83.5, '06A-IV': 83.0, '06A-V': 82.4, '06B-I': 82.3, '06B-II': 82.3}",1,83.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 83.83']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001128085,"{'21': 92.2, '22F': 34.9, '06A-IV': 34.3, '06A-II': 34.0, '06A-VI': 34.0}",1,92.2,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295985,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222565,"{'06A-II': 95.3, '06A-VI': 95.3, '06B-II': 89.2, '06A-V': 88.8, '06A-III': 88.2}",1,95.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317585,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167545,"{'14': 93.4, '36': 27.0, '09L': 24.9, '15B': 24.3, '15C': 24.2}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330375,"{'14': 99.8, '09L': 27.0, '36': 25.9, '09N': 24.8, '15B': 24.1}",1,99.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268005,"{'06E': 99.9, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001091325,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325575,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286655,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192225,"{'38': 97.8, '25F': 83.2, '25A': 82.3, '36': 10.6, '22F': 6.5}",1,97.8,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251075,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261295,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319845,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001147265,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032005,"{'33F': 100.0, '33A': 97.5, '33F2': 70.9, '35C': 42.8, '42': 41.8}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286825,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215115,"{'15C': 90.7, '15B': 90.6, '15A': 63.0, '15F': 48.8, '23A': 31.1}",1,90.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249435,"{'06A': 90.1, '06A-II': 90.0, '06A-VI': 90.0, '06B-II': 90.0, '06A-III': 89.8}",1,90.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275265,"{'13': 98.9, '09N': 29.1, '20': 28.9, '09L': 28.7, '36': 28.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286835,"{'03': 95.2, '01': 18.2, '36': 17.4, '20': 16.1, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193515,"{'33F': 99.4, '33A': 96.9, '33F2': 70.4, '35C': 42.6, '42': 41.6}",1,99.4,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900061215,"{'35B': 99.7, '33F': 33.5, '35C': 33.2, '34': 33.0, '35A': 32.8}",1,99.7,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001105725,"{'10B': 99.2, '10A': 65.3, '10F': 20.0, '10C': 18.8, '22F': 14.1}",1,99.2,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304975,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281645,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277605,"{'06A': 96.6, '06B': 87.6, '06A-IV': 86.7, '06A-I': 86.5, '06B-II': 86.2}",1,96.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294985,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310795,"{'15C': 95.7, '15B': 95.5, '15A': 61.0, '15F': 47.6, '23A': 34.7}",1,95.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001170665,"{'19F-I': 95.0, '19F': 94.7, '19F-III': 93.2, '19F-II': 91.9, '19F-IV': 87.9}",1,95.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002889715,"{'19A-I': 99.0, '19A-II': 97.4, '19A': 87.6, '19A-III': 87.4, '19AF': 61.8}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336145,"{'38': 89.9, '25F': 85.8, '25A': 84.8, '36': 11.9, '20': 8.4}",1,89.9,25F_25A_38,25F_25A_38,,"[[0], [18]]","{'wcyD': ['b: 22.59'], 'wcyV': 4.69}","{'wcyD': 0, 'wcyV': 'not_detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341455,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025865,"{'15C': 93.4, '15B': 93.3, '15A': 61.6, '15F': 48.5, '14': 33.0}",1,93.4,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029495,"{'14': 99.9, '09L': 27.1, '36': 26.0, '09N': 24.7, '15B': 24.3}",1,99.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331985,"{'21': 100.0, '22F': 36.0, '06A-IV': 33.0, '06A-II': 32.3, '06A-VI': 32.2}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272345,"{'06B-I': 95.3, '06A-III': 93.2, '06B-II': 86.8, '06A': 86.3, '06A-V': 84.7}",1,95.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001856065,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900036095,"{'23F': 99.2, '23A': 65.4, '23B': 49.0, '28A': 48.1, '06A-IV': 47.3}",1,99.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284165,"{'09N': 100.0, '09L': 89.1, '09A': 32.7, '09V': 32.7, '36': 31.8}",1,100.0,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001197135,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022265,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260885,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309165,"{'29': 99.7, '39': 20.8, '35F': 19.3, '22F': 16.6, '35B': 16.0}",1,99.7,,29,,,{},{},29,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340995,"{'05': 95.3, '45': 22.5, '36': 21.7, '20': 20.3, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323875,"{'12F': 95.8, '12B': 93.2, '44': 92.8, '12A': 84.3, '46': 81.2}",1,95.8,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273725,"{'06A-II': 95.4, '06A-VI': 95.4, '06B-II': 89.3, '06A-V': 88.9, '06A-III': 88.3}",1,95.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230535,"{'14': 92.7, '36': 27.3, '09L': 25.6, '09N': 24.8, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170865,"{'14': 91.5, '36': 27.6, '09L': 24.7, '09N': 23.9, '15B': 23.6}",1,91.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317495,"{'01': 99.2, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319675,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050375,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325035,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001106905,"{'33C': 98.7, '34': 29.9, '35B': 24.1, '33F2': 23.8, '33F': 23.0}",1,98.7,,33C,,,{},{},33C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238045,"{'10A': 99.1, '10B': 66.8, '10C': 27.7, '10F': 18.1, '22F': 15.5}",1,99.1,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268885,"{'16F': 98.5, '28F': 42.9, '18A': 41.7, '19F-IV': 41.5, '19F-II': 41.1}",1,98.5,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001098565,"{'19F': 99.9, '19F-III': 97.4, '19F-I': 96.7, '19F-II': 95.3, '19F-IV': 90.4}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053095,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293625,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337335,"{'36': 10.6, '06A-IV': 6.3, '20': 6.1, '45': 5.8, '25F': 5.7}",1,10.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258995,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278225,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234725,"{'09A': 95.8, '09V': 95.6, '09N': 39.0, '09L': 37.0, '06A-IV': 26.4}",1,95.8,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246015,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325685,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001170465,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297265,"{'23F': 97.0, '23A': 65.4, '28A': 46.9, '23B': 46.1, '06A': 45.9}",1,97.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216685,"{'12F': 96.4, '44': 93.4, '12B': 93.3, '12A': 84.8, '46': 81.7}",1,96.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001153745,"{'03': 95.1, '01': 15.7, '09N': 15.2, '20': 15.1, '09L': 15.0}",1,95.1,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328315,"{'05': 81.2, '45': 17.5, '12A': 14.7, '46': 14.6, '04': 13.6}",1,81.2,,5,,,{},{},5,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269995,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226305,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240355,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001122505,"{'23A': 99.2, '23F': 67.3, '23B': 43.6, '19F-II': 37.4, '19F-IV': 37.0}",1,99.2,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248975,"{'04': 99.1, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.1,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001124165,"{'22F': 98.9, '22A': 73.2, '06A': 42.4, '06B': 41.9, '06A-II': 41.7}",1,98.9,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213725,"{'01': 99.3, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900048795,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338565,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057385,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216575,"{'01': 99.0, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222285,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230645,"{'10B': 93.7, '10A': 69.8, '10F': 20.0, '10C': 18.7, '22F': 13.5}",1,93.7,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001205675,"{'36': 10.1, '06A-IV': 7.1, '20': 6.0, '06B-I': 6.0, '06C': 5.7}",1,10.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302995,"{'05': 95.2, '45': 22.3, '36': 21.9, '20': 20.3, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294255,"{'24F2': 99.2, '24B': 88.0, '24F': 86.5, '24A': 70.7, '07B': 55.1}",1,99.2,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268425,"{'01': 99.5, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295055,"{'19A': 99.2, '19A-III': 99.0, '19A-I': 86.1, '19A-II': 83.8, '19AF': 57.2}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000468415,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322255,"{'06A-II': 88.5, '06A-VI': 88.5, '06A-III': 87.4, '06A-V': 87.4, '06B-I': 87.0}",1,88.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001153545,"{'01': 6.5, '45': 5.8, '25F': 5.4, '25A': 5.2, '20': 5.1}",2,6.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017305,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337555,"{'36': 12.4, '06A-IV': 7.6, '23B1': 7.3, '20': 6.9, '06C': 6.2}",1,12.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001161565,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900041285,"{'19A': 99.5, '19A-III': 99.3, '19A-I': 86.2, '19A-II': 84.0, '19AF': 57.2}",1,99.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298605,"{'06A-III': 88.5, '06B-I': 87.4, '06A-II': 87.0, '06A-V': 87.0, '06A-VI': 87.0}",1,88.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027325,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024255,"{'03': 94.9, '01': 17.0, '36': 17.0, '09N': 15.8, '20': 15.8}",1,94.9,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900059855,"{'38': 99.4, '25F': 84.4, '25A': 83.4, '36': 11.7, '20': 8.2}",1,99.4,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001160425,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248685,"{'15A': 99.2, '15F': 73.7, '15C': 61.8, '15B': 61.7, '23F': 31.5}",1,99.2,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221375,"{'15C': 95.6, '15B': 95.5, '15A': 61.0, '15F': 47.4, '23A': 34.7}",1,95.6,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193065,"{'06C-I': 99.8, '06C': 99.6, '06D': 84.6, '06A-II': 79.5, '06A-VI': 79.5}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229795,"{'11C': 99.8, '11B': 91.4, '11A': 33.7, '11D': 33.4, '23B1': 19.8}",1,99.8,,11B/11C,,,{},{},11B/11C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315115,"{'18C': 91.3, '18B': 91.2, '18F': 73.8, '18A': 61.3, '16F': 38.2}",1,91.3,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169845,"{'14': 92.6, '36': 28.9, '09L': 25.8, '09N': 24.7, '15B': 24.1}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253885,"{'15A': 98.5, '15F': 73.1, '15C': 61.8, '15B': 61.7, '23F': 32.2}",1,98.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333515,"{'04': 97.3, '45': 34.8, '12F': 25.3, '44': 24.9, '12A': 23.9}",1,97.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900034405,"{'23F': 97.0, '23A': 63.9, '06A-IV': 48.4, '23B': 48.2, '28A': 47.7}",1,97.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051315,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287925,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023715,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255205,"{'06A-I': 99.2, '06B': 94.9, '06A': 87.7, '06A-V': 86.7, '06A-III': 82.9}",1,99.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001200535,"{'35A': 99.9, '35C': 85.2, '42': 84.6, '33A': 42.9, '33F': 42.6}",1,99.9,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286725,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167615,"{'14': 91.4, '36': 26.3, '09L': 25.8, '09N': 25.0, '15B': 23.4}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230695,"{'03': 97.4, '01': 17.7, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306155,"{'06A-I': 99.2, '06B': 94.9, '06A': 87.7, '06A-V': 86.0, '06A-III': 82.1}",1,99.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333535,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.8, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171305,"{'14': 92.4, '36': 28.6, '09L': 24.8, '15B': 24.2, '15C': 24.1}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024865,"{'03': 95.2, '01': 17.2, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001154345,"{'03': 95.2, '36': 16.9, '01': 15.9, '20': 15.3, '14': 14.1}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311795,"{'15A': 98.4, '15F': 73.7, '15C': 61.9, '15B': 61.8, '23F': 31.9}",1,98.4,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316175,"{'23A': 96.7, '23F': 67.7, '23B': 43.1, '19F-IV': 42.1, '19F-II': 38.6}",1,96.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274795,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190555,"{'06A-IV': 99.9, '06A': 99.6, '06B-II': 95.1, '06A-V': 93.5, '06A-III': 91.3}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194775,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274675,"{'05': 95.1, '45': 22.3, '36': 21.8, '20': 20.3, '12A': 19.7}",1,95.1,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266035,"{'15B': 99.8, '15C': 99.6, '15A': 62.7, '15F': 48.3, '23A': 32.9}",1,99.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244285,"{'35B': 99.1, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.1,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029645,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001143145,"{'34': 92.8, '33F2': 34.7, '35B': 31.8, '33F': 29.0, '33C': 28.1}",1,92.8,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001194485,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342015,"{'06A-II': 95.5, '06A-VI': 95.5, '06B-II': 89.5, '06A-V': 89.1, '06A-III': 88.4}",1,95.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312815,"{'33F': 100.0, '33A': 99.7, '33F2': 70.9, '35C': 42.8, '42': 41.8}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001206295,"{'06C': 85.6, '06C-I': 85.6, '06D': 84.7, '06A': 77.0, '06A-IV': 73.3}",1,85.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272435,"{'37': 98.8, '33F': 77.4, '33A': 75.8, '33F2': 71.0, '35B': 32.2}",1,98.8,,37,,,{},{},37,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296225,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001169065,"{'23F': 93.7, '23A': 63.5, '28A': 48.8, '23B': 46.8, '28F': 46.1}",1,93.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255125,"{'11D': 96.5, '11A': 95.3, '11F': 43.3, '11C': 36.2, '11B': 34.8}",1,96.5,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001205575,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227275,"{'04': 99.2, '45': 33.4, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169255,"{'14': 92.0, '36': 28.5, '09L': 25.5, '09N': 24.4, '15B': 23.9}",1,92.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900459705,"{'07B': 99.9, '40': 92.9, '07C': 77.2, '24F2': 48.1, '24F': 47.7}",1,99.9,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334295,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024815,"{'23B': 99.6, '23B1': 64.7, '23F': 45.8, '23A': 40.0, '06A-IV': 36.9}",1,99.6,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001141765,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030385,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253325,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328015,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333975,"{'22F': 99.0, '22A': 73.3, '06A': 42.4, '06B': 41.9, '06A-II': 41.7}",1,99.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001345455,"{'06C-I': 87.2, '06C': 87.1, '06D': 84.6, '06A': 76.9, '06A-IV': 74.8}",1,87.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277285,"{'06A-II': 88.4, '06A-VI': 88.4, '06A-III': 88.3, '06A': 87.5, '06B-II': 87.5}",1,88.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222575,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215845,"{'19A-I': 99.0, '19A-II': 97.3, '19A': 87.9, '19A-III': 87.7, '19AF': 61.7}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334165,"{'14': 91.5, '36': 26.9, '09L': 26.7, '09N': 26.4, '15B': 23.4}",1,91.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286215,"{'09A': 96.4, '09V': 96.2, '09N': 37.9, '09L': 36.1, '35B': 29.0}",1,96.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301765,"{'23A': 99.3, '23F': 67.0, '23B': 43.5, '19F-II': 37.7, '15B': 37.2}",1,99.3,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225055,"{'23F': 99.4, '23A': 65.2, '23B': 47.9, '28A': 47.8, '06A-V': 45.8}",1,99.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225235,"{'12F': 95.8, '12B': 93.3, '44': 92.8, '12A': 84.8, '46': 81.7}",1,95.8,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310865,"{'14': 91.2, '19F-IV': 25.7, '09L': 24.6, '09N': 24.5, '36': 24.3}",1,91.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047705,"{'06B-II': 99.8, '06A-V': 95.7, '06A': 94.5, '06A-IV': 92.1, '06A-II': 91.9}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900188695,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 13.7}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263515,"{'21': 91.7, '22F': 36.8, '06A-IV': 31.6, '06A-II': 31.2, '06A-VI': 31.2}",1,91.7,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270305,"{'06A-V': 92.8, '06A-III': 89.8, '06A-II': 89.4, '06A-VI': 89.4, '06A': 89.1}",1,92.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001345815,"{'10A': 99.3, '10B': 67.0, '10C': 27.7, '10F': 18.1, '06B-I': 15.2}",1,99.3,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900059285,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317965,"{'04': 99.8, '45': 33.7, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019399715,"{'16F': 97.4, '28F': 42.2, '18A': 41.0, '18F': 40.7, '19F-IV': 40.6}",1,97.4,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001101845,"{'06E': 100.0, '06B-III': 98.9, '06B-I': 46.5, '06A-III': 46.0, '06A-II': 45.0}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270605,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019446545,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322105,"{'19F-II': 97.5, '19F': 94.1, '19F-I': 92.8, '19F-III': 92.4, '19F-IV': 92.4}",1,97.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285735,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223665,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319995,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000762605,"{'25F': 6.9, '25A': 6.7, '45': 6.5, '01': 5.8, '38': 4.9}",3,6.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001192055,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247315,"{'01': 99.2, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279515,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339455,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218175,"{'09N': 97.7, '09L': 87.3, '09A': 32.6, '09V': 32.6, '36': 31.1}",1,97.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001195825,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063155,"{'19A-I': 99.0, '19A-II': 97.3, '19A': 94.9, '19A-III': 94.7, '19AF': 61.9}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220835,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309945,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001909715,"{'03': 95.2, '36': 17.2, '20': 15.8, '01': 15.2, '09N': 14.9}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302185,"{'35B': 98.8, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,98.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398725,"{'23A': 97.5, '23F': 68.8, '23B': 40.1, '19F-II': 39.2, '15B': 38.8}",1,97.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249445,"{'14': 93.6, '36': 25.6, '09L': 25.0, '09N': 24.4, '15B': 23.8}",1,93.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001172525,"{'06A-III': 99.8, '06B-I': 98.2, '06B-II': 91.1, '06A': 90.8, '06A-V': 90.2}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320135,"{'06A-II': 85.0, '06A-VI': 85.0, '06A-III': 84.8, '06A-V': 84.3, '06A': 83.9}",1,85.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240505,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.1, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001150005,"{'06D': 95.4, '06C': 87.5, '06C-I': 87.5, '06B-I': 75.6, '06A-III': 75.2}",1,95.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 89.0']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057165,"{'19F-III': 99.9, '19F': 97.9, '19F-I': 97.2, '19F-II': 94.7, '19F-IV': 89.4}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336455,"{'14': 94.2, '36': 26.1, '09L': 25.5, '09N': 24.7, '15B': 24.3}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235135,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315985,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315705,"{'14': 77.0, '36': 17.6, '09L': 16.1, '09N': 16.1, '15B': 15.9}",1,77.0,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023985,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297305,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265455,"{'14': 91.8, '36': 27.8, '09L': 25.5, '09N': 24.5, '15B': 23.7}",1,91.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228085,"{'14': 99.7, '09L': 26.9, '36': 25.5, '09N': 24.7, '15B': 24.0}",1,99.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057445,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287215,"{'14': 92.7, '36': 28.9, '09L': 25.9, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001202815,"{'13': 83.6, '14': 25.4, '36': 25.1, '09L': 24.6, '09N': 24.4}",1,83.6,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900038155,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329515,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.8, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302635,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.9, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320725,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303705,"{'04': 98.3, '45': 34.9, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269895,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053905,"{'09A': 95.7, '09V': 95.5, '09N': 37.2, '09L': 35.9, '11F': 26.8}",1,95.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001123905,"{'36': 11.5, '20': 8.1, '06A-IV': 7.8, '45': 6.8, '06C': 6.6}",2,11.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193295,"{'33F': 100.0, '33A': 97.5, '33F2': 70.9, '35C': 42.8, '42': 41.8}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001116465,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272245,"{'15C': 95.2, '15B': 95.1, '15A': 60.8, '15F': 47.3, '23A': 34.0}",1,95.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242675,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900061785,"{'15C': 96.0, '15B': 95.8, '15A': 61.5, '15F': 47.8, '23A': 34.5}",1,96.0,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900058435,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341665,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292975,"{'07A': 91.1, '07F': 90.9, '19F-II': 39.2, '19F': 37.7, '19F-IV': 37.7}",1,91.1,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262705,"{'15A': 98.5, '15F': 73.1, '15C': 61.8, '15B': 61.7, '23F': 32.2}",1,98.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324105,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.1}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220305,"{'31': 99.6, '41A': 57.1, '41F': 49.0, '22F': 36.3, '06A-II': 36.1}",1,99.6,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289485,"{'10A': 98.5, '10B': 66.2, '10C': 27.1, '10F': 17.8, '22F': 15.6}",1,98.5,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295385,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 90.2, '06A': 87.7, '06A-III': 86.9}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300205,"{'23F': 92.4, '23A': 61.1, '28A': 48.1, '23B': 46.6, '06A-IV': 46.6}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193775,"{'10A': 99.9, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.2}",1,99.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330015,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191825,"{'06B-I': 99.3, '06A-III': 97.2, '06B-II': 89.9, '06A': 89.6, '06A-V': 88.0}",1,99.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276155,"{'16F': 71.7, '28F': 43.2, '28A': 40.7, '18F': 33.7, '18A': 33.6}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000233285,"{'09A': 99.6, '09V': 99.4, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.6,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236665,"{'01': 99.0, '19F': 31.9, '19F-I': 31.4, '19F-III': 31.2, '19F-II': 30.9}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259785,"{'35A': 94.4, '35C': 89.7, '42': 89.1, '33A': 46.3, '33F': 45.9}",1,94.4,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901212965,"{'10B': 93.7, '10A': 69.8, '10F': 20.0, '10C': 18.7, '22F': 14.0}",1,93.7,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332995,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247625,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272355,"{'22F': 93.4, '22A': 70.0, '06A-IV': 46.4, '06A-II': 44.8, '06B-I': 44.8}",1,93.4,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900034085,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253765,"{'01': 98.6, '19F': 32.0, '19F-I': 31.5, '19F-III': 31.3, '19F-II': 31.0}",1,98.6,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337485,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001105065,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001084405,"{'06E': 100.0, '06B-III': 98.3, '06B-I': 45.7, '06A-III': 45.2, '06B-II': 44.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023495,"{'33F': 100.0, '33A': 97.5, '33F2': 70.9, '35C': 42.8, '42': 41.8}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295375,"{'14': 93.4, '36': 27.3, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339095,"{'08': 99.7, '06A-II': 24.6, '06A-VI': 24.5, '02': 24.3, '06B-II': 24.0}",1,99.7,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001196695,"{'03': 94.8, '36': 16.8, '20': 15.5, '09N': 14.9, '09L': 14.8}",1,94.8,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168965,"{'09A': 99.4, '09V': 99.2, '09N': 37.9, '09L': 36.7, '11F': 26.6}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315505,"{'06A-II': 82.8, '06A-VI': 82.8, '06B-II': 79.9, '06A-V': 79.5, '06A-III': 79.0}",1,82.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001194645,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021022695,"{'02': 57.6, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900058235,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001127465,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322495,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.4, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337915,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285795,"{'35A': 94.4, '35C': 89.7, '42': 89.1, '33A': 46.3, '33F': 45.9}",1,94.4,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001159725,"{'33B': 89.8, '33D': 89.7, '35B': 34.2, '33F2': 30.0, '22F': 27.3}",1,89.8,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323795,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270495,"{'04': 99.3, '45': 33.7, '12F': 23.4, '44': 23.2, '12A': 22.3}",1,99.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299205,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301245,"{'15C': 95.6, '15B': 95.4, '15A': 61.0, '15F': 47.6, '23A': 34.7}",1,95.6,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900692785,"{'19F-I': 97.7, '19F': 97.0, '19F-III': 96.5, '19F-II': 95.0, '19F-IV': 90.1}",1,97.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900064975,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331535,"{'14': 93.0, '36': 27.3, '09L': 25.8, '09N': 25.5, '15B': 24.3}",1,93.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244365,"{'23F': 99.4, '23A': 65.2, '23B': 47.9, '28A': 47.8, '06A-V': 45.8}",1,99.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907172355,"{'19A': 90.2, '19A-III': 90.0, '19A-I': 82.6, '19A-II': 80.4, '19AF': 54.3}",1,90.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900003765,"{'16F': 95.7, '19F-II': 42.6, '19F-IV': 42.6, '28F': 42.4, '19F': 41.6}",1,95.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305185,"{'12F': 96.2, '12B': 93.1, '44': 92.9, '12A': 80.2, '46': 77.1}",1,96.2,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255435,"{'06A': 94.1, '06A-III': 93.2, '06A-V': 92.7, '06B-I': 91.9, '06B-II': 91.7}",1,94.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281345,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249645,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190075,"{'15C': 93.9, '15B': 93.8, '15A': 62.1, '15F': 48.6, '23A': 32.9}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238545,"{'11D': 80.2, '11A': 78.9, '11F': 45.1, '11B': 34.6, '11C': 31.0}",1,80.2,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239175,"{'16F': 71.4, '28F': 43.1, '28A': 40.6, '18F': 33.5, '18A': 32.5}",1,71.4,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239905,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001161665,"{'04': 98.3, '45': 32.1, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001121845,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330395,"{'18C': 88.5, '18B': 88.4, '18F': 77.8, '18A': 62.1, '16F': 37.6}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280595,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054235,"{'38': 99.3, '25F': 84.5, '25A': 83.5, '36': 10.5, '01': 7.9}",1,99.3,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280775,"{'16F': 71.5, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.5,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900795115,"{'23F': 93.4, '23A': 62.8, '28A': 48.4, '23B': 48.3, '06A-IV': 47.8}",1,93.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335155,"{'31': 99.6, '41A': 57.1, '41F': 48.9, '06A-II': 36.6, '06A-VI': 36.6}",1,99.6,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001130565,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256315,"{'17F': 82.2, '06A-I': 42.2, '06B': 41.8, '06A': 41.2, '06A-III': 40.5}",1,82.2,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900041745,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001152485,"{'03': 95.6, '36': 17.0, '20': 15.6, '01': 15.2, '09L': 14.5}",1,95.6,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254655,"{'14': 91.2, '19F-IV': 25.9, '09L': 24.8, '09N': 24.6, '36': 23.6}",1,91.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169765,"{'07C': 96.7, '07B': 77.3, '40': 74.6, '24F': 47.9, '24B': 47.8}",1,96.7,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251625,"{'13': 98.9, '09N': 29.1, '09L': 28.7, '20': 28.7, '36': 28.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001090005,"{'15C': 94.9, '15B': 94.8, '15A': 60.7, '15F': 47.1, '23A': 34.5}",1,94.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001132465,"{'19F': 100.0, '19F-III': 97.5, '19F-I': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,100.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001340155,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001118885,"{'34': 92.8, '33F2': 34.7, '35B': 30.4, '33F': 29.0, '33C': 28.1}",1,92.8,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243435,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169755,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260105,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249695,"{'04': 99.2, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001330955,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002076835,"{'19A': 88.8, '19A-III': 88.6, '19A-II': 81.9, '19A-I': 80.3, '19AF': 55.2}",1,88.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001104125,"{'36': 10.6, '06A-IV': 7.0, '06B-I': 5.8, '06C': 5.7, '20': 5.7}",1,10.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265935,"{'09N': 99.2, '09L': 88.8, '09A': 32.7, '09V': 32.7, '36': 32.3}",1,99.2,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327855,"{'06A-II': 91.5, '06A-VI': 91.5, '06A': 89.3, '06B-II': 89.0, '06A-V': 88.4}",1,91.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214965,"{'28A': 99.5, '28F': 92.4, '23F': 49.6, '16F': 43.7, '06B-I': 39.2}",1,99.5,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000251885,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000180475,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292405,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225255,"{'18C': 88.5, '18B': 88.4, '18F': 77.8, '18A': 61.5, '16F': 37.6}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001092365,"{'06B-III': 87.2, '06E': 86.5, '06B-I': 50.8, '06A-III': 50.4, '06C': 50.3}",1,87.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272805,"{'08': 99.5, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.5,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018515,"{'09N': 99.9, '09L': 89.1, '09A': 32.7, '09V': 32.7, '36': 32.4}",1,99.9,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001098445,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.4, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001166445,"{'36': 6.9, '45': 6.8, '01': 6.7, '20': 5.9, '22F': 5.3}",1,6.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319485,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286015,"{'09A': 95.9, '09V': 95.7, '09N': 38.8, '09L': 37.4, '11F': 26.6}",1,95.9,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278105,"{'04': 99.2, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319655,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268115,"{'06A': 93.5, '06A-III': 90.1, '06B-I': 90.0, '06B-II': 90.0, '06A-V': 89.5}",1,93.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333605,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231185,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167655,"{'14': 93.1, '36': 27.1, '09L': 25.1, '15B': 24.3, '15C': 24.2}",1,93.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001160505,"{'34': 92.9, '33F2': 34.7, '35B': 30.4, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235925,"{'07A': 98.0, '07F': 97.8, '19F-II': 36.7, '19F': 35.0, '19F-I': 34.9}",1,98.0,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328895,"{'14': 93.0, '36': 27.2, '09L': 25.9, '09N': 25.5, '15B': 24.3}",1,93.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907166985,"{'14': 91.3, '36': 26.4, '09L': 25.5, '09N': 24.9, '15B': 23.3}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255485,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229945,"{'06C-I': 89.3, '06C': 89.2, '06D': 87.0, '06A-I': 77.8, '06B': 77.5}",1,89.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001133245,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325605,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335845,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293755,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235945,"{'19A-I': 99.4, '19A-II': 97.3, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312335,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001137525,"{'45': 5.8, '25F': 5.7, '25A': 5.5, '20': 5.0, '22F': 4.9}",2,5.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245605,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249015,"{'16F': 71.7, '28F': 43.6, '28A': 40.8, '18F': 33.9, '18A': 33.7}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319175,"{'38': 90.2, '25F': 86.1, '25A': 85.1, '36': 11.9, '20': 8.3}",1,90.2,25F_25A_38,25F_25A_38,,"[[0], [18]]","{'wcyD': ['b: 22.59'], 'wcyV': 4.69}","{'wcyD': 0, 'wcyV': 'not_detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585325,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286045,"{'06A': 89.7, '06A-III': 88.9, '06B-I': 87.6, '06B-II': 87.4, '06A-II': 86.9}",1,89.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047835,"{'08': 99.5, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.2, '06B-II': 24.1}",1,99.5,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275185,"{'18A': 100.0, '18B': 54.0, '18C': 54.0, '18F': 53.7, '19F-IV': 37.3}",1,100.0,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026595,"{'09N': 100.0, '09L': 89.1, '09A': 32.7, '09V': 32.7, '36': 32.0}",1,100.0,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331005,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028895,"{'04': 99.8, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032325,"{'15C': 93.9, '15B': 93.8, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328325,"{'14': 93.3, '36': 27.3, '09L': 26.6, '09N': 25.4, '15B': 24.3}",1,93.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270005,"{'14': 95.0, '36': 28.4, '09L': 25.4, '09N': 24.5, '15B': 24.2}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313225,"{'07C': 93.9, '07B': 77.0, '40': 76.7, '24B': 48.6, '24F': 47.6}",1,93.9,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020855,"{'23B': 99.5, '23B1': 64.6, '23F': 45.8, '23A': 40.0, '06A-IV': 36.9}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287535,"{'22F': 98.9, '22A': 73.2, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,98.9,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024715,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.3, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001090805,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249305,"{'06C-I': 89.2, '06C': 89.1, '06D': 86.9, '06A-I': 78.0, '06B': 77.7}",1,89.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 94.1]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900060545,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001115945,"{'09A': 99.7, '09V': 99.5, '09N': 38.4, '09L': 36.3, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335355,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332885,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226835,"{'16F': 95.6, '28F': 41.8, '18F': 41.7, '28A': 40.1, '18A': 39.9}",1,95.6,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329155,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.8, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001091765,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193115,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.0, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225505,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 46.3, '06A': 46.2}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233035,"{'18C': 88.5, '18B': 88.4, '18F': 77.8, '18A': 61.5, '16F': 37.6}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001084505,"{'19F-III': 100.0, '19F': 98.0, '19F-I': 97.3, '19F-II': 94.8, '19F-IV': 89.5}",1,100.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317345,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220415,"{'23F': 91.3, '23A': 59.9, '06A-IV': 46.9, '28A': 46.8, '23B': 46.2}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258045,"{'01': 99.4, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189325,"{'06B-I': 99.2, '06A-III': 97.1, '06B-II': 89.7, '06A': 89.6, '06A-V': 87.8}",1,99.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018915,"{'03': 95.2, '01': 17.2, '36': 16.6, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300595,"{'19A': 99.5, '19A-III': 99.3, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,99.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001192015,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900016965,"{'14': 99.9, '09L': 27.1, '36': 26.1, '09N': 24.7, '15B': 24.3}",1,99.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263795,"{'06E': 89.6, '06B-III': 88.5, '06B-I': 52.1, '06A-III': 51.0, '06A-II': 49.6}",1,89.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232275,"{'06A-III': 90.1, '06B-I': 89.5, '06A-II': 88.6, '06A-V': 88.6, '06A-VI': 88.6}",1,90.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169735,"{'14': 92.7, '36': 28.2, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001201855,"{'23F': 94.6, '23A': 63.7, '28A': 47.8, '23B': 47.1, '06A': 46.5}",1,94.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030075,"{'24F2': 99.5, '24B': 88.3, '24F': 86.8, '24A': 71.1, '07B': 55.2}",1,99.5,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278705,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254175,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189835,"{'19F-II': 98.8, '19F': 94.6, '19F-III': 93.6, '19F-I': 93.3, '19F-IV': 92.9}",1,98.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290945,"{'19F-I': 99.7, '19F': 96.7, '19F-III': 96.7, '19F-II': 93.9, '19F-IV': 89.3}",1,99.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194075,"{'31': 99.6, '41A': 57.1, '41F': 48.9, '06A-II': 36.6, '06A-VI': 36.6}",1,99.6,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001140125,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047965,"{'06C-I': 100.0, '06C': 99.8, '06D': 84.6, '06A-II': 79.6, '06A-VI': 79.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250745,"{'18C': 99.5, '18B': 99.4, '18F': 76.0, '18A': 62.9, '16F': 39.5}",1,99.5,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001130405,"{'06E': 99.9, '06B-III': 99.4, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001119845,"{'06C-I': 88.8, '06C': 88.7, '06D': 86.7, '06A-I': 77.8, '06B': 77.5}",1,88.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 94.1]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001173025,"{'38': 99.4, '25F': 84.6, '25A': 83.6, '36': 11.7, '20': 8.0}",1,99.4,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001199255,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322535,"{'01': 99.1, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296025,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000279915,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001139545,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231305,"{'15A': 98.5, '15F': 73.1, '15C': 61.8, '15B': 61.7, '23F': 32.2}",1,98.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001116725,"{'23A': 97.2, '23F': 68.8, '23B': 40.1, '19F-II': 38.9, '15B': 38.5}",1,97.2,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341905,"{'09A': 99.4, '09V': 99.2, '09N': 38.5, '09L': 36.6, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323005,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342345,"{'16F': 71.5, '28F': 43.1, '28A': 40.6, '18F': 33.6, '18A': 32.9}",1,71.5,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299405,"{'15A': 98.3, '15F': 73.5, '15C': 61.9, '15B': 61.8, '23F': 31.9}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001209485,"{'36': 11.7, '20': 7.5, '06A-IV': 7.4, '45': 6.3, '06B-I': 6.3}",1,11.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326425,"{'14': 92.5, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232745,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194605,"{'23B': 99.5, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.6}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
PHESPD0236,"{'25F': 85.8, '25A': 85.0, '38': 78.0, '36': 8.9, '20': 7.7}",1,85.8,25F_25A_38,25F_25A_38,,"[[8], [18]]","{'wcyD': ['a', 100.0], 'wcyV': 4.23}","{'wcyD': 'a', 'wcyV': 'not_detected'}",25F/25A,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292695,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001197535,"{'14': 89.9, '36': 28.7, '09L': 23.3, '19F-II': 22.2, '09N': 22.1}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341495,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001091165,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314445,"{'23B': 99.5, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.8}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223555,"{'23F': 99.2, '23A': 65.4, '23B': 49.0, '28A': 48.1, '06A-IV': 47.3}",1,99.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277855,"{'09A': 96.0, '09V': 95.8, '09N': 38.5, '09L': 37.4, '11F': 26.7}",1,96.0,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219145,"{'18C': 88.4, '18B': 88.3, '18F': 77.7, '18A': 61.6, '16F': 37.8}",1,88.4,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032345,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213055,"{'19F-I': 96.3, '19F': 96.0, '19F-III': 94.6, '19F-II': 94.0, '19F-IV': 88.9}",1,96.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324485,"{'13': 83.1, '36': 29.0, '09L': 26.1, '09N': 25.4, '15B': 25.4}",1,83.1,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301325,"{'19F-I': 97.0, '19F': 96.5, '19F-III': 96.3, '19F-II': 92.3, '19F-IV': 87.9}",1,97.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056705,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243845,"{'06A-V': 92.3, '06A-I': 92.0, '06A-III': 89.9, '06B': 88.8, '06B-I': 88.5}",1,92.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236385,"{'07A': 97.5, '07F': 97.3, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,97.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265595,"{'23F': 92.4, '23A': 61.1, '28A': 48.1, '23B': 46.6, '06A-IV': 46.6}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238355,"{'06A-II': 85.8, '06A-VI': 85.8, '06A-III': 85.7, '06A-V': 84.9, '06B-I': 84.3}",1,85.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239745,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.4, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001134385,"{'05': 95.2, '45': 21.0, '36': 20.4, '12A': 19.7, '46': 19.6}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218005,"{'19A': 96.8, '19A-III': 96.6, '19A-I': 85.4, '19A-II': 83.4, '19AF': 56.7}",1,96.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335675,"{'10F': 98.2, '10C': 80.9, '10B': 22.4, '10A': 19.2, '22F': 14.4}",1,98.2,,10F,,,{},{},10F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270585,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_909594685,"{'14': 92.5, '36': 28.9, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268775,"{'06A-III': 94.2, '06B-I': 92.8, '06A': 90.2, '06A-IV': 89.1, '06B-II': 89.0}",1,94.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240275,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287055,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001340795,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339415,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306095,"{'10A': 94.1, '10B': 64.7, '10C': 29.3, '10F': 19.7, '47A': 16.8}",1,94.1,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001109665,"{'20': 5.4, '22F': 5.1, '45': 4.5, '25A': 3.8, '25F': 3.8}",1,5.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294825,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322875,"{'19A': 99.8, '19A-III': 99.6, '19A-I': 86.1, '19A-II': 83.6, '19AF': 57.2}",1,99.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243975,"{'04': 99.8, '45': 33.4, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020025,"{'35F': 99.1, '47F': 74.6, '34': 27.1, '35B': 26.4, '29': 22.5}",1,99.1,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001095605,"{'36': 12.4, '20': 7.8, '06A-IV': 7.6, '06C': 6.2, '06C-I': 6.2}",2,12.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276945,"{'14': 93.7, '36': 25.9, '09L': 25.2, '09N': 24.4, '15B': 24.0}",1,93.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331815,"{'16F': 98.8, '28F': 42.4, '18A': 41.0, '19F-IV': 40.9, '18F': 40.7}",1,98.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018555,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315825,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314925,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225085,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001201295,"{'19F': 95.7, '19F-I': 95.7, '19F-III': 94.2, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259035,"{'15C': 87.8, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336375,"{'01': 6.9, '20': 6.1, '06A-IV': 6.1, '25F': 5.9, '25A': 5.7}",3,6.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269675,"{'06A-II': 95.3, '06A-VI': 95.3, '06B-II': 89.1, '06A-V': 88.6, '06A-III': 88.1}",1,95.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306105,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291195,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217655,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326305,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285105,"{'19AF': 99.7, '19A-II': 62.1, '19A-I': 61.4, '19A': 53.2, '19A-III': 53.0}",1,99.7,19A_19AF,19A_19AF,,[[7]],"{'wzy': [2, 97.62]}",{'wzy': 2},19A_19AF,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332235,"{'23F': 92.5, '23A': 61.2, '28A': 48.1, '23B': 46.7, '06A-IV': 46.5}",1,92.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000279515,"{'06C-I': 89.1, '06C': 89.0, '06D': 86.9, '06A-I': 77.7, '06B': 77.4}",1,89.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275575,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213065,"{'38': 89.4, '25F': 85.8, '25A': 84.8, '36': 10.9, '01': 7.6}",1,89.4,25F_25A_38,25F_25A_38,,"[[0], [18]]","{'wcyD': ['b: 22.59'], 'wcyV': 4.69}","{'wcyD': 0, 'wcyV': 'not_detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263275,"{'01': 7.1, '45': 5.9, '25F': 5.7, '20': 5.5, '25A': 5.5}",6,7.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300665,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326935,"{'19F-II': 99.4, '19F': 95.2, '19F-III': 94.2, '19F-I': 93.9, '19F-IV': 93.1}",1,99.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257675,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281475,"{'01': 99.1, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244025,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251915,"{'01': 99.1, '19F': 32.0, '19F-I': 31.5, '19F-III': 31.3, '19F-II': 31.0}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001334455,"{'36': 12.7, '20': 9.3, '06A-IV': 7.4, '45': 6.5, '06C': 6.2}",1,12.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289755,"{'38': 90.2, '25F': 86.1, '25A': 85.1, '36': 11.9, '20': 8.3}",1,90.2,25F_25A_38,25F_25A_38,,"[[0], [18]]","{'wcyD': ['b: 22.59'], 'wcyV': 4.69}","{'wcyD': 0, 'wcyV': 'not_detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275465,"{'05': 95.3, '45': 22.3, '36': 21.5, '20': 20.0, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228135,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264355,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219605,"{'24F2': 77.7, '24F': 76.9, '24B': 76.1, '24A': 61.5, '07C': 51.1}",1,77.7,,24F/24B,,,{},{},24F/24B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231475,"{'04': 99.4, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.4,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025235,"{'03': 95.2, '01': 17.3, '36': 17.1, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320015,"{'09N': 98.1, '09L': 87.0, '09A': 31.2, '09V': 31.2, '36': 30.2}",1,98.1,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001336075,"{'19A-I': 99.1, '19A-II': 97.5, '19A': 87.7, '19A-III': 87.5, '19AF': 61.8}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312745,"{'20': 99.5, '13': 26.1, '09L': 25.6, '36': 25.0, '09N': 24.7}",1,99.5,,20,,,{},{},20,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334785,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001126345,"{'36': 11.8, '20': 8.0, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",2,11.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001203555,"{'36': 10.6, '20': 7.4, '06A-IV': 6.8, '06B-I': 5.7, '06C': 5.4}",1,10.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309155,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296945,"{'05': 95.2, '45': 22.2, '36': 21.2, '12A': 19.7, '46': 19.6}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900459555,"{'02': 57.6, '06C': 23.4, '06B-I': 23.4, '06C-I': 23.4, '06A-II': 23.1}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001340175,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331215,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218255,"{'09A': 96.0, '09V': 95.8, '09N': 38.5, '09L': 37.4, '11F': 26.7}",1,96.0,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284715,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001162385,"{'23A': 97.5, '23F': 68.8, '23B': 40.1, '19F-II': 39.2, '15B': 38.8}",1,97.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312975,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305275,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324635,"{'09A': 99.2, '09V': 99.0, '09N': 38.5, '09L': 36.6, '11F': 27.1}",1,99.2,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291535,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301545,"{'19A': 88.7, '19A-III': 88.5, '19A-II': 78.8, '19A-I': 78.0, '19AF': 59.6}",1,88.7,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001165385,"{'35B': 94.8, '33F': 33.9, '35C': 33.6, '35A': 33.2, '34': 33.1}",1,94.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001136845,"{'21': 93.2, '22F': 35.9, '06A-II': 31.3, '06A-IV': 31.3, '06A-VI': 31.2}",1,93.2,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020177465,"{'09A': 99.7, '09V': 99.5, '09N': 38.6, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276055,"{'08': 99.5, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.5,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313865,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339305,"{'12F': 95.7, '12B': 93.1, '44': 92.8, '12A': 84.6, '46': 81.5}",1,95.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237285,"{'14': 91.4, '19F-IV': 25.9, '36': 24.9, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335085,"{'07A': 97.5, '07F': 97.3, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,97.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243305,"{'35B': 91.1, '33F': 32.1, '34': 31.4, '33B': 30.8, '33A': 30.4}",1,91.1,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_909594495,"{'14': 92.7, '36': 28.9, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030535,"{'33F2': 99.9, '33F': 74.7, '33A': 70.3, '34': 41.6, '35B': 32.5}",1,99.9,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001171725,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900059675,"{'38': 99.3, '25F': 84.5, '25A': 83.5, '36': 14.4, '22F': 10.6}",1,99.3,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022845,"{'19A-II': 100.0, '19A-I': 96.6, '19A': 85.0, '19A-III': 84.8, '19AF': 62.1}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215255,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223815,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001210745,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264825,"{'35F': 98.9, '47F': 74.2, '34': 26.7, '35B': 26.7, '29': 22.2}",1,98.9,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305455,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313945,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900061865,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001134945,"{'19B': 95.8, '19C': 70.1, '19F-II': 53.9, '19F-I': 53.1, '19F': 53.0}",1,95.8,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254625,"{'06A-II': 95.4, '06A-VI': 95.4, '06B-II': 89.4, '06A-V': 89.0, '06A-III': 88.3}",1,95.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279275,"{'01': 99.1, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286885,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227395,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302005,"{'23B1': 98.7, '23B': 59.0, '19A-II': 36.7, '19A-I': 35.5, '19AF': 32.0}",1,98.7,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226655,"{'19F': 94.9, '19F-I': 94.4, '19F-III': 93.3, '19F-II': 92.0, '19F-IV': 88.3}",1,94.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299775,"{'15C': 88.3, '15B': 88.2, '15A': 61.3, '15F': 48.1, '23A': 31.5}",1,88.3,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280895,"{'06A-II': 88.4, '06A-VI': 88.4, '06A-III': 88.2, '06B-II': 87.5, '06A': 87.4}",1,88.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019457095,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001153045,"{'03': 94.8, '36': 16.9, '20': 15.5, '01': 14.6, '14': 13.9}",1,94.8,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321705,"{'11D': 80.2, '11A': 78.9, '11F': 45.3, '11B': 34.7, '11C': 31.0}",1,80.2,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001117345,"{'14': 90.2, '36': 29.0, '09L': 24.0, '09N': 22.8, '19F-II': 22.2}",1,90.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234915,"{'23B': 81.2, '23B1': 66.1, '06A-IV': 36.3, '06B-II': 34.7, '06A-V': 34.5}",1,81.2,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056005,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331585,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219615,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220675,"{'20': 78.8, '47F': 28.0, '09L': 25.8, '13': 25.2, '09N': 25.1}",1,78.8,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255595,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001161685,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269845,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.0}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316365,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001136685,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226635,"{'04': 99.8, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340605,"{'01': 7.3, '45': 6.5, '25F': 5.8, '36': 5.8, '23B1': 5.8}",4,7.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285485,"{'06A-II': 98.9, '06A-VI': 98.9, '06B-II': 92.1, '06A-V': 91.3, '06A-III': 88.8}",1,98.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213915,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025905,"{'03': 95.2, '36': 13.4, '01': 13.3, '20': 12.1, '09L': 11.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278245,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900036965,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '07F': 48.1, '07A': 47.8}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001910295,"{'03': 95.2, '36': 17.4, '20': 15.9, '09N': 15.4, '09L': 15.1}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167475,"{'14': 93.2, '36': 27.1, '09L': 25.1, '15B': 24.3, '15C': 24.2}",1,93.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231295,"{'23F': 92.1, '23A': 61.0, '28A': 47.8, '23B': 46.5, '06A-IV': 46.2}",1,92.1,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227595,"{'06B-I': 99.7, '06A-III': 97.6, '06B-II': 90.3, '06A': 89.8, '06A-V': 88.4}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001147325,"{'22A': 100.0, '22F': 79.1, '06A-IV': 43.9, '06A': 42.4, '06A-II': 42.2}",1,100.0,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325665,"{'19B': 82.1, '19C': 66.8, '19F-IV': 39.5, '19F-II': 39.1, '19F-I': 38.5}",1,82.1,,19B,,,{},{},19B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299635,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018585,"{'03': 95.3, '20': 17.7, '01': 17.2, '36': 16.4, '09L': 16.3}",1,95.3,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266525,"{'13': 98.9, '09N': 29.1, '09L': 28.6, '20': 28.4, '36': 28.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269945,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001098965,"{'28F': 98.3, '28A': 91.9, '23F': 47.5, '16F': 46.0, '06B-I': 42.5}",1,98.3,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001326415,"{'14': 100.0, '36': 25.9, '09L': 24.7, '15B': 24.3, '15C': 24.2}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308015,"{'23F': 98.9, '23A': 65.2, '23B': 47.8, '28A': 47.8, '06A-V': 45.3}",1,98.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023895,"{'03': 95.2, '01': 17.4, '36': 17.1, '09N': 15.8, '20': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274345,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239385,"{'20': 86.3, '36': 27.7, '13': 26.4, '09L': 25.9, '09N': 24.8}",1,86.3,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245925,"{'19B': 90.1, '19C': 69.0, '19F-II': 60.1, '19F-III': 58.3, '19F-I': 58.0}",1,90.1,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319605,"{'04': 99.8, '45': 33.7, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286085,"{'06A': 89.6, '06A-III': 89.2, '06B-I': 87.9, '06B-II': 87.7, '06A-II': 87.2}",1,89.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305865,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001340435,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281515,"{'01': 7.4, '45': 6.3, '25F': 5.8, '25A': 5.6, '22F': 5.0}",3,7.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191995,"{'19A': 99.5, '19A-III': 99.3, '19A-I': 86.2, '19A-II': 84.0, '19AF': 57.2}",1,99.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242175,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226015,"{'01': 7.5, '45': 6.4, '25F': 5.7, '25A': 5.5, '22F': 5.0}",5,7.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341825,"{'06A-II': 95.4, '06A-VI': 95.4, '06B-II': 89.4, '06A-V': 89.0, '06A-III': 88.3}",1,95.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238415,"{'06B-III': 96.3, '06E': 96.1, '06B-I': 46.1, '06A-III': 45.5, '06A-II': 44.9}",1,96.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032305,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321745,"{'14': 100.0, '09L': 27.2, '36': 25.8, '09N': 25.0, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314315,"{'01': 6.9, '20': 6.1, '06A-IV': 6.1, '25F': 5.9, '25A': 5.7}",3,6.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313145,"{'31': 99.6, '41A': 57.1, '41F': 48.9, '06A-II': 36.6, '06A-VI': 36.6}",1,99.6,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228755,"{'18C': 99.5, '18B': 99.4, '18F': 76.0, '18A': 63.2, '16F': 39.5}",1,99.5,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259105,"{'10A': 99.1, '10B': 66.8, '10C': 27.7, '10F': 18.1, '22F': 15.5}",1,99.1,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272985,"{'13': 83.3, '36': 28.7, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235415,"{'03': 95.5, '20': 17.9, '01': 17.7, '09L': 16.4, '36': 16.3}",1,95.5,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309585,"{'12F': 96.2, '12B': 93.1, '44': 92.9, '12A': 80.2, '46': 77.1}",1,96.2,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229025,"{'15B': 99.8, '15C': 99.7, '15A': 62.7, '15F': 48.3, '23A': 32.9}",1,99.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900062815,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189345,"{'11D': 99.8, '11A': 97.0, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,99.8,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253305,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.0, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900039275,"{'18C': 99.7, '18B': 99.6, '18F': 75.6, '18A': 62.2, '16F': 39.1}",1,99.7,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001137045,"{'13': 95.3, '36': 31.8, '09L': 26.7, '14': 26.0, '09N': 25.6}",1,95.3,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001170845,"{'36': 11.4, '06A-IV': 6.7, '20': 5.9, '23B1': 5.7, '45': 5.5}",1,11.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049855,"{'33F': 99.8, '33A': 97.1, '33F2': 72.2, '35C': 42.4, '42': 41.4}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023815,"{'14': 99.5, '09L': 26.8, '36': 25.5, '09N': 24.6, '15B': 24.0}",1,99.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341555,"{'23B1': 98.7, '23B': 55.9, '19A-II': 36.0, '19A-I': 35.7, '19AF': 31.5}",1,98.7,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192345,"{'06A-IV': 99.9, '06A': 99.7, '06B-II': 95.1, '06A-V': 93.5, '06A-III': 91.3}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228775,"{'01': 99.2, '19F': 32.2, '19F-I': 31.7, '19F-III': 31.5, '19F-II': 31.2}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270455,"{'23A': 98.3, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,98.3,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311115,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300845,"{'08': 99.6, '06A-II': 24.6, '06A-VI': 24.5, '02': 24.4, '06B-II': 24.0}",1,99.6,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340335,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.7, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288425,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263715,"{'22F': 96.4, '22A': 73.4, '06A': 42.6, '06A-II': 42.3, '06A-VI': 42.2}",1,96.4,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236135,"{'14': 92.7, '36': 29.0, '09L': 25.7, '09N': 24.5, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320295,"{'19F': 93.9, '19F-I': 93.7, '19F-III': 92.5, '19F-IV': 91.4, '19F-II': 91.3}",1,93.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263725,"{'13': 98.9, '09L': 28.7, '20': 28.7, '09N': 28.5, '36': 27.5}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214335,"{'09L': 99.4, '09N': 89.7, '36': 32.5, '09A': 31.5, '09V': 31.5}",1,99.4,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305535,"{'39': 97.9, '29': 28.6, '34': 22.6, '43': 19.3, '33C': 18.6}",1,97.9,,39,,,{},{},39,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339145,"{'18C': 88.5, '18B': 88.4, '18F': 77.8, '18A': 61.5, '16F': 37.6}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218365,"{'01': 99.1, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273265,"{'18A': 100.0, '18B': 54.0, '18C': 54.0, '18F': 53.7, '19F-IV': 37.3}",1,100.0,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227025,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328665,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248135,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268335,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332305,"{'29': 59.6, '35B': 37.4, '35F': 26.8, '22F': 23.3, '33B': 23.1}",1,59.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313695,"{'09N': 99.7, '09L': 88.7, '09A': 32.4, '09V': 32.4, '36': 30.5}",1,99.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327885,"{'19A': 99.5, '19A-III': 99.3, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,99.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_909594755,"{'14': 92.4, '36': 28.9, '09L': 25.6, '09N': 24.7, '15B': 24.2}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167205,"{'14': 90.9, '36': 26.5, '09L': 25.8, '09N': 25.0, '15B': 23.4}",1,90.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193285,"{'06A-II': 94.3, '06A-VI': 94.3, '06A-III': 87.5, '06B-I': 86.8, '06B-II': 86.8}",1,94.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277555,"{'22F': 92.2, '22A': 74.2, '06A-IV': 44.3, '06A-II': 43.9, '06A-VI': 43.8}",1,92.2,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001125805,"{'23F': 94.6, '23A': 63.7, '28A': 47.7, '23B': 47.0, '06A': 46.4}",1,94.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314325,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277575,"{'20': 78.9, '47F': 28.0, '09L': 25.8, '09N': 25.3, '13': 25.2}",1,78.9,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220365,"{'06A-II': 95.4, '06A-VI': 95.4, '06B-II': 89.3, '06A-V': 88.9, '06A-III': 88.3}",1,95.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230715,"{'14': 94.7, '36': 26.1, '09L': 25.3, '09N': 24.5, '15B': 24.1}",1,94.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292945,"{'16F': 98.8, '28F': 42.4, '18A': 41.0, '19F-IV': 40.9, '18F': 40.7}",1,98.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228385,"{'48': 99.3, '24A': 46.8, '24B': 39.4, '24F': 38.9, '24F2': 37.4}",1,99.3,,48,,,{},{},48,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001149665,"{'06B-III': 86.8, '06E': 86.5, '06B-I': 50.6, '06A-III': 50.2, '06C': 50.1}",1,86.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001099085,"{'11F': 61.8, '11D': 38.4, '11A': 36.8, '09V': 25.4, '09A': 25.3}",1,61.8,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316015,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225765,"{'18C': 88.5, '18B': 88.4, '18F': 77.8, '18A': 61.8, '16F': 37.6}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001140205,"{'25F': 5.7, '45': 5.7, '25A': 5.5, '20': 5.2, '22F': 5.1}",3,5.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347935,"{'35B': 43.7, '33B': 40.2, '33D': 36.1, '34': 31.3, '33F': 29.7}",1,43.7,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249735,"{'34': 93.5, '33F2': 35.3, '35B': 32.5, '33F': 29.3, '33C': 28.6}",1,93.5,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_018253855,"{'03': 94.8, '01': 17.2, '36': 17.1, '20': 15.9, '09N': 15.8}",1,94.8,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001153325,"{'23F': 94.5, '23A': 63.6, '06A-IV': 49.5, '23B': 48.4, '28A': 47.7}",1,94.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277145,"{'13': 83.3, '36': 28.8, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305985,"{'27': 99.4, '06B-I': 41.8, '06A-III': 41.5, '06C': 41.0, '22F': 41.0}",1,99.4,,27,,,{},{},27,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256855,"{'35F': 99.2, '47F': 74.5, '34': 26.7, '35B': 26.7, '29': 22.2}",1,99.2,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001095625,"{'15B': 99.6, '15C': 99.4, '15A': 62.7, '15F': 48.3, '23A': 32.9}",1,99.6,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019397695,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.3, '06A-III': 46.8, '06A-II': 45.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299645,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001096825,"{'06A': 89.7, '06A-III': 89.3, '06B-I': 88.0, '06B-II': 87.8, '06A-II': 87.3}",1,89.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235215,"{'07B': 92.7, '40': 88.6, '07C': 76.9, '24F': 48.6, '24F2': 47.8}",1,92.7,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286235,"{'06B-I': 99.7, '06A-III': 97.6, '06B-II': 90.3, '06A': 89.8, '06A-V': 88.4}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305285,"{'06E': 100.0, '06B-III': 97.9, '06B-I': 45.6, '06A-III': 45.1, '06A-II': 44.1}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001147525,"{'14': 94.6, '36': 26.1, '09L': 25.1, '09N': 24.2, '15B': 24.2}",1,94.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019875,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330795,"{'03': 75.1, '20': 7.3, '22F': 6.7, '01': 6.3, '36': 6.3}",1,75.1,,3,,,{},{},3,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001135025,"{'20': 5.4, '36': 5.1, '45': 5.0, '06C-I': 3.9, '06C': 3.8}",1,5.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248805,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001117245,"{'45': 5.9, '25F': 4.8, '25A': 4.7, '01': 4.5, '22F': 4.0}",2,5.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023935,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337045,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001118485,"{'11D': 99.7, '11A': 96.9, '11F': 41.7, '11C': 35.6, '11B': 34.1}",1,99.7,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303475,"{'35B': 99.3, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.3,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001150165,"{'36': 13.1, '20': 7.9, '06A-IV': 7.6, '01': 6.5, '45': 6.3}",2,13.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303645,"{'01': 99.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190925,"{'06A': 99.6, '06A-IV': 99.6, '06B-II': 95.0, '06A-V': 93.5, '06A-III': 91.3}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336685,"{'05': 95.3, '45': 22.5, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336005,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250065,"{'06E': 99.7, '06B-III': 99.4, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320285,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001147645,"{'23B1': 98.8, '23B': 55.9, '19A-II': 36.0, '19A-I': 35.7, '19AF': 31.5}",1,98.8,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324715,"{'23B': 81.2, '23B1': 66.1, '06A-IV': 36.6, '06B-II': 35.1, '06A-V': 34.9}",1,81.2,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020140165,"{'35B': 99.8, '33F': 33.5, '35C': 33.4, '34': 33.1, '35A': 33.0}",1,99.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289745,"{'03': 95.2, '01': 17.5, '09L': 15.5, '09N': 15.1, '14': 13.9}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312315,"{'23F': 97.0, '23A': 63.9, '28A': 47.7, '28F': 46.0, '06A': 45.0}",1,97.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275115,"{'14': 91.4, '19F-IV': 25.9, '09L': 24.8, '36': 24.6, '09N': 24.1}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318745,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001087845,"{'36': 11.7, '20': 8.0, '06A-IV': 7.5, '06B-I': 6.4, '06C': 6.2}",1,11.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001113085,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219165,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332775,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900060285,"{'19A': 99.1, '19A-III': 98.9, '19A-I': 85.3, '19A-II': 83.1, '19AF': 56.7}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324005,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325005,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001120825,"{'19F-I': 95.4, '19F': 95.2, '19F-III': 93.7, '19F-II': 92.3, '19F-IV': 88.3}",1,95.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248555,"{'10A': 99.1, '10B': 66.8, '10C': 27.7, '10F': 18.1, '22F': 15.5}",1,99.1,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232165,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001200075,"{'06A': 89.7, '06A-III': 89.3, '06B-I': 88.0, '06B-II': 87.8, '06A-II': 87.3}",1,89.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306935,"{'06B-I': 99.7, '06A-III': 97.6, '06B-II': 90.2, '06A': 89.8, '06A-V': 88.3}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023585,"{'03': 94.9, '01': 17.2, '36': 16.6, '20': 15.9, '09N': 15.7}",1,94.9,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268015,"{'19F': 97.3, '19F-I': 96.3, '19F-III': 95.5, '19F-II': 95.4, '19F-IV': 90.9}",1,97.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001114165,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347615,"{'10F': 98.2, '10C': 80.9, '10B': 22.4, '10A': 19.2, '22F': 15.1}",1,98.2,,10F,,,{},{},10F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001578475,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168895,"{'14': 91.3, '36': 26.5, '09L': 25.1, '09N': 24.1, '15B': 23.4}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253895,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001107085,"{'23F': 93.9, '23A': 63.4, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,93.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001125685,"{'20': 86.6, '36': 27.6, '09L': 25.6, '13': 25.6, '47F': 24.6}",1,86.6,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231515,"{'14': 99.9, '09L': 27.0, '36': 25.8, '09N': 25.0, '15B': 24.3}",1,99.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020145,"{'11D': 99.8, '11A': 97.0, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,99.8,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001105965,"{'15C': 87.8, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237535,"{'10A': 99.4, '10B': 67.1, '10C': 27.7, '10F': 18.1, '22F': 15.4}",1,99.4,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338015,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309845,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001165165,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024525,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246755,"{'07B': 99.9, '40': 92.9, '07C': 77.2, '24F2': 48.1, '24F': 47.6}",1,99.9,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900088995,"{'19A-II': 100.0, '19A-I': 96.6, '19A': 85.0, '19A-III': 84.8, '19AF': 62.1}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330855,"{'35B': 99.4, '33F': 33.6, '35C': 33.4, '34': 33.1, '35A': 33.0}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001138945,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342735,"{'31': 99.2, '41A': 56.7, '41F': 48.4, '06A-II': 35.9, '06A-VI': 35.9}",1,99.2,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327535,"{'14': 93.4, '36': 26.2, '09L': 25.2, '09N': 24.4, '15B': 24.0}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282125,"{'10B': 99.0, '10A': 65.0, '10F': 20.0, '10C': 18.8, '22F': 14.0}",1,99.0,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327965,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022305,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '22F': 26.9}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248725,"{'35A': 94.3, '35C': 89.6, '42': 89.0, '33A': 46.3, '33F': 45.9}",1,94.3,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223735,"{'21': 99.3, '22F': 35.9, '06A-IV': 30.9, '06B': 30.2, '06A': 30.1}",1,99.3,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900062035,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001340475,"{'13': 98.9, '09L': 28.2, '20': 28.0, '09N': 27.7, '14': 26.8}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001204855,"{'36': 10.5, '20': 7.0, '45': 6.6, '23B1': 5.7, '06C': 5.3}",1,10.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326555,"{'16F': 91.2, '28F': 37.1, '18A': 34.9, '18F': 34.5, '28A': 34.5}",1,91.2,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398105,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285515,"{'03': 95.2, '01': 17.7, '36': 17.4, '20': 16.1, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322375,"{'16F': 98.1, '28F': 42.9, '18A': 41.8, '19F-IV': 41.3, '18F': 41.1}",1,98.1,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298035,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001147445,"{'32A': 97.5, '32F': 97.4, '06A-II': 40.7, '06A-VI': 40.6, '06B-II': 39.9}",1,97.5,,32F/32A,,,{},{},32F/32A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244855,"{'18C': 99.3, '18B': 99.2, '18F': 76.0, '18A': 62.7, '16F': 39.3}",1,99.3,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900037125,"{'03': 94.7, '01': 17.3, '36': 17.0, '09N': 15.6, '09L': 15.5}",1,94.7,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342595,"{'13': 83.3, '36': 28.3, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327285,"{'19F-I': 95.9, '19F': 95.6, '19F-III': 94.1, '19F-II': 92.8, '19F-IV': 88.9}",1,95.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213435,"{'04': 98.1, '45': 34.0, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.1,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240025,"{'15C': 95.7, '15B': 95.6, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001150745,"{'36': 12.5, '20': 8.1, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",2,12.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320085,"{'17F': 99.7, '06B': 44.3, '06D': 43.5, '06A-I': 43.2, '22F': 42.2}",1,99.7,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258365,"{'05': 95.0, '45': 22.6, '36': 22.0, '20': 20.4, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055795,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900061775,"{'10A': 94.2, '10B': 64.8, '10C': 29.3, '10F': 19.7, '47A': 16.8}",1,94.2,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339425,"{'12F': 96.4, '44': 93.4, '12B': 93.3, '12A': 84.8, '46': 81.7}",1,96.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282405,"{'23B': 99.4, '23B1': 64.6, '23F': 45.7, '23A': 39.9, '06A-IV': 36.6}",1,99.4,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001677235,"{'23F': 96.7, '23A': 63.6, '23B': 47.9, '28A': 47.6, '28F': 45.9}",1,96.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253655,"{'34': 98.7, '33F2': 35.2, '35B': 33.6, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020035,"{'35B': 99.9, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.9,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288985,"{'06E': 99.9, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273615,"{'33F2': 100.0, '33F': 74.7, '33A': 70.3, '34': 41.7, '35B': 32.4}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311535,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230085,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900061825,"{'19A': 99.9, '19A-III': 99.7, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,99.9,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224465,"{'09N': 100.0, '09L': 88.9, '09A': 32.7, '09V': 32.7, '36': 32.0}",1,100.0,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214175,"{'09A': 96.0, '09V': 95.8, '09N': 38.5, '09L': 37.4, '11F': 26.7}",1,96.0,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229595,"{'10B': 93.6, '10A': 69.7, '10F': 20.0, '10C': 18.7, '22F': 14.2}",1,93.6,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294735,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279845,"{'09A': 99.4, '09V': 99.2, '09N': 38.4, '09L': 36.5, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027795,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258425,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323705,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321655,"{'15C': 86.5, '15B': 86.4, '15A': 63.7, '15F': 49.0, '23A': 30.2}",1,86.5,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023695,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000252205,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316415,"{'23F': 97.3, '23A': 63.0, '06A-IV': 47.8, '23B': 47.7, '28A': 47.7}",1,97.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900062195,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315935,"{'19A': 99.2, '19A-III': 99.0, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_003367435,"{'19F-II': 33.1, '19F-I': 29.9, '19F-III': 29.7, '19F': 29.4, '36': 28.7}",1,33.1,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047575,"{'08': 99.5, '02': 24.4, '06A-II': 24.3, '06A-VI': 24.2, '06B-II': 23.7}",1,99.5,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220095,"{'33B': 89.5, '33D': 89.4, '35B': 34.5, '33F2': 30.2, '22F': 28.1}",1,89.5,,"Mixed serotypes- {'33B', '33D'}",,,{},{},"Mixed serotypes- {'33B', '33D'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285095,"{'11F': 61.8, '11D': 38.4, '11A': 36.8, '09V': 25.4, '09A': 25.3}",1,61.8,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311285,"{'02': 93.2, '22F': 40.3, '06B-I': 39.0, '06A-III': 38.9, '06A-II': 38.7}",1,93.2,,2,,,{},{},2,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252055,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001144725,"{'16F': 97.7, '28F': 42.9, '18F': 41.1, '19F-IV': 40.9, '28A': 40.7}",1,97.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341375,"{'10B': 99.5, '10A': 65.3, '10F': 20.1, '10C': 18.8, '22F': 13.7}",1,99.5,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021022235,"{'02': 57.6, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051115,"{'17F': 99.6, '06B': 45.8, '06A-I': 44.8, '06B-I': 44.6, '06A-III': 44.3}",1,99.6,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233275,"{'01': 99.1, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001301575,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.5, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_012911615,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286345,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308425,"{'38': 90.7, '25F': 86.7, '25A': 85.7, '36': 16.0, '20': 7.5}",1,90.7,25F_25A_38,25F_25A_38,,"[[0], [18]]","{'wcyD': ['b: 22.59'], 'wcyV': 4.69}","{'wcyD': 0, 'wcyV': 'not_detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001124865,"{'07A': 98.3, '07F': 98.1, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,98.3,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191575,"{'11D': 99.4, '11A': 96.6, '11F': 41.9, '11C': 35.2, '11B': 33.7}",1,99.4,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001092885,"{'19F-I': 95.5, '19F': 95.2, '19F-III': 93.7, '19F-II': 92.4, '19F-IV': 88.4}",1,95.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339355,"{'04': 98.2, '45': 32.1, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168325,"{'09A': 99.6, '09V': 99.4, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.6,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239355,"{'22F': 99.1, '22A': 73.4, '06A-IV': 43.5, '06A': 42.6, '06B': 42.1}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306735,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263125,"{'14': 94.1, '36': 25.9, '09L': 25.5, '09N': 24.6, '15B': 24.3}",1,94.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233295,"{'10A': 99.4, '10B': 67.1, '10C': 27.7, '10F': 18.1, '22F': 15.5}",1,99.4,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001132225,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.5}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326545,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303165,"{'07A': 97.5, '07F': 97.3, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,97.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001095105,"{'09N': 100.0, '09L': 89.0, '09A': 32.7, '09V': 32.7, '36': 32.4}",1,100.0,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001203435,"{'16F': 95.7, '19F-II': 42.6, '19F-IV': 42.6, '28F': 42.4, '19F': 41.6}",1,95.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339855,"{'11D': 80.2, '11A': 78.9, '11F': 45.2, '11B': 34.7, '11C': 31.0}",1,80.2,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248995,"{'23F': 97.1, '23A': 64.0, '06A-IV': 47.8, '23B': 47.7, '28A': 47.7}",1,97.1,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287175,"{'14': 100.0, '36': 26.7, '09L': 25.8, '09N': 24.4, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001171565,"{'06E': 100.0, '06B-III': 98.6, '06B-I': 46.3, '06A-III': 45.8, '06A-II': 44.8}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002081225,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001163765,"{'18C': 88.6, '18B': 88.5, '18F': 78.1, '18A': 60.7, '16F': 37.9}",1,88.6,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274775,"{'11D': 79.9, '11A': 78.6, '11F': 45.3, '11B': 34.7, '11C': 31.0}",1,79.9,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001161905,"{'09L': 97.2, '09N': 88.1, '36': 32.2, '09A': 31.4, '09V': 31.4}",1,97.2,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237545,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314415,"{'19F-I': 99.7, '19F': 96.7, '19F-III': 96.7, '19F-II': 93.9, '19F-IV': 89.5}",1,99.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168775,"{'14': 93.4, '36': 27.2, '09L': 25.1, '15B': 24.3, '15C': 24.2}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314645,"{'04': 99.2, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248915,"{'03': 97.4, '01': 17.6, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272095,"{'06E': 99.3, '06B-III': 98.9, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,99.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001085425,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297605,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297935,"{'18A': 100.0, '18B': 54.0, '18C': 54.0, '18F': 53.7, '19F-IV': 37.3}",1,100.0,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001089765,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320465,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001103785,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277835,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244635,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268315,"{'01': 7.6, '25F': 5.8, '25A': 5.7, '45': 5.5, '06A-IV': 4.9}",3,7.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167825,"{'09A': 99.5, '09V': 99.3, '09N': 37.3, '09L': 36.0, '06A-IV': 26.9}",1,99.5,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317045,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329675,"{'03': 97.4, '01': 17.9, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323205,"{'01': 99.4, '19F': 32.2, '19F-I': 31.7, '19F-III': 31.5, '19F-II': 31.2}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907172215,"{'14': 92.7, '36': 29.0, '09L': 25.6, '09N': 24.5, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001130485,"{'15C': 95.6, '15B': 95.5, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.6,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246325,"{'19F': 97.3, '19F-I': 96.3, '19F-III': 95.5, '19F-II': 95.4, '19F-IV': 90.9}",1,97.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305335,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001104105,"{'23F': 94.6, '23A': 63.7, '28A': 47.7, '23B': 47.0, '06A': 46.4}",1,94.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063195,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318565,"{'09A': 98.8, '09V': 98.6, '09N': 37.3, '09L': 36.4, '06A-IV': 26.2}",1,98.8,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001110385,"{'34': 92.9, '33F2': 34.7, '35B': 30.7, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263235,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307215,"{'06C': 86.4, '06C-I': 86.4, '06D': 84.6, '06A': 77.0, '06A-IV': 74.1}",1,86.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 80.6']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900046925,"{'14': 100.0, '09L': 26.2, '36': 25.9, '09N': 24.8, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023965,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.7, '36': 23.2}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316435,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311775,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 32.7}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264425,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.0, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190615,"{'11D': 99.8, '11A': 97.0, '11F': 41.8, '11C': 35.7, '11B': 34.2}",1,99.8,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001147185,"{'34': 92.8, '33F2': 34.7, '35B': 31.9, '33F': 29.0, '33C': 28.0}",1,92.8,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001142685,"{'19A-I': 99.0, '19A-II': 97.4, '19A': 87.6, '19A-III': 87.4, '19AF': 61.6}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307185,"{'14': 93.1, '36': 25.9, '09L': 25.1, '09N': 24.6, '15B': 23.9}",1,93.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169175,"{'09A': 99.7, '09V': 99.5, '09N': 38.6, '09L': 36.7, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169815,"{'14': 92.5, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001166305,"{'36': 6.8, '25F': 6.6, '25A': 6.4, '45': 6.4, '20': 5.4}",1,6.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279715,"{'19A-I': 97.9, '19A-II': 97.0, '19A': 86.4, '19A-III': 86.2, '19AF': 61.8}",1,97.9,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325385,"{'19F-I': 97.7, '19F': 97.0, '19F-III': 96.5, '19F-II': 95.0, '19F-IV': 90.1}",1,97.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001336995,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338155,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319725,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301005,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171835,"{'14': 92.4, '36': 28.6, '09L': 24.9, '15B': 24.1, '15C': 24.0}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335635,"{'23B': 80.5, '23B1': 64.6, '06B-II': 33.5, '06A-IV': 33.4, '06A-V': 33.3}",1,80.5,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001163565,"{'03': 95.2, '36': 17.1, '20': 15.6, '01': 14.4, '09L': 14.4}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319375,"{'19F-I': 97.8, '19F': 97.1, '19F-III': 96.6, '19F-II': 95.1, '19F-IV': 90.2}",1,97.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342995,"{'25F': 99.5, '25A': 98.5, '38': 80.6, '36': 9.0, '01': 7.9}",1,99.5,25F_25A_38,25F_25A_38,,"[[8], [18]]","{'wcyD': ['a', 100.0], 'wcyV': 0.12}","{'wcyD': 'a', 'wcyV': 'not_detected'}",25F/25A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272035,"{'09L': 99.1, '09N': 89.4, '36': 32.3, '09A': 31.5, '09V': 31.5}",1,99.1,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000252185,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246365,"{'38': 97.7, '25F': 84.4, '25A': 83.4, '36': 13.1, '20': 7.5}",1,97.7,25F_25A_38,25F_25A_38,,"[[0], [19]]","{'wcyD': ['b: 80.0'], 'wcyV': 100.0}","{'wcyD': 0, 'wcyV': 'detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296785,"{'03': 97.4, '01': 17.9, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236455,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001168065,"{'06A': 89.7, '06A-III': 89.3, '06B-I': 88.0, '06B-II': 87.8, '06A-II': 87.3}",1,89.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019605,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298225,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283655,"{'19F': 97.4, '19F-I': 96.4, '19F-III': 95.6, '19F-II': 95.5, '19F-IV': 91.0}",1,97.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327035,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001172225,"{'09A': 99.7, '09V': 99.5, '09N': 36.4, '09L': 35.0, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294065,"{'07A': 99.5, '07F': 99.3, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055415,"{'23B': 99.5, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.6}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033575,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-I': 41.8}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272815,"{'05': 95.0, '06A-II': 35.7, '06A-VI': 35.6, '06A-IV': 35.3, '06B-II': 35.3}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029925,"{'15C': 93.9, '15B': 93.8, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250755,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056725,"{'15C': 95.6, '15B': 95.5, '15A': 61.2, '15F': 47.6, '23A': 34.5}",1,95.6,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336345,"{'01': 7.4, '45': 6.2, '25F': 5.8, '25A': 5.6, '22F': 5.0}",3,7.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233605,"{'22F': 98.9, '22A': 73.4, '06A': 42.6, '06B': 42.0, '06A-II': 41.9}",1,98.9,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264545,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169875,"{'14': 92.6, '36': 28.9, '09L': 24.6, '15B': 24.2, '15C': 24.1}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001129405,"{'06E': 100.0, '06B-III': 99.2, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224085,"{'19F-II': 99.3, '19F': 95.1, '19F-III': 94.1, '19F-I': 93.8, '19F-IV': 93.2}",1,99.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001112545,"{'14': 89.9, '36': 29.2, '09L': 23.1, '19F-II': 22.2, '09N': 21.9}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001133845,"{'06A': 90.4, '06A-III': 89.4, '06A-II': 89.3, '06A-VI': 89.3, '06B-II': 89.3}",1,90.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000171575,"{'06A-II': 97.8, '06A-VI': 97.8, '06B-II': 90.3, '06A-V': 89.5, '06A-III': 89.1}",1,97.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247985,"{'10F': 99.2, '10C': 82.0, '10B': 21.7, '10A': 18.7, '22F': 14.2}",1,99.2,,10F,,,{},{},10F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217365,"{'18C': 85.7, '18B': 85.6, '18F': 77.9, '18A': 61.9, '16F': 37.7}",1,85.7,,"Mixed serotypes- {'18F', '18C/18B'}",,,{},{},"Mixed serotypes- {'18F', '18C/18B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301585,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307695,"{'15C': 95.6, '15B': 95.4, '15A': 61.2, '15F': 47.6, '23A': 34.4}",1,95.6,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001152585,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240345,"{'34': 92.9, '33F2': 34.8, '35B': 32.3, '33F': 29.0, '33C': 28.4}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251905,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347795,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265435,"{'14': 91.3, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290205,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227695,"{'14': 99.6, '09L': 27.0, '36': 25.9, '09N': 24.8, '15B': 24.1}",1,99.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269765,"{'35B': 98.9, '33F': 33.4, '35C': 33.2, '34': 33.0, '35A': 32.8}",1,98.9,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168675,"{'19A': 79.3, '19A-III': 79.2, '19A-II': 68.1, '19A-I': 66.2, '19AF': 50.0}",1,79.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222125,"{'29': 99.1, '39': 21.1, '35F': 19.4, '22F': 16.6, '35B': 16.4}",1,99.1,,29,,,{},{},29,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299455,"{'25F': 99.7, '25A': 98.7, '38': 80.9, '36': 9.0, '01': 7.9}",1,99.7,25F_25A_38,25F_25A_38,,"[[8], [18]]","{'wcyD': ['a', 100.0], 'wcyV': 0.12}","{'wcyD': 'a', 'wcyV': 'not_detected'}",25F/25A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288125,"{'36': 10.0, '01': 7.5, '20': 7.5, '45': 6.6, '22F': 6.1}",1,10.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296655,"{'13': 83.6, '36': 32.5, '14': 27.2, '15B': 26.6, '15C': 26.2}",1,83.6,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295025,"{'18C': 88.2, '18B': 88.1, '18F': 77.6, '18A': 61.8, '16F': 37.7}",1,88.2,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252755,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049195,"{'10B': 93.7, '10A': 69.9, '10F': 20.0, '10C': 18.7, '22F': 14.2}",1,93.7,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293965,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253935,"{'14': 90.2, '36': 27.3, '09L': 24.1, '09N': 22.9, '19F-II': 22.1}",1,90.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240485,"{'09A': 99.7, '09V': 99.5, '09N': 38.1, '09L': 36.7, '06A-IV': 27.4}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_909594675,"{'14': 92.3, '36': 28.8, '09L': 25.6, '09N': 24.5, '15B': 24.0}",1,92.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340475,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306665,"{'18C': 85.3, '18B': 85.2, '18F': 78.5, '18A': 62.1, '16F': 38.1}",1,85.3,,"Mixed serotypes- {'18F', '18C/18B'}",,,{},{},"Mixed serotypes- {'18F', '18C/18B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027635,"{'03': 94.9, '01': 17.4, '36': 16.4, '20': 15.8, '09L': 15.6}",1,94.9,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336405,"{'23B1': 99.6, '23B': 55.8, '19A-II': 36.1, '19A-I': 35.9, '19AF': 31.7}",1,99.6,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001130265,"{'01': 5.5, '22F': 4.9, '25F': 4.6, '25A': 4.5, '45': 4.3}",1,5.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900188595,"{'17F': 99.5, '06B': 44.2, '06B-I': 44.0, '06A-III': 43.9, '06D': 43.7}",1,99.5,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900044875,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001172245,"{'34': 92.9, '33F2': 34.7, '35B': 32.0, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170095,"{'14': 92.7, '36': 28.5, '09L': 25.1, '09N': 24.3, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189935,"{'21': 100.0, '22F': 33.5, '06A-IV': 33.1, '06A-II': 32.4, '06A-VI': 32.3}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225715,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 89.6, '06A': 87.7, '06A-III': 86.1}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278635,"{'07A': 98.2, '07F': 98.0, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,98.2,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334615,"{'34': 98.6, '33F2': 35.4, '35B': 33.7, '33F': 30.0, '33C': 28.7}",1,98.6,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065195,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219235,"{'38': 89.8, '25F': 86.1, '25A': 85.1, '36': 10.2, '01': 7.5}",1,89.8,25F_25A_38,25F_25A_38,,"[[0], [18]]","{'wcyD': ['b: 22.59'], 'wcyV': 4.69}","{'wcyD': 0, 'wcyV': 'not_detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000194885,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.7, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318835,"{'06A-V': 99.5, '06B-II': 94.7, '06A': 91.7, '06A-II': 90.2, '06A-VI': 90.2}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291125,"{'14': 92.8, '36': 30.1, '09L': 25.8, '09N': 24.5, '15B': 24.3}",1,92.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023435,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240895,"{'23F': 78.4, '23A': 58.1, '23B': 52.1, '28A': 39.2, '28F': 36.6}",1,78.4,,23F,,,{},{},23F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020140335,"{'35B': 99.7, '33F': 33.5, '35C': 33.2, '34': 33.0, '35A': 32.8}",1,99.7,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001170865,"{'35B': 98.9, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,98.9,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001104805,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000832325,"{'35F': 99.0, '47F': 74.4, '34': 26.7, '35B': 26.3, '29': 22.5}",1,99.0,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310655,"{'05': 95.2, '45': 22.3, '36': 21.5, '12A': 19.7, '20': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274855,"{'03': 96.9, '01': 17.5, '20': 15.4, '09N': 15.3, '09L': 15.0}",1,96.9,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267435,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901212935,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.6, '06A-IV': 46.4}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190515,"{'06B-I': 96.0, '06A-III': 93.9, '06A': 90.0, '06B-II': 88.5, '06A-V': 86.6}",1,96.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221185,"{'23F': 92.5, '23A': 64.7, '28A': 47.9, '23B': 47.4, '28F': 46.2}",1,92.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001212125,"{'03': 95.2, '36': 16.9, '20': 15.3, '09L': 14.2, '14': 14.1}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265515,"{'20': 78.8, '47F': 28.0, '09L': 25.7, '09N': 25.3, '13': 25.2}",1,78.8,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169355,"{'14': 92.7, '36': 28.8, '09L': 24.5, '15B': 24.2, '15C': 24.1}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231945,"{'23F': 96.9, '23A': 63.9, '23B': 48.1, '28A': 47.6, '06B-II': 46.1}",1,96.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288505,"{'19A-I': 99.2, '19A-II': 97.5, '19A': 87.8, '19A-III': 87.6, '19AF': 61.8}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221485,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243165,"{'23F': 99.2, '23A': 65.0, '23B': 47.9, '28A': 47.8, '06A-V': 45.8}",1,99.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344695,"{'03': 95.1, '01': 15.7, '09N': 15.2, '09L': 15.1, '20': 15.1}",1,95.1,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245895,"{'14': 91.4, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225605,"{'22F': 98.8, '22A': 73.4, '06A': 42.6, '06A-II': 41.9, '06B-II': 41.9}",1,98.8,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263985,"{'23F': 99.2, '23A': 65.4, '23B': 49.0, '28A': 48.0, '06A-IV': 47.3}",1,99.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286815,"{'14': 92.7, '36': 29.0, '09L': 25.9, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320405,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315405,"{'35B': 98.1, '33F': 33.6, '35C': 33.2, '34': 33.0, '35A': 33.0}",1,98.1,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214435,"{'03': 75.1, '20': 7.9, '01': 7.1, '36': 7.1, '22F': 6.8}",1,75.1,,3,,,{},{},3,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219445,"{'21': 92.6, '22F': 36.2, '06A-IV': 34.3, '06A-III': 33.5, '06A-II': 33.3}",1,92.6,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001153285,"{'03': 95.1, '20': 15.1, '09N': 14.6, '09L': 14.5, '01': 14.1}",1,95.1,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340885,"{'06E': 99.5, '06B-III': 99.2, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312655,"{'15A': 98.3, '15F': 73.5, '15C': 61.8, '15B': 61.7, '23F': 31.6}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001193335,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342005,"{'10A': 99.2, '10B': 67.1, '10C': 27.7, '10F': 18.1, '22F': 15.3}",1,99.2,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260695,"{'23B1': 99.7, '23B': 55.6, '19A-II': 36.1, '19A-I': 35.8, '19AF': 31.3}",1,99.7,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231905,"{'09N': 99.6, '09L': 89.1, '09A': 32.7, '09V': 32.7, '36': 32.3}",1,99.6,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234975,"{'35A': 94.4, '35C': 89.7, '42': 89.1, '33A': 46.3, '33F': 45.9}",1,94.4,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001102405,"{'14': 89.8, '36': 29.2, '09L': 24.1, '09N': 22.9, '19F-II': 22.2}",1,89.8,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283975,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246815,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.3, '19F-IV': 90.4}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263185,"{'22A': 94.2, '22F': 77.7, '06A-IV': 45.3, '06A-II': 43.6, '06A-VI': 43.5}",1,94.2,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236895,"{'14': 100.0, '09L': 27.2, '36': 26.1, '09N': 25.0, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168955,"{'09A': 99.7, '09V': 99.5, '09N': 38.6, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328785,"{'06B-III': 94.4, '06E': 93.9, '06A-III': 46.8, '06B-I': 46.6, '06A-II': 46.4}",1,94.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021635,"{'15C': 93.9, '15B': 93.8, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000211015,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170135,"{'14': 91.8, '36': 27.9, '09L': 25.6, '09N': 24.5, '15B': 23.7}",1,91.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000685585,"{'09N': 100.0, '09L': 88.9, '09A': 32.7, '09V': 32.7, '36': 32.0}",1,100.0,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226615,"{'09A': 99.4, '09V': 99.2, '09N': 38.5, '09L': 36.5, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335775,"{'15C': 87.4, '15B': 87.3, '15A': 64.2, '15F': 49.7, '23A': 29.9}",1,87.4,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001334855,"{'36': 12.4, '20': 9.4, '06A-IV': 7.9, '06C': 6.7, '06B-I': 6.7}",1,12.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049475,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241025,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.4, '23A': 34.5}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252345,"{'04': 99.5, '45': 33.3, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.5,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317715,"{'10A': 93.6, '10B': 64.7, '10C': 29.0, '10F': 19.4, '22F': 16.3}",1,93.6,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264035,"{'15C': 87.8, '15B': 87.6, '15A': 60.9, '15F': 48.0, '23A': 31.3}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001124585,"{'36': 11.2, '20': 8.3, '06A-IV': 7.9, '01': 6.7, '06C': 6.6}",1,11.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229125,"{'05': 95.3, '45': 22.6, '36': 21.8, '20': 20.3, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253535,"{'22F': 85.6, '22A': 64.9, '06B-I': 46.0, '06A-III': 45.8, '06A-IV': 45.0}",1,85.6,,22F,,,{},{},22F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171335,"{'14': 92.3, '36': 28.0, '09L': 24.9, '15B': 24.0, '09N': 23.9}",1,92.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292755,"{'35F': 99.5, '47F': 74.8, '34': 26.7, '35B': 26.5, '29': 22.5}",1,99.5,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254825,"{'03': 95.2, '01': 17.4, '36': 16.5, '20': 15.8, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001334315,"{'36': 11.4, '20': 6.6, '06B-I': 5.9, '06C': 5.8, '45': 5.8}",1,11.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342235,"{'10B': 99.5, '10A': 65.3, '10F': 20.1, '10C': 18.8, '47A': 12.6}",1,99.5,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255285,"{'19F': 97.2, '19F-I': 96.2, '19F-III': 95.4, '19F-II': 95.3, '19F-IV': 90.8}",1,97.2,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001170545,"{'06C': 85.2, '06C-I': 85.2, '06D': 84.2, '06A': 76.9, '06A-IV': 73.3}",1,85.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001159145,"{'34': 92.9, '33F2': 34.7, '35B': 31.1, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320585,"{'03': 75.1, '20': 7.9, '01': 7.2, '36': 7.1, '22F': 6.7}",1,75.1,,3,,,{},{},3,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229635,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001093645,"{'15C': 95.2, '15B': 95.1, '15A': 60.9, '15F': 47.3, '23A': 34.5}",1,95.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021735,"{'14': 100.0, '09L': 26.2, '36': 26.0, '09N': 24.7, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229035,"{'06C-I': 92.8, '06C': 92.7, '06D': 84.6, '06B-I': 77.7, '06A-III': 77.2}",1,92.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002889315,"{'11F': 61.7, '11D': 38.3, '11A': 36.8, '09A': 25.3, '09V': 25.3}",1,61.7,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327695,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170685,"{'14': 92.6, '36': 28.3, '09L': 24.9, '15B': 24.2, '15C': 24.1}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342455,"{'11D': 91.6, '11A': 90.3, '11F': 40.7, '11C': 34.2, '11B': 32.9}",1,91.6,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028365,"{'14': 100.0, '09L': 27.2, '36': 26.0, '09N': 24.5, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193725,"{'23B': 99.3, '23B1': 64.7, '23F': 45.6, '23A': 39.8, '06A-IV': 36.7}",1,99.3,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900795095,"{'13': 83.3, '36': 27.0, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283665,"{'15C': 85.6, '15B': 85.4, '15A': 61.0, '15F': 47.8, '23A': 31.3}",1,85.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259265,"{'35B': 90.7, '34': 31.8, '33F': 31.4, '33B': 30.4, '33A': 29.8}",1,90.7,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250815,"{'10A': 99.4, '10B': 67.1, '10C': 27.7, '10F': 18.1, '22F': 15.5}",1,99.4,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280015,"{'14': 94.5, '36': 26.0, '09L': 25.5, '09N': 24.6, '15B': 24.3}",1,94.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294035,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190755,"{'23A': 99.6, '23F': 67.3, '23B': 43.6, '19F-II': 37.8, '15B': 37.1}",1,99.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225625,"{'05': 95.0, '45': 22.5, '36': 21.7, '20': 20.1, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223145,"{'13': 83.4, '36': 33.0, '14': 27.2, '15B': 26.7, '15C': 26.3}",1,83.4,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240295,"{'15A': 98.3, '15F': 73.0, '15C': 61.8, '15B': 61.7, '23F': 32.3}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294605,"{'34': 98.7, '33F2': 35.2, '35B': 33.6, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001138025,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290965,"{'06E': 84.6, '06B-III': 78.4, '19AF': 31.4, '23B1': 30.2, '19A-II': 29.0}",1,84.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025825,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027515,"{'09N': 100.0, '09L': 88.9, '09A': 32.7, '09V': 32.7, '36': 32.4}",1,100.0,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001340455,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340745,"{'19A': 99.2, '19A-III': 99.0, '19A-I': 86.1, '19A-II': 83.8, '19AF': 57.2}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171285,"{'14': 92.1, '36': 28.1, '09L': 24.9, '15B': 23.8, '09N': 23.7}",1,92.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001173225,"{'18C': 88.6, '18B': 88.5, '18F': 78.1, '18A': 60.2, '16F': 37.9}",1,88.6,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017845,"{'03': 95.5, '20': 17.6, '01': 16.9, '36': 16.3, '09L': 16.1}",1,95.5,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327175,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331615,"{'14': 92.5, '36': 27.3, '09L': 25.7, '09N': 25.4, '15B': 24.2}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297155,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307195,"{'46': 87.9, '12A': 86.6, '12B': 78.2, '12F': 76.2, '44': 76.2}",1,87.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[4]],"{'wciI': [1, 91.4]}",{'wciI': 1},12A/12B/44/46,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001083705,"{'09A': 99.7, '09V': 99.5, '09N': 37.5, '09L': 36.3, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001173785,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275605,"{'13': 83.3, '36': 28.8, '09N': 26.0, '09L': 25.7, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251535,"{'20': 99.1, '13': 26.1, '09L': 25.3, '36': 25.0, '09N': 24.7}",1,99.1,,20,,,{},{},20,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281655,"{'06E': 100.0, '06B-III': 97.9, '06B-I': 45.6, '06A-III': 45.1, '06A-II': 44.1}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031325,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228455,"{'01': 99.5, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001205755,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240775,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900038685,"{'19A': 99.8, '19A-III': 99.6, '19A-I': 86.0, '19A-II': 83.5, '19AF': 57.2}",1,99.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001206415,"{'03': 95.2, '36': 17.1, '20': 15.9, '01': 14.7, '14': 13.9}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299325,"{'19F-I': 97.9, '19F-II': 95.2, '19F-III': 95.1, '19F': 95.0, '19F-IV': 90.6}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300335,"{'23B': 99.1, '23B1': 64.7, '23F': 45.6, '23A': 39.8, '06A-IV': 36.5}",1,99.1,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293675,"{'19A-I': 99.1, '19A-II': 97.5, '19A': 87.7, '19A-III': 87.5, '19AF': 61.6}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001101485,"{'19F-I': 95.2, '19F': 95.0, '19F-III': 93.5, '19F-II': 92.1, '19F-IV': 88.1}",1,95.2,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001088385,"{'06E': 100.0, '06B-III': 96.2, '06B-I': 43.6, '06A-III': 43.1, '06A-I': 42.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308435,"{'16F': 71.9, '28F': 43.8, '28A': 41.0, '18F': 34.1, '18A': 34.0}",1,71.9,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302665,"{'23F': 92.4, '23A': 61.1, '28A': 48.1, '23B': 46.6, '06A-IV': 46.6}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018945,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341835,"{'33D': 79.4, '33B': 74.5, '06A-I': 36.8, '06B': 35.4, '06A-IV': 35.2}",1,79.4,,"Mixed serotypes- {'33B', '33D'}",,,{},{},"Mixed serotypes- {'33B', '33D'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283275,"{'15C': 87.7, '15B': 87.6, '15A': 60.9, '15F': 48.0, '23A': 31.3}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229455,"{'18C': 99.5, '18B': 99.4, '18F': 75.4, '18A': 62.6, '16F': 39.2}",1,99.5,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001192335,"{'10B': 98.9, '10A': 65.3, '10F': 20.1, '10C': 18.8, '22F': 13.5}",1,98.9,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295995,"{'35B': 99.9, '33F': 33.6, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.9,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189375,"{'34': 93.0, '33F2': 34.7, '35B': 31.1, '33F': 29.0, '33C': 28.0}",1,93.0,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190605,"{'15C': 93.9, '15B': 93.7, '15A': 62.1, '15F': 48.6, '23A': 32.8}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337195,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050135,"{'13': 98.9, '09L': 28.6, '20': 28.6, '09N': 28.1, '36': 27.9}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300435,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218755,"{'06B-I': 89.5, '06B-II': 89.3, '06A-III': 89.0, '06A-II': 88.2, '06A-VI': 88.2}",1,89.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054035,"{'07A': 97.5, '07F': 97.3, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,97.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900188745,"{'06B-I': 99.1, '06A-III': 96.9, '06B-II': 89.7, '06A': 89.6, '06A-V': 87.8}",1,99.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001170965,"{'09L': 96.8, '09N': 87.8, '09A': 31.0, '09V': 31.0, '36': 26.8}",1,96.8,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314915,"{'19A-I': 99.0, '19A-II': 97.3, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 94.79]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052455,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287115,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018935,"{'01': 99.7, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.3}",1,99.7,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020140115,"{'35B': 99.9, '33F': 33.6, '35C': 33.4, '34': 33.2, '35A': 33.0}",1,99.9,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002081455,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245675,"{'35B': 91.4, '33F': 32.4, '34': 31.6, '33B': 31.1, '33A': 30.7}",1,91.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239365,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322985,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259555,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001128185,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.6, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323275,"{'01': 92.2, '19F': 33.3, '19F-I': 32.6, '19F-III': 32.5, '19F-II': 32.4}",1,92.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289875,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293825,"{'19A': 99.0, '19A-III': 98.8, '19A-I': 85.9, '19A-II': 83.6, '19AF': 57.0}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900058425,"{'23F': 93.8, '23A': 60.5, '28A': 47.5, '23B': 47.3, '06A-IV': 47.3}",1,93.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900692825,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.3}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334825,"{'19B': 92.6, '19C': 72.8, '19F-II': 51.4, '19F-IV': 51.1, '19F-I': 50.8}",1,92.6,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281085,"{'19F-I': 97.8, '19F': 97.1, '19F-III': 96.6, '19F-II': 95.1, '19F-IV': 90.2}",1,97.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214315,"{'21': 100.0, '22F': 36.0, '06A-IV': 32.9, '06A-II': 32.2, '06A-VI': 32.1}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258105,"{'06E': 99.8, '06B-III': 99.2, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.5}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001150865,"{'09N': 98.5, '09L': 88.3, '09A': 32.4, '09V': 32.4, '36': 30.5}",1,98.5,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281785,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322315,"{'03': 97.4, '01': 17.8, '09N': 15.4, '20': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001162045,"{'36': 10.7, '20': 5.9, '45': 5.7, '06B-I': 5.5, '06C': 5.4}",1,10.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001118145,"{'28F': 98.6, '28A': 92.2, '23F': 47.6, '16F': 46.0, '06B-I': 42.4}",1,98.6,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305415,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900040715,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '35B': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304015,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306765,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001192355,"{'36': 6.6, '45': 5.9, '25F': 5.7, '25A': 5.5, '20': 5.4}",1,6.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224115,"{'46': 98.0, '12A': 95.6, '12B': 86.0, '12F': 83.3, '44': 81.8}",1,98.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[4]],"{'wciI': [1, 100.0]}",{'wciI': 1},12A/12B/44/46,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294695,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239875,"{'22F': 96.6, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-I': 41.8}",1,96.6,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217825,"{'06A-II': 95.5, '06A-VI': 95.5, '06B-II': 89.5, '06A-V': 89.1, '06A-III': 88.4}",1,95.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283725,"{'46': 87.4, '12A': 86.1, '12B': 78.1, '12F': 76.1, '44': 76.1}",1,87.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[4]],"{'wciI': [1, 91.4]}",{'wciI': 1},12A/12B/44/46,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278765,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331345,"{'01': 99.0, '19F': 31.9, '19F-I': 31.5, '19F-III': 31.2, '19F-II': 30.9}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248515,"{'03': 94.6, '01': 16.8, '36': 16.6, '20': 15.9, '09N': 15.7}",1,94.6,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323965,"{'23B': 90.3, '23B1': 61.2, '23F': 40.3, '23A': 34.4, '06A-IV': 33.3}",1,90.3,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337655,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290695,"{'11B': 90.2, '11C': 80.5, '11F': 29.4, '11A': 28.3, '11D': 28.1}",1,90.2,,11B/11C,,,{},{},11B/11C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303775,"{'03': 94.9, '36': 17.2, '01': 17.1, '09N': 15.9, '20': 15.8}",1,94.9,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307605,"{'14': 93.0, '36': 27.3, '09L': 25.8, '09N': 25.5, '15B': 24.3}",1,93.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001150825,"{'11F': 61.1, '11D': 37.9, '11A': 36.3, '09V': 25.4, '09A': 25.3}",1,61.1,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256445,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215505,"{'13': 83.7, '36': 30.6, '14': 26.9, '15B': 26.6, '15C': 26.2}",1,83.7,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325255,"{'15C': 94.9, '15B': 94.8, '15A': 60.7, '15F': 47.0, '23A': 34.7}",1,94.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302915,"{'19AF': 100.0, '19A-II': 62.1, '19A-I': 61.4, '19A': 53.2, '19A-III': 53.0}",1,100.0,19A_19AF,19A_19AF,,[[7]],"{'wzy': [2, 100.0]}",{'wzy': 2},19A_19AF,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020955,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028545,"{'22A': 94.0, '22F': 81.0, '06A-I': 41.1, '06A-IV': 40.8, '06B': 40.6}",1,94.0,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063415,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300415,"{'09A': 99.4, '09V': 99.2, '09N': 37.6, '09L': 36.9, '06A-IV': 27.3}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001153185,"{'19B': 95.8, '19C': 70.1, '19F-II': 53.9, '19F-I': 53.1, '19F': 53.0}",1,95.8,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189015,"{'04': 99.8, '45': 29.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900046595,"{'14': 99.6, '09L': 26.9, '36': 25.6, '09N': 24.8, '15B': 24.2}",1,99.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227475,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287125,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001108285,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232125,"{'19F-I': 95.9, '19F': 95.6, '19F-III': 94.0, '19F-II': 92.8, '19F-IV': 88.8}",1,95.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055715,"{'19A': 99.9, '19A-III': 99.7, '19A-I': 86.1, '19A-II': 83.6, '19AF': 57.2}",1,99.9,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234955,"{'11B': 99.6, '11C': 89.2, '11A': 31.8, '11D': 31.5, '11F': 25.9}",1,99.6,,11B/11C,,,{},{},11B/11C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047945,"{'07A': 99.5, '07F': 99.3, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245395,"{'14': 94.0, '36': 26.3, '09L': 25.3, '09N': 24.6, '15B': 24.3}",1,94.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339905,"{'18C': 88.2, '18B': 88.1, '18F': 77.7, '18A': 61.6, '16F': 37.5}",1,88.2,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304195,"{'23F': 96.7, '23A': 63.8, '06A-IV': 50.8, '23B': 50.3, '06B-II': 48.5}",1,96.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321715,"{'09N': 97.7, '09L': 87.5, '09A': 32.6, '09V': 32.6, '36': 30.8}",1,97.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308125,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001110825,"{'06A-II': 87.3, '06A-VI': 87.3, '06A': 86.0, '06A-IV': 85.2, '06A-V': 85.0}",1,87.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001210065,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233235,"{'33F': 99.8, '33A': 99.5, '33F2': 70.9, '35C': 42.8, '42': 41.8}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302835,"{'15A': 97.0, '15F': 74.9, '15C': 61.6, '15B': 61.5, '23F': 31.7}",1,97.0,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194325,"{'21': 99.2, '22F': 35.8, '06A-IV': 32.7, '06A-II': 32.0, '06A-VI': 31.9}",1,99.2,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001330475,"{'06E': 100.0, '06B-III': 97.3, '06B-I': 44.6, '06A-III': 44.1, '06B-II': 43.3}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325945,"{'23F': 87.1, '23A': 61.8, '06A-IV': 51.2, '06A-II': 51.1, '06A-VI': 51.0}",1,87.1,,23F,,,{},{},23F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001109405,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314815,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900037415,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225415,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001584785,"{'12F': 96.9, '44': 93.6, '12B': 92.9, '12A': 80.7, '46': 77.6}",1,96.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030055,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020140035,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.2, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001146265,"{'28F': 98.6, '28A': 92.2, '23F': 47.6, '16F': 46.0, '06B-I': 42.6}",1,98.6,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168855,"{'14': 91.4, '36': 26.4, '09L': 25.0, '09N': 24.2, '15B': 23.4}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001192375,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001147105,"{'23F': 94.6, '23A': 63.7, '28A': 47.7, '23B': 47.0, '06A': 46.4}",1,94.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231685,"{'14': 94.1, '36': 26.2, '09L': 25.4, '09N': 24.4, '15B': 24.3}",1,94.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335245,"{'13': 83.5, '36': 32.4, '14': 27.1, '15B': 26.7, '15C': 26.3}",1,83.5,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311725,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259885,"{'09N': 97.7, '09L': 87.5, '09A': 32.6, '09V': 32.6, '36': 29.3}",1,97.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001200995,"{'07B': 99.8, '40': 92.8, '07C': 77.1, '24F2': 48.1, '24F': 47.7}",1,99.8,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261955,"{'19F-I': 97.8, '19F-II': 95.1, '19F-III': 95.0, '19F': 94.9, '19F-IV': 90.6}",1,97.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337535,"{'13': 83.6, '36': 31.3, '14': 27.1, '15B': 26.6, '15C': 26.2}",1,83.6,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900060095,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224945,"{'15B': 99.7, '15C': 99.5, '15A': 62.7, '15F': 48.3, '23A': 33.1}",1,99.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001160625,"{'19F-II': 99.2, '19F': 95.0, '19F-III': 94.1, '19F-I': 93.7, '19F-IV': 92.9}",1,99.2,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001083725,"{'10F': 98.2, '10C': 80.9, '10B': 22.4, '10A': 19.2, '22F': 14.3}",1,98.2,,10F,,,{},{},10F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900088955,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020055,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336845,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056765,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238345,"{'03': 98.0, '01': 18.0, '09N': 15.7, '20': 15.6, '09L': 15.5}",1,98.0,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002357995,"{'03': 95.2, '01': 18.0, '20': 16.3, '09N': 15.7, '09L': 15.5}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192755,"{'17F': 99.5, '06B': 44.3, '06B-I': 43.9, '06A-III': 43.8, '06D': 43.7}",1,99.5,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001128945,"{'35A': 99.9, '35C': 85.2, '42': 84.6, '33A': 42.9, '33F': 42.6}",1,99.9,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318265,"{'20': 78.9, '47F': 28.0, '09L': 25.8, '13': 25.2, '09N': 25.1}",1,78.9,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252145,"{'21': 100.0, '22F': 36.1, '06A-IV': 32.9, '06A-II': 32.2, '06A-VI': 32.1}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293615,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217845,"{'15C': 90.8, '15B': 90.6, '15A': 63.0, '15F': 48.8, '23A': 31.1}",1,90.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168865,"{'09A': 99.3, '09V': 99.1, '09N': 36.0, '09L': 34.6, '11F': 26.6}",1,99.3,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193155,"{'11D': 99.5, '11A': 96.7, '11F': 41.7, '11C': 35.6, '11B': 34.1}",1,99.5,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001098345,"{'45': 6.7, '25F': 5.6, '20': 5.4, '25A': 5.4, '36': 5.4}",2,6.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246395,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328815,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312545,"{'19F-I': 99.6, '19F': 96.6, '19F-III': 96.6, '19F-II': 93.8, '19F-IV': 89.2}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301785,"{'08': 99.6, '06A-II': 24.6, '06A-VI': 24.5, '02': 24.4, '06B-II': 24.0}",1,99.6,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001094005,"{'36': 12.7, '20': 7.7, '06A-IV': 7.5, '06C': 6.1, '06B-I': 6.1}",1,12.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001195045,"{'25F': 5.3, '25A': 5.2, '45': 4.9, '38': 3.8, '22F': 3.6}",1,5.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301555,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 32.7}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001139185,"{'06A': 90.4, '06A-III': 89.4, '06A-II': 89.3, '06A-VI': 89.3, '06B-II': 89.3}",1,90.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001096625,"{'03': 95.2, '36': 16.9, '01': 15.7, '20': 15.6, '09N': 14.3}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268195,"{'01': 98.8, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,98.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306865,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223895,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258165,"{'01': 7.5, '45': 6.3, '25F': 5.8, '25A': 5.6, '22F': 5.0}",5,7.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056335,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001157405,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.3}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321335,"{'06E': 100.0, '06B-III': 99.2, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288945,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248335,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 90.2, '06A': 87.7, '06A-III': 86.9}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321295,"{'06C-I': 92.9, '06C': 92.8, '06D': 84.7, '06B-I': 81.8, '06A-III': 81.1}",1,92.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000468395,"{'14': 91.4, '09L': 26.5, '36': 26.5, '09N': 26.2, '15B': 23.4}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287515,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052465,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293775,"{'04': 98.3, '45': 34.0, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339315,"{'36': 10.5, '06A-IV': 7.0, '06B-I': 5.8, '06C': 5.7, '06C-I': 5.7}",1,10.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190595,"{'06A': 100.0, '06A-IV': 99.5, '06B-II': 95.3, '06A-V': 93.6, '06A-III': 91.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256305,"{'23B': 88.1, '23B1': 61.0, '23F': 38.5, '28A': 33.3, '23A': 33.0}",1,88.1,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235155,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001093485,"{'19F': 94.7, '19F-I': 94.2, '19F-III': 93.1, '19F-II': 91.8, '19F-IV': 88.1}",1,94.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238785,"{'08': 99.6, '06A-II': 24.4, '02': 24.3, '06A-VI': 24.3, '06B-II': 23.8}",1,99.6,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340875,"{'03': 95.2, '36': 17.4, '01': 16.8, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001145445,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001142205,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192215,"{'21': 100.0, '22F': 34.7, '06A-IV': 32.8, '06A-II': 32.1, '06A-VI': 32.0}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286845,"{'06E': 99.6, '06B-III': 99.2, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 96.61]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305075,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282215,"{'12F': 96.3, '44': 93.3, '12B': 93.2, '12A': 84.7, '46': 81.6}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296535,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293565,"{'19B': 99.7, '19C': 70.2, '19F-IV': 54.2, '19F-II': 54.0, '19F-I': 53.5}",1,99.7,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247795,"{'35B': 99.4, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262685,"{'03': 94.8, '01': 17.2, '36': 17.1, '20': 15.9, '09N': 15.7}",1,94.8,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398205,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229195,"{'19F': 97.4, '19F-I': 96.4, '19F-III': 95.6, '19F-II': 95.5, '19F-IV': 91.0}",1,97.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222845,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268575,"{'19AF': 96.9, '19A-II': 63.0, '19A-I': 62.3, '19A': 51.8, '19A-III': 51.6}",1,96.9,19A_19AF,19A_19AF,,[[7]],"{'wzy': [2, 97.62]}",{'wzy': 2},19A_19AF,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308415,"{'13': 98.9, '09N': 29.1, '20': 28.9, '09L': 28.7, '36': 28.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341755,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001860865,"{'22F': 98.3, '22A': 72.9, '06A': 42.0, '06B': 41.5, '06A-I': 41.2}",1,98.3,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063505,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290745,"{'14': 93.0, '36': 27.1, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279535,"{'15A': 98.3, '15F': 72.9, '15C': 61.6, '15B': 61.5, '23F': 32.2}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302795,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 89.6, '06A': 87.7, '06A-III': 86.1}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226185,"{'31': 99.8, '41A': 57.3, '41F': 49.0, '06A-II': 36.5, '06A-VI': 36.5}",1,99.8,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270975,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.7, '19A-III': 87.5, '19AF': 61.8}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017435,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002081045,"{'03': 95.2, '36': 17.2, '20': 15.5, '14': 13.8, '09L': 13.6}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001112005,"{'06A-II': 87.5, '06A-VI': 87.5, '06A': 86.0, '06A-IV': 85.3, '06A-V': 85.2}",1,87.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218345,"{'15C': 87.7, '15B': 87.6, '15A': 64.6, '15F': 50.0, '23A': 30.1}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000251345,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239865,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900061275,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001136745,"{'25F': 6.9, '25A': 6.7, '45': 5.5, '22F': 5.3, '36': 4.7}",1,6.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248415,"{'01': 99.2, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032935,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264525,"{'19A': 92.3, '19A-III': 92.1, '19A-II': 83.0, '19A-I': 81.0, '19AF': 55.8}",1,92.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001198495,"{'36': 11.6, '20': 7.7, '06A-IV': 7.4, '06B-I': 6.3, '06C': 6.0}",1,11.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001340115,"{'06C': 85.6, '06C-I': 85.6, '06D': 84.7, '06A': 77.0, '06A-IV': 73.3}",1,85.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307095,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020140385,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232065,"{'23F': 99.0, '23A': 64.8, '23B': 47.6, '28A': 47.5, '06A-V': 45.8}",1,99.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268365,"{'01': 99.0, '19F': 32.2, '19F-I': 31.7, '19F-III': 31.5, '19F-II': 31.2}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286615,"{'06C': 87.2, '06C-I': 87.2, '06D': 84.5, '06A': 77.0, '06A-IV': 74.9}",1,87.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268915,"{'34': 93.7, '33F2': 35.5, '35B': 32.5, '33F': 29.5, '33C': 28.8}",1,93.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316835,"{'31': 99.2, '41A': 57.3, '41F': 49.0, '06A-II': 36.6, '06A-VI': 36.6}",1,99.2,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056815,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338445,"{'15C': 87.6, '15B': 87.5, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001108445,"{'06E': 100.0, '06B-III': 99.1, '06B-I': 46.7, '06A-III': 46.2, '06A-II': 45.2}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230115,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001152385,"{'17F': 93.5, '06A-III': 45.6, '06B-I': 45.4, '06A-IV': 45.3, '06A': 44.5}",1,93.5,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272655,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230145,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 32.7}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001105105,"{'06E': 99.8, '06B-III': 99.2, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321565,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253235,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001206835,"{'22F': 5.1, '45': 5.1, '20': 4.9, '25F': 4.7, '25A': 4.6}",2,5.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232355,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248205,"{'23A': 95.1, '23F': 68.0, '23B': 43.2, '19F-II': 40.0, '15B': 39.1}",1,95.1,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236975,"{'06B-I': 98.9, '06A-III': 96.8, '06B-II': 90.0, '06A': 89.8, '06A-V': 88.1}",1,98.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001109885,"{'06A': 90.4, '06A-III': 89.2, '06A-II': 89.1, '06A-VI': 89.1, '06B-II': 89.1}",1,90.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001133865,"{'35B': 99.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028715,"{'12F': 96.7, '44': 93.4, '12B': 92.7, '12A': 80.4, '46': 77.3}",1,96.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229005,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002529495,"{'04': 98.1, '45': 34.1, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.1,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192155,"{'33F2': 99.8, '33F': 74.4, '33A': 70.1, '34': 41.4, '35B': 32.1}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230625,"{'06A-III': 94.8, '06B-I': 93.4, '06A': 90.3, '06A-IV': 89.5, '06B-II': 89.4}",1,94.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900035375,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000251865,"{'03': 94.9, '36': 17.4, '01': 16.7, '20': 15.9, '09N': 15.8}",1,94.9,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217095,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311625,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019399005,"{'16F': 91.2, '28F': 37.1, '18A': 34.8, '18F': 34.5, '28A': 34.5}",1,91.2,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342515,"{'01': 7.0, '45': 5.8, '25F': 5.7, '20': 5.5, '25A': 5.5}",3,7.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585285,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244765,"{'14': 95.0, '36': 26.2, '09L': 25.5, '09N': 24.7, '15B': 24.3}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027385,"{'17F': 98.5, '06B': 43.9, '06A-III': 43.7, '06D': 43.4, '06B-I': 43.3}",1,98.5,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240125,"{'14': 93.9, '36': 26.3, '09L': 25.5, '09N': 24.6, '15B': 24.3}",1,93.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285265,"{'04': 99.8, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302265,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321105,"{'11D': 80.0, '11A': 78.7, '11F': 45.1, '11B': 34.3, '11C': 30.8}",1,80.0,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240605,"{'08': 99.4, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.4,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190585,"{'06C-I': 99.4, '06C': 99.3, '06D': 84.6, '06A-II': 79.2, '06A-VI': 79.2}",1,99.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029385,"{'23F': 97.8, '23A': 63.3, '23B': 48.4, '28A': 48.3, '06A-IV': 47.0}",1,97.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227305,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167805,"{'14': 93.2, '36': 27.1, '09L': 25.1, '15B': 24.3, '15C': 24.2}",1,93.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336105,"{'10A': 99.3, '10B': 67.0, '10C': 27.7, '10F': 18.1, '22F': 15.4}",1,99.3,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001171505,"{'36': 11.2, '20': 8.0, '23B1': 7.8, '45': 5.8, '22F': 5.7}",1,11.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194985,"{'01': 6.9, '45': 5.9, '25F': 5.6, '20': 5.5, '25A': 5.4}",4,6.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215515,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322605,"{'05': 95.0, '45': 22.6, '36': 22.0, '20': 20.4, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171115,"{'14': 92.7, '36': 29.0, '09L': 25.9, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249505,"{'19F-I': 97.7, '19F': 97.0, '19F-III': 96.5, '19F-II': 95.0, '19F-IV': 90.1}",1,97.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001198175,"{'06E': 86.7, '06B-III': 85.7, '06B-I': 49.8, '06C': 49.4, '06A-III': 49.4}",1,86.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304005,"{'15C': 96.0, '15B': 95.9, '15A': 61.4, '15F': 47.7, '23A': 34.6}",1,96.0,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308495,"{'14': 92.5, '36': 27.1, '09L': 25.7, '09N': 25.3, '15B': 24.1}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269215,"{'13': 83.6, '36': 31.1, '14': 26.9, '15B': 26.6, '15C': 26.2}",1,83.6,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333745,"{'03': 95.2, '01': 17.1, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001149345,"{'14': 94.2, '36': 26.3, '09L': 24.9, '15B': 24.3, '15C': 24.2}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307645,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001200695,"{'37': 97.5, '33F': 76.9, '33A': 75.6, '33F2': 70.4, '35B': 31.9}",1,97.5,,37,,,{},{},37,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219025,"{'13': 99.0, '09N': 28.8, '09L': 28.5, '20': 28.2, '36': 27.4}",1,99.0,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246425,"{'23A': 99.4, '23F': 67.1, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.4,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338325,"{'18C': 99.3, '18B': 99.2, '18F': 75.8, '18A': 63.2, '16F': 39.5}",1,99.3,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328585,"{'15A': 98.3, '15F': 72.9, '15C': 61.6, '15B': 61.5, '23F': 32.2}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001197195,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194375,"{'06C-I': 99.9, '06C': 99.7, '06D': 84.6, '06A-II': 79.6, '06A-VI': 79.6}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267775,"{'34': 92.7, '33F2': 34.7, '35B': 32.0, '33F': 29.0, '33C': 28.0}",1,92.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301525,"{'06A-I': 99.4, '06B': 95.1, '06A-V': 89.3, '06A': 87.9, '06A-III': 85.3}",1,99.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900188865,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.4, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243235,"{'14': 99.5, '09L': 26.7, '36': 25.6, '09N': 24.8, '15B': 24.1}",1,99.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274875,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339205,"{'16F': 71.3, '28F': 42.7, '28A': 40.2, '18F': 33.7, '18A': 33.1}",1,71.3,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248015,"{'12F': 95.8, '12B': 93.2, '44': 92.8, '12A': 84.7, '46': 81.6}",1,95.8,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287105,"{'07A': 97.5, '07F': 97.3, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,97.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001110965,"{'15A': 97.3, '15F': 73.4, '15C': 61.6, '15B': 61.5, '23F': 31.1}",1,97.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001167965,"{'34': 92.7, '33F2': 34.5, '35B': 31.1, '33F': 28.8, '33C': 27.8}",1,92.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314395,"{'34': 98.6, '33F2': 35.2, '35B': 33.5, '33F': 29.8, '33C': 28.5}",1,98.6,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269545,"{'34': 98.7, '33F2': 35.2, '35B': 33.6, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335735,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[0]],{'wciI': ['2: 89.12']},{'wciI': 0},12F_12A_12B_44_46,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900042815,"{'45': 34.0, '04': 14.8, '05': 14.6, '01': 12.6, '12B': 11.4}",1,34.0,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232135,"{'34': 98.6, '33F2': 35.2, '35B': 33.6, '33F': 29.8, '33C': 28.5}",1,98.6,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347035,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244315,"{'19A-I': 95.9, '19A-II': 94.2, '19A': 84.5, '19A-III': 84.3, '19AF': 59.2}",1,95.9,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220565,"{'14': 95.0, '36': 26.4, '09L': 25.5, '09N': 24.7, '15B': 24.3}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065585,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900035625,"{'19A': 99.2, '19A-III': 99.0, '19A-I': 86.1, '19A-II': 83.8, '19AF': 57.2}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339435,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288385,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190145,"{'06C-I': 99.5, '06C': 99.3, '06D': 84.5, '06A-II': 79.3, '06A-VI': 79.3}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216205,"{'46': 87.5, '12A': 86.2, '12B': 78.2, '12F': 76.2, '44': 76.2}",1,87.5,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[4]],"{'wciI': [1, 91.4]}",{'wciI': 1},12A/12B/44/46,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326725,"{'18C': 99.8, '18B': 99.7, '18F': 75.7, '18A': 62.4, '16F': 39.2}",1,99.8,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194195,"{'23B': 99.3, '23B1': 64.7, '23F': 45.6, '23A': 39.8, '06A-IV': 36.7}",1,99.3,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225375,"{'05': 95.3, '45': 22.6, '36': 21.7, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050335,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317155,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001102925,"{'04': 98.3, '45': 31.3, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900038705,"{'19A': 93.4, '19A-III': 93.2, '19A-II': 81.8, '19A-I': 80.0, '19AF': 55.9}",1,93.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236435,"{'08': 99.8, '06A-II': 26.0, '06A-VI': 26.0, '06B-II': 25.4, '06A-V': 25.0}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339215,"{'19F-I': 97.8, '19F': 97.1, '19F-III': 96.6, '19F-II': 95.1, '19F-IV': 90.2}",1,97.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301735,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269885,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055245,"{'09A': 99.4, '09V': 99.2, '09N': 36.4, '09L': 35.0, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001134805,"{'35F': 99.0, '47F': 74.4, '34': 26.7, '35B': 26.1, '29': 22.5}",1,99.0,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026105,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001130885,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282935,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241535,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001336455,"{'01': 6.3, '36': 6.3, '25F': 6.2, '25A': 6.1, '45': 6.1}",1,6.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278735,"{'01': 7.5, '45': 6.2, '25F': 5.8, '25A': 5.6, '22F': 5.0}",3,7.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266945,"{'15A': 99.9, '15F': 74.3, '15C': 62.0, '15B': 61.9, '23F': 31.7}",1,99.9,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028845,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214855,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900016995,"{'08': 99.7, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.7,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223915,"{'03': 75.1, '20': 7.9, '01': 7.2, '36': 7.1, '22F': 6.8}",1,75.1,,3,,,{},{},3,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001156665,"{'48': 98.6, '24A': 46.7, '24B': 39.3, '24F': 38.9, '24F2': 37.3}",1,98.6,,48,,,{},{},48,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001174165,"{'09A': 99.7, '09V': 99.5, '09N': 37.3, '09L': 35.9, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001343575,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328385,"{'09A': 99.2, '09V': 99.0, '09N': 38.3, '09L': 36.4, '11F': 27.1}",1,99.2,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233955,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065175,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337995,"{'25F': 6.9, '25A': 6.7, '36': 6.5, '45': 5.6, '20': 4.9}",1,6.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189435,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019399165,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235185,"{'13': 95.2, '09L': 28.2, '09N': 27.8, '36': 27.5, '20': 26.4}",1,95.2,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274365,"{'13': 83.3, '36': 28.7, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019835,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050525,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900042985,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.6, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322225,"{'15C': 87.6, '15B': 87.5, '15A': 64.4, '15F': 49.8, '23A': 30.0}",1,87.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333235,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257165,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001100145,"{'14': 95.1, '36': 26.3, '09L': 24.8, '15B': 24.3, '15C': 24.2}",1,95.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240535,"{'04': 99.2, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346835,"{'06E': 100.0, '06B-III': 97.6, '06B-I': 44.9, '06A-III': 44.4, '06B-II': 43.8}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900062025,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221055,"{'19A-I': 99.2, '19A-II': 97.5, '19A': 87.8, '19A-III': 87.6, '19AF': 62.0}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327315,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250805,"{'06A-II': 95.4, '06A-VI': 95.4, '06B-II': 89.4, '06A-V': 89.0, '06A-III': 88.3}",1,95.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308855,"{'39': 97.8, '29': 28.6, '34': 22.6, '43': 19.2, '33C': 18.6}",1,97.8,,39,,,{},{},39,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001123385,"{'22F': 4.6, '25A': 4.4, '25F': 4.4, '45': 3.4, '35B': 3.3}",1,4.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241565,"{'33B': 89.6, '33D': 89.5, '35B': 34.7, '33F2': 30.3, '22F': 28.1}",1,89.6,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001169885,"{'19F': 100.0, '19F-III': 97.5, '19F-I': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,100.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000173275,"{'14': 92.2, '36': 28.4, '09L': 25.3, '09N': 24.2, '15B': 24.2}",1,92.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267095,"{'14': 92.8, '36': 29.9, '09L': 25.8, '09N': 24.7, '15B': 24.3}",1,92.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335725,"{'15C': 87.6, '15B': 87.5, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272925,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240565,"{'23F': 96.3, '23A': 63.3, '06A-IV': 48.8, '23B': 48.6, '28A': 47.2}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001107645,"{'36': 9.9, '20': 6.3, '06A-IV': 6.0, '25A': 5.0, '25F': 5.0}",1,9.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019645,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252525,"{'03': 97.4, '01': 17.8, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900059235,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001162025,"{'25F': 93.4, '25A': 92.7, '38': 78.9, '36': 8.2, '20': 7.3}",1,93.4,25F_25A_38,25F_25A_38,,"[[8], [18]]","{'wcyD': ['a', 100.0], 'wcyV': 0.12}","{'wcyD': 'a', 'wcyV': 'not_detected'}",25F/25A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256115,"{'19F': 97.4, '19F-I': 96.4, '19F-III': 95.6, '19F-II': 95.5, '19F-IV': 91.0}",1,97.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267845,"{'19F-I': 91.5, '19F': 90.8, '19F-III': 90.5, '19F-IV': 89.7, '19F-II': 88.4}",1,91.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220965,"{'19A': 99.1, '19A-III': 98.9, '19A-I': 86.0, '19A-II': 83.7, '19AF': 57.2}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324695,"{'33F2': 98.2, '33F': 74.8, '33A': 70.5, '34': 42.5, '35B': 32.8}",1,98.2,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334655,"{'19A': 99.1, '19A-III': 98.9, '19A-I': 86.0, '19A-II': 83.8, '19AF': 57.1}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222175,"{'21': 91.7, '22F': 36.8, '06A-IV': 31.6, '06A-II': 31.2, '06A-VI': 31.2}",1,91.7,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001196355,"{'06A': 89.7, '06A-III': 89.3, '06B-I': 88.0, '06B-II': 87.8, '06A-II': 87.3}",1,89.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001119345,"{'22F': 98.8, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,98.8,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220235,"{'19F-I': 97.7, '19F': 97.0, '19F-III': 96.5, '19F-II': 95.0, '19F-IV': 90.1}",1,97.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900058445,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346075,"{'14': 94.2, '36': 25.1, '15B': 24.3, '15C': 24.2, '09L': 23.2}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310055,"{'24F2': 99.6, '24B': 88.5, '24F': 87.0, '24A': 70.9, '07B': 56.8}",1,99.6,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261435,"{'23A': 99.2, '23F': 67.3, '23B': 43.6, '19F-II': 37.4, '19F-IV': 37.0}",1,99.2,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267645,"{'19A': 88.7, '19A-III': 88.5, '19A-II': 78.8, '19A-I': 78.0, '19AF': 59.6}",1,88.7,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260495,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246705,"{'19A': 99.7, '19A-III': 99.5, '19A-I': 85.9, '19A-II': 83.4, '19AF': 56.9}",1,99.7,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308825,"{'07A': 97.5, '07F': 97.3, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,97.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331975,"{'17F': 99.6, '06B': 44.3, '06B-I': 44.0, '06D': 43.8, '06A-III': 43.8}",1,99.6,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001100945,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281245,"{'12F': 96.3, '44': 93.3, '12B': 93.2, '12A': 84.7, '46': 81.6}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295155,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327605,"{'06A': 90.4, '06A-III': 90.4, '06A-II': 90.3, '06A-VI': 90.3, '06B-II': 90.0}",1,90.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332975,"{'10B': 93.6, '10A': 69.8, '10F': 20.0, '10C': 18.7, '22F': 14.2}",1,93.6,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316775,"{'14': 92.1, '36': 28.9, '09L': 25.7, '09N': 24.7, '15B': 24.1}",1,92.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001127545,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339395,"{'31': 99.2, '41A': 56.7, '41F': 48.4, '06A-II': 35.9, '06A-VI': 35.9}",1,99.2,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293905,"{'34': 93.0, '33F2': 34.7, '35B': 32.2, '33F': 29.0, '33C': 28.0}",1,93.0,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250485,"{'17F': 92.0, '06A': 46.6, '06B-I': 46.2, '06A-III': 46.1, '06B-II': 45.0}",1,92.0,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231225,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022215,"{'14': 92.4, '36': 28.9, '09L': 25.6, '09N': 24.5, '15B': 24.0}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256835,"{'06A-II': 95.4, '06A-VI': 95.4, '06B-II': 89.4, '06A-V': 89.0, '06A-III': 88.4}",1,95.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227505,"{'09A': 99.4, '09V': 99.2, '09N': 37.6, '09L': 36.9, '06A-IV': 27.3}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318865,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221935,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221385,"{'05': 95.2, '45': 22.3, '36': 21.7, '20': 20.1, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282795,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 89.6, '06A': 87.7, '06A-III': 86.1}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243015,"{'19A-I': 99.2, '19A-II': 97.2, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318345,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262675,"{'14': 92.4, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001084185,"{'06D': 31.4, '06C': 30.8, '06C-I': 30.8, '35B': 30.0, '22F': 29.7}",1,31.4,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028605,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051175,"{'10A': 99.9, '10B': 66.7, '10C': 27.5, '10F': 17.9, '22F': 15.4}",1,99.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252515,"{'06E': 99.5, '06B-III': 99.1, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 96.61]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221895,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.7, '06B-II': 35.1, '06A-V': 34.9}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237065,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_012584375,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001205795,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001132385,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334705,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900039565,"{'19F-III': 98.4, '19F': 98.0, '19F-I': 98.0, '19F-II': 93.8, '19F-IV': 89.2}",1,98.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191365,"{'06A': 99.4, '06A-IV': 99.1, '06B-II': 95.2, '06A-V': 93.5, '06A-III': 91.4}",1,99.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214575,"{'06A-II': 95.3, '06A-VI': 95.3, '06B-II': 89.3, '06A-V': 88.9, '06A-III': 88.2}",1,95.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280485,"{'23F': 96.2, '23A': 66.1, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216125,"{'05': 95.2, '45': 22.3, '36': 21.4, '20': 19.9, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054375,"{'24F': 97.0, '24B': 89.8, '24F2': 86.5, '24A': 63.0, '07C': 52.1}",1,97.0,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002081095,"{'06A-III': 88.8, '06B-I': 87.7, '06A-II': 87.6, '06A-VI': 87.6, '06A-V': 87.1}",1,88.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214125,"{'14': 94.0, '36': 26.2, '09L': 25.0, '09N': 24.4, '15B': 24.1}",1,94.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001122285,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285665,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.8, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342835,"{'21': 92.2, '22F': 35.0, '06A-IV': 34.3, '06A-II': 34.0, '06A-VI': 34.0}",1,92.2,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294395,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231195,"{'21': 99.1, '22F': 35.6, '06A-IV': 32.4, '06A-II': 31.7, '06A-VI': 31.6}",1,99.1,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236015,"{'31': 99.8, '41A': 57.3, '41F': 49.0, '22F': 36.4, '06A-II': 36.4}",1,99.8,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020140195,"{'35B': 99.9, '33F': 33.7, '35C': 33.4, '34': 33.2, '35A': 33.0}",1,99.9,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298965,"{'06A': 93.4, '06A-III': 91.4, '06B-I': 91.3, '06B-II': 91.1, '06A-V': 90.6}",1,93.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265115,"{'01': 7.1, '45': 5.9, '25F': 5.7, '20': 5.5, '25A': 5.5}",6,7.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001164625,"{'09L': 95.9, '09N': 86.5, '09A': 31.0, '09V': 31.0, '36': 26.4}",1,95.9,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251175,"{'13': 83.7, '36': 32.6, '14': 27.2, '15B': 26.7, '15C': 26.3}",1,83.7,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268745,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311685,"{'22F': 98.8, '22A': 73.1, '06A': 42.3, '06B': 41.8, '06A-II': 41.6}",1,98.8,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900195175,"{'15A': 100.0, '15F': 74.3, '15C': 62.0, '15B': 61.9, '23F': 31.7}",1,100.0,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001087265,"{'06C-I': 89.1, '06C': 89.0, '06D': 86.9, '06A-I': 77.7, '06B': 77.4}",1,89.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001147385,"{'06A-III': 88.6, '06B-I': 86.3, '06A': 83.1, '06A-II': 83.0, '06A-VI': 83.0}",1,88.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019399815,"{'19F-I': 95.9, '19F': 95.6, '19F-III': 94.0, '19F-II': 92.8, '19F-IV': 88.8}",1,95.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001150705,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229905,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900058655,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280785,"{'35F': 98.9, '47F': 74.2, '34': 26.7, '35B': 26.5, '29': 21.9}",1,98.9,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330185,"{'09A': 99.4, '09V': 99.2, '09N': 38.5, '09L': 36.6, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220865,"{'17F': 82.3, '06A-I': 42.2, '06B': 41.8, '06A': 41.2, '22F': 40.3}",1,82.3,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327215,"{'19F-I': 95.3, '19F': 95.0, '19F-III': 93.4, '19F-II': 92.2, '19F-IV': 88.2}",1,95.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001090525,"{'06A': 89.6, '06A-III': 89.1, '06B-I': 87.8, '06B-II': 87.6, '06A-II': 87.1}",1,89.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001196595,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001326295,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 61.9, '16F': 39.2}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900035315,"{'06B-I': 97.5, '06A-III': 95.4, '06A': 89.8, '06B-II': 88.5, '06A-V': 86.6}",1,97.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213345,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233095,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.4, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223085,"{'01': 99.0, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001152225,"{'34': 93.0, '33F2': 34.7, '35B': 31.9, '33F': 29.0, '33C': 28.0}",1,93.0,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321065,"{'13': 98.9, '09N': 29.1, '20': 28.9, '09L': 28.7, '36': 28.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001085345,"{'14': 94.2, '36': 25.7, '15B': 24.3, '15C': 24.2, '09L': 23.7}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224735,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297485,"{'08': 99.6, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.3, '06B-II': 24.1}",1,99.6,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288325,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398785,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248745,"{'15A': 98.3, '15F': 72.9, '15C': 61.6, '15B': 61.5, '23F': 32.2}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231135,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001162785,"{'06A': 90.4, '06A-III': 89.4, '06A-II': 89.3, '06A-VI': 89.3, '06B-II': 89.3}",1,90.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234165,"{'34': 98.7, '33F2': 35.1, '35B': 33.4, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298825,"{'01': 6.9, '36': 6.3, '25F': 5.7, '45': 5.6, '25A': 5.5}",2,6.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310785,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304145,"{'23F': 96.5, '23A': 63.8, '23B': 47.9, '28A': 47.6, '06B-II': 46.1}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258525,"{'14': 91.6, '36': 26.7, '09L': 26.6, '09N': 26.1, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055225,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339505,"{'14': 91.4, '19F-IV': 25.9, '09L': 24.8, '09N': 24.7, '36': 24.4}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300035,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300755,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 89.6, '06A': 87.7, '06A-III': 86.1}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900636585,"{'19F-II': 99.0, '19F': 95.2, '19F-III': 93.8, '19F-I': 93.5, '19F-IV': 93.1}",1,99.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252105,"{'01': 99.0, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249245,"{'01': 99.5, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001108485,"{'36': 11.4, '06A-IV': 6.6, '45': 6.3, '23B1': 6.3, '20': 6.0}",1,11.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243005,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254725,"{'21': 99.7, '22F': 36.2, '06A-II': 33.2, '06A-VI': 33.1, '06A-III': 32.7}",1,99.7,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329435,"{'07A': 97.5, '07F': 97.3, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,97.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338135,"{'45': 5.9, '25F': 5.1, '36': 5.0, '25A': 4.9, '20': 4.8}",2,5.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063525,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316165,"{'15C': 87.7, '15B': 87.6, '15A': 60.9, '15F': 48.0, '23A': 31.3}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001152265,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.8, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900037225,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020985,"{'04': 99.8, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284905,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001093845,"{'06A': 89.7, '06A-III': 89.3, '06B-I': 88.0, '06B-II': 87.8, '06A-II': 87.3}",1,89.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281445,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001403975,"{'36': 12.9, '20': 8.1, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",1,12.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260135,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.0, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288915,"{'14': 91.4, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328675,"{'06E': 85.1, '06B-III': 84.5, '06B-I': 51.0, '06A-III': 50.4, '06A-V': 49.9}",1,85.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257395,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232845,"{'06A-II': 97.9, '06A-VI': 97.9, '06B-II': 90.4, '06A-V': 89.6, '06A-III': 89.2}",1,97.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000495375,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261275,"{'04': 99.8, '45': 34.0, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001149465,"{'34': 92.6, '33F2': 34.4, '35B': 31.6, '33F': 28.7, '33C': 27.7}",1,92.6,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294975,"{'23F': 97.0, '23A': 63.9, '28A': 47.7, '28F': 46.0, '06A': 45.0}",1,97.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002224195,"{'19A': 98.6, '19A-III': 98.4, '19A-I': 85.5, '19A-II': 83.2, '19AF': 56.7}",1,98.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026685,"{'17F': 99.6, '06B': 44.3, '06B-I': 44.1, '06A-III': 44.0, '06D': 43.7}",1,99.6,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245055,"{'12F': 96.4, '44': 93.4, '12B': 93.3, '12A': 84.8, '46': 81.7}",1,96.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281415,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239615,"{'09A': 98.4, '09V': 98.2, '09N': 39.5, '09L': 37.6, '11F': 26.6}",1,98.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232565,"{'01': 99.3, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305615,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275225,"{'06A-I': 99.8, '06B': 94.3, '06A-V': 89.3, '06A': 86.9, '06A-III': 86.0}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220455,"{'21': 91.7, '22F': 36.8, '06A-IV': 31.6, '06A-II': 31.2, '06A-VI': 31.2}",1,91.7,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257535,"{'16F': 96.7, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326535,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223095,"{'06A': 83.3, '06A-IV': 82.2, '06A-V': 81.8, '06B-II': 81.7, '06B-I': 81.5}",1,83.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 83.83']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900039265,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258175,"{'23F': 92.4, '23A': 61.1, '28A': 48.1, '23B': 46.6, '06A-IV': 46.6}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303055,"{'19F': 94.8, '19F-I': 94.3, '19F-III': 93.2, '19F-II': 91.9, '19F-IV': 88.1}",1,94.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001345695,"{'36': 12.4, '20': 8.1, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",1,12.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001123945,"{'06D': 95.4, '06C': 87.5, '06C-I': 87.5, '06B-I': 75.6, '06A-III': 75.2}",1,95.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 89.0']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001113825,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325545,"{'06B-III': 77.2, '06E': 75.4, '06A-III': 64.2, '06B-I': 63.6, '06A-V': 63.1}",1,77.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322195,"{'03': 95.2, '36': 17.4, '20': 15.9, '01': 15.8, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341345,"{'16F': 71.9, '28F': 43.8, '28A': 41.0, '18F': 34.1, '18A': 34.0}",1,71.9,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341155,"{'06E': 87.9, '06B-III': 86.8, '06B-I': 50.6, '06A-III': 50.1, '06A-II': 48.8}",1,87.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294105,"{'38': 90.1, '25F': 86.0, '25A': 85.0, '36': 10.9, '01': 7.9}",1,90.1,25F_25A_38,25F_25A_38,,"[[0], [18]]","{'wcyD': ['b: 22.59'], 'wcyV': 4.69}","{'wcyD': 0, 'wcyV': 'not_detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026145,"{'19F-II': 99.7, '19F': 95.2, '19F-III': 94.2, '19F-I': 93.9, '19F-IV': 93.2}",1,99.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298695,"{'11D': 96.4, '11A': 95.3, '11F': 43.3, '11C': 36.2, '11B': 34.8}",1,96.4,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001129285,"{'19B': 95.7, '19C': 70.0, '19F-II': 53.9, '19F-I': 53.1, '19F': 53.0}",1,95.7,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001124045,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167235,"{'14': 93.3, '36': 27.1, '15B': 24.3, '15C': 24.2, '09L': 24.0}",1,93.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001097845,"{'36': 10.2, '06A-IV': 6.6, '45': 6.0, '20': 5.6, '23B1': 5.6}",1,10.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263835,"{'01': 7.5, '45': 6.3, '25F': 5.8, '25A': 5.6, '22F': 5.0}",3,7.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220745,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320575,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300915,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326495,"{'13': 98.9, '09N': 29.1, '09L': 28.7, '20': 28.4, '36': 28.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299575,"{'48': 99.3, '24A': 46.8, '24B': 39.4, '24F': 38.9, '24F2': 37.4}",1,99.3,,48,,,{},{},48,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018565,"{'09N': 100.0, '09L': 89.1, '09A': 32.7, '09V': 32.7, '36': 32.0}",1,100.0,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218165,"{'14': 92.7, '36': 28.8, '09L': 25.7, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194035,"{'23B': 99.4, '23B1': 64.7, '23F': 45.6, '23A': 39.8, '06A-IV': 36.8}",1,99.4,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001193275,"{'06A-II': 87.5, '06A-VI': 87.5, '06A': 86.0, '06A-IV': 85.3, '06A-V': 85.2}",1,87.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303135,"{'28A': 99.5, '28F': 92.4, '23F': 49.6, '16F': 43.7, '06B-I': 39.2}",1,99.5,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170695,"{'14': 92.2, '36': 28.4, '09L': 25.1, '15B': 24.1, '15C': 24.0}",1,92.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308645,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900323445,"{'06C-I': 99.3, '06C': 99.2, '06D': 84.6, '06A-II': 79.1, '06A-VI': 79.1}",1,99.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001164965,"{'45': 6.1, '25F': 5.6, '20': 5.5, '36': 5.5, '25A': 5.4}",3,6.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312695,"{'14': 94.5, '36': 26.4, '09L': 25.5, '09N': 24.7, '15B': 24.3}",1,94.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306535,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284125,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.7, '06B-II': 35.1, '06A-V': 34.9}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325165,"{'09A': 93.0, '09V': 92.8, '09N': 39.6, '09L': 38.1, '08': 24.4}",1,93.0,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334405,"{'14': 91.4, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900037615,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900092125,"{'15C': 93.9, '15B': 93.8, '15A': 62.1, '15F': 48.6, '23A': 32.9}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321695,"{'06E': 99.5, '06B-III': 99.1, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324255,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001196475,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319185,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273825,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_008423485,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001140445,"{'36': 11.3, '20': 8.1, '45': 6.8, '01': 6.1, '06B-I': 6.1}",1,11.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001194625,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309245,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222055,"{'01': 99.3, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001207635,"{'15C': 87.8, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281315,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308735,"{'09N': 99.9, '09L': 89.1, '09A': 32.7, '09V': 32.7, '36': 31.2}",1,99.9,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322295,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248565,"{'16F': 95.7, '19F-II': 42.6, '19F-IV': 42.6, '28F': 42.4, '19F': 41.6}",1,95.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001140745,"{'10A': 99.3, '10B': 67.0, '10C': 27.7, '10F': 18.1, '06B-I': 15.2}",1,99.3,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294445,"{'04': 99.7, '45': 33.9, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300255,"{'17F': 99.7, '06B': 44.3, '06B-I': 44.0, '06D': 43.8, '06A-III': 43.8}",1,99.7,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299585,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331115,"{'04': 98.3, '45': 34.9, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249975,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253145,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247155,"{'13': 83.6, '36': 30.8, '14': 27.0, '15B': 26.6, '15C': 26.2}",1,83.6,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326775,"{'18C': 88.4, '18B': 88.3, '18F': 77.7, '18A': 61.4, '16F': 37.5}",1,88.4,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001137325,"{'10A': 99.3, '10B': 67.0, '10C': 27.7, '10F': 18.1, '22F': 15.4}",1,99.3,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215895,"{'06A': 93.5, '06A-III': 91.5, '06B-I': 91.4, '06B-II': 91.2, '06A-V': 90.7}",1,93.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289735,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285355,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001085545,"{'06E': 100.0, '06B-III': 97.6, '06B-I': 44.9, '06A-III': 44.4, '06B-II': 43.8}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342605,"{'16F': 71.5, '28F': 43.1, '28A': 40.6, '18F': 33.6, '18A': 32.7}",1,71.5,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268955,"{'35B': 99.4, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276015,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398415,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900037215,"{'03': 95.2, '01': 17.3, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283225,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001116405,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214265,"{'19B': 92.9, '19C': 71.8, '19F-IV': 51.1, '19F-II': 51.0, '19F-I': 50.1}",1,92.9,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215305,"{'19F': 94.7, '19F-I': 94.2, '19F-III': 93.1, '19F-II': 91.8, '19F-IV': 88.1}",1,94.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216555,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331595,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 89.6, '06A': 87.7, '06A-III': 86.1}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231455,"{'18C': 99.8, '18B': 99.7, '18F': 75.7, '18A': 62.4, '16F': 39.3}",1,99.8,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189715,"{'06C-I': 99.8, '06C': 99.6, '06D': 84.6, '06A-II': 79.5, '06A-VI': 79.5}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262835,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001112285,"{'14': 95.1, '36': 25.2, '15B': 24.3, '15C': 24.2, '09L': 24.1}",1,95.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001128845,"{'15A': 97.0, '15F': 73.4, '15C': 61.4, '15B': 61.3, '23F': 31.3}",1,97.0,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278145,"{'23A': 99.5, '23F': 67.1, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265145,"{'09A': 99.4, '09V': 99.2, '09N': 38.5, '09L': 36.8, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217075,"{'09L': 99.7, '09N': 89.3, '36': 32.9, '09A': 31.4, '09V': 31.4}",1,99.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001089045,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020965,"{'19A-I': 99.7, '19A-II': 97.5, '19A': 87.7, '19A-III': 87.5, '19AF': 61.8}",1,99.7,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267295,"{'08': 99.5, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.5,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907172065,"{'14': 92.7, '36': 29.0, '09L': 25.6, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053775,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001115565,"{'32A': 97.2, '32F': 97.1, '06A-II': 40.7, '06A-VI': 40.6, '06B-II': 39.9}",1,97.2,,32F/32A,,,{},{},32F/32A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340045,"{'33F': 99.9, '33A': 97.4, '33F2': 70.9, '35C': 42.8, '42': 41.8}",1,99.9,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901212835,"{'16F': 97.8, '28F': 42.8, '18A': 41.7, '19F-IV': 41.1, '18F': 41.0}",1,97.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233155,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.7, '19A-III': 87.5, '19AF': 61.7}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001171005,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324355,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316525,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305325,"{'06A-I': 99.2, '06B': 94.9, '06A': 87.7, '06A-V': 86.0, '06A-III': 82.1}",1,99.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247835,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 92.87]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324275,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337945,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237025,"{'03': 95.2, '01': 17.2, '36': 16.5, '09N': 15.8, '20': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300155,"{'23B': 99.5, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.8}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329495,"{'28A': 99.5, '28F': 92.4, '23F': 49.6, '16F': 43.7, '06B-I': 39.2}",1,99.5,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269465,"{'06E': 99.7, '06B-III': 99.0, '06B-I': 46.6, '06A-III': 46.1, '06A-II': 45.3}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585425,"{'12F': 96.4, '44': 93.1, '12B': 92.4, '12A': 80.2, '46': 77.1}",1,96.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585185,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032815,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020139565,"{'35B': 99.8, '33F': 33.4, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193635,"{'06C-I': 99.8, '06C': 99.6, '06D': 84.5, '06A-II': 79.6, '06A-VI': 79.6}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 88.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001200415,"{'35C': 98.5, '42': 97.9, '35A': 85.9, '33A': 45.4, '33F': 45.3}",1,98.5,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028915,"{'03': 95.2, '01': 16.6, '36': 16.4, '09N': 15.7, '20': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030025,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227765,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09L': 15.6}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001128825,"{'19F-I': 95.3, '19F': 95.0, '19F-III': 93.5, '19F-II': 92.2, '19F-IV': 88.2}",1,95.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189545,"{'38': 97.4, '25F': 82.9, '25A': 82.0, '36': 9.5, '20': 5.4}",1,97.4,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001093185,"{'34': 92.9, '33F2': 34.7, '35B': 31.0, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273195,"{'35B': 99.5, '33F': 33.3, '35C': 33.3, '35A': 32.9, '34': 32.8}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304735,"{'19A': 92.4, '19A-III': 92.2, '19A-II': 83.1, '19A-I': 81.1, '19AF': 56.1}",1,92.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275755,"{'15A': 98.5, '15F': 73.7, '15C': 62.0, '15B': 61.9, '23F': 31.8}",1,98.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258755,"{'10F': 99.3, '10C': 81.7, '10B': 21.7, '10A': 18.7, '22F': 14.2}",1,99.3,,10F,,,{},{},10F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021021955,"{'02': 57.6, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275815,"{'14': 91.4, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001087505,"{'15A': 98.5, '15F': 73.7, '15C': 62.0, '15B': 61.9, '23F': 31.8}",1,98.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232185,"{'09N': 99.8, '09L': 89.0, '09A': 32.7, '09V': 32.7, '36': 32.3}",1,99.8,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309175,"{'14': 92.7, '36': 28.8, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269455,"{'01': 99.2, '19F': 32.1, '19F-I': 31.7, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243825,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329405,"{'05': 95.2, '45': 22.2, '36': 20.7, '12A': 19.7, '46': 19.6}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278165,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.7, '06B-II': 35.1, '06A-V': 34.9}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001172565,"{'36': 7.6, '20': 6.3, '06C-I': 4.5, '06C': 4.4, '25F': 4.3}",1,7.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030005,"{'09N': 99.7, '09L': 89.1, '09A': 32.7, '09V': 32.7, '36': 32.0}",1,99.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237465,"{'28F': 95.2, '28A': 88.4, '23F': 51.1, '06B-II': 49.0, '06A-IV': 48.6}",1,95.2,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228375,"{'03': 97.4, '01': 17.2, '36': 17.2, '20': 15.8, '09L': 14.9}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232785,"{'16F': 71.4, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.4,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001086445,"{'14': 89.9, '36': 29.2, '09L': 23.5, '09N': 22.3, '19F-II': 22.2}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001192195,"{'23F': 96.8, '23A': 66.4, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270515,"{'46': 87.4, '12A': 86.1, '12B': 78.1, '12F': 76.1, '44': 76.1}",1,87.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[4]],"{'wciI': [1, 91.4]}",{'wciI': 1},12A/12B/44/46,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344655,"{'22A': 94.2, '22F': 75.9, '06A-IV': 45.8, '06A-II': 44.1, '06B-I': 44.1}",1,94.2,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231585,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.0, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304495,"{'19A-II': 98.8, '19A-I': 96.9, '19A': 85.7, '19A-III': 85.5, '19AF': 62.0}",1,98.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020140455,"{'35B': 99.8, '33F': 33.5, '35C': 33.4, '34': 33.0, '35A': 33.0}",1,99.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001153525,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900060575,"{'15A': 99.6, '15F': 73.9, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,99.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030835,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001163425,"{'19F-I': 97.1, '19F': 96.6, '19F-III': 96.4, '19F-II': 92.4, '19F-IV': 88.0}",1,97.1,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266485,"{'18C': 99.8, '18B': 99.7, '18F': 75.8, '18A': 62.1, '16F': 39.3}",1,99.8,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265045,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001160185,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332575,"{'19A-I': 99.2, '19A-II': 97.5, '19A': 87.8, '19A-III': 87.6, '19AF': 61.8}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333505,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311615,"{'06A-III': 88.6, '06A-II': 87.5, '06A-VI': 87.5, '06B-I': 87.5, '06A-V': 87.0}",1,88.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001334255,"{'01': 5.5, '22F': 4.9, '25F': 4.4, '25A': 4.3, '45': 3.7}",1,5.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290135,"{'35A': 93.8, '35C': 84.3, '42': 83.5, '33A': 41.8, '33F': 41.6}",1,93.8,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340625,"{'22F': 96.4, '22A': 73.4, '06A': 42.6, '06A-II': 42.3, '06A-VI': 42.2}",1,96.4,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332825,"{'06A-I': 98.4, '06B': 94.4, '06A-V': 89.4, '06A': 87.5, '06A-III': 85.9}",1,98.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287575,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229565,"{'06A-V': 93.2, '06A-III': 90.2, '06A-II': 89.8, '06A-VI': 89.8, '06B-I': 89.4}",1,93.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284535,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229285,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001131125,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230005,"{'19F': 97.3, '19F-I': 96.3, '19F-III': 95.5, '19F-II': 95.4, '19F-IV': 90.9}",1,97.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900035335,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001145705,"{'15A': 96.8, '15F': 73.1, '15C': 60.9, '15B': 60.8, '23F': 31.3}",1,96.8,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302015,"{'14': 90.9, '19F-IV': 25.9, '36': 25.2, '09L': 24.6, '09N': 24.5}",1,90.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280115,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189845,"{'23F': 99.2, '23A': 65.4, '23B': 49.0, '28A': 48.1, '06A-IV': 47.0}",1,99.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001147685,"{'09L': 97.6, '09N': 87.9, '36': 32.6, '09A': 31.4, '09V': 31.4}",1,97.6,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029415,"{'06A-II': 100.0, '06A-VI': 100.0, '06B-II': 91.8, '06A-V': 91.0, '06A-III': 89.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216035,"{'03': 75.1, '20': 7.9, '36': 7.1, '22F': 6.8, '01': 6.3}",1,75.1,,3,,,{},{},3,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223475,"{'12F': 96.4, '44': 93.4, '12B': 93.3, '12A': 84.8, '46': 81.7}",1,96.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001148585,"{'23F': 99.3, '23A': 65.5, '23B': 49.1, '28A': 48.2, '06A-IV': 47.3}",1,99.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000251465,"{'19F-II': 97.5, '19F': 93.3, '19F-III': 92.4, '19F-I': 92.0, '19F-IV': 91.4}",1,97.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321045,"{'06A': 83.3, '06A-IV': 82.2, '06A-V': 81.8, '06B-II': 81.7, '06B-I': 81.5}",1,83.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 83.83']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275385,"{'36': 10.8, '45': 6.7, '23B1': 6.6, '20': 6.0, '06B-I': 5.5}",1,10.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001171885,"{'36': 8.0, '20': 5.4, '06C-I': 3.6, '01': 3.5, '06C': 3.5}",1,8.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278725,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324915,"{'20': 84.5, '47F': 26.4, '35A': 24.9, '09L': 24.6, '09N': 23.7}",1,84.5,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267935,"{'07C': 94.0, '07B': 77.1, '40': 76.7, '24B': 48.6, '24F': 47.6}",1,94.0,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332645,"{'10B': 99.3, '10A': 65.2, '10F': 20.1, '10C': 18.8, '22F': 14.0}",1,99.3,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001104985,"{'23F': 96.8, '23A': 66.4, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000251625,"{'07A': 99.5, '07F': 99.3, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026035,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293135,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295475,"{'09A': 99.4, '09V': 99.2, '09N': 38.6, '09L': 36.6, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241575,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024065,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248065,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341205,"{'05': 95.3, '45': 22.4, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226595,"{'35B': 99.9, '33F': 33.6, '35C': 33.4, '34': 33.2, '35A': 33.0}",1,99.9,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001203595,"{'15C': 95.2, '15B': 95.1, '15A': 60.9, '15F': 47.3, '23A': 34.5}",1,95.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273585,"{'20': 86.2, '36': 27.1, '13': 26.4, '09L': 25.9, '09N': 24.8}",1,86.2,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264765,"{'05': 95.3, '45': 22.5, '36': 21.7, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235645,"{'01': 99.9, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.3}",1,99.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001131205,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190735,"{'23B': 99.3, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.6}",1,99.3,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234535,"{'06A-III': 94.8, '06B-I': 93.4, '06A': 90.3, '06A-IV': 89.5, '06B-II': 89.4}",1,94.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222495,"{'06A-III': 94.8, '06B-I': 93.4, '06A': 90.3, '06A-IV': 89.5, '06B-II': 89.4}",1,94.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296855,"{'05': 95.0, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334375,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193015,"{'19A-II': 100.0, '19A-I': 96.6, '19A': 85.0, '19A-III': 84.8, '19AF': 62.1}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272685,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301625,"{'14': 91.1, '19F-IV': 25.9, '36': 25.0, '09L': 24.8, '09N': 24.7}",1,91.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001127445,"{'19F-I': 95.3, '19F': 95.0, '19F-III': 93.5, '19F-II': 92.2, '19F-IV': 88.2}",1,95.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057375,"{'10A': 94.2, '10B': 64.8, '10C': 29.3, '10F': 19.7, '47A': 16.8}",1,94.2,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900188625,"{'06B-I': 99.2, '06A-III': 97.1, '06B-II': 89.8, '06A': 89.4, '06A-V': 87.9}",1,99.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032965,"{'33F': 100.0, '33A': 97.5, '33F2': 70.9, '35C': 42.8, '42': 41.8}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305895,"{'03': 95.6, '01': 17.3, '36': 17.3, '09N': 15.9, '20': 15.8}",1,95.6,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193865,"{'15C': 94.0, '15B': 93.8, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,94.0,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257745,"{'04': 99.5, '45': 33.4, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.5,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332655,"{'35F': 99.2, '47F': 74.5, '34': 26.7, '35B': 26.7, '29': 22.2}",1,99.2,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300125,"{'05': 95.3, '45': 22.5, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247295,"{'04': 99.2, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001129465,"{'15C': 96.3, '15B': 96.1, '15A': 61.5, '15F': 47.8, '23A': 34.7}",1,96.3,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325735,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.9, '06A-III': 47.4, '06A-II': 46.3}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168975,"{'09A': 99.5, '09V': 99.3, '09N': 37.2, '09L': 35.7, '11F': 26.6}",1,99.5,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001124265,"{'36': 12.8, '20': 7.8, '23B1': 7.7, '06A-IV': 7.3, '06C': 5.8}",1,12.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320415,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189815,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 24.8, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284285,"{'33D': 80.6, '33B': 76.6, '06A-I': 36.6, '06B': 36.0, '35B': 36.0}",1,80.6,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293835,"{'09N': 99.6, '09L': 88.7, '09A': 32.7, '09V': 32.7, '36': 32.2}",1,99.6,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001088025,"{'23F': 93.9, '23A': 63.4, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,93.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280325,"{'01': 99.5, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261895,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274665,"{'19F': 97.3, '19F-I': 96.3, '19F-III': 95.5, '19F-II': 95.4, '19F-IV': 90.9}",1,97.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292245,"{'19B': 92.9, '19C': 71.8, '19F-IV': 51.1, '19F-II': 51.0, '19F-I': 50.1}",1,92.9,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001138625,"{'06E': 99.3, '06B-III': 97.8, '06B-I': 45.7, '06A-III': 45.2, '06A-II': 44.2}",1,99.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 93.22]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289035,"{'22F': 99.0, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235365,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264795,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255885,"{'09N': 97.7, '09L': 87.5, '09A': 32.6, '09V': 32.6, '36': 31.2}",1,97.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321585,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328265,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001149005,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330975,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.0, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238145,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326715,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260515,"{'06E': 99.5, '06B-III': 99.2, '06B-I': 46.6, '06A-III': 46.4, '06A-IV': 45.3}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308885,"{'18A': 99.8, '18B': 54.0, '18C': 54.0, '18F': 53.7, '19F-IV': 37.2}",1,99.8,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900064255,"{'19A': 99.1, '19A-III': 98.9, '19A-I': 85.3, '19A-II': 82.8, '19AF': 56.8}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250335,"{'34': 98.7, '33F2': 35.2, '35B': 33.8, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223265,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001118685,"{'03': 95.2, '36': 17.0, '20': 15.6, '14': 14.1, '01': 14.0}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270615,"{'05': 95.3, '45': 22.6, '36': 21.7, '20': 20.3, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001107685,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338765,"{'05': 95.1, '45': 22.5, '36': 21.5, '20': 20.4, '12A': 19.8}",1,95.1,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001130945,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281715,"{'06A': 95.5, '06A-III': 93.7, '06B-II': 93.4, '06B-I': 92.8, '06A-IV': 92.0}",1,95.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326155,"{'23F': 96.7, '23A': 63.8, '06A-IV': 50.8, '23B': 50.3, '06B-II': 48.5}",1,96.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257125,"{'05': 95.0, '45': 22.6, '36': 21.8, '20': 20.4, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317735,"{'14': 91.2, '36': 26.7, '09L': 26.6, '09N': 26.3, '15B': 23.3}",1,91.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259435,"{'19F': 97.4, '19F-I': 96.4, '19F-III': 95.6, '19F-II': 95.5, '19F-IV': 91.0}",1,97.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000256665,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.3, '23B': 47.9, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001131065,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901212825,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279925,"{'15C': 88.3, '15B': 88.2, '15A': 61.3, '15F': 48.1, '23A': 31.5}",1,88.3,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267735,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018505,"{'23B': 99.5, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.8}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260735,"{'06A-II': 97.9, '06A-VI': 97.9, '06B-II': 90.4, '06A-V': 89.6, '06A-III': 89.2}",1,97.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330895,"{'38': 90.1, '25F': 86.0, '25A': 85.0, '36': 10.9, '01': 7.9}",1,90.1,25F_25A_38,25F_25A_38,,"[[0], [18]]","{'wcyD': ['b: 22.59'], 'wcyV': 4.69}","{'wcyD': 0, 'wcyV': 'not_detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232975,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242835,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232995,"{'09A': 98.4, '09V': 98.2, '09N': 39.4, '09L': 37.6, '11F': 26.6}",1,98.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293745,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329335,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191275,"{'06B-I': 99.2, '06A-III': 97.1, '06B-II': 89.9, '06A': 89.8, '06A-V': 88.0}",1,99.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001170585,"{'06A': 89.6, '06A-III': 89.2, '06B-I': 87.9, '06B-II': 87.7, '06A-II': 87.2}",1,89.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228095,"{'23B': 88.7, '23B1': 62.4, '23F': 38.7, '06A-IV': 33.9, '23A': 33.2}",1,88.7,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168545,"{'09A': 99.4, '09V': 99.2, '09N': 37.3, '09L': 35.9, '11F': 26.6}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236815,"{'04': 99.8, '45': 33.7, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253745,"{'15C': 87.6, '15B': 87.5, '15A': 64.4, '15F': 49.8, '23A': 30.0}",1,87.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230845,"{'06A-III': 94.8, '06B-I': 93.4, '06A': 90.3, '06A-IV': 89.5, '06B-II': 89.4}",1,94.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287315,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313955,"{'03': 95.2, '01': 18.2, '36': 17.4, '20': 16.1, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277965,"{'05': 95.2, '45': 22.6, '36': 21.6, '20': 20.4, '12A': 19.8}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232305,"{'06A-II': 95.0, '06A-VI': 95.0, '06B-II': 89.1, '06A-V': 88.7, '06A-III': 88.1}",1,95.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001121645,"{'06E': 77.8, '06B-III': 76.7, '06D': 59.6, '06B-I': 58.7, '06A-III': 57.9}",1,77.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237375,"{'35A': 94.3, '35C': 89.6, '42': 89.0, '33A': 46.2, '33F': 45.8}",1,94.3,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297645,"{'07A': 97.5, '07F': 97.3, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,97.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331105,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321865,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308805,"{'12F': 96.4, '44': 93.4, '12B': 93.3, '12A': 84.8, '46': 81.7}",1,96.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259875,"{'05': 95.3, '45': 22.6, '36': 21.7, '20': 20.3, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019399845,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.3, '06A-III': 46.8, '06A-II': 45.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216015,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259165,"{'22A': 93.6, '22F': 77.7, '18C': 62.3, '18B': 62.2, '18F': 59.8}",1,93.6,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001201075,"{'06E': 100.0, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320385,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.0, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342615,"{'15C': 89.6, '15B': 89.5, '15A': 62.5, '15F': 49.3, '23A': 31.0}",1,89.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267425,"{'35B': 99.4, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219245,"{'34': 93.0, '33F2': 34.8, '35B': 32.3, '33F': 29.0, '33C': 28.4}",1,93.0,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019457365,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.7, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245495,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028965,"{'06C-I': 93.1, '06C': 92.9, '06D': 82.9, '06B-I': 78.1, '06A-III': 77.8}",1,93.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334795,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239925,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300515,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319915,"{'06E': 99.6, '06B-III': 98.1, '06B-I': 46.4, '06A-III': 45.9, '06A-II': 45.0}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 96.61]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001089425,"{'14': 95.0, '36': 25.9, '15B': 24.3, '15C': 24.2, '09L': 24.1}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310425,"{'14': 100.0, '09L': 27.2, '36': 26.1, '09N': 24.9, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243995,"{'16F': 71.7, '28F': 43.2, '28A': 40.7, '18F': 33.7, '18A': 33.6}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315415,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027545,"{'18C': 99.8, '18B': 99.7, '18F': 75.7, '18A': 62.5, '16F': 39.2}",1,99.8,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001146065,"{'06A-II': 86.9, '06A-VI': 86.9, '06A': 86.0, '06A-IV': 84.8, '06A-V': 84.6}",1,86.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314265,"{'08': 98.0, '02': 24.4, '06A-IV': 23.3, '22F': 23.2, '06A': 22.9}",1,98.0,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332295,"{'23F': 94.0, '23A': 63.5, '28A': 48.3, '23B': 47.0, '06A-III': 46.2}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001345715,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283985,"{'21': 100.0, '22F': 36.1, '06A-IV': 32.5, '06A-II': 31.8, '06A-VI': 31.7}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190045,"{'22F': 91.4, '22A': 70.1, '06A-II': 45.2, '06A-VI': 45.1, '06B-I': 45.1}",1,91.4,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281735,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 96.61]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001132545,"{'19F-I': 95.3, '19F': 95.0, '19F-III': 93.5, '19F-II': 92.2, '19F-IV': 88.2}",1,95.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265125,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294085,"{'01': 7.3, '36': 7.0, '45': 6.9, '25F': 6.8, '25A': 6.6}",3,7.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001103225,"{'14': 94.0, '36': 25.5, '09L': 24.1, '15B': 23.4, '15C': 23.3}",1,94.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323495,"{'17F': 99.8, '06B': 44.5, '06B-I': 44.1, '06A-III': 44.0, '06D': 43.7}",1,99.8,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297725,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001135085,"{'19F': 100.0, '19F-III': 97.5, '19F-I': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,100.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267565,"{'01': 7.8, '25F': 6.1, '25A': 5.9, '36': 5.8, '38': 5.2}",4,7.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241435,"{'19A': 99.5, '19A-III': 99.3, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,99.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216755,"{'02': 92.5, '22F': 40.2, '06B-I': 38.9, '06A-III': 38.8, '06A-II': 38.6}",1,92.5,,2,,,{},{},2,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305525,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263685,"{'35B': 99.4, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327295,"{'14': 91.5, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254135,"{'08': 99.5, '06A-II': 24.2, '02': 24.1, '06A-VI': 24.1, '06B-II': 23.6}",1,99.5,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301395,"{'14': 94.9, '36': 28.2, '09L': 25.4, '09N': 24.4, '15B': 24.2}",1,94.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398365,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266185,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001163825,"{'21': 92.2, '22F': 34.4, '06A-IV': 34.3, '06A-II': 34.0, '06A-VI': 34.0}",1,92.2,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251305,"{'06A-II': 96.3, '06A-VI': 96.3, '06B-II': 89.1, '06A-III': 88.4, '06A-V': 88.3}",1,96.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291285,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051405,"{'19A': 99.8, '19A-III': 99.6, '19A-I': 86.0, '19A-II': 83.5, '19AF': 57.0}",1,99.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001165425,"{'06D': 95.4, '06C': 87.5, '06C-I': 87.5, '06B-I': 75.6, '06A-III': 75.2}",1,95.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 89.0']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326735,"{'15C': 96.1, '15B': 96.0, '15A': 61.5, '15F': 47.8, '23A': 34.9}",1,96.1,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296165,"{'24F': 96.6, '24B': 89.4, '24F2': 85.7, '24A': 62.9, '07C': 51.8}",1,96.6,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301665,"{'09A': 95.5, '09V': 95.3, '09N': 38.7, '09L': 37.5, '11F': 26.7}",1,95.5,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230915,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900188995,"{'23F': 99.2, '23A': 65.4, '23B': 49.0, '28A': 48.1, '06A-IV': 47.1}",1,99.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244595,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283075,"{'23F': 91.2, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235335,"{'35B': 97.2, '34': 33.2, '33F': 32.8, '35C': 31.5, '35A': 31.1}",1,97.2,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315865,"{'01': 7.5, '45': 6.3, '25F': 5.8, '25A': 5.6, '22F': 5.0}",5,7.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063225,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235935,"{'09N': 100.0, '09L': 89.1, '09A': 32.7, '09V': 32.7, '36': 32.3}",1,100.0,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019397775,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259685,"{'04': 99.6, '45': 33.0, '12A': 26.8, '46': 26.7, '12F': 23.5}",1,99.6,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001103445,"{'06C-I': 88.9, '06C': 88.8, '06D': 86.8, '06A-I': 77.9, '06B': 77.6}",1,88.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 94.1]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267225,"{'01': 7.7, '25F': 6.0, '25A': 5.8, '45': 5.5, '22F': 4.9}",3,7.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231095,"{'09A': 99.3, '09V': 99.1, '09N': 38.2, '09L': 36.7, '06A-IV': 27.4}",1,99.3,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221145,"{'22A': 94.2, '22F': 77.7, '06A-IV': 45.5, '06A-II': 43.8, '06A-VI': 43.7}",1,94.2,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270115,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248165,"{'01': 99.1, '19F': 32.0, '19F-I': 31.5, '19F-III': 31.3, '19F-II': 31.0}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269045,"{'35B': 99.0, '33F': 33.4, '35C': 33.2, '34': 33.0, '35A': 32.8}",1,99.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191835,"{'19A-II': 99.9, '19A-I': 96.5, '19A': 84.9, '19A-III': 84.7, '19AF': 62.0}",1,99.9,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269725,"{'06A-III': 94.2, '06B-I': 92.8, '06A': 90.3, '06A-IV': 89.2, '06B-II': 89.1}",1,94.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313625,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338275,"{'06A-II': 85.0, '06A-VI': 85.0, '06A-III': 84.9, '06A-V': 84.5, '06A': 83.8}",1,85.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252235,"{'14': 94.3, '36': 25.9, '09L': 25.2, '09N': 24.6, '15B': 24.3}",1,94.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334495,"{'24F2': 99.9, '24B': 88.7, '24F': 87.2, '24A': 67.4, '07C': 53.9}",1,99.9,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321845,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169985,"{'14': 92.6, '36': 27.9, '09L': 24.6, '15B': 24.2, '15C': 24.1}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331045,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021022755,"{'02': 57.6, '06C': 23.4, '06B-I': 23.4, '06C-I': 23.4, '06A-II': 23.1}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304095,"{'03': 95.2, '01': 17.3, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001122985,"{'06C-I': 92.9, '06C': 92.8, '06D': 84.7, '06B-I': 81.8, '06A-III': 81.1}",1,92.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235565,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049885,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344835,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325065,"{'09A': 99.4, '09V': 99.2, '09N': 37.6, '09L': 37.2, '06A-IV': 27.4}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065575,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275675,"{'19A-II': 99.0, '19A-I': 97.1, '19A': 85.7, '19A-III': 85.5, '19AF': 62.0}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001334435,"{'36': 11.2, '23B1': 7.2, '06A-IV': 6.7, '20': 5.6, '06B-I': 5.5}",1,11.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333815,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001206435,"{'15A': 97.1, '15F': 73.5, '15C': 61.3, '15B': 61.2, '23F': 31.1}",1,97.1,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243185,"{'17F': 82.3, '06A-I': 42.2, '06B': 41.8, '06A': 41.2, '06A-III': 40.5}",1,82.3,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330675,"{'35B': 96.4, '34': 33.8, '33F': 31.8, '33B': 31.5, '35C': 31.5}",1,96.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001124765,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307505,"{'08': 99.3, '06A-II': 26.5, '06A-VI': 26.4, '06B-II': 25.8, '06A-V': 25.4}",1,99.3,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215965,"{'04': 99.8, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021022135,"{'02': 57.6, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251105,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282525,"{'35B': 99.7, '33F': 33.4, '34': 33.3, '35C': 33.2, '35A': 32.8}",1,99.7,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001162565,"{'14': 89.9, '36': 29.0, '09L': 22.8, '19F-II': 22.2, '09N': 21.7}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335915,"{'14': 94.0, '36': 25.9, '09L': 25.5, '09N': 24.7, '15B': 24.3}",1,94.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001101285,"{'36': 13.0, '20': 8.1, '06A-IV': 7.6, '01': 7.2, '06C': 6.2}",2,13.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192245,"{'06C-I': 99.8, '06C': 99.6, '06D': 84.4, '06A-II': 79.5, '06A-VI': 79.5}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319255,"{'09N': 97.9, '09L': 87.4, '09A': 32.6, '09V': 32.6, '36': 31.4}",1,97.9,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263525,"{'04': 99.5, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.5,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232385,"{'23F': 96.2, '23A': 63.1, '06A-IV': 48.9, '23B': 48.4, '28A': 47.2}",1,96.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232465,"{'06A-II': 97.9, '06A-VI': 97.9, '06B-II': 90.4, '06A-V': 89.6, '06A-III': 89.2}",1,97.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279015,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168565,"{'09A': 99.3, '09V': 99.1, '09N': 36.5, '09L': 34.9, '11F': 26.6}",1,99.3,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_909594715,"{'14': 92.5, '36': 28.9, '09L': 25.6, '09N': 24.7, '15B': 24.2}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000251085,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304755,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000251925,"{'15A': 98.3, '15F': 73.6, '15C': 62.0, '15B': 61.9, '23F': 31.7}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300525,"{'01': 99.5, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001119365,"{'09A': 99.7, '09V': 99.5, '09N': 38.0, '09L': 36.5, '06A-IV': 27.4}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333675,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194005,"{'23B': 99.5, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.8}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236875,"{'14': 91.4, '19F-IV': 25.9, '36': 25.0, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249625,"{'14': 92.6, '36': 29.0, '09L': 25.7, '09N': 24.7, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261395,"{'08': 98.0, '02': 24.4, '06A-IV': 23.3, '22F': 23.2, '06A': 22.9}",1,98.0,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168275,"{'14': 93.1, '36': 27.1, '09L': 24.4, '15B': 24.3, '15C': 24.2}",1,93.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024695,"{'24F2': 99.5, '24B': 88.3, '24F': 86.8, '24A': 71.3, '07B': 55.1}",1,99.5,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257345,"{'03': 95.2, '01': 17.1, '36': 17.1, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293685,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268435,"{'14': 91.6, '09L': 26.6, '36': 26.6, '09N': 26.3, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218575,"{'14': 91.4, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.2}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000430325,"{'23F': 95.9, '23A': 63.0, '23B': 48.3, '06A-IV': 48.1, '28A': 46.8}",1,95.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290335,"{'23F': 94.1, '23A': 63.4, '23B': 48.3, '06A-III': 47.9, '06B-I': 47.9}",1,94.1,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283615,"{'03': 97.4, '01': 17.6, '20': 15.5, '09N': 15.3, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001129365,"{'36': 99.6, '14': 26.1, '09L': 25.5, '09N': 24.6, '19F-II': 24.3}",1,99.6,,36,,,{},{},36,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216845,"{'11D': 99.8, '11A': 97.0, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,99.8,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190155,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001101025,"{'25F': 5.2, '25A': 5.0, '22F': 4.8, '38': 4.3, '35B': 3.7}",2,5.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900459735,"{'08': 99.7, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.7,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262785,"{'06D': 87.8, '06C-I': 85.6, '06C': 85.4, '06A': 79.0, '06B-II': 78.5}",1,87.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 86.1']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321315,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001202115,"{'36': 13.3, '20': 8.8, '23B1': 7.9, '06A-IV': 7.1, '06B-I': 5.9}",1,13.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280075,"{'19A-II': 100.0, '19A-I': 96.6, '19A': 85.0, '19A-III': 84.8, '19AF': 62.1}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281875,"{'01': 7.0, '36': 6.3, '25F': 5.7, '45': 5.6, '25A': 5.5}",2,7.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250925,"{'19F': 97.1, '19F-I': 96.1, '19F-III': 95.3, '19F-II': 95.2, '19F-IV': 90.7}",1,97.1,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289465,"{'34': 93.0, '33F2': 34.7, '35B': 32.2, '33F': 29.0, '33C': 28.0}",1,93.0,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_015839235,"{'24F2': 99.7, '24B': 88.5, '24F': 87.0, '24A': 71.0, '07B': 56.8}",1,99.7,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216865,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251685,"{'08': 96.3, '02': 23.8, '06A': 22.6, '22F': 22.6, '35B': 22.1}",1,96.3,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329805,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051845,"{'23B1': 100.0, '23B': 55.8, '19A-II': 36.2, '19A-I': 35.9, '19AF': 31.3}",1,100.0,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334465,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.5, '46': 81.4}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001093805,"{'36': 9.7, '20': 6.7, '06A-IV': 6.3, '23B1': 6.1, '45': 5.6}",1,9.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001101745,"{'13': 83.6, '36': 25.5, '14': 25.3, '09L': 24.8, '09N': 24.5}",1,83.6,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900037195,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335305,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303525,"{'15C': 95.7, '15B': 95.6, '15A': 61.2, '15F': 47.6, '23A': 34.6}",1,95.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308215,"{'22F': 88.7, '22A': 68.4, '06A-IV': 45.6, '06A-II': 44.4, '06A-VI': 44.3}",1,88.7,,22F,,,{},{},22F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043825,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268945,"{'06A': 86.6, '06A-V': 85.9, '06A-IV': 85.8, '06B-II': 85.8, '06B-I': 83.6}",1,86.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 80.44']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239065,"{'18C': 93.7, '18B': 93.6, '18F': 75.6, '18A': 62.7, '16F': 39.6}",1,93.7,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249845,"{'06A-V': 100.0, '06B-II': 95.1, '06A': 92.0, '06A-II': 90.6, '06A-VI': 90.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323455,"{'12F': 95.9, '12B': 93.3, '44': 92.9, '12A': 84.8, '46': 81.7}",1,95.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293185,"{'05': 95.1, '45': 22.5, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.1,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047895,"{'03': 95.5, '20': 17.6, '01': 16.9, '36': 16.4, '09L': 15.9}",1,95.5,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275215,"{'02': 92.5, '22F': 40.1, '06B-I': 38.8, '06A-III': 38.7, '06A-II': 38.5}",1,92.5,,2,,,{},{},2,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273735,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277735,"{'21': 91.6, '22F': 36.7, '06A-IV': 31.4, '06A-II': 30.9, '06A-VI': 30.9}",1,91.6,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001330875,"{'06E': 99.8, '06B-III': 97.2, '06B-I': 44.8, '06A-III': 44.3, '06B-II': 43.5}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224165,"{'15C': 87.6, '15B': 87.5, '15A': 64.4, '15F': 49.8, '23A': 30.1}",1,87.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338795,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001144565,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253985,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283415,"{'28F': 93.9, '28A': 88.9, '23F': 48.2, '16F': 44.2, '06A-IV': 41.6}",1,93.9,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270125,"{'08': 99.8, '06A-II': 26.1, '06A-VI': 26.0, '06B-II': 25.4, '06A-V': 25.0}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256765,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A': 46.2}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194965,"{'15C': 93.9, '15B': 93.8, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001156105,"{'01': 6.9, '36': 6.9, '45': 6.8, '20': 5.9, '22F': 5.3}",3,6.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260635,"{'07A': 97.3, '07F': 97.1, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,97.3,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056155,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340975,"{'23A': 96.6, '23F': 67.7, '23B': 45.9, '19F-II': 39.4, '15B': 38.5}",1,96.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306335,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.6, '19A-III': 87.4, '19AF': 61.9}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 92.87]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301505,"{'23F': 99.0, '23A': 64.8, '23B': 47.6, '28A': 47.5, '06A-V': 45.8}",1,99.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295305,"{'06E': 96.8, '06B-III': 96.0, '06B-I': 46.5, '06A-III': 45.9, '06A-IV': 45.2}",1,96.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 96.61]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230725,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001143385,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342475,"{'22A': 94.2, '22F': 77.7, '06A-IV': 45.4, '06A-II': 43.7, '06A-VI': 43.6}",1,94.2,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230405,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231965,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266335,"{'15C': 87.7, '15B': 87.6, '15A': 60.9, '15F': 48.0, '23A': 31.3}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252845,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.6, '19A-III': 87.4, '19AF': 61.9}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 92.87]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301305,"{'23F': 97.4, '23A': 64.0, '06A-IV': 48.0, '23B': 47.7, '28A': 47.7}",1,97.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323675,"{'35B': 99.4, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228395,"{'14': 91.4, '19F-IV': 25.9, '36': 25.1, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278205,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001135205,"{'11F': 61.7, '11D': 38.3, '11A': 36.8, '09A': 25.3, '09V': 25.3}",1,61.7,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229255,"{'08': 99.8, '02': 24.4, '06A-II': 24.3, '06A-VI': 24.2, '06B-II': 23.7}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001090565,"{'16F': 99.9, '28F': 42.4, '19F-IV': 41.1, '18A': 40.9, '18F': 40.7}",1,99.9,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900693005,"{'15B': 99.5, '15C': 99.2, '15A': 62.7, '15F': 48.3, '23A': 32.7}",1,99.5,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230795,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.8, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032975,"{'23B': 99.4, '23B1': 64.6, '23F': 45.7, '23A': 39.9, '06A-IV': 36.8}",1,99.4,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001131985,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292565,"{'14': 91.5, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900048875,"{'01': 90.6, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,90.6,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293265,"{'23F': 96.0, '23A': 62.7, '06A-IV': 48.8, '23B': 48.1, '28A': 47.2}",1,96.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284225,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313415,"{'15C': 95.6, '15B': 95.5, '15A': 61.1, '15F': 47.5, '23A': 34.7}",1,95.6,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268285,"{'14': 92.4, '36': 25.7, '09L': 24.7, '09N': 23.8, '15B': 23.5}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001200655,"{'23A': 97.5, '23F': 68.8, '23B': 40.1, '19F-II': 39.2, '15B': 38.8}",1,97.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001154785,"{'06E': 99.4, '06B-III': 98.8, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001150285,"{'10B': 99.5, '10A': 65.3, '10F': 20.1, '10C': 18.8, '47A': 12.6}",1,99.5,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310875,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217235,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001336195,"{'11F': 61.7, '11D': 38.3, '11A': 36.8, '09A': 25.3, '09V': 25.3}",1,61.7,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001118925,"{'23A': 97.5, '23F': 68.8, '23B': 40.1, '19F-II': 39.2, '15B': 38.8}",1,97.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341415,"{'05': 95.3, '45': 22.5, '36': 21.7, '20': 20.3, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051535,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001112685,"{'19F-I': 95.5, '19F': 95.2, '19F-III': 93.7, '19F-II': 92.4, '19F-IV': 88.4}",1,95.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001122425,"{'15C': 87.8, '15B': 87.7, '15A': 64.6, '15F': 50.0, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282205,"{'38': 90.2, '25F': 86.1, '25A': 85.1, '36': 11.9, '20': 8.4}",1,90.2,25F_25A_38,25F_25A_38,,"[[0], [18]]","{'wcyD': ['b: 22.59'], 'wcyV': 4.69}","{'wcyD': 0, 'wcyV': 'not_detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325985,"{'06E': 89.8, '06B-III': 88.7, '06B-I': 52.2, '06A-III': 51.1, '06A-II': 49.7}",1,89.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001206255,"{'19F-I': 95.3, '19F': 95.0, '19F-III': 93.5, '19F-II': 92.2, '19F-IV': 88.2}",1,95.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236525,"{'14': 92.7, '36': 28.8, '09L': 25.7, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219335,"{'31': 99.8, '41A': 57.3, '41F': 49.0, '06A-II': 36.5, '06A-VI': 36.5}",1,99.8,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259025,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312195,"{'19F-II': 98.3, '19F-I': 95.4, '19F-III': 95.1, '19F': 95.0, '19F-IV': 92.7}",1,98.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292365,"{'14': 89.3, '36': 27.6, '09L': 27.3, '09N': 27.0, '15B': 25.4}",1,89.3,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246855,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214845,"{'05': 95.0, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001129645,"{'38': 88.4, '25F': 84.4, '25A': 83.6, '36': 11.9, '20': 7.9}",1,88.4,25F_25A_38,25F_25A_38,,"[[0], [18]]","{'wcyD': ['b: 22.59'], 'wcyV': 4.69}","{'wcyD': 0, 'wcyV': 'not_detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328905,"{'06A-III': 88.8, '06B-I': 87.7, '06A-II': 87.1, '06A-V': 87.1, '06A-VI': 87.1}",1,88.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311385,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224375,"{'11D': 80.2, '11A': 78.9, '11F': 45.2, '11B': 34.7, '11C': 31.0}",1,80.2,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900038165,"{'33F': 99.8, '33A': 97.3, '33F2': 70.8, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332245,"{'03': 96.6, '01': 17.9, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,96.6,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312475,"{'23F': 96.3, '23A': 63.2, '06A-IV': 48.6, '23B': 48.4, '28A': 47.0}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001161465,"{'20': 86.5, '36': 27.7, '13': 25.6, '09L': 24.6, '47F': 24.6}",1,86.5,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220025,"{'16F': 96.7, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051125,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000233045,"{'19A': 99.1, '19A-III': 98.9, '19A-I': 86.0, '19A-II': 83.7, '19AF': 57.0}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220735,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342645,"{'04': 98.3, '45': 34.8, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338835,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273795,"{'13': 83.7, '36': 32.1, '14': 27.2, '15B': 26.7, '15C': 26.3}",1,83.7,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233945,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337595,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001116805,"{'36': 11.5, '23B1': 7.2, '06A-IV': 6.7, '20': 6.4, '45': 6.4}",1,11.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252505,"{'14': 93.0, '36': 27.3, '09L': 25.7, '09N': 25.5, '15B': 24.3}",1,93.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254645,"{'23F': 96.7, '23A': 63.9, '23B': 48.0, '28A': 47.6, '06B-II': 46.0}",1,96.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218465,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029615,"{'38': 98.8, '25F': 84.4, '25A': 83.4, '36': 11.7, '20': 8.2}",1,98.8,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330935,"{'06E': 99.6, '06B-III': 99.3, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314605,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275355,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001119725,"{'06C-I': 87.8, '06C': 87.7, '06D': 84.7, '06A': 77.0, '06A-IV': 75.2}",1,87.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310445,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222755,"{'18C': 99.3, '18B': 99.2, '18F': 76.0, '18A': 62.7, '16F': 39.3}",1,99.3,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270185,"{'14': 99.2, '09L': 26.6, '36': 25.7, '09N': 24.3, '15B': 24.0}",1,99.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001860645,"{'22F': 98.4, '22A': 73.1, '06A': 42.5, '06B': 42.0, '06A-II': 41.8}",1,98.4,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329895,"{'19A-II': 99.0, '19A-I': 97.1, '19A': 85.7, '19A-III': 85.5, '19AF': 62.0}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001301795,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-I': 41.8}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907172175,"{'14': 92.4, '36': 28.1, '09L': 24.9, '15B': 24.2, '09N': 24.1}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299525,"{'06A-III': 94.3, '06B-I': 92.9, '06A': 90.3, '06A-IV': 89.0, '06B-II': 88.9}",1,94.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286355,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228225,"{'23F': 99.4, '23A': 65.2, '28A': 47.8, '23B': 47.7, '06A-V': 45.6}",1,99.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193025,"{'19A-II': 99.5, '19A-I': 96.2, '19A': 84.6, '19A-III': 84.4, '19AF': 62.0}",1,99.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 92.87]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225495,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_016878905,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309195,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001114485,"{'19F-I': 95.5, '19F': 95.2, '19F-III': 93.7, '19F-II': 92.4, '19F-IV': 88.4}",1,95.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223565,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258145,"{'09L': 99.4, '09N': 89.7, '36': 32.6, '09A': 31.5, '09V': 31.5}",1,99.4,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329985,"{'08': 97.4, '06A-IV': 24.9, '02': 24.3, '06A-II': 23.9, '06A-VI': 23.8}",1,97.4,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278955,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232285,"{'23F': 99.0, '23A': 64.8, '23B': 47.6, '28A': 47.5, '06A-V': 45.8}",1,99.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246665,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286945,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.8, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238025,"{'06A-II': 85.0, '06A-VI': 85.0, '06A-III': 84.8, '06A-V': 84.4, '06A': 83.5}",1,85.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001114825,"{'06C-I': 88.7, '06C': 88.6, '06D': 86.4, '06A-I': 78.0, '06B': 77.7}",1,88.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340785,"{'03': 98.2, '01': 18.1, '09N': 15.8, '20': 15.6, '09L': 15.2}",1,98.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236685,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262895,"{'06A-II': 95.6, '06A-VI': 95.6, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220485,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293995,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213885,"{'38': 98.8, '25F': 84.4, '25A': 83.4, '36': 11.8, '20': 8.2}",1,98.8,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328775,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 89.6, '06A': 87.7, '06A-III': 86.1}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260395,"{'06E': 99.9, '06B-III': 99.4, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331195,"{'15C': 95.3, '15B': 95.2, '15A': 60.8, '15F': 47.3, '23A': 34.0}",1,95.3,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252045,"{'03': 95.2, '01': 17.2, '36': 17.1, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398005,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.8, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260245,"{'11D': 80.2, '11A': 78.9, '11F': 45.1, '11B': 34.6, '11C': 31.0}",1,80.2,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282845,"{'15A': 99.5, '15F': 73.8, '15C': 62.2, '15B': 62.1, '23F': 31.3}",1,99.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276195,"{'18A': 100.0, '18B': 54.0, '18C': 54.0, '18F': 53.7, '19F-IV': 37.2}",1,100.0,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029765,"{'33F2': 99.9, '33F': 74.7, '33A': 70.3, '34': 41.6, '35B': 32.3}",1,99.9,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245485,"{'14': 89.6, '36': 27.5, '09L': 24.0, '09N': 23.6, '19F-II': 22.1}",1,89.6,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303865,"{'15C': 95.9, '15B': 95.8, '15A': 61.2, '15F': 47.5, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262505,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.7, '06B-II': 35.1, '06A-V': 34.9}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001255215,"{'03': 95.0, '20': 17.4, '01': 16.7, '36': 16.5, '09L': 16.3}",1,95.0,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001084365,"{'14': 89.6, '36': 28.4, '09L': 23.7, '09N': 23.0, '19F-II': 22.2}",1,89.6,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320245,"{'34': 98.7, '33F2': 35.2, '35B': 33.5, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225285,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054765,"{'08': 99.8, '06A-II': 26.1, '06A-VI': 26.0, '06B-II': 25.4, '06A-V': 25.0}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021725,"{'14': 100.0, '09L': 26.8, '36': 25.6, '09N': 24.5, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333495,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306165,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030825,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001196065,"{'36': 11.1, '06A-IV': 7.6, '20': 7.0, '06C': 6.3, '06B-I': 6.3}",1,11.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283505,"{'13': 98.8, '09N': 29.1, '09L': 28.7, '20': 28.6, '36': 27.4}",1,98.8,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021915,"{'06B-I': 99.5, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219935,"{'15A': 98.5, '15F': 73.1, '15C': 61.8, '15B': 61.7, '23F': 32.2}",1,98.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170425,"{'14': 92.1, '36': 28.0, '15B': 24.0, '09L': 23.9, '15C': 23.9}",1,92.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315905,"{'19F-I': 92.0, '19F': 91.4, '19F-III': 90.7, '19F-II': 89.2, '19F-IV': 87.6}",1,92.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001111265,"{'14': 94.1, '36': 25.9, '09L': 24.5, '15B': 24.2, '15C': 24.1}",1,94.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907172245,"{'14': 92.5, '09L': 25.6, '36': 25.6, '09N': 24.7, '15B': 24.2}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309695,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 32.7}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228105,"{'15A': 99.2, '15F': 73.7, '15C': 61.8, '15B': 61.7, '23F': 31.5}",1,99.2,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238795,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317175,"{'24F': 96.6, '24B': 89.4, '24F2': 85.7, '24A': 62.9, '07C': 51.8}",1,96.6,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295525,"{'19A': 99.2, '19A-III': 99.0, '19A-I': 86.1, '19A-II': 83.8, '19AF': 57.2}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344675,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190095,"{'06B-I': 99.6, '06A-III': 97.5, '06B-II': 90.1, '06A': 89.8, '06A-V': 88.2}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291465,"{'19AF': 97.1, '19A-II': 61.5, '19A-I': 60.9, '19A': 52.1, '19A-III': 51.9}",1,97.1,19A_19AF,19A_19AF,,[[7]],"{'wzy': [2, 92.87]}",{'wzy': 2},19A_19AF,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000171595,"{'07A': 99.5, '07F': 99.3, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",3,99.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001165525,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307205,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001193675,"{'35B': 94.7, '33F': 33.7, '35C': 33.4, '34': 33.1, '35A': 33.0}",1,94.7,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024245,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344055,"{'19F-I': 95.4, '19F': 95.1, '19F-III': 93.6, '19F-II': 92.3, '19F-IV': 88.3}",1,95.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278935,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233415,"{'01': 99.3, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251335,"{'22F': 98.8, '22A': 73.3, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,98.8,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033005,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307535,"{'15C': 87.6, '15B': 87.5, '15A': 64.5, '15F': 49.9, '23A': 29.9}",1,87.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052745,"{'10A': 94.2, '10B': 64.8, '10C': 29.3, '10F': 19.7, '47A': 16.8}",1,94.2,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001129625,"{'36': 11.0, '06A-IV': 7.5, '20': 7.4, '45': 6.4, '06B-I': 6.3}",1,11.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218245,"{'29': 99.2, '39': 21.1, '35F': 19.4, '22F': 16.8, '35B': 16.4}",1,99.2,,29,,,{},{},29,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335645,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260825,"{'35B': 99.8, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236235,"{'34': 92.5, '33F2': 34.5, '35B': 31.9, '33F': 28.8, '33C': 27.7}",1,92.5,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226125,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.1, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336805,"{'35F': 99.0, '47F': 74.5, '34': 26.6, '35B': 26.2, '29': 22.3}",1,99.0,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230255,"{'14': 92.7, '36': 28.8, '09L': 25.7, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191605,"{'19A-II': 100.0, '19A-I': 96.6, '19A': 85.0, '19A-III': 84.8, '19AF': 62.1}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001203355,"{'46': 98.7, '12A': 96.4, '12B': 84.3, '44': 82.3, '12F': 82.1}",1,98.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[4]],"{'wciI': [1, 100.0]}",{'wciI': 1},12A/12B/44/46,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900693065,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249055,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310605,"{'15A': 99.9, '15F': 74.2, '15C': 61.9, '15B': 61.8, '23F': 31.6}",1,99.9,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327675,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 94.0, '19F-II': 92.7, '19F-IV': 88.8}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032375,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192115,"{'01': 6.7, '45': 6.3, '25F': 6.0, '25A': 5.8, '22F': 5.2}",2,6.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001334275,"{'36': 10.6, '20': 5.9, '06B-I': 5.5, '06C': 5.4, '06C-I': 5.4}",1,10.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001123865,"{'06A': 99.9, '06A-IV': 98.9, '06B-II': 94.7, '06A-V': 93.0, '06A-III': 91.0}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001136825,"{'09A': 99.4, '09V': 99.2, '09N': 37.1, '09L': 35.3, '11F': 26.6}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001098045,"{'06E': 99.8, '06B-III': 94.2, '06A-I': 42.4, '06B': 42.1, '06B-I': 41.8}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 96.61]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286255,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.5}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001147665,"{'06C': 85.6, '06C-I': 85.6, '06D': 84.7, '06A': 77.0, '06A-IV': 73.3}",1,85.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001083505,"{'06A': 90.4, '06A-III': 89.3, '06A-II': 89.2, '06A-VI': 89.2, '06B-II': 89.2}",1,90.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001110665,"{'34': 93.3, '33F2': 35.3, '35B': 32.3, '33F': 29.3, '33C': 28.8}",1,93.3,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063775,"{'06A': 93.5, '06A-III': 91.5, '06B-I': 91.4, '06B-II': 91.2, '06A-V': 90.6}",1,93.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318405,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330055,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001301295,"{'06C-I': 89.0, '06C': 88.9, '06D': 86.9, '06A-I': 78.0, '06B': 77.7}",1,89.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 94.1]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329565,"{'14': 94.6, '36': 26.2, '09L': 25.3, '09N': 24.7, '15B': 24.3}",1,94.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001098025,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347435,"{'23F': 96.8, '23A': 66.4, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255625,"{'18C': 88.4, '18B': 88.3, '18F': 77.7, '18A': 61.4, '16F': 37.5}",1,88.4,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284115,"{'06A-II': 95.1, '06A-VI': 95.1, '06B-II': 89.1, '06A-V': 88.7, '06A-III': 87.9}",1,95.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336885,"{'01': 98.9, '19F': 32.0, '19F-I': 31.5, '19F-III': 31.3, '19F-II': 31.0}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341295,"{'10B': 99.3, '10A': 65.2, '10F': 20.1, '10C': 18.8, '22F': 14.0}",1,99.3,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192985,"{'21': 95.8, '22F': 38.0, '06A-II': 33.7, '06A-VI': 33.6, '06A-III': 33.0}",1,95.8,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001083905,"{'06A-III': 99.8, '06B-I': 98.2, '06B-II': 91.1, '06A': 90.8, '06A-V': 90.2}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263555,"{'01': 99.0, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246205,"{'35B': 99.4, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193935,"{'35B': 99.8, '33F': 33.5, '34': 33.3, '35C': 33.3, '35A': 32.9}",1,99.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293095,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294275,"{'03': 95.2, '01': 18.2, '36': 17.4, '20': 16.1, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001119025,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253915,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.6, '19A-III': 87.4, '19AF': 61.9}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 92.87]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001109185,"{'36': 11.8, '20': 8.0, '06A-IV': 7.5, '45': 6.4, '06B-I': 6.4}",1,11.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247905,"{'34': 98.7, '33F2': 35.2, '35B': 33.5, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251925,"{'18C': 88.4, '18B': 88.3, '18F': 77.7, '18A': 61.5, '16F': 37.5}",1,88.4,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900195215,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001140425,"{'09L': 96.6, '09N': 87.2, '09A': 31.0, '09V': 31.0, '36': 26.8}",1,96.6,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224525,"{'18C': 98.9, '18B': 98.8, '18F': 75.6, '18A': 62.5, '16F': 38.9}",1,98.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_016890235,"{'14': 92.6, '36': 27.3, '09L': 25.9, '09N': 24.9, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335075,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001139865,"{'07A': 98.3, '07F': 98.1, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,98.3,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001206675,"{'36': 11.3, '20': 8.1, '45': 6.8, '01': 6.6, '06B-I': 5.8}",1,11.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053895,"{'06A-II': 95.4, '06A-VI': 95.4, '06B-II': 89.4, '06A-V': 89.0, '06A-III': 88.3}",1,95.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280525,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233525,"{'19F': 100.0, '19F-III': 97.5, '19F-I': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,100.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001085505,"{'45': 5.6, '20': 5.3, '25F': 5.1, '22F': 5.0, '25A': 5.0}",1,5.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331675,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277635,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223495,"{'19F-II': 99.3, '19F': 95.1, '19F-III': 94.1, '19F-I': 93.8, '19F-IV': 93.2}",1,99.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217295,"{'34': 98.6, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.6,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191165,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228825,"{'06D': 87.8, '06C-I': 85.5, '06C': 85.3, '06A': 78.8, '06B-II': 78.5}",1,87.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 86.1']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171315,"{'14': 92.5, '36': 28.7, '09L': 24.8, '15B': 24.2, '15C': 24.1}",1,92.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237575,"{'06A-II': 85.4, '06A-VI': 85.4, '06A-III': 85.3, '06A-V': 84.7, '06A': 83.9}",1,85.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266845,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303445,"{'23F': 92.4, '23A': 61.1, '28A': 48.1, '23B': 46.6, '06A-IV': 46.6}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001193595,"{'06C': 83.9, '06C-I': 83.9, '06D': 83.0, '06A': 75.2, '06A-IV': 71.7}",1,83.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253475,"{'20': 81.9, '47F': 25.9, '09L': 24.5, '35A': 24.5, '36': 24.2}",1,81.9,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303275,"{'33F': 100.0, '33A': 99.7, '33F2': 70.9, '35C': 42.8, '42': 41.8}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332585,"{'10A': 98.9, '10B': 67.1, '10C': 27.5, '10F': 18.1, '22F': 15.5}",1,98.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001127365,"{'19F-I': 95.3, '19F': 95.0, '19F-III': 93.5, '19F-II': 92.2, '19F-IV': 88.2}",1,95.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262355,"{'06B-III': 94.4, '06E': 93.9, '06A-III': 46.8, '06B-I': 46.6, '06A-II': 46.4}",1,94.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330265,"{'05': 95.2, '45': 22.2, '36': 21.1, '12A': 19.7, '46': 19.6}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260205,"{'16F': 99.8, '28F': 42.4, '19F-IV': 41.0, '18A': 40.9, '18F': 40.7}",1,99.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001092925,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268835,"{'15C': 87.7, '15B': 87.6, '15A': 60.9, '15F': 48.0, '23A': 31.3}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256525,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321765,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 94.0, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292265,"{'15C': 96.2, '15B': 96.1, '15A': 61.5, '15F': 47.8, '23A': 34.7}",1,96.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219885,"{'19B': 92.9, '19C': 71.8, '19F-IV': 51.1, '19F-II': 51.0, '19F-I': 50.1}",1,92.9,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001201475,"{'36': 9.6, '20': 7.8, '06A-IV': 6.4, '45': 6.0, '01': 5.3}",1,9.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222765,"{'15C': 95.9, '15B': 95.8, '15A': 61.5, '15F': 47.8, '23A': 34.5}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001302095,"{'17F': 99.3, '06B': 44.3, '06B-I': 44.2, '06A-III': 44.1, '06D': 43.7}",1,99.3,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001109685,"{'34': 92.9, '33F2': 34.7, '35B': 30.4, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322905,"{'19A-II': 93.6, '19A-I': 90.3, '19A': 78.7, '19A-III': 78.6, '19AF': 59.3}",1,93.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292615,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001129525,"{'35F': 88.6, '47F': 64.8, '34': 25.6, '35B': 23.8, '29': 22.5}",1,88.6,,35F,,,{},{},35F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063165,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327415,"{'19F-I': 95.9, '19F': 95.6, '19F-III': 94.0, '19F-II': 92.8, '19F-IV': 88.8}",1,95.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001301595,"{'01': 6.8, '45': 5.8, '25F': 5.6, '25A': 5.4, '20': 5.2}",2,6.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274915,"{'33C': 61.5, '33B': 38.0, '33D': 38.0, '34': 29.6, '33F2': 23.5}",1,61.5,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190085,"{'06A-IV': 99.9, '06A': 99.7, '06B-II': 95.1, '06A-V': 93.5, '06A-III': 91.3}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262175,"{'15C': 89.7, '15B': 89.5, '15A': 62.5, '15F': 49.3, '23A': 31.0}",1,89.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223215,"{'17F': 99.7, '06B': 44.4, '06B-I': 43.7, '06D': 43.6, '06A-III': 43.6}",1,99.7,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900037165,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030445,"{'19A-II': 100.0, '19A-I': 96.6, '19A': 85.0, '19A-III': 84.8, '19AF': 62.1}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261535,"{'06E': 96.8, '06B-III': 96.7, '06B-I': 46.0, '06A-III': 45.5, '06A-II': 44.6}",1,96.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286095,"{'19F-I': 98.0, '19F-II': 95.3, '19F-III': 95.2, '19F': 95.1, '19F-IV': 90.7}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033805,"{'03': 95.2, '07F': 33.3, '07A': 33.2, '01': 24.2, '36': 19.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328415,"{'03': 95.2, '36': 17.1, '01': 16.4, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270845,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316865,"{'01': 26.9, '06C': 20.3, '06C-I': 20.3, '06A-II': 19.4, '06A-V': 19.4}",1,26.9,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328875,"{'09A': 96.0, '09V': 95.8, '09N': 38.5, '09L': 37.4, '11F': 26.7}",1,96.0,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275745,"{'15C': 87.8, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239825,"{'22F': 98.9, '22A': 73.2, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,98.9,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237365,"{'01': 99.3, '19F': 32.5, '19F-I': 32.1, '19F-III': 31.8, '19F-II': 31.5}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219665,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194495,"{'23B': 99.5, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.8}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243295,"{'18C': 88.5, '18B': 88.4, '18F': 77.8, '18A': 61.8, '16F': 37.6}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167585,"{'14': 91.1, '36': 26.3, '09L': 25.5, '09N': 24.7, '15B': 23.2}",1,91.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900058645,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255365,"{'23F': 96.6, '23A': 63.2, '06A-IV': 48.8, '23B': 48.4, '28A': 47.2}",1,96.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296505,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340655,"{'05': 95.0, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311075,"{'15C': 95.7, '15B': 95.5, '15A': 61.1, '15F': 47.5, '23A': 34.7}",1,95.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226375,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329635,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236645,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168155,"{'09A': 99.6, '09V': 99.4, '09N': 38.4, '09L': 36.6, '11F': 26.6}",1,99.6,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900048815,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337345,"{'07A': 91.1, '07F': 90.9, '19F-II': 39.3, '19F': 37.8, '19F-IV': 37.8}",1,91.1,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264115,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.5}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019446915,"{'35B': 98.1, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,98.1,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054275,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000279595,"{'11D': 99.7, '11A': 96.9, '11F': 42.0, '11C': 35.8, '11B': 34.3}",1,99.7,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001155925,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228465,"{'14': 93.5, '36': 26.0, '09L': 25.3, '09N': 24.1, '15B': 24.0}",1,93.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314575,"{'19A': 92.4, '19A-III': 92.2, '19A-II': 83.1, '19A-I': 81.1, '19AF': 56.1}",1,92.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001169805,"{'34': 92.9, '33F2': 34.7, '35B': 31.6, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033525,"{'23F': 97.7, '23A': 63.2, '28A': 48.2, '23B': 48.1, '06A-IV': 46.7}",1,97.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900059345,"{'06C': 84.8, '06C-I': 84.8, '06D': 84.4, '06A-I': 79.8, '06B': 79.7}",1,84.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 89.8']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213935,"{'39': 99.6, '29': 27.5, '34': 22.3, '43': 19.4, '33C': 18.5}",1,99.6,,39,,,{},{},39,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277075,"{'17F': 82.3, '06A-I': 42.2, '06B': 41.8, '06A': 41.2, '22F': 40.3}",1,82.3,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305485,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314285,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001168485,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322725,"{'05': 95.0, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001121685,"{'19F-I': 95.5, '19F': 95.2, '19F-III': 93.7, '19F-II': 92.4, '19F-IV': 88.4}",1,95.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251015,"{'09A': 98.1, '09V': 97.9, '09N': 38.2, '09L': 36.6, '11F': 26.6}",1,98.1,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235555,"{'14': 92.7, '36': 28.8, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215425,"{'23F': 97.0, '23A': 63.9, '23B': 47.9, '28A': 47.7, '28F': 46.0}",1,97.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001091085,"{'18C': 93.7, '18B': 93.6, '18F': 75.6, '18A': 62.7, '16F': 39.6}",1,93.7,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001130065,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311765,"{'14': 93.4, '09L': 25.8, '09N': 25.1, '36': 25.1, '15B': 24.2}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262985,"{'35A': 93.8, '35C': 84.3, '42': 83.5, '33A': 41.8, '33F': 41.6}",1,93.8,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245545,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249905,"{'36': 10.9, '01': 7.0, '23B1': 6.6, '06A-IV': 6.6, '45': 6.4}",1,10.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900036565,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214285,"{'09A': 95.8, '09V': 95.6, '09N': 39.0, '09L': 37.0, '06A-IV': 26.3}",1,95.8,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341435,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191135,"{'22F': 98.7, '22A': 73.3, '06A': 42.5, '06B': 42.0, '06A-I': 41.7}",1,98.7,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191565,"{'11D': 99.9, '11A': 97.1, '11F': 41.9, '11C': 35.9, '11B': 34.4}",1,99.9,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287365,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308595,"{'06E': 100.0, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170315,"{'14': 90.2, '36': 28.1, '09L': 25.0, '15B': 24.0, '15C': 23.9}",1,90.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900034155,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001141285,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025945,"{'04': 99.8, '45': 33.3, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216405,"{'19AF': 96.7, '19A-II': 63.0, '19A-I': 62.3, '19A': 51.8, '19A-III': 51.6}",1,96.7,19A_19AF,19A_19AF,,[[7]],"{'wzy': [2, 97.62]}",{'wzy': 2},19A_19AF,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001212105,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259515,"{'18C': 88.3, '18B': 88.2, '18F': 77.8, '18A': 61.6, '16F': 37.6}",1,88.3,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259955,"{'35B': 99.4, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264915,"{'23B': 99.1, '23B1': 64.1, '23F': 45.8, '23A': 40.0, '06A-IV': 36.8}",1,99.1,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001198555,"{'23A': 96.6, '23F': 67.7, '23B': 45.9, '19F-II': 39.4, '15B': 38.5}",1,96.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001326555,"{'07A': 99.8, '07F': 98.9, '19F-II': 36.2, '19F-IV': 35.6, '19F': 34.8}",1,99.8,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307785,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250855,"{'15A': 99.2, '15F': 73.7, '15C': 61.8, '15B': 61.7, '23F': 31.5}",1,99.2,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338905,"{'12F': 96.4, '44': 93.4, '12B': 93.3, '12A': 84.8, '46': 81.7}",1,96.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326665,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215225,"{'23F': 92.2, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.4}",1,92.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001106245,"{'16F': 98.0, '28F': 42.8, '19F-IV': 41.2, '18A': 41.0, '18F': 41.0}",1,98.0,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251655,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031105,"{'23F': 99.0, '23A': 64.8, '23B': 47.6, '28A': 47.5, '06A-V': 45.8}",1,99.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900036195,"{'24F': 97.0, '24B': 89.7, '24F2': 86.5, '24A': 63.0, '07C': 51.9}",1,97.0,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270535,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001457635,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171635,"{'14': 92.0, '36': 28.2, '09L': 24.6, '15B': 24.1, '15C': 24.0}",1,92.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001139085,"{'46': 98.7, '12A': 96.4, '12B': 84.3, '44': 82.3, '12F': 82.1}",1,98.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[4]],"{'wciI': [1, 100.0]}",{'wciI': 1},12A/12B/44/46,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049525,"{'15A': 98.5, '15F': 73.7, '15C': 62.0, '15B': 61.9, '23F': 31.9}",1,98.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302675,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302925,"{'14': 93.0, '36': 27.3, '09L': 25.8, '09N': 25.5, '15B': 24.3}",1,93.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329845,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253205,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063495,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248145,"{'06E': 98.7, '06B-III': 98.3, '06B-I': 47.3, '06A-III': 46.8, '06A-II': 46.2}",1,98.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296395,"{'07A': 91.1, '07F': 90.9, '19F-II': 39.3, '19F': 37.8, '19F-IV': 37.8}",1,91.1,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315205,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001149705,"{'11D': 99.8, '11A': 97.0, '11F': 42.0, '11C': 35.7, '11B': 34.2}",1,99.8,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033055,"{'19A': 99.4, '19A-III': 99.2, '19A-I': 86.1, '19A-II': 83.9, '19AF': 57.2}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001102305,"{'06C': 85.2, '06C-I': 85.2, '06D': 84.2, '06A': 76.9, '06A-IV': 73.3}",1,85.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001097345,"{'19A': 99.4, '19A-III': 99.2, '19A-I': 85.6, '19A-II': 83.1, '19AF': 56.7}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269975,"{'04': 99.2, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282745,"{'14': 90.2, '36': 27.7, '09L': 24.1, '09N': 22.9, '19F-II': 22.1}",1,90.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216815,"{'05': 95.0, '45': 22.5, '36': 21.3, '12A': 19.8, '46': 19.7}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299235,"{'34': 93.0, '33F2': 34.7, '35B': 32.1, '33F': 29.0, '33C': 28.0}",1,93.0,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251675,"{'06A-I': 98.8, '06B': 94.6, '06A-V': 89.0, '06A': 87.7, '06A-III': 85.6}",1,98.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031365,"{'03': 95.2, '01': 17.1, '36': 16.5, '20': 15.8, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000251245,"{'06A-II': 97.9, '06A-VI': 97.9, '06B-II': 90.4, '06A-V': 89.6, '06A-III': 89.2}",1,97.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327995,"{'09A': 95.9, '09V': 95.7, '09N': 38.8, '09L': 37.4, '11F': 26.6}",1,95.9,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170895,"{'14': 92.7, '36': 28.3, '09L': 25.1, '15B': 24.2, '15C': 24.1}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017885,"{'15C': 93.5, '15B': 93.4, '15A': 61.7, '15F': 48.3, '14': 33.0}",1,93.5,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268325,"{'17F': 99.8, '06B': 44.5, '06B-I': 44.1, '06A-III': 44.0, '06D': 43.7}",1,99.8,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261255,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027355,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310155,"{'03': 94.9, '20': 17.6, '01': 16.7, '09L': 16.4, '36': 16.4}",1,94.9,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325635,"{'35A': 92.3, '35C': 89.9, '42': 89.3, '33A': 45.0, '33F': 44.4}",1,92.3,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296905,"{'12A': 93.4, '12B': 92.8, '46': 91.0, '12F': 86.6, '44': 83.9}",1,93.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[4]],"{'wciI': [1, 99.3]}",{'wciI': 1},12A/12B/44/46,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398985,"{'06C': 86.9, '06C-I': 86.9, '06D': 84.7, '06A': 77.0, '06A-IV': 74.6}",1,86.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301865,"{'15F': 99.4, '15A': 92.5, '15B': 60.2, '15C': 60.1, '23F': 38.7}",1,99.4,15F_15A,15F_15A,,"[[10], [12], [14], [16]]","{'glf': 100.0, 'rmlB': 100.0, 'rmlD': 100.0, 'wcjE': 100.0}","{'glf': 'detected', 'rmlB': 'detected', 'rmlD': 'detected', 'wcjE': 'detected'}",15F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247235,"{'17F': 99.3, '06B': 44.3, '06B-I': 44.0, '06A-III': 43.9, '06D': 43.5}",1,99.3,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020140315,"{'35B': 99.8, '33F': 33.4, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237775,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339575,"{'19F': 95.5, '19F-I': 95.5, '19F-III': 93.9, '19F-II': 92.4, '19F-IV': 88.5}",1,95.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261945,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001345795,"{'19A-I': 99.2, '19A-II': 97.6, '19A': 87.8, '19A-III': 87.6, '19AF': 62.0}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001164585,"{'14': 94.1, '36': 26.2, '09L': 24.9, '09N': 24.3, '15B': 24.3}",1,94.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025175,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.7, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330945,"{'12F': 95.9, '12B': 93.3, '44': 92.9, '12A': 84.8, '46': 81.7}",1,95.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226075,"{'01': 7.5, '45': 6.4, '25F': 5.8, '25A': 5.6, '22F': 5.3}",6,7.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227845,"{'06E': 83.6, '06B-III': 83.6, '06B-I': 56.7, '06A-III': 55.2, '06A-II': 54.6}",1,83.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277185,"{'09L': 99.2, '09N': 90.2, '36': 32.7, '09A': 31.3, '09V': 31.3}",1,99.2,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265295,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017915,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339545,"{'08': 99.8, '06A-II': 24.5, '02': 24.4, '06A-VI': 24.4, '06B-II': 23.9}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001093405,"{'20': 5.4, '22F': 4.9, '45': 4.9, '25A': 4.5, '25F': 4.5}",1,5.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193435,"{'15A': 100.0, '15F': 74.3, '15C': 62.0, '15B': 61.9, '23F': 31.7}",1,100.0,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240005,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001150385,"{'18C': 99.8, '18B': 99.7, '18F': 75.7, '18A': 62.0, '16F': 39.3}",1,99.8,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257785,"{'01': 99.2, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275975,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001096645,"{'06E': 99.7, '06B-III': 97.9, '06B-I': 45.8, '06A-III': 45.3, '06A-II': 44.3}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283545,"{'05': 95.0, '45': 22.5, '36': 21.5, '20': 19.9, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257645,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341975,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239595,"{'21': 100.0, '22F': 36.1, '06A-IV': 32.4, '06A-II': 31.7, '06A-VI': 31.6}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312035,"{'14': 92.9, '36': 27.2, '09L': 25.8, '09N': 25.5, '15B': 24.3}",1,92.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216495,"{'09A': 99.3, '09V': 99.1, '09N': 38.5, '09L': 36.5, '11F': 27.1}",1,99.3,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026655,"{'20': 99.1, '13': 25.9, '09L': 25.5, '09N': 24.6, '36': 24.5}",1,99.1,,20,,,{},{},20,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323945,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259905,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286315,"{'06E': 99.6, '06B-III': 99.2, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275565,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297425,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341175,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285445,"{'15A': 97.2, '15F': 73.3, '15C': 61.3, '15B': 61.2, '23F': 31.3}",1,97.2,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190405,"{'21': 100.0, '22F': 33.9, '06A-IV': 32.9, '06A-II': 32.2, '06A-VI': 32.1}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318855,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279225,"{'04': 99.6, '45': 33.3, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.6,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192075,"{'20': 78.5, '47F': 28.0, '13': 25.2, '09L': 24.5, '09N': 23.7}",1,78.5,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028485,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252135,"{'23B1': 98.6, '23B': 55.9, '19A-II': 36.0, '19A-I': 35.7, '19AF': 31.5}",1,98.6,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027185,"{'19A-II': 99.9, '19A-I': 96.5, '19A': 84.9, '19A-III': 84.7, '19AF': 62.0}",1,99.9,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310575,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232105,"{'35B': 99.9, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.9,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900042895,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224755,"{'23F': 94.1, '23A': 63.4, '28A': 47.7, '23B': 47.1, '06A': 46.9}",1,94.1,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900692635,"{'06B-I': 89.5, '06B-II': 89.3, '06A-III': 89.0, '06A-II': 88.2, '06A-VI': 88.2}",1,89.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194935,"{'15A': 100.0, '15F': 74.3, '15C': 62.0, '15B': 61.9, '23F': 31.7}",1,100.0,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900060265,"{'04': 98.3, '45': 33.9, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025835,"{'08': 99.8, '06A-II': 24.5, '02': 24.4, '06A-VI': 24.4, '06B-II': 23.9}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340205,"{'06E': 98.4, '06B-III': 95.8, '06B-I': 47.7, '06A-III': 46.4, '06A-II': 45.8}",1,98.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315965,"{'19F-I': 99.8, '19F': 96.8, '19F-III': 96.8, '19F-II': 94.0, '19F-IV': 89.4}",1,99.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001329855,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237605,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216705,"{'19F': 94.9, '19F-I': 94.4, '19F-III': 93.3, '19F-II': 92.0, '19F-IV': 88.3}",1,94.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223305,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311235,"{'10B': 99.3, '10A': 65.2, '10F': 20.1, '10C': 18.8, '22F': 13.8}",1,99.3,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282265,"{'34': 98.6, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.6,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231955,"{'08': 99.7, '02': 24.4, '06A-II': 24.4, '06A-VI': 24.3, '06B-II': 23.8}",1,99.7,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275795,"{'01': 99.1, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282005,"{'19F-III': 99.9, '19F': 97.9, '19F-I': 97.2, '19F-II': 94.7, '19F-IV': 89.4}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285385,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001149485,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219795,"{'36': 12.1, '20': 7.7, '06A-IV': 7.7, '01': 7.3, '06B-I': 6.6}",1,12.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001112145,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337735,"{'21': 92.2, '22F': 34.8, '06A-IV': 34.3, '06A-II': 34.0, '06A-VI': 34.0}",1,92.2,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317455,"{'19A-II': 99.0, '19A-I': 97.1, '19A': 85.7, '19A-III': 85.5, '19AF': 62.0}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341595,"{'34': 93.3, '33F2': 35.3, '35B': 31.8, '33F': 29.3, '33C': 28.8}",1,93.3,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230675,"{'23F': 97.0, '23A': 63.9, '23B': 48.0, '28A': 47.7, '06B-II': 46.1}",1,97.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247965,"{'11D': 80.2, '11A': 78.9, '11F': 45.1, '11B': 34.6, '11C': 31.0}",1,80.2,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337245,"{'01': 99.6, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.6,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001159585,"{'23F': 93.9, '23A': 63.4, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,93.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213225,"{'23F': 96.7, '23A': 63.7, '23B': 48.0, '28A': 47.7, '28F': 46.0}",1,96.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000233205,"{'06E': 99.0, '06B-III': 97.9, '06B-I': 46.0, '06A-III': 45.4, '06A-II': 44.5}",1,99.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001095765,"{'45': 6.7, '01': 6.1, '25F': 5.6, '20': 5.4, '25A': 5.4}",4,6.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338355,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019446635,"{'03': 95.2, '36': 17.0, '20': 15.8, '09L': 15.0, '09N': 15.0}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326435,"{'36': 11.9, '06A-IV': 7.3, '20': 7.2, '45': 6.7, '23B1': 6.6}",1,11.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002889175,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000762785,"{'01': 6.6, '45': 5.9, '25F': 5.7, '20': 5.5, '25A': 5.5}",1,6.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001168765,"{'06E': 100.0, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339295,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001103685,"{'17F': 99.7, '06B': 44.4, '06D': 43.6, '06B-I': 43.6, '06A-III': 43.5}",1,99.7,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307895,"{'23F': 99.3, '23A': 65.2, '23B': 47.9, '28A': 47.8, '06A-V': 45.8}",1,99.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264735,"{'10A': 99.6, '10B': 66.4, '10C': 27.2, '10F': 17.6, '22F': 15.2}",1,99.6,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000334575,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341385,"{'01': 99.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253375,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307495,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.5, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001201735,"{'25F': 7.5, '25A': 7.3, '45': 6.2, '22F': 5.3, '38': 4.8}",2,7.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001207885,"{'23A': 96.6, '23F': 67.7, '23B': 45.9, '19F-II': 39.4, '15B': 38.5}",1,96.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275865,"{'07A': 97.5, '07F': 97.3, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,97.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235455,"{'04': 98.3, '45': 34.7, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241895,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337755,"{'06C-I': 87.8, '06C': 87.7, '06D': 87.1, '06A-I': 77.9, '06B': 77.6}",1,87.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276705,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309555,"{'19A': 99.4, '19A-III': 99.2, '19A-I': 86.1, '19A-II': 83.8, '19AF': 57.2}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029995,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313805,"{'14': 91.2, '36': 26.7, '09L': 26.6, '09N': 26.3, '15B': 23.3}",1,91.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221305,"{'19F': 69.1, '19F-I': 68.9, '19F-III': 68.2, '19F-II': 67.4, '19F-IV': 66.8}",1,69.1,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241325,"{'14': 94.2, '36': 25.9, '09L': 25.2, '09N': 24.6, '15B': 24.3}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330085,"{'28F': 95.1, '28A': 88.3, '23F': 51.0, '06A-IV': 50.8, '06B-II': 48.8}",1,95.1,,28F/28A,,,{},{},28F/28A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001719815,"{'15A': 98.5, '15F': 73.1, '15C': 61.8, '15B': 61.7, '23F': 32.2}",1,98.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323665,"{'06C-I': 99.8, '06C': 99.6, '06D': 84.4, '06A-II': 79.4, '06A-VI': 79.4}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240985,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.6}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251735,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001151065,"{'10A': 94.0, '10B': 64.8, '10C': 29.3, '10F': 19.7, '47A': 16.8}",1,94.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171805,"{'14': 92.6, '36': 28.1, '09L': 24.7, '15B': 24.2, '15C': 24.1}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335785,"{'09L': 67.8, '09N': 67.8, '09A': 32.2, '09V': 32.0, '36': 27.2}",1,67.8,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273235,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001170785,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322215,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.8, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290085,"{'03': 97.1, '36': 18.1, '01': 18.0, '20': 17.5, '09N': 15.5}",1,97.1,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334965,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272105,"{'18C': 97.2, '18B': 97.1, '18F': 75.5, '18A': 62.0, '16F': 38.7}",1,97.2,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001164405,"{'38': 87.9, '25F': 84.1, '25A': 83.3, '36': 11.1, '20': 7.2}",1,87.9,25F_25A_38,25F_25A_38,,"[[0], [18]]","{'wcyD': ['b: 22.59'], 'wcyV': 4.69}","{'wcyD': 0, 'wcyV': 'not_detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234805,"{'29': 59.6, '35B': 37.5, '35F': 26.8, '22F': 23.1, '33B': 23.1}",1,59.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230015,"{'23A': 96.6, '23F': 64.0, '23B': 42.0, '19F-II': 37.9, '15B': 37.2}",1,96.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019457015,"{'33F2': 97.4, '33F': 75.0, '33A': 70.6, '34': 41.5, '35B': 32.0}",1,97.4,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001301835,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308085,"{'16F': 71.7, '28F': 43.6, '28A': 40.8, '18F': 33.9, '18A': 33.7}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334545,"{'34': 98.7, '33F2': 35.1, '35B': 33.7, '33F': 29.8, '33C': 28.7}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224805,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 90.2, '06A': 87.7, '06A-III': 87.1}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242815,"{'06E': 100.0, '06B-III': 99.5, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283095,"{'16F': 96.6, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.6,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241455,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330335,"{'06A-II': 92.1, '06A-VI': 92.1, '06B-II': 89.3, '06A-V': 88.9, '06A-III': 87.9}",1,92.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 84.81']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220245,"{'35B': 92.7, '34': 33.8, '33F': 33.4, '35C': 32.4, '33D': 32.1}",1,92.7,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294765,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.5, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241615,"{'23F': 96.2, '23A': 66.2, '28A': 47.4, '06A': 45.9, '28F': 45.1}",1,96.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219055,"{'15C': 85.6, '15B': 85.5, '15A': 61.1, '15F': 47.9, '23A': 31.4}",1,85.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338955,"{'10F': 98.1, '10C': 80.8, '10B': 22.4, '10A': 19.2, '22F': 15.6}",1,98.1,,10F,,,{},{},10F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305995,"{'02': 92.5, '22F': 40.2, '06B-I': 38.9, '06A-III': 38.8, '06A-II': 38.6}",1,92.5,,2,,,{},{},2,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274765,"{'10A': 99.4, '10B': 67.1, '10C': 27.7, '10F': 18.1, '22F': 15.4}",1,99.4,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327235,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001101905,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283185,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275835,"{'13': 83.3, '36': 33.1, '14': 27.2, '15B': 26.7, '15C': 26.3}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262015,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304535,"{'14': 92.3, '36': 28.8, '09L': 25.6, '09N': 24.5, '15B': 24.0}",1,92.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227335,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218635,"{'09A': 95.9, '09V': 95.7, '09N': 38.5, '09L': 37.4, '11F': 26.6}",1,95.9,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231115,"{'15B': 99.7, '15C': 99.5, '15A': 62.7, '15F': 48.3, '23A': 33.1}",1,99.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332635,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230315,"{'19F-I': 97.6, '19F': 96.9, '19F-III': 96.4, '19F-II': 94.9, '19F-IV': 90.0}",1,97.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335015,"{'07A': 98.3, '07F': 98.1, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,98.3,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256675,"{'46': 87.8, '12A': 86.5, '12B': 78.1, '12F': 76.1, '44': 76.1}",1,87.8,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[4]],"{'wciI': [1, 91.4]}",{'wciI': 1},12A/12B/44/46,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326595,"{'15C': 95.2, '15B': 95.1, '15A': 60.8, '15F': 47.3, '23A': 34.0}",1,95.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309595,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263075,"{'06A-II': 93.6, '06A-VI': 93.6, '06B-II': 88.1, '06A-V': 87.6, '06A-III': 87.0}",1,93.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264945,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.0, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337185,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900035635,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193795,"{'15A': 99.9, '15F': 74.2, '15C': 61.9, '15B': 61.8, '23F': 31.7}",1,99.9,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019397605,"{'14': 100.0, '36': 26.8, '09L': 25.8, '09N': 24.4, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294005,"{'13': 83.3, '36': 28.9, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001203475,"{'10A': 99.3, '10B': 67.0, '10C': 27.7, '10F': 18.1, '06B-I': 15.2}",1,99.3,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294025,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242535,"{'09A': 99.1, '09V': 98.9, '09N': 38.5, '09L': 36.5, '11F': 27.1}",1,99.1,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330445,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241835,"{'15C': 95.1, '15B': 95.0, '15A': 60.7, '15F': 47.2, '23A': 34.0}",1,95.1,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238605,"{'31': 99.8, '41A': 57.3, '41F': 49.0, '22F': 36.4, '06A-II': 36.4}",1,99.8,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335985,"{'25F': 99.8, '25A': 98.8, '38': 80.9, '36': 9.0, '01': 7.9}",1,99.8,25F_25A_38,25F_25A_38,,"[[8], [18]]","{'wcyD': ['a', 100.0], 'wcyV': 0.12}","{'wcyD': 'a', 'wcyV': 'not_detected'}",25F/25A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241035,"{'07C': 99.4, '07B': 73.0, '40': 70.8, '24B': 48.8, '24F': 48.6}",1,99.4,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297775,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191865,"{'33F2': 99.8, '33F': 74.4, '33A': 70.1, '34': 41.4, '35B': 32.1}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000177775,"{'36': 10.5, '25F': 7.1, '25A': 6.9, '45': 6.1, '20': 5.4}",1,10.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001085085,"{'10F': 98.2, '10C': 80.9, '10B': 22.4, '10A': 19.2, '20': 13.8}",1,98.2,,10F,,,{},{},10F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900046695,"{'33F': 100.0, '33A': 97.5, '33F2': 70.9, '35C': 42.8, '42': 41.8}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020085,"{'38': 99.1, '25F': 84.3, '25A': 83.3, '36': 11.8, '20': 8.2}",1,99.1,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216885,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303575,"{'02': 92.5, '22F': 39.5, '06B-I': 38.8, '06A-III': 38.7, '06A-II': 38.5}",1,92.5,,2,,,{},{},2,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220555,"{'06A': 94.4, '06A-IV': 92.7, '06A-III': 91.4, '06A-V': 90.9, '06B-II': 90.8}",1,94.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900061305,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031165,"{'18C': 99.7, '18B': 99.6, '18F': 75.6, '18A': 62.4, '16F': 39.2}",1,99.7,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054085,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243735,"{'19F-II': 99.4, '19F': 95.4, '19F-III': 94.2, '19F-I': 94.1, '19F-IV': 93.3}",1,99.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000278905,"{'23F': 96.6, '23A': 63.9, '23B': 48.0, '28A': 47.6, '28F': 45.9}",1,96.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001128145,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001202235,"{'36': 9.4, '25F': 7.0, '25A': 6.8, '45': 6.7, '20': 5.3}",1,9.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235585,"{'01': 99.5, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001126145,"{'34': 92.9, '33F2': 34.7, '35B': 31.5, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308285,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001101325,"{'01': 6.1, '45': 5.9, '22F': 5.4, '23B1': 5.1, '36': 4.8}",3,6.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300085,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327985,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 89.6, '06A': 87.7, '06A-III': 86.1}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323895,"{'23F': 96.7, '23A': 63.8, '06A-IV': 50.8, '23B': 50.3, '06B-II': 48.5}",1,96.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277525,"{'01': 99.5, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001172405,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001144385,"{'15C': 87.5, '15B': 87.4, '15A': 64.3, '15F': 49.7, '23A': 30.2}",1,87.5,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292075,"{'23F': 97.0, '23A': 63.9, '28A': 47.7, '28F': 46.0, '06A': 45.0}",1,97.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901343085,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.5, '46': 81.4}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001174485,"{'33B': 89.8, '33D': 89.7, '35B': 34.2, '33F2': 30.0, '35C': 26.2}",1,89.8,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285075,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001093285,"{'06A-III': 88.5, '06B-I': 86.2, '06A': 83.1, '06A-II': 82.9, '06A-VI': 82.9}",1,88.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236465,"{'36': 18.4, '20': 16.5, '01': 15.9, '14': 15.4, '06A-IV': 13.4}",1,18.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001150405,"{'06B-I': 99.5, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.8, '06A-V': 88.1}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336715,"{'03': 97.8, '20': 18.3, '01': 17.6, '09N': 15.7, '09L': 15.5}",1,97.8,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065515,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021022765,"{'02': 57.6, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226705,"{'06C-I': 89.3, '06C': 89.2, '06D': 87.0, '06A-I': 77.8, '06B': 77.5}",1,89.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313085,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193765,"{'03': 95.2, '36': 17.1, '01': 17.0, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257575,"{'04': 99.5, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.5,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001088625,"{'03': 95.2, '36': 16.9, '01': 15.8, '20': 15.7, '09N': 14.9}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020565,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023085,"{'09A': 99.7, '09V': 99.5, '09N': 38.2, '09L': 36.7, '06A-IV': 27.4}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328285,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234765,"{'01': 99.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317355,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336275,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001154485,"{'15A': 98.3, '15F': 73.5, '15C': 62.0, '15B': 61.9, '23F': 31.9}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000251825,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001111805,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234905,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252455,"{'06E': 90.4, '06B-III': 89.9, '06A-IV': 55.0, '06B-II': 53.9, '06A-V': 53.7}",1,90.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319765,"{'21': 99.3, '22F': 35.9, '06A-IV': 30.9, '06B': 30.2, '06A': 30.1}",1,99.3,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020139515,"{'35B': 99.8, '33F': 33.5, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276375,"{'15C': 94.0, '15B': 93.8, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,94.0,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263805,"{'14': 91.3, '19F-IV': 25.8, '09L': 25.2, '09N': 24.5, '36': 23.9}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001107125,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191435,"{'17F': 99.5, '06B': 44.2, '06B-I': 44.1, '06A-III': 44.0, '06D': 43.7}",1,99.5,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323485,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.7, '19A-III': 87.5, '19AF': 62.0}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237435,"{'33F': 99.8, '33A': 99.2, '33F2': 70.9, '35C': 42.8, '42': 41.8}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001204635,"{'35B': 98.2, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,98.2,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226995,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238445,"{'17F': 99.8, '06B': 44.5, '06D': 43.7, '06A-I': 43.7, '06B-I': 43.4}",1,99.8,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030305,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001110465,"{'19F-I': 95.3, '19F': 95.0, '19F-III': 93.5, '19F-II': 92.2, '19F-IV': 88.2}",1,95.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001098465,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001334235,"{'25F': 5.5, '25A': 5.4, '20': 5.1, '45': 5.1, '22F': 4.8}",1,5.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236805,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238695,"{'16F': 71.7, '28F': 43.2, '28A': 40.7, '18F': 33.7, '18A': 33.1}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247555,"{'23F': 98.7, '23A': 64.5, '23B': 47.3, '28A': 47.2, '06A-V': 45.5}",1,98.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314165,"{'01': 99.3, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290735,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250345,"{'03': 75.1, '20': 7.9, '01': 7.1, '36': 7.1, '22F': 6.8}",1,75.1,,3,,,{},{},3,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001130085,"{'35F': 99.3, '47F': 74.7, '34': 26.7, '35B': 25.0, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017875,"{'15A': 99.9, '15F': 74.0, '15C': 61.9, '15B': 61.8, '23F': 31.4}",1,99.9,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001299855,"{'03': 95.2, '36': 17.0, '01': 16.9, '20': 15.8, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250555,"{'31': 99.8, '41A': 57.3, '41F': 49.0, '22F': 36.4, '06A-II': 36.2}",1,99.8,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247735,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246025,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256605,"{'03': 75.1, '20': 8.2, '01': 7.5, '36': 7.3, '45': 7.0}",1,75.1,,3,,,{},{},3,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302355,"{'07C': 93.8, '07B': 77.1, '40': 76.7, '24B': 48.6, '24F': 47.6}",1,93.8,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320035,"{'38': 97.6, '25F': 84.3, '25A': 83.3, '36': 13.1, '20': 7.5}",1,97.6,25F_25A_38,25F_25A_38,,"[[0], [19]]","{'wcyD': ['b: 80.0'], 'wcyV': 100.0}","{'wcyD': 0, 'wcyV': 'detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253455,"{'34': 93.0, '33F2': 34.7, '35B': 32.1, '33F': 29.0, '33C': 28.0}",1,93.0,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301705,"{'14': 92.7, '36': 29.0, '09L': 25.9, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063975,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235625,"{'14': 91.4, '19F-IV': 25.9, '36': 25.2, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002081175,"{'14': 99.9, '36': 26.8, '15B': 24.3, '15C': 24.2, '09L': 23.9}",1,99.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249555,"{'15C': 87.8, '15B': 87.7, '15A': 64.6, '15F': 50.0, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001152985,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317315,"{'13': 85.2, '36': 28.0, '09L': 27.8, '14': 27.5, '09N': 27.2}",1,85.2,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329045,"{'16F': 71.7, '28F': 43.6, '28A': 40.8, '18F': 33.9, '18A': 33.6}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049895,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001134825,"{'03': 95.2, '01': 17.3, '36': 16.9, '20': 15.8, '09N': 15.6}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258835,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238285,"{'01': 99.3, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291045,"{'15C': 96.0, '15B': 95.9, '15A': 61.5, '15F': 47.7, '23A': 34.9}",1,96.0,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313505,"{'01': 99.3, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170445,"{'14': 92.7, '36': 28.9, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284265,"{'14': 91.4, '19F-IV': 25.9, '09L': 24.8, '09N': 24.7, '36': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327505,"{'23F': 93.5, '23A': 65.1, '28A': 48.5, '23B': 46.9, '28F': 46.4}",1,93.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278505,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243575,"{'18C': 88.3, '18B': 88.2, '18F': 77.6, '18A': 61.4, '16F': 37.4}",1,88.3,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332025,"{'23F': 94.0, '23A': 63.5, '28A': 48.3, '23B': 47.0, '06A-III': 46.2}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244735,"{'05': 95.3, '45': 22.4, '36': 21.3, '20': 20.1, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235685,"{'07A': 99.5, '07F': 99.3, '19F-II': 36.7, '19F-IV': 36.1, '19F': 35.2}",1,99.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227085,"{'04': 99.2, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054015,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316515,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257975,"{'14': 92.6, '36': 28.9, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292195,"{'09A': 96.0, '09V': 95.8, '09N': 38.5, '09L': 37.4, '11F': 26.7}",1,96.0,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235815,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266105,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.7, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232455,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.0, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286675,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311165,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001142245,"{'06A': 89.7, '06A-III': 89.3, '06B-I': 88.0, '06B-II': 87.8, '06A-II': 87.3}",1,89.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001130845,"{'23A': 97.5, '23F': 68.8, '23B': 40.1, '19F-II': 39.2, '15B': 38.8}",1,97.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252435,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220535,"{'16F': 71.9, '28F': 43.8, '28A': 41.0, '18F': 34.1, '18A': 33.9}",1,71.9,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001195405,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900035395,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315785,"{'23F': 99.3, '23A': 65.5, '23B': 49.1, '28A': 48.2, '06A-IV': 47.3}",1,99.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308395,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265575,"{'23F': 97.3, '23A': 63.0, '06A-IV': 47.8, '23B': 47.7, '28A': 47.7}",1,97.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323525,"{'14': 93.5, '36': 25.8, '09L': 25.0, '09N': 24.4, '15B': 23.8}",1,93.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317545,"{'21': 91.7, '22F': 36.8, '06A-IV': 31.6, '06A-II': 31.2, '06A-VI': 31.2}",1,91.7,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276985,"{'15C': 87.8, '15B': 87.7, '15A': 64.6, '15F': 50.0, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900061335,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001301355,"{'11D': 99.6, '11A': 96.8, '11F': 42.0, '11C': 35.6, '11B': 34.1}",1,99.6,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328445,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398905,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242065,"{'06E': 100.0, '06B-III': 99.0, '06B-I': 46.5, '06A-III': 46.0, '06A-II': 45.0}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900089255,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300775,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.2}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219735,"{'23F': 96.0, '23A': 65.9, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168045,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001089825,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316425,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001142265,"{'19F-I': 95.3, '19F': 95.0, '19F-III': 93.5, '19F-II': 92.2, '19F-IV': 88.2}",1,95.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001152325,"{'16F': 95.7, '19F-II': 42.6, '19F-IV': 42.6, '28F': 42.4, '19F': 41.6}",1,95.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264275,"{'18C': 99.3, '18B': 99.2, '18F': 76.0, '18A': 63.2, '16F': 39.3}",1,99.3,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242095,"{'10A': 93.9, '10B': 64.7, '10C': 29.0, '10F': 19.4, '22F': 16.5}",1,93.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019445,"{'14': 100.0, '09L': 27.2, '36': 25.8, '09N': 24.7, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900059745,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001121405,"{'36': 10.3, '06A-IV': 6.7, '20': 5.7, '23B1': 5.6, '06B-I': 5.5}",1,10.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304205,"{'07C': 99.4, '07B': 73.0, '40': 70.8, '24B': 48.8, '24F': 48.6}",1,99.4,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001118405,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289565,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019457195,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053325,"{'09A': 95.7, '09V': 95.5, '09N': 36.9, '09L': 35.9, '11F': 26.8}",1,95.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272555,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334455,"{'35B': 99.2, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.2,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900064085,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001208705,"{'06A-III': 99.8, '06B-I': 98.2, '06B-II': 91.1, '06A': 90.8, '06A-V': 90.2}",2,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317485,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317145,"{'13': 98.8, '09N': 29.1, '09L': 28.7, '20': 28.7, '36': 27.5}",1,98.8,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192255,"{'22F': 93.7, '22A': 70.2, '06A-II': 45.2, '06A-VI': 45.1, '06B-I': 45.1}",1,93.7,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307025,"{'05': 94.9, '45': 22.6, '36': 22.1, '20': 20.4, '12A': 19.8}",1,94.9,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021875,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021325,"{'04': 99.5, '45': 33.2, '12F': 23.2, '44': 23.0, '12A': 22.1}",1,99.5,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247665,"{'19A': 79.4, '19A-III': 79.2, '19A-I': 68.1, '19A-II': 66.7, '19AF': 59.9}",1,79.4,19A_19AF,19A_19AF,,[[0]],{'wzy': ['2: 66.82']},{'wzy': 0},19A_19AF,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022795,"{'35F': 99.0, '47F': 74.3, '34': 26.7, '35B': 26.3, '29': 22.5}",1,99.0,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001130365,"{'36': 9.2, '20': 6.3, '06A-IV': 5.4, '22F': 4.5, '12A': 4.4}",1,9.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190945,"{'15C': 93.9, '15B': 93.8, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249145,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900046985,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217435,"{'18C': 85.7, '18B': 85.6, '18F': 77.9, '18A': 62.1, '16F': 37.8}",1,85.7,,"Mixed serotypes- {'18F', '18C/18B'}",,,{},{},"Mixed serotypes- {'18F', '18C/18B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261575,"{'22F': 96.4, '22A': 73.4, '06A': 42.6, '06A-II': 42.3, '06A-VI': 42.2}",1,96.4,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900037075,"{'13': 98.7, '09N': 29.3, '20': 29.2, '09L': 29.1, '36': 27.4}",1,98.7,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900058675,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239215,"{'05': 95.1, '45': 22.5, '36': 21.7, '20': 20.0, '12A': 19.8}",1,95.1,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321645,"{'03': 97.4, '01': 17.7, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001122565,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308475,"{'19A': 99.8, '19A-III': 99.6, '19A-I': 86.0, '19A-II': 83.5, '19AF': 57.1}",1,99.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280725,"{'06E': 100.0, '06B-III': 99.2, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257635,"{'01': 6.7, '45': 6.6, '20': 5.9, '25F': 5.8, '25A': 5.6}",4,6.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232395,"{'23F': 94.0, '23A': 60.5, '28A': 47.7, '06D': 46.5, '28F': 45.1}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001147705,"{'19F-I': 95.5, '19F': 95.2, '19F-III': 93.7, '19F-II': 92.4, '19F-IV': 88.4}",1,95.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266125,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901212815,"{'18C': 88.5, '18B': 88.4, '18F': 77.8, '18A': 62.1, '16F': 37.6}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001171985,"{'35B': 98.3, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,98.3,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293655,"{'21': 100.0, '22F': 36.1, '06A-IV': 32.9, '06A-II': 32.2, '06A-VI': 32.1}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001114145,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231735,"{'18A': 91.2, '18B': 55.9, '18C': 55.9, '18F': 50.7, '24A': 34.3}",1,91.2,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001138745,"{'11F': 61.8, '11D': 38.4, '11A': 36.8, '09V': 25.4, '09A': 25.3}",1,61.8,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333215,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320075,"{'07A': 97.9, '07F': 97.7, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,97.9,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341215,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220265,"{'06A-II': 96.3, '06A-VI': 96.3, '06B-II': 95.0, '06A-V': 94.2, '06A': 91.9}",1,96.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313665,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308615,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335525,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238835,"{'09A': 95.8, '09V': 95.6, '09N': 39.0, '09L': 37.0, '06A-IV': 26.4}",1,95.8,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900062915,"{'10A': 99.9, '10B': 66.8, '10C': 27.4, '10F': 17.8, '22F': 15.4}",1,99.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900046825,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290525,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252495,"{'10A': 93.9, '10B': 64.7, '10C': 29.0, '10F': 19.4, '22F': 16.4}",1,93.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338035,"{'35F': 80.2, '47F': 56.8, '35B': 27.0, '34': 21.0, '36': 18.3}",1,80.2,,35F,,,{},{},35F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296235,"{'35B': 91.2, '33F': 32.1, '34': 31.4, '33B': 30.8, '33A': 30.4}",1,91.2,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250565,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293895,"{'18A': 100.0, '18B': 54.0, '18C': 54.0, '18F': 53.7, '19F-IV': 37.3}",1,100.0,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585065,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237505,"{'18C': 99.7, '18B': 99.6, '18F': 75.6, '18A': 62.4, '16F': 39.2}",1,99.7,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222975,"{'19A': 98.8, '19A-III': 98.6, '19A-I': 85.9, '19A-II': 83.6, '19AF': 57.1}",1,98.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022865,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275915,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336215,"{'05': 95.0, '45': 22.3, '36': 21.8, '20': 19.9, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217745,"{'18C': 88.7, '18B': 88.6, '18F': 77.6, '18A': 61.9, '16F': 37.8}",1,88.7,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242485,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001122825,"{'09A': 95.9, '09V': 95.7, '09N': 37.2, '09L': 35.8, '11F': 26.7}",1,95.9,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260525,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_012911765,"{'14': 94.1, '36': 26.1, '09L': 25.5, '09N': 24.3, '15B': 24.3}",1,94.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001115645,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335835,"{'12B': 97.4, '12F': 91.5, '12A': 89.5, '44': 88.8, '46': 87.1}",1,97.4,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[4]],"{'wciI': [1, 99.3]}",{'wciI': 1},12A/12B/44/46,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260175,"{'35B': 99.4, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001105745,"{'25F': 5.7, '45': 5.7, '25A': 5.5, '20': 5.4, '22F': 4.9}",3,5.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341135,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272295,"{'35A': 92.3, '35C': 89.9, '42': 89.3, '33A': 45.0, '33F': 44.4}",1,92.3,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289985,"{'19A-II': 100.0, '19A-I': 96.6, '19A': 85.0, '19A-III': 84.8, '19AF': 62.1}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900058925,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900692795,"{'18C': 99.8, '18B': 99.7, '18F': 75.7, '18A': 62.9, '16F': 39.2}",1,99.8,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278915,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001125505,"{'08': 98.0, '02': 24.4, '06A-IV': 23.3, '06A': 22.9, '06A-II': 22.3}",1,98.0,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168095,"{'09A': 99.7, '09V': 99.5, '09N': 37.9, '09L': 36.7, '06A-IV': 27.2}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244305,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215615,"{'19A-I': 99.2, '19A-II': 97.5, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240255,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299345,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234005,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328515,"{'23F': 99.0, '23A': 64.8, '23B': 47.6, '28A': 47.5, '06A-V': 45.8}",1,99.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232145,"{'39': 97.8, '29': 28.6, '34': 22.6, '43': 19.2, '33C': 18.6}",1,97.8,,39,,,{},{},39,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279545,"{'33D': 80.3, '33B': 75.4, '06A-I': 36.8, '06B': 35.4, '06A-IV': 35.3}",1,80.3,,"Mixed serotypes- {'33B', '33D'}",,,{},{},"Mixed serotypes- {'33B', '33D'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236335,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224725,"{'14': 92.2, '36': 28.7, '09L': 25.6, '09N': 24.5, '15B': 24.1}",1,92.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312135,"{'16F': 95.4, '28F': 41.8, '18F': 41.6, '28A': 40.1, '18A': 39.9}",1,95.4,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276885,"{'19F-I': 97.7, '19F': 97.0, '19F-III': 96.5, '19F-II': 95.0, '19F-IV': 90.1}",1,97.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023865,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289965,"{'11A': 99.4, '11D': 96.3, '11F': 39.7, '11C': 35.7, '11B': 34.2}",1,99.4,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223375,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217905,"{'04': 98.3, '45': 33.1, '12A': 24.7, '46': 24.6, '12F': 23.8}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253755,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026585,"{'03': 95.5, '20': 17.6, '01': 16.9, '36': 16.3, '09L': 16.0}",1,95.5,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056795,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299085,"{'09N': 99.9, '09L': 89.0, '09A': 32.7, '09V': 32.7, '36': 32.3}",1,99.9,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314885,"{'03': 95.2, '36': 17.4, '01': 16.8, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327845,"{'14': 93.4, '36': 27.5, '09L': 25.8, '09N': 25.3, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281985,"{'05': 95.3, '45': 22.2, '36': 21.5, '12A': 19.8, '20': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900036975,"{'19A': 99.7, '19A-III': 99.5, '19A-I': 86.0, '19A-II': 84.0, '19AF': 57.4}",1,99.7,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294645,"{'19F-I': 95.9, '19F': 95.6, '19F-III': 94.0, '19F-II': 92.8, '19F-IV': 88.8}",1,95.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225535,"{'14': 92.7, '36': 29.0, '09L': 25.7, '09N': 24.5, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001114765,"{'06B-I': 99.5, '06A-III': 97.3, '06B-II': 89.9, '06A': 89.7, '06A-V': 88.0}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027085,"{'18C': 99.8, '18B': 99.7, '18F': 75.7, '18A': 62.4, '16F': 39.3}",1,99.8,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322695,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171725,"{'19F-III': 98.4, '19F': 98.0, '19F-I': 98.0, '19F-II': 93.8, '19F-IV': 89.2}",1,98.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342745,"{'23F': 94.0, '23A': 63.5, '28A': 48.3, '23B': 47.0, '06A-III': 46.2}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310945,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001092285,"{'03': 95.2, '36': 16.9, '20': 15.3, '09N': 13.8, '14': 13.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063485,"{'35B': 99.8, '33F': 33.6, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900037045,"{'19A': 99.7, '19A-III': 99.5, '19A-I': 85.9, '19A-II': 83.4, '19AF': 57.2}",1,99.7,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235915,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216275,"{'06A-V': 90.2, '06A-III': 89.2, '06A': 88.3, '06B-II': 88.3, '06A-II': 88.0}",1,90.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330045,"{'06A-I': 98.4, '06B': 94.4, '06A-V': 89.4, '06A': 87.4, '06A-III': 85.9}",1,98.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002246915,"{'06A-II': 83.2, '06A-VI': 83.2, '06A-III': 82.7, '06A-V': 82.1, '06B-I': 81.5}",1,83.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 76.28']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344775,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279665,"{'04': 98.8, '45': 34.3, '12F': 23.7, '44': 23.5, '12A': 22.6}",1,98.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306265,"{'03': 94.9, '01': 17.9, '36': 17.2, '09N': 15.9, '20': 15.8}",1,94.9,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024055,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309015,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325445,"{'35B': 99.4, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169685,"{'14': 91.8, '36': 27.9, '09L': 25.6, '09N': 24.5, '15B': 23.7}",1,91.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256655,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000147095,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900040015,"{'33F': 100.0, '33A': 97.4, '33F2': 70.9, '35C': 42.8, '42': 41.8}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319805,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291225,"{'14': 93.4, '36': 27.3, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279235,"{'23F': 96.8, '23A': 64.0, '28A': 47.7, '28F': 45.8, '06A': 44.8}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341375,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001107385,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326675,"{'01': 7.7, '25F': 6.0, '45': 5.9, '25A': 5.8, '22F': 5.2}",3,7.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001095165,"{'06A-III': 98.1, '06B-I': 96.5, '06A': 90.5, '06B-II': 90.1, '06A-V': 89.2}",1,98.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243255,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_017313325,"{'19A': 86.8, '19A-III': 86.6, '19A-I': 74.0, '19A-II': 71.9, '19AF': 52.4}",1,86.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306985,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335255,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328375,"{'04': 99.0, '45': 33.5, '12F': 23.4, '44': 23.2, '12A': 22.3}",1,99.0,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309145,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330745,"{'09A': 99.1, '09V': 98.9, '09N': 38.4, '09L': 36.7, '11F': 27.0}",1,99.1,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336995,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324075,"{'21': 99.3, '22F': 35.9, '06A-IV': 30.9, '06B': 30.2, '06A': 30.1}",1,99.3,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326785,"{'12F': 96.9, '44': 93.6, '12B': 92.9, '12A': 80.6, '46': 77.5}",1,96.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264345,"{'06A-III': 94.8, '06B-I': 93.4, '06A': 90.3, '06A-IV': 89.5, '06B-II': 89.4}",1,94.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001329715,"{'06E': 100.0, '06B-III': 99.1, '06B-I': 46.6, '06A-III': 46.1, '06A-II': 45.1}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329725,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295345,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258815,"{'14': 96.7, '36': 25.9, '09L': 25.4, '09N': 24.5, '15B': 24.3}",1,96.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335015,"{'35A': 94.4, '35C': 89.7, '42': 89.1, '33A': 46.3, '33F': 45.9}",1,94.4,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900046495,"{'08': 99.6, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.6,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299125,"{'18C': 88.4, '18B': 88.3, '18F': 77.8, '18A': 61.4, '16F': 37.5}",1,88.4,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235115,"{'03': 74.5, '20': 8.0, '36': 7.9, '06A-IV': 7.3, '01': 6.9}",1,74.5,,3,,,{},{},3,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229225,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028815,"{'19F-I': 99.4, '19F': 96.4, '19F-III': 96.4, '19F-II': 93.6, '19F-IV': 89.0}",1,99.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248865,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.2, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234455,"{'01': 99.0, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216775,"{'01': 99.1, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313895,"{'23F': 96.9, '23A': 63.9, '23B': 48.0, '28A': 47.6, '06B-II': 46.0}",1,96.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264475,"{'04': 99.7, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232735,"{'34': 98.6, '33F2': 35.4, '35B': 33.7, '33F': 30.0, '33C': 28.7}",1,98.6,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001326735,"{'03': 95.2, '36': 17.0, '01': 15.8, '20': 15.6, '09L': 14.4}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220795,"{'22F': 98.9, '22A': 73.2, '06A-IV': 43.5, '06A': 42.7, '06B': 42.2}",1,98.9,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018905,"{'04': 99.4, '45': 33.1, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.4,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900058195,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335855,"{'17F': 93.4, '06A-III': 45.5, '06B-I': 45.3, '06A-IV': 45.2, '06A': 44.4}",1,93.4,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900044255,"{'19F-I': 99.9, '19F': 97.2, '19F-III': 97.2, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316205,"{'14': 94.2, '36': 26.4, '09L': 25.5, '09N': 24.7, '15B': 24.3}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171095,"{'14': 92.7, '36': 28.9, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230975,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330095,"{'09N': 100.0, '09L': 89.2, '09A': 32.7, '09V': 32.7, '36': 32.4}",1,100.0,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585045,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249585,"{'14': 95.0, '36': 26.3, '09L': 25.5, '09N': 24.6, '15B': 24.3}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169315,"{'14': 92.6, '36': 28.8, '09L': 25.7, '09N': 24.6, '15B': 24.1}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001134865,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019515,"{'04': 99.8, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244645,"{'08': 99.5, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.5,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301715,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251525,"{'36': 10.8, '23B1': 6.8, '45': 6.7, '06A-IV': 6.7, '20': 6.0}",1,10.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239985,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301835,"{'15C': 87.7, '15B': 87.6, '15A': 60.9, '15F': 48.0, '23A': 31.3}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312525,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264175,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001169965,"{'35B': 99.1, '33F': 33.2, '35C': 32.9, '34': 32.7, '35A': 32.7}",1,99.1,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224615,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001348335,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232495,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308575,"{'15C': 86.9, '15B': 86.8, '15A': 66.3, '15F': 51.3, '23A': 28.5}",1,86.9,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001191755,"{'15C': 95.2, '15B': 95.1, '15A': 60.9, '15F': 47.3, '23A': 34.5}",1,95.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331175,"{'19A-I': 99.3, '19A-II': 97.3, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 92.87]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262745,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226935,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324725,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332165,"{'10A': 99.8, '10B': 66.6, '10C': 27.4, '10F': 17.7, '22F': 15.5}",1,99.8,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239095,"{'23A': 97.6, '23F': 68.9, '23B': 40.1, '19F-II': 39.3, '15B': 38.7}",1,97.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001087745,"{'03': 95.2, '01': 17.1, '36': 17.1, '20': 15.9, '09N': 15.5}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023855,"{'38': 99.2, '25F': 84.4, '25A': 83.4, '36': 11.8, '20': 8.2}",1,99.2,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191155,"{'33F2': 99.9, '33F': 74.5, '33A': 70.2, '34': 41.7, '35B': 30.8}",1,99.9,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171425,"{'14': 91.7, '36': 28.2, '09L': 24.6, '09N': 23.9, '15B': 23.8}",1,91.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001125585,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330615,"{'23F': 92.5, '23A': 61.2, '28A': 48.1, '23B': 46.7, '06A-IV': 46.5}",1,92.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255825,"{'14': 91.3, '19F-IV': 25.9, '09L': 25.1, '36': 24.3, '09N': 24.0}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334085,"{'31': 99.6, '41A': 57.1, '41F': 48.9, '06A-II': 36.6, '06A-VI': 36.6}",1,99.6,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337115,"{'09N': 97.7, '09L': 87.5, '09A': 32.6, '09V': 32.6, '36': 30.8}",1,97.7,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900041275,"{'12F': 96.7, '44': 93.4, '12B': 92.7, '12A': 80.4, '46': 77.3}",1,96.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031755,"{'04': 99.7, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001084925,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297095,"{'06A-II': 90.6, '06A-VI': 90.6, '06A': 89.6, '06A-V': 89.3, '06A-III': 88.9}",1,90.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302965,"{'06A-I': 95.1, '06B': 93.0, '06A-V': 89.4, '06A': 87.3, '06B-II': 86.2}",1,95.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262255,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325115,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900046975,"{'08': 99.5, '06A-II': 24.4, '02': 24.3, '06A-VI': 24.3, '06B-II': 23.8}",1,99.5,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326135,"{'10A': 99.6, '10B': 66.6, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,99.6,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328955,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.8, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001111945,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256515,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 96.61]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292705,"{'14': 93.4, '36': 27.5, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307425,"{'18A': 90.4, '18B': 52.4, '18C': 52.4, '18F': 51.9, '19F-IV': 36.5}",1,90.4,,18A,,,{},{},18A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900064105,"{'19A': 99.6, '19A-III': 99.4, '19A-I': 85.8, '19A-II': 83.3, '19AF': 57.2}",1,99.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242845,"{'19A-I': 99.2, '19A-II': 97.5, '19A': 87.8, '19A-III': 87.6, '19AF': 61.8}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234275,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277565,"{'16F': 71.7, '28F': 43.8, '28A': 41.0, '18F': 34.1, '18A': 33.8}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302685,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900188725,"{'20': 5.7, '01': 5.0, '25F': 5.0, '22F': 4.9, '25A': 4.9}",1,5.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342295,"{'21': 100.0, '22F': 36.1, '06A-IV': 33.6, '06A-II': 32.9, '06A-VI': 32.8}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269935,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 47.0, '06A-IV': 46.9}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272675,"{'14': 93.4, '36': 27.3, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338335,"{'06A-II': 95.6, '06A-VI': 95.6, '06B-II': 89.5, '06A-V': 89.1, '06A-III': 88.5}",1,95.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000762565,"{'01': 6.4, '45': 5.9, '25F': 5.7, '20': 5.5, '25A': 5.5}",2,6.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301405,"{'20': 82.2, '47F': 25.9, '35A': 24.6, '09L': 24.3, '36': 24.2}",1,82.2,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001198295,"{'25F': 5.5, '45': 5.4, '25A': 5.3, '20': 5.1, '22F': 5.1}",2,5.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219635,"{'23F': 96.3, '23A': 63.0, '06A-IV': 48.5, '23B': 48.2, '28A': 47.0}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227535,"{'15C': 87.8, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290075,"{'14': 93.4, '36': 27.3, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328105,"{'14': 95.0, '36': 26.2, '09L': 25.5, '09N': 24.3, '15B': 24.3}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056125,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290055,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305385,"{'14': 99.6, '09L': 27.4, '36': 26.4, '09N': 24.8, '15B': 24.7}",1,99.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309025,"{'22F': 93.8, '22A': 70.2, '06A-II': 45.3, '06B-I': 45.3, '06A-VI': 45.2}",1,93.8,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305225,"{'09A': 95.9, '09V': 95.7, '09N': 38.8, '09L': 37.4, '11F': 26.6}",1,95.9,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032955,"{'38': 99.1, '25F': 84.3, '25A': 83.3, '36': 11.8, '20': 8.2}",1,99.1,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292665,"{'21': 99.7, '22F': 36.2, '06A-II': 33.2, '06A-VI': 33.1, '06A-III': 32.7}",1,99.7,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234935,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217335,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269815,"{'19F': 97.2, '19F-I': 96.2, '19F-III': 95.4, '19F-II': 95.3, '19F-IV': 90.8}",1,97.2,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266255,"{'06A-II': 97.9, '06A-VI': 97.9, '06B-II': 90.4, '06A-V': 89.6, '06A-III': 89.2}",1,97.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225995,"{'19F': 98.1, '19F-III': 98.1, '19F-I': 97.1, '19F-II': 93.9, '19F-IV': 89.0}",1,98.1,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342185,"{'31': 99.7, '41A': 57.2, '41F': 48.9, '22F': 36.3, '06A-II': 36.2}",1,99.7,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020645,"{'33F2': 99.5, '33F': 74.3, '33A': 69.9, '34': 41.3, '35B': 32.1}",1,99.5,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266815,"{'19A-I': 98.9, '19A-II': 97.2, '19A': 87.5, '19A-III': 87.3, '19AF': 61.7}",1,98.9,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254405,"{'23F': 99.2, '23A': 65.4, '23B': 49.0, '28A': 48.1, '06A-IV': 47.3}",1,99.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001113245,"{'06B-III': 87.3, '06E': 86.7, '06B-I': 50.9, '06A-III': 50.5, '06C': 50.4}",1,87.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221335,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233355,"{'19A-I': 99.1, '19A-II': 97.4, '19A': 87.6, '19A-III': 87.4, '19AF': 61.9}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 92.87]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333445,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239705,"{'10A': 99.9, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,99.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265495,"{'35B': 91.0, '34': 34.1, '33F': 31.7, '33D': 31.4, '35A': 30.5}",1,91.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301645,"{'16F': 71.5, '28F': 43.1, '28A': 40.6, '18F': 33.6, '18A': 32.9}",1,71.5,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001210165,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309475,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284955,"{'24F2': 99.7, '24B': 88.5, '24F': 87.0, '24A': 71.0, '07B': 56.8}",1,99.7,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268675,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287065,"{'19A-I': 98.9, '19A-II': 97.2, '19A': 87.4, '19A-III': 87.2, '19AF': 61.5}",1,98.9,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025415,"{'04': 99.7, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222895,"{'08': 99.7, '02': 24.4, '06A-II': 24.4, '06A-VI': 24.3, '06B-II': 23.6}",1,99.7,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323595,"{'36': 10.8, '45': 6.7, '06A-IV': 6.7, '23B1': 6.6, '20': 6.0}",1,10.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217895,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303905,"{'15A': 94.5, '15F': 70.8, '15C': 58.1, '15B': 58.0, '23F': 27.7}",1,94.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065085,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.6, '19F-IV': 36.0, '19F': 35.7}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248665,"{'19F': 97.4, '19F-I': 96.4, '19F-III': 95.6, '19F-II': 95.5, '19F-IV': 91.0}",1,97.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312055,"{'13': 98.9, '09N': 29.1, '20': 28.9, '09L': 28.7, '36': 28.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327935,"{'14': 91.3, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258485,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336695,"{'10B': 99.3, '10A': 65.2, '10F': 20.1, '10C': 18.8, '22F': 14.0}",1,99.3,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900058395,"{'22F': 98.9, '22A': 73.2, '06A-IV': 43.6, '06A': 42.7, '06B': 42.2}",1,98.9,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024855,"{'07A': 99.6, '07F': 99.4, '19F-II': 36.3, '19F-IV': 35.7, '19F': 34.8}",1,99.6,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025075,"{'19F-III': 98.4, '19F': 98.0, '19F-I': 98.0, '19F-II': 93.8, '19F-IV': 89.2}",1,98.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001204355,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294705,"{'16F': 71.3, '28F': 42.9, '28A': 40.4, '18F': 33.4, '18A': 32.9}",1,71.3,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293545,"{'14': 93.4, '09L': 27.5, '36': 27.3, '09N': 25.4, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347755,"{'34': 92.8, '33F2': 34.7, '35B': 31.7, '33F': 29.0, '33C': 28.1}",1,92.8,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329015,"{'05': 95.0, '45': 22.5, '36': 21.3, '12A': 19.8, '46': 19.7}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338425,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292825,"{'23B': 99.5, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.6}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303335,"{'03': 95.2, '01': 18.2, '36': 17.4, '20': 16.1, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305205,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290555,"{'08': 93.1, '06A-II': 21.3, '06A-VI': 21.2, '06B-II': 21.1, '02': 20.8}",1,93.1,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250095,"{'15A': 98.3, '15F': 72.9, '15C': 61.6, '15B': 61.5, '23F': 32.2}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001166065,"{'33B': 89.8, '33D': 89.7, '35B': 34.4, '33F2': 30.3, '22F': 28.2}",1,89.8,,"Mixed serotypes- {'33B', '33D'}",,,{},{},"Mixed serotypes- {'33B', '33D'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305765,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234125,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001153785,"{'33C': 98.7, '34': 29.9, '35B': 25.3, '33F2': 23.8, '33F': 23.0}",1,98.7,,33C,,,{},{},33C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021015,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214225,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325045,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300295,"{'19A-II': 99.0, '19A-I': 97.1, '19A': 85.7, '19A-III': 85.5, '19AF': 62.0}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238385,"{'14': 100.0, '36': 26.8, '09L': 25.8, '09N': 24.4, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296675,"{'15A': 96.6, '15F': 72.9, '15C': 61.2, '15B': 61.1, '23F': 31.3}",1,96.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021022595,"{'02': 57.6, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224975,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328615,"{'09A': 99.4, '09V': 99.2, '09N': 38.4, '09L': 36.5, '11F': 26.6}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283495,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342415,"{'16F': 71.5, '28F': 43.1, '28A': 40.6, '18F': 33.6, '18A': 32.7}",1,71.5,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240055,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322645,"{'38': 99.3, '25F': 84.6, '25A': 83.6, '36': 11.8, '20': 8.2}",1,99.3,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170235,"{'14': 91.7, '36': 27.9, '09L': 25.6, '09N': 24.5, '15B': 23.7}",1,91.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283135,"{'14': 96.6, '36': 25.5, '09L': 25.4, '09N': 24.4, '15B': 24.2}",1,96.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000279695,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253285,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029605,"{'06B-I': 99.7, '06A-III': 97.6, '06B-II': 90.2, '06A': 89.8, '06A-V': 88.3}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063715,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256255,"{'06A-III': 94.8, '06B-I': 93.4, '06A': 90.3, '06A-IV': 89.5, '06B-II': 89.4}",1,94.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320445,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252245,"{'01': 98.6, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.6,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001116385,"{'36': 12.4, '20': 7.9, '06A-IV': 6.9, '45': 6.4, '01': 6.0}",1,12.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260665,"{'15C': 88.2, '15B': 88.1, '15A': 61.2, '15F': 48.2, '23A': 31.5}",1,88.2,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241755,"{'16F': 99.9, '28F': 42.4, '19F-IV': 41.1, '18A': 41.0, '18F': 40.7}",1,99.9,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220935,"{'23F': 94.1, '23A': 63.4, '28A': 47.7, '23B': 47.1, '06A': 46.9}",1,94.1,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900042385,"{'06B-I': 99.3, '06A-III': 97.2, '06B-II': 90.1, '06A': 89.8, '06A-V': 88.2}",1,99.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225595,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900618575,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324465,"{'33D': 79.9, '33B': 75.0, '06A-I': 36.5, '06B': 35.3, '06A-IV': 35.1}",1,79.9,,"Mixed serotypes- {'33B', '33D'}",,,{},{},"Mixed serotypes- {'33B', '33D'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329735,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000762625,"{'01': 6.2, '45': 5.8, '20': 5.7, '25F': 5.7, '25A': 5.5}",2,6.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337675,"{'19F': 94.7, '19F-I': 94.2, '19F-III': 93.1, '19F-II': 91.8, '19F-IV': 88.1}",1,94.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001130125,"{'35F': 99.3, '47F': 74.7, '34': 26.7, '35B': 26.1, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001340075,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001108565,"{'14': 94.0, '36': 26.3, '09L': 25.1, '09N': 24.6, '15B': 24.2}",1,94.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900061835,"{'10A': 99.7, '10B': 66.5, '10C': 27.4, '10F': 17.9, '22F': 15.5}",1,99.7,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193075,"{'35F': 99.0, '47F': 74.3, '34': 26.7, '35B': 24.9, '29': 22.5}",1,99.0,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222715,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001102005,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
PHESPD0046,"{'25F': 96.0, '25A': 95.0, '38': 80.8, '36': 11.0, '22F': 7.1}",1,96.0,25F_25A_38,25F_25A_38,,"[[8], [18]]","{'wcyD': ['a', 100.0], 'wcyV': 0.12}","{'wcyD': 'a', 'wcyV': 'not_detected'}",25F/25A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258585,"{'04': 99.8, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001089605,"{'15C': 95.3, '15B': 95.1, '15A': 60.9, '15F': 47.3, '23A': 34.5}",1,95.3,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001145185,"{'14': 89.8, '36': 29.2, '09L': 22.8, '19F-II': 22.2, '09N': 21.7}",1,89.8,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340465,"{'13': 83.7, '14': 27.3, '15B': 26.7, '36': 26.6, '15C': 26.3}",1,83.7,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246895,"{'19F-I': 97.8, '19F': 97.1, '19F-III': 96.6, '19F-II': 95.1, '19F-IV': 90.2}",1,97.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900044855,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219985,"{'14': 92.8, '36': 29.8, '09L': 25.8, '09N': 24.8, '15B': 24.3}",1,92.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308165,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291265,"{'15B': 99.7, '15C': 99.5, '15A': 62.6, '15F': 48.3, '23A': 32.9}",1,99.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226825,"{'01': 99.0, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328115,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023105,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342205,"{'15A': 97.7, '15F': 72.7, '15C': 60.6, '15B': 60.5, '23F': 31.5}",1,97.7,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307405,"{'23F': 95.7, '23A': 62.6, '28A': 48.3, '23B': 47.5, '28F': 46.6}",1,95.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054205,"{'23B': 99.2, '23B1': 53.0, '23F': 45.8, '23A': 39.7, '06A-IV': 36.7}",1,99.2,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311785,"{'18C': 99.1, '18B': 99.0, '18F': 75.9, '18A': 62.9, '16F': 39.1}",1,99.1,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279285,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267325,"{'01': 98.9, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275585,"{'10A': 99.1, '10B': 66.8, '10C': 27.7, '10F': 18.1, '22F': 15.5}",1,99.1,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052695,"{'07A': 99.5, '07F': 99.3, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000279615,"{'02': 57.6, '06C': 23.4, '06B-I': 23.4, '06C-I': 23.4, '06A-II': 23.1}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900059835,"{'22F': 99.1, '22A': 73.4, '06A-IV': 44.7, '06A-II': 43.2, '06A-VI': 43.1}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285915,"{'06A': 89.6, '06A-V': 88.9, '06B-II': 88.5, '06A-III': 88.1, '06B-I': 87.4}",1,89.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900036085,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030745,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217615,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167685,"{'09A': 99.5, '09V': 99.3, '09N': 36.7, '09L': 35.7, '11F': 26.6}",1,99.5,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336915,"{'01': 7.7, '25F': 6.0, '45': 5.9, '25A': 5.8, '22F': 4.9}",3,7.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233055,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002081355,"{'19A': 99.4, '19A-III': 99.2, '19A-I': 86.1, '19A-II': 83.9, '19AF': 57.1}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238995,"{'35B': 99.1, '33F': 33.4, '35C': 33.2, '34': 33.0, '35A': 32.8}",1,99.1,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001097465,"{'06C': 85.6, '06C-I': 85.6, '06D': 84.7, '06A': 77.0, '06A-IV': 73.3}",1,85.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261595,"{'19A': 99.8, '19A-III': 99.6, '19A-I': 86.0, '19A-II': 83.5, '19AF': 57.1}",1,99.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001209465,"{'19F-I': 97.9, '19F': 97.2, '19F-III': 96.7, '19F-II': 95.2, '19F-IV': 90.3}",1,97.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339935,"{'13': 83.6, '14': 25.3, '36': 25.2, '09L': 24.7, '09N': 24.3}",1,83.6,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001086665,"{'36': 13.0, '20': 8.1, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",2,13.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334995,"{'06C-I': 89.0, '06C': 88.9, '06D': 86.7, '06A-I': 78.0, '06B': 77.5}",1,89.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 94.1]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310275,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001152805,"{'06E': 99.9, '06B-III': 99.3, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328005,"{'06A-I': 98.3, '06B': 94.3, '06A-V': 89.3, '06A': 87.4, '06A-III': 85.8}",1,98.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001153805,"{'06A-II': 87.3, '06A-VI': 87.3, '06A': 86.0, '06A-IV': 85.2, '06A-V': 85.0}",1,87.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239345,"{'22F': 87.8, '22A': 71.4, '06A': 39.6, '06A-III': 39.6, '06A-I': 39.4}",1,87.8,,22F,,,{},{},22F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001206355,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900692625,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900188845,"{'06B-I': 99.3, '06A-III': 97.1, '06B-II': 89.7, '06A': 89.3, '06A-IV': 88.5}",1,99.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171525,"{'14': 92.1, '36': 28.7, '09L': 24.9, '15B': 24.2, '15C': 24.1}",1,92.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231745,"{'37': 98.8, '33F': 77.1, '33A': 75.8, '33F2': 70.9, '35B': 32.2}",1,98.8,,37,,,{},{},37,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262965,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.5, '46': 81.4}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296175,"{'24F2': 99.8, '24B': 88.6, '24F': 87.1, '24A': 71.3, '07B': 55.3}",1,99.8,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250265,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259055,"{'04': 99.7, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001146565,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255235,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238425,"{'04': 99.8, '45': 33.9, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900041735,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.4, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278195,"{'06A-III': 85.9, '06A-II': 85.8, '06A-VI': 85.8, '06A-V': 85.3, '06B-I': 84.3}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001173065,"{'15A': 97.5, '15F': 73.6, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001203075,"{'06E': 100.0, '06B-III': 99.2, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001208865,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900036075,"{'23F': 99.2, '23A': 65.4, '23B': 49.0, '28A': 48.1, '06A-IV': 47.3}",1,99.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226405,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900053115,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220875,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222255,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021215,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324705,"{'12F': 95.7, '12B': 93.4, '44': 92.7, '12A': 84.9, '46': 81.8}",1,95.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[0]],{'wciI': ['2: 89.12']},{'wciI': 0},12F_12A_12B_44_46,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001192635,"{'20': 5.5, '22F': 5.1, '45': 4.8, '25F': 4.7, '25A': 4.6}",1,5.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246155,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001139685,"{'06E': 100.0, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900029665,"{'01': 99.5, '19F': 32.0, '19F-I': 31.6, '19F-III': 31.3, '19F-II': 31.1}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907172295,"{'14': 92.1, '36': 25.6, '09L': 25.4, '09N': 24.5, '15B': 24.1}",1,92.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001152305,"{'11F': 61.8, '11D': 38.4, '11A': 36.8, '09V': 25.4, '09A': 25.3}",1,61.8,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194055,"{'31': 98.0, '41A': 55.8, '41F': 48.1, '22F': 36.5, '06A-II': 36.5}",1,98.0,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213645,"{'14': 91.4, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055455,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316295,"{'19F': 97.3, '19F-I': 96.3, '19F-III': 95.5, '19F-II': 95.4, '19F-IV': 90.9}",1,97.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254025,"{'03': 96.9, '01': 17.9, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,96.9,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169885,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339535,"{'23F': 94.6, '23A': 63.7, '28A': 47.7, '23B': 47.0, '06A': 46.4}",1,94.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261165,"{'23F': 93.1, '23A': 61.0, '28A': 47.4, '23B': 46.6, '06A-IV': 46.3}",1,93.1,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241275,"{'11D': 96.5, '11A': 95.3, '11F': 43.3, '11C': 36.2, '11B': 34.8}",1,96.5,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001114905,"{'22F': 99.0, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236555,"{'14': 92.8, '36': 27.2, '09L': 25.7, '09N': 25.3, '15B': 24.3}",1,92.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272625,"{'03': 95.5, '20': 17.6, '01': 17.2, '36': 16.3, '09L': 16.1}",1,95.5,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001131445,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298045,"{'12F': 96.9, '44': 93.6, '12B': 92.9, '12A': 80.6, '46': 77.5}",1,96.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001115145,"{'36': 11.1, '06A-IV': 7.7, '01': 7.3, '20': 7.0, '06C': 6.4}",1,11.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907172275,"{'16F': 99.3, '28F': 42.6, '19F-IV': 40.9, '18F': 40.7, '18A': 40.5}",1,99.3,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223435,"{'09A': 99.6, '09V': 99.4, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.6,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253635,"{'19A-I': 99.2, '19A-II': 97.7, '19A': 87.8, '19A-III': 87.6, '19AF': 62.0}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338115,"{'45': 6.7, '25F': 5.5, '25A': 5.3, '35B': 4.5, '38': 4.5}",3,6.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255775,"{'15C': 87.3, '15B': 87.2, '15A': 64.2, '15F': 49.6, '23A': 30.0}",1,87.3,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024875,"{'09N': 99.8, '09L': 88.7, '09A': 32.7, '09V': 32.7, '36': 31.9}",1,99.8,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228425,"{'23B1': 99.6, '23B': 56.3, '19A-II': 36.1, '19A-I': 35.9, '19AF': 31.7}",1,99.6,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001114545,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267375,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001114425,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220005,"{'14': 94.2, '36': 26.3, '09L': 25.5, '09N': 24.6, '15B': 24.3}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193495,"{'16F': 96.7, '19F-IV': 44.7, '19F-II': 43.9, '19F': 42.9, '19F-I': 42.3}",1,96.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277935,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281495,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.4, '06B-II': 34.7, '06A-V': 34.5}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001166825,"{'13': 83.6, '36': 25.5, '14': 25.3, '09L': 25.1, '09N': 24.5}",1,83.6,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305145,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001146945,"{'14': 94.1, '36': 26.3, '09L': 24.3, '15B': 24.3, '15C': 24.2}",1,94.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217775,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001124085,"{'15C': 87.6, '15B': 87.5, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269415,"{'20': 84.3, '09L': 25.2, '13': 25.0, '09N': 24.2, '47F': 23.5}",1,84.3,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263025,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.0, '19A-II': 83.5, '19AF': 57.1}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322235,"{'19A': 93.4, '19A-III': 93.2, '19A-II': 81.8, '19A-I': 80.0, '19AF': 55.9}",1,93.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283145,"{'03': 95.2, '36': 17.1, '01': 16.6, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341145,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168875,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.7, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310995,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.8, '24F': 48.6}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306775,"{'03': 94.4, '01': 17.7, '36': 17.1, '09N': 15.8, '20': 15.8}",1,94.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170245,"{'14': 92.2, '36': 28.9, '09L': 25.5, '09N': 24.2, '15B': 24.1}",1,92.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001083285,"{'36': 13.6, '20': 8.8, '23B1': 8.1, '06A-IV': 7.1, '06B-I': 5.9}",1,13.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033015,"{'33F': 99.6, '33A': 99.5, '33F2': 70.6, '35C': 42.6, '42': 41.6}",1,99.6,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001132405,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219105,"{'07A': 90.4, '07F': 90.2, '19F-II': 39.2, '19F': 37.7, '19F-IV': 37.7}",1,90.4,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001165285,"{'35F': 99.0, '47F': 74.3, '34': 26.6, '35B': 25.8, '29': 22.3}",1,99.0,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192745,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232465,"{'06E': 99.6, '06B-III': 99.3, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339255,"{'36': 12.3, '20': 8.1, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",1,12.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001336055,"{'35A': 99.7, '35C': 85.0, '42': 84.4, '33A': 42.9, '33F': 42.6}",1,99.7,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277975,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236705,"{'23F': 91.1, '23A': 59.7, '06A-IV': 46.8, '28A': 46.6, '23B': 46.1}",1,91.1,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001154065,"{'35B': 99.7, '33F': 33.4, '35C': 33.3, '34': 32.9, '35A': 32.9}",1,99.7,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304995,"{'10A': 93.6, '10B': 64.4, '10C': 28.9, '10F': 19.3, '47A': 16.2}",1,93.6,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001128585,"{'19F-III': 99.9, '19F': 97.9, '19F-I': 97.2, '19F-II': 94.7, '19F-IV': 89.4}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054965,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266075,"{'34': 98.6, '33F2': 35.2, '35B': 33.5, '33F': 29.8, '33C': 28.5}",1,98.6,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002014095,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264905,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031175,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.6, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228355,"{'18C': 99.2, '18B': 99.1, '18F': 75.9, '18A': 62.8, '16F': 39.2}",1,99.2,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230205,"{'19F-II': 99.3, '19F': 95.5, '19F-III': 94.1, '19F-I': 93.8, '19F-IV': 93.0}",1,99.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001096445,"{'06E': 100.0, '06B-III': 97.4, '06B-I': 44.7, '06A-III': 44.2, '06B-II': 43.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001129965,"{'34': 92.9, '33F2': 34.7, '35B': 31.6, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311915,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001166705,"{'06E': 99.2, '06B-III': 98.3, '06B-I': 46.7, '06A-III': 46.2, '06A-II': 45.1}",1,99.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232815,"{'13': 84.2, '09L': 27.8, '09N': 27.6, '14': 27.0, '19B': 24.0}",1,84.2,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338515,"{'05': 95.3, '45': 22.4, '36': 21.5, '20': 20.2, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001110585,"{'14': 94.6, '36': 26.1, '09L': 24.9, '15B': 24.2, '15C': 24.1}",1,94.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325235,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019445755,"{'23A': 97.6, '23F': 68.9, '23B': 40.1, '19F-II': 39.3, '15B': 38.7}",1,97.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337255,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001089785,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054055,"{'19F-I': 95.7, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241075,"{'13': 98.9, '09N': 29.1, '20': 28.9, '09L': 28.7, '36': 28.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250025,"{'10A': 99.4, '10B': 67.1, '10C': 27.7, '10F': 18.1, '22F': 15.5}",1,99.4,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312735,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001088705,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001201175,"{'36': 10.9, '20': 7.1, '06A-IV': 6.8, '45': 5.5, '06C': 5.4}",1,10.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325315,"{'19F-I': 97.5, '19F': 96.8, '19F-III': 96.3, '19F-II': 94.8, '19F-IV': 89.9}",1,97.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001263085,"{'01': 27.2, '06C': 21.0, '06C-I': 21.0, '06A-II': 20.1, '06A-V': 20.1}",1,27.2,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296515,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234985,"{'14': 95.0, '36': 26.4, '09L': 25.5, '09N': 24.3, '15B': 24.3}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330685,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315835,"{'34': 98.5, '33F2': 35.0, '35B': 33.7, '33F': 29.8, '35F': 28.6}",1,98.5,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275105,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001083365,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001326835,"{'03': 94.8, '36': 16.9, '01': 15.8, '20': 15.3, '14': 14.1}",1,94.8,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327865,"{'06A-II': 85.2, '06A-VI': 85.2, '06A-III': 85.1, '06A-V': 84.7, '06A': 84.0}",1,85.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225705,"{'22F': 98.9, '22A': 73.2, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,98.9,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047625,"{'08': 99.8, '06A-II': 24.6, '06A-VI': 24.5, '02': 24.4, '06B-II': 24.0}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900060245,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194975,"{'31': 99.6, '41A': 57.1, '41F': 48.9, '06A-II': 36.6, '06A-VI': 36.6}",1,99.6,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249675,"{'12F': 95.8, '12B': 93.2, '44': 92.8, '12A': 84.7, '46': 81.6}",1,95.8,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001193235,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244975,"{'03': 97.7, '01': 17.7, '20': 15.5, '09N': 15.3, '09L': 15.1}",1,97.7,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900062045,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189755,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256595,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190365,"{'22F': 91.3, '22A': 70.2, '06A-II': 45.1, '06A-VI': 45.0, '06B-I': 45.0}",1,91.3,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322835,"{'23B1': 99.6, '23B': 56.3, '19A-II': 36.1, '19A-I': 35.9, '19AF': 31.7}",1,99.6,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341585,"{'19F': 97.3, '19F-I': 96.3, '19F-III': 95.5, '19F-II': 95.4, '19F-IV': 90.9}",1,97.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232635,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.5, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260575,"{'21': 100.0, '22F': 36.0, '06A-IV': 32.9, '06A-II': 32.2, '06A-VI': 32.1}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213305,"{'34': 95.6, '33F2': 35.6, '35B': 34.2, '33F': 30.3, '35C': 29.1}",1,95.6,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262035,"{'17F': 82.5, '06A-I': 42.2, '06B': 41.8, '06A': 41.2, '22F': 40.7}",1,82.5,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272275,"{'22F': 96.4, '22A': 73.4, '06A': 42.6, '06A-II': 42.3, '06A-VI': 42.2}",1,96.4,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194445,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266545,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900088935,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023725,"{'33F': 100.0, '33A': 97.5, '33F2': 70.9, '35C': 42.8, '42': 41.8}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288675,"{'25F': 85.8, '25A': 85.0, '38': 80.3, '36': 8.9, '20': 8.4}",1,85.8,25F_25A_38,25F_25A_38,,"[[0], [18]]","{'wcyD': ['b: 22.59'], 'wcyV': 4.69}","{'wcyD': 0, 'wcyV': 'not_detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281225,"{'14': 92.6, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001117765,"{'23A': 99.1, '23F': 67.3, '23B': 43.6, '19F-II': 37.3, '19F-IV': 36.9}",1,99.1,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239845,"{'05': 95.0, '45': 22.6, '36': 21.7, '20': 20.3, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305125,"{'14': 95.0, '36': 28.2, '09L': 25.3, '15B': 24.2, '09N': 24.1}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001096525,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
PHESPD0072,"{'41A': 99.9, '41F': 67.4, '31': 56.5, '06A-II': 45.4, '06A-VI': 45.3}",1,99.9,,41A,,,{},{},41A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001202335,"{'35F': 91.0, '47F': 67.6, '29': 25.7, '34': 25.3, '35B': 24.1}",1,91.0,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255015,"{'01': 99.7, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.3}",1,99.7,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027295,"{'14': 99.6, '09L': 27.1, '36': 25.8, '09N': 24.4, '15B': 24.2}",1,99.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169465,"{'14': 92.7, '36': 28.4, '09L': 24.5, '15B': 24.2, '15C': 24.1}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_003044325,"{'01': 7.2, '45': 7.2, '22F': 5.5, '35B': 4.6, '38': 4.5}",6,7.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032785,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222135,"{'12F': 94.1, '12B': 91.5, '44': 91.1, '12A': 82.6, '46': 79.5}",1,94.1,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001105285,"{'35B': 99.8, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001093945,"{'23F': 94.6, '23A': 63.7, '23B': 47.9, '28A': 47.7, '06B-II': 47.1}",1,94.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019397325,"{'03': 95.2, '01': 18.2, '36': 17.3, '20': 16.0, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001145865,"{'18F': 79.7, '18B': 73.1, '18C': 73.1, '18A': 60.9, '16F': 45.5}",1,79.7,,"Mixed serotypes- {'18F', '18C/18B'}",,,{},{},"Mixed serotypes- {'18F', '18C/18B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900195185,"{'06C-I': 99.7, '06C': 99.5, '06D': 84.4, '06A-II': 79.4, '06A-VI': 79.4}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325205,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300325,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235105,"{'13': 98.9, '09L': 28.7, '09N': 28.6, '20': 27.7, '14': 27.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001098885,"{'01': 98.8, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025955,"{'14': 93.4, '36': 27.2, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337005,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001199535,"{'10A': 99.3, '10B': 67.0, '10C': 27.7, '10F': 18.1, '06B-I': 15.2}",1,99.3,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322185,"{'35F': 99.0, '47F': 74.5, '34': 27.1, '35B': 26.7, '29': 22.2}",1,99.0,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319215,"{'10B': 99.8, '10A': 65.5, '10F': 20.1, '10C': 18.8, '22F': 14.1}",1,99.8,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252535,"{'01': 98.8, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224125,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_003490175,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332905,"{'10A': 98.9, '10B': 67.1, '10C': 27.5, '10F': 18.1, '22F': 15.5}",1,98.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019805,"{'06A-II': 100.0, '06A-VI': 100.0, '06B-II': 91.8, '06A-V': 91.0, '06A-III': 89.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290435,"{'06B-III': 83.4, '06E': 83.3, '06A-IV': 60.6, '06B-II': 60.2, '06A-V': 60.0}",1,83.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340265,"{'18C': 99.8, '18B': 99.7, '18F': 75.7, '18A': 62.9, '16F': 39.2}",1,99.8,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028425,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282175,"{'38': 97.5, '25F': 84.3, '25A': 83.3, '36': 13.1, '01': 7.2}",1,97.5,25F_25A_38,25F_25A_38,,"[[0], [19]]","{'wcyD': ['b: 80.0'], 'wcyV': 100.0}","{'wcyD': 0, 'wcyV': 'detected'}",25F_25A_38,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001099425,"{'06A-III': 99.8, '06B-I': 98.2, '06B-II': 91.1, '06A': 90.8, '06A-V': 90.2}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310315,"{'24F': 97.0, '24B': 89.7, '24F2': 86.4, '24A': 62.7, '07C': 51.8}",1,97.0,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300425,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269505,"{'19A-II': 99.0, '19A-I': 97.1, '19A': 85.7, '19A-III': 85.5, '19AF': 62.0}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264755,"{'18C': 99.5, '18B': 99.4, '18F': 76.0, '18A': 62.9, '16F': 39.5}",1,99.5,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000278985,"{'20': 97.0, '13': 25.9, '09L': 25.5, '09N': 24.6, '47F': 24.4}",1,97.0,,20,,,{},{},20,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313745,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251275,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900046515,"{'09A': 99.7, '09V': 99.5, '09N': 38.0, '09L': 36.7, '35B': 26.7}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320555,"{'03': 97.4, '01': 17.3, '20': 15.5, '09N': 15.3, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900059405,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280475,"{'18C': 88.5, '18B': 88.4, '18F': 77.8, '18A': 61.5, '16F': 37.6}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900064845,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169825,"{'14': 92.8, '36': 26.6, '09L': 25.5, '09N': 24.6, '15B': 24.3}",1,92.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232045,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.8, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298325,"{'06A-V': 99.9, '06B-II': 95.0, '06A': 91.7, '06A-II': 90.5, '06A-VI': 90.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285685,"{'23F': 98.8, '23A': 64.6, '23B': 47.4, '28A': 47.4, '06A-V': 45.6}",1,98.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001344855,"{'06A': 88.0, '06B-II': 87.1, '06A-III': 86.7, '06A-II': 86.6, '06A-V': 86.6}",1,88.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 85.79']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019397375,"{'34': 93.0, '33F2': 34.9, '35B': 32.1, '33F': 29.0, '33C': 28.0}",1,93.0,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241345,"{'08': 96.3, '02': 23.8, '06A': 22.6, '22F': 22.6, '35B': 22.1}",1,96.3,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251225,"{'35A': 93.8, '35C': 84.3, '42': 83.5, '33A': 41.8, '33F': 41.6}",1,93.8,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001194945,"{'14': 89.6, '36': 28.7, '09L': 23.6, '09N': 22.3, '19F-II': 22.2}",1,89.6,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218725,"{'06A': 90.1, '06A-III': 89.5, '06B-II': 89.5, '06A-II': 89.4, '06A-VI': 89.4}",1,90.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021265,"{'03': 95.2, '01': 17.3, '36': 17.0, '20': 15.8, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233425,"{'14': 91.7, '36': 29.6, '09L': 25.3, '09N': 25.1, '15B': 24.2}",1,91.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167105,"{'09A': 99.5, '09V': 99.3, '09N': 36.2, '09L': 35.1, '11F': 26.6}",1,99.5,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032905,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001137565,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020175,"{'03': 95.5, '20': 17.5, '01': 17.2, '36': 16.3, '09L': 16.1}",1,95.5,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028825,"{'04': 99.7, '45': 33.4, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001198075,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192465,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001137165,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001206175,"{'06A': 90.4, '06A-III': 89.4, '06A-II': 89.3, '06A-VI': 89.3, '06B-II': 89.3}",1,90.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228865,"{'14': 95.0, '36': 28.2, '09L': 25.5, '09N': 24.5, '15B': 24.2}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049715,"{'10B': 93.7, '10A': 69.9, '10F': 20.0, '10C': 18.7, '22F': 13.5}",1,93.7,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325995,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218105,"{'15A': 99.2, '15F': 73.7, '15C': 61.8, '15B': 61.7, '23F': 31.5}",1,99.2,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001122045,"{'01': 6.8, '45': 6.7, '25F': 5.6, '20': 5.4, '25A': 5.4}",2,6.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288635,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255225,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331155,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307415,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243265,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293315,"{'03': 95.2, '36': 17.4, '01': 17.0, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275205,"{'18C': 88.5, '18B': 88.4, '18F': 77.8, '18A': 61.5, '16F': 37.6}",1,88.5,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000233265,"{'01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8, '09L': 15.4}",1,17.4,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342295,"{'17F': 99.7, '06B': 44.4, '06B-I': 43.7, '06D': 43.6, '06A-III': 43.6}",1,99.7,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056145,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049615,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295615,"{'16F': 95.5, '19F-II': 42.4, '19F-IV': 42.4, '28F': 42.1, '19F': 41.4}",1,95.5,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215675,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264255,"{'01': 99.1, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.1,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244175,"{'18C': 99.5, '18B': 99.4, '18F': 76.0, '18A': 62.9, '16F': 39.5}",1,99.5,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001193215,"{'03': 95.2, '36': 16.9, '01': 15.7, '20': 15.5, '09N': 14.6}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281895,"{'06C-I': 87.7, '06C': 87.6, '06D': 87.0, '06A-I': 77.8, '06B': 77.5}",1,87.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272645,"{'15A': 98.5, '15F': 73.7, '15C': 62.0, '15B': 61.9, '23F': 31.8}",1,98.5,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333765,"{'14': 91.8, '36': 27.9, '09L': 25.6, '09N': 24.5, '15B': 23.7}",1,91.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318555,"{'04': 99.0, '45': 33.5, '12F': 23.4, '44': 23.2, '12A': 22.3}",1,99.0,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258945,"{'06A': 90.1, '06A-III': 89.5, '06B-II': 89.5, '06A-II': 89.4, '06A-VI': 89.4}",1,90.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333555,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001334375,"{'33B': 89.8, '33D': 89.7, '35B': 34.5, '33F2': 30.0, '35C': 26.2}",1,89.8,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279685,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223925,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334145,"{'15A': 98.4, '15F': 73.7, '15C': 62.1, '15B': 62.0, '23F': 31.7}",1,98.4,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331065,"{'09A': 99.4, '09V': 99.2, '09N': 38.5, '09L': 36.5, '11F': 27.1}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231105,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232105,"{'19A': 93.4, '19A-III': 93.2, '19A-II': 81.8, '19A-I': 80.0, '19AF': 55.9}",1,93.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001639345,"{'18C': 99.2, '18B': 99.1, '18F': 75.9, '18A': 62.7, '16F': 39.2}",1,99.2,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027685,"{'23F': 97.7, '23A': 63.3, '28A': 48.3, '23B': 47.9, '06A-IV': 46.3}",1,97.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001094265,"{'06E': 100.0, '06B-III': 97.4, '06B-I': 45.3, '06A-III': 44.4, '06B-II': 43.9}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280915,"{'05': 95.2, '45': 22.3, '36': 21.6, '20': 20.2, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191945,"{'06B-I': 99.3, '06A-III': 97.2, '06B-II': 89.9, '06A': 89.5, '06A-V': 88.0}",1,99.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025325,"{'23F': 99.2, '23A': 65.4, '23B': 49.0, '28A': 48.1, '06A-IV': 47.3}",1,99.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255105,"{'11A': 99.1, '11D': 96.7, '11F': 40.0, '11C': 36.2, '11B': 34.7}",1,99.1,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001145365,"{'13': 83.6, '36': 25.5, '14': 25.4, '09L': 25.1, '09N': 24.7}",1,83.6,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_003494465,"{'14': 99.7, '09L': 26.9, '36': 25.9, '09N': 24.8, '15B': 24.1}",1,99.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001204735,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020245,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030095,"{'15C': 93.4, '15B': 93.3, '15A': 61.6, '15F': 48.5, '14': 33.0}",1,93.4,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231065,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001130825,"{'06E': 99.6, '06B-III': 95.7, '06B-I': 43.2, '06A-III': 43.0, '06A-I': 42.6}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001118225,"{'17F': 0.2, '32A': 0.1}",1,0.2,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244205,"{'19A-I': 99.2, '19A-II': 97.5, '19A': 87.8, '19A-III': 87.6, '19AF': 62.0}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256875,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001196375,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300935,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047015,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335365,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001194205,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275995,"{'14': 94.9, '36': 28.1, '09L': 25.5, '09N': 24.5, '15B': 24.2}",1,94.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001141725,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065645,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328545,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900039375,"{'08': 99.8, '02': 24.4, '06A-II': 24.4, '06A-VI': 24.3, '06B-II': 23.8}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220525,"{'06C-I': 89.2, '06C': 89.1, '06D': 86.9, '06A-I': 78.0, '06B': 77.7}",1,89.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 94.1]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256555,"{'07A': 98.1, '07F': 97.9, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,98.1,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031265,"{'06B-I': 98.8, '06A-III': 96.7, '06A': 89.8, '06B-II': 89.5, '06A-V': 87.6}",1,98.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028405,"{'08': 99.6, '06A-II': 24.5, '06A-VI': 24.4, '02': 24.3, '06B-II': 23.9}",1,99.6,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316255,"{'19A': 99.2, '19A-III': 99.0, '19A-I': 86.1, '19A-II': 83.8, '19AF': 57.2}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169775,"{'19F-III': 98.2, '19F': 97.8, '19F-I': 97.8, '19F-II': 93.6, '19F-IV': 89.0}",1,98.2,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900195205,"{'15B': 99.5, '15C': 99.3, '15A': 62.4, '15F': 48.0, '23A': 32.9}",1,99.5,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321205,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223695,"{'12F': 95.8, '12B': 93.3, '44': 92.8, '12A': 84.4, '46': 81.3}",1,95.8,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336115,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.1}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249455,"{'17F': 99.4, '06B': 44.2, '06B-I': 44.0, '06A-III': 43.9, '06D': 43.7}",1,99.4,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256755,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027145,"{'15C': 93.8, '15B': 93.7, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,93.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311905,"{'06A-III': 88.8, '06B-I': 87.7, '06A-II': 87.3, '06A-V': 87.3, '06A-VI': 87.3}",1,88.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024035,"{'09N': 100.0, '09L': 89.1, '09A': 32.7, '09V': 32.7, '36': 31.8}",1,100.0,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245245,"{'23B': 88.1, '23B1': 61.3, '23F': 38.5, '28A': 33.3, '23A': 33.0}",1,88.1,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001112245,"{'06A-II': 86.8, '06A-VI': 86.8, '06A': 86.0, '06A-IV': 84.7, '06A-V': 84.5}",1,86.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001154885,"{'36': 10.6, '20': 7.6, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",2,10.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280715,"{'07A': 97.5, '07F': 97.3, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,97.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317105,"{'17F': 99.6, '06B': 44.3, '06B-I': 44.0, '06A-III': 43.9, '06D': 43.7}",1,99.6,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335585,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300575,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251825,"{'14': 91.1, '19F-IV': 25.9, '09L': 25.0, '09N': 24.9, '36': 24.9}",1,91.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300275,"{'12F': 96.2, '12B': 93.1, '44': 92.9, '12A': 80.2, '46': 77.1}",1,96.2,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228975,"{'18C': 99.5, '18B': 99.4, '18F': 76.0, '18A': 62.9, '16F': 39.5}",1,99.5,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001128645,"{'13': 98.9, '09L': 28.5, '20': 28.1, '09N': 28.0, '14': 26.8}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263695,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900089115,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291545,"{'04': 99.0, '45': 33.5, '12F': 23.4, '44': 23.2, '12A': 22.3}",1,99.0,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273745,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.7, '06B-II': 35.1, '06A-V': 34.9}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189195,"{'15C': 95.1, '15B': 95.0, '15A': 60.9, '15F': 47.3, '23A': 34.5}",1,95.1,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217625,"{'10B': 93.6, '10A': 69.9, '10F': 20.0, '10C': 18.7, '22F': 13.6}",1,93.6,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268635,"{'23F': 96.9, '23A': 63.9, '23B': 48.2, '28A': 47.6, '06B-II': 46.6}",1,96.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338755,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213375,"{'14': 91.4, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290345,"{'14': 93.4, '36': 27.3, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324575,"{'17F': 82.5, '06A-III': 43.3, '06B-I': 43.3, '06C': 42.2, '06A-I': 42.2}",1,82.5,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285085,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900019795,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.2, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241465,"{'31': 99.7, '41A': 57.2, '41F': 49.3, '06A-II': 36.5, '06A-VI': 36.5}",1,99.7,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169595,"{'14': 92.7, '36': 29.0, '09L': 25.7, '09N': 24.5, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001110905,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257295,"{'07B': 99.7, '40': 92.7, '07C': 77.0, '24F2': 47.9, '24F': 47.5}",1,99.7,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316675,"{'14': 91.5, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225855,"{'07A': 97.5, '07F': 97.3, '19F-II': 36.8, '19F': 35.1, '19F-I': 35.0}",1,97.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298755,"{'22A': 94.2, '22F': 77.6, '06A-IV': 45.7, '06A-II': 44.0, '06B-I': 44.0}",1,94.2,,22A,,,{},{},22A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257325,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900188975,"{'23F': 99.0, '23A': 64.8, '23B': 47.6, '28A': 47.5, '06A-V': 45.5}",1,99.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001101105,"{'05': 95.2, '45': 21.4, '36': 20.8, '12A': 19.7, '46': 19.6}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031985,"{'08': 99.8, '06A-II': 26.3, '06A-VI': 26.2, '06B-II': 25.6, '06A-V': 25.2}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228545,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001208425,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284785,"{'01': 99.9, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.3}",1,99.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221435,"{'38': 99.5, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.5,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324305,"{'05': 95.2, '45': 22.2, '36': 21.0, '12A': 19.5, '20': 19.4}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321515,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284135,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317975,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305665,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233115,"{'18C': 99.9, '18B': 99.8, '18F': 75.7, '18A': 62.4, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215745,"{'06E': 78.9, '06B-III': 72.9, '19AF': 30.0, '23B1': 29.8, '19A-II': 29.6}",1,78.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001150585,"{'06A-III': 98.6, '06B-I': 97.0, '06A': 90.6, '06B-II': 90.5, '06A-V': 89.6}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288335,"{'04': 98.3, '45': 34.9, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001153765,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217145,"{'06E': 89.8, '06B-III': 87.8, '06B-I': 51.3, '06A-III': 50.2, '06A-II': 48.8}",1,89.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215635,"{'18F': 99.8, '18B': 71.4, '18C': 71.4, '18A': 60.1, '16F': 41.4}",1,99.8,,18F,,,{},{},18F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287015,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318825,"{'14': 91.4, '09L': 26.5, '36': 26.5, '09N': 26.2, '15B': 23.2}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282825,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167635,"{'14': 91.1, '36': 26.3, '09L': 25.4, '09N': 24.6, '15B': 23.4}",1,91.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279865,"{'05': 95.2, '45': 22.5, '36': 21.9, '20': 20.1, '12A': 19.8}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342695,"{'21': 92.0, '22F': 36.6, '06A-IV': 31.6, '06A-II': 31.2, '06A-VI': 31.2}",1,92.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262695,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031255,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.1, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298115,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334885,"{'06B-III': 77.4, '06E': 76.8, '06A-II': 65.8, '06A-VI': 65.8, '06B-II': 61.8}",1,77.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304135,"{'06A-I': 99.2, '06B': 94.9, '06A': 87.7, '06A-V': 86.7, '06A-III': 82.9}",1,99.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281235,"{'12F': 95.7, '12B': 93.1, '44': 92.7, '12A': 84.6, '46': 81.5}",1,95.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230335,"{'15C': 85.7, '15B': 85.5, '15A': 61.1, '15F': 47.9, '23A': 31.4}",1,85.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248085,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001193635,"{'17F': 99.7, '06B': 44.4, '06B-I': 44.0, '06A-III': 43.9, '06D': 43.6}",1,99.7,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330585,"{'11D': 80.0, '11A': 78.7, '11F': 45.1, '11B': 34.6, '11C': 31.0}",1,80.0,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275825,"{'15A': 99.6, '15F': 73.9, '15C': 62.3, '15B': 62.2, '23F': 31.3}",1,99.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332935,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308555,"{'15B': 99.8, '15C': 99.6, '15A': 62.7, '15F': 48.3, '23A': 32.9}",1,99.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254665,"{'19F-I': 97.6, '19F-II': 94.9, '19F-III': 94.8, '19F': 94.7, '19F-IV': 90.3}",1,97.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_003493065,"{'18C': 97.2, '18B': 97.1, '18F': 75.3, '18A': 61.9, '16F': 38.6}",1,97.2,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264995,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287005,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001326815,"{'03': 94.8, '36': 17.1, '20': 15.7, '09N': 14.9, '09L': 14.5}",1,94.8,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256805,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.7, '06B-II': 35.1, '06A-V': 34.9}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247495,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328175,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268455,"{'16F': 95.7, '19F-II': 42.6, '19F-IV': 42.6, '28F': 42.4, '19F': 41.6}",1,95.7,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227555,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226785,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033465,"{'12F': 96.7, '44': 93.4, '12B': 92.7, '12A': 80.4, '46': 77.3}",1,96.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193925,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.7, '36': 22.8}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001169345,"{'06A': 100.0, '06A-IV': 99.6, '06B-II': 95.4, '06A-V': 93.7, '06A-III': 91.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_009721235,"{'18C': 99.8, '18B': 99.7, '18F': 75.7, '18A': 62.5, '24A': 57.3}",1,99.8,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324225,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283175,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.7, '06B-II': 35.1, '06A-V': 34.9}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031805,"{'09A': 99.7, '09V': 99.5, '09N': 38.2, '09L': 36.8, '06A-IV': 27.4}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314775,"{'10A': 99.8, '10B': 66.6, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,99.8,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900059335,"{'19F-I': 95.9, '19F': 95.6, '19F-III': 94.0, '19F-II': 92.8, '19F-IV': 88.8}",1,95.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262265,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218535,"{'14': 92.7, '36': 29.7, '09L': 25.6, '09N': 24.7, '15B': 24.3}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318065,"{'21': 96.8, '22F': 37.5, '06A-II': 32.6, '06A-VI': 32.5, '06A-III': 31.8}",1,96.8,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249365,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272945,"{'06A-II': 86.4, '06A-VI': 86.4, '06A-III': 86.1, '06B-I': 85.0, '06A-V': 84.7}",1,86.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245295,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298535,"{'23F': 93.6, '23A': 63.1, '28A': 48.1, '23B': 46.6, '06A-III': 46.4}",1,93.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295975,"{'07A': 91.2, '07F': 91.0, '19F-II': 39.3, '19F': 37.8, '19F-IV': 37.8}",1,91.2,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261175,"{'16F': 71.7, '28F': 43.2, '28A': 40.7, '18F': 33.7, '18A': 33.1}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295735,"{'03': 95.2, '36': 17.4, '01': 16.8, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900037495,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270785,"{'19F-I': 95.4, '19F': 95.1, '19F-III': 93.6, '19F-II': 92.3, '19F-IV': 88.3}",1,95.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218935,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901250725,"{'33D': 80.5, '33B': 76.5, '06A-I': 36.5, '06B': 35.9, '35B': 35.9}",1,80.5,,"Mixed serotypes- {'33B', '33D'}",,,{},{},"Mixed serotypes- {'33B', '33D'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243605,"{'06A-II': 96.7, '06A-VI': 96.7, '06B-II': 89.5, '06A-III': 88.8, '06A-V': 88.7}",1,96.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303355,"{'17F': 82.3, '06A-I': 42.2, '06B': 41.8, '06A': 41.2, '06A-III': 40.5}",1,82.3,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001207755,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334645,"{'33F': 99.9, '33A': 99.5, '33F2': 70.9, '35C': 42.9, '42': 41.9}",1,99.9,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325485,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246615,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276755,"{'06A-II': 95.4, '06A-VI': 95.4, '06B-II': 89.8, '06A-V': 89.4, '06A-III': 88.6}",1,95.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267955,"{'04': 99.6, '45': 33.8, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.6,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900038605,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266535,"{'14': 92.8, '36': 27.3, '09L': 25.8, '09N': 25.5, '15B': 24.3}",1,92.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253685,"{'13': 98.9, '09N': 29.1, '09L': 28.7, '20': 28.7, '36': 27.4}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240635,"{'01': 7.5, '45': 6.5, '25F': 5.8, '25A': 5.6, '22F': 5.3}",5,7.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222515,"{'15C': 87.8, '15B': 87.6, '15A': 64.6, '15F': 50.0, '23A': 30.1}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001157265,"{'19F': 94.7, '19F-I': 94.2, '19F-III': 93.1, '19F-II': 91.8, '19F-IV': 88.1}",1,94.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264305,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273505,"{'18C': 93.6, '18B': 93.5, '18F': 75.5, '18A': 62.5, '16F': 39.5}",1,93.6,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293425,"{'19A-II': 99.0, '19A-I': 97.1, '19A': 85.7, '19A-III': 85.5, '19AF': 62.0}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001910225,"{'03': 95.2, '36': 17.3, '20': 15.7, '09L': 15.4, '09N': 15.4}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328185,"{'04': 98.3, '45': 34.0, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267575,"{'15C': 87.8, '15B': 87.7, '15A': 64.6, '15F': 50.0, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249545,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 32.7}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217275,"{'23F': 93.5, '23A': 63.1, '28A': 48.3, '23B': 46.9, '06A': 46.1}",1,93.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901212725,"{'06A': 94.3, '06A-III': 93.4, '06A-V': 92.9, '06B-I': 92.1, '06B-II': 91.9}",1,94.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282465,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313915,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219535,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 61.8}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241405,"{'17F': 99.7, '06B': 44.5, '06B-I': 43.9, '06A-III': 43.8, '06D': 43.7}",1,99.7,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000494795,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267825,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191785,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230665,"{'01': 6.6, '45': 5.9, '25F': 5.7, '20': 5.5, '25A': 5.5}",3,6.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191215,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-I': 41.8}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296105,"{'35B': 90.9, '33F': 31.8, '34': 31.0, '33B': 30.5, '33A': 30.1}",1,90.9,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241285,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194645,"{'15C': 93.9, '15B': 93.8, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335545,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291825,"{'15C': 89.6, '15B': 89.5, '15A': 62.5, '15F': 49.3, '23A': 31.0}",1,89.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000495355,"{'06B-I': 99.7, '06A-III': 97.6, '06B-II': 90.3, '06A': 89.8, '06A-V': 88.4}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312605,"{'18C': 93.7, '18B': 93.6, '18F': 75.6, '18A': 62.7, '16F': 39.6}",1,93.7,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237635,"{'21': 100.0, '22F': 36.1, '06A-IV': 32.9, '06A-II': 32.2, '06A-VI': 32.1}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258095,"{'34': 98.7, '33F2': 35.2, '35B': 33.5, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171395,"{'14': 91.8, '36': 28.3, '09L': 24.9, '09N': 24.0, '15B': 23.9}",1,91.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216375,"{'06A-II': 95.4, '06A-VI': 95.4, '06B-II': 89.4, '06A-V': 89.0, '06A-III': 88.3}",1,95.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252655,"{'35F': 98.8, '47F': 74.1, '34': 26.6, '35B': 26.2, '29': 22.5}",1,98.8,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307065,"{'14': 94.1, '36': 26.4, '09L': 25.5, '09N': 24.4, '15B': 24.3}",1,94.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278815,"{'18C': 99.3, '18B': 99.2, '18F': 76.0, '18A': 63.2, '16F': 39.3}",1,99.3,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298365,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001150305,"{'36': 10.6, '06A-IV': 7.1, '20': 6.1, '06B-I': 5.9, '06C': 5.8}",1,10.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063005,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232905,"{'06A-V': 93.2, '06A-III': 90.2, '06A-II': 89.8, '06A-VI': 89.8, '06B-I': 89.4}",1,93.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246245,"{'14': 100.0, '09L': 27.2, '36': 26.1, '09N': 25.0, '15B': 24.3}",1,100.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254515,"{'14': 91.4, '19F-IV': 25.9, '36': 25.4, '09L': 24.8, '09N': 24.7}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292785,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238565,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232565,"{'14': 99.3, '09L': 27.1, '36': 26.0, '09N': 24.9, '15B': 23.9}",1,99.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057475,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901295755,"{'35B': 99.6, '33F': 33.6, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.6,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032365,"{'19A-II': 99.9, '19A-I': 96.5, '19A': 84.9, '19A-III': 84.7, '19AF': 62.0}",1,99.9,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221715,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306465,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234245,"{'19F': 93.9, '19F-I': 93.7, '19F-III': 92.5, '19F-IV': 91.4, '19F-II': 91.3}",1,93.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300695,"{'21': 91.7, '22F': 36.8, '06A-IV': 31.6, '06A-II': 31.2, '06A-VI': 31.2}",1,91.7,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023885,"{'07A': 99.6, '07F': 99.4, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.6,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001086005,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900188665,"{'23F': 99.0, '23A': 64.8, '23B': 47.6, '28A': 47.5, '06A-V': 45.5}",1,99.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318115,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.3, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240745,"{'16F': 71.5, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.5,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001148965,"{'23F': 96.8, '23A': 66.4, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063215,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341645,"{'19F': 97.3, '19F-I': 96.3, '19F-III': 95.5, '19F-II': 95.4, '19F-IV': 90.9}",1,97.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020140135,"{'35B': 99.7, '33F': 33.5, '35C': 33.2, '34': 33.0, '35A': 32.8}",1,99.7,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215205,"{'01': 7.6, '25F': 6.0, '45': 5.9, '25A': 5.8, '22F': 5.2}",3,7.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273715,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901330555,"{'17F': 99.6, '06B': 44.3, '06B-I': 44.2, '06A-III': 44.1, '06D': 43.7}",1,99.6,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246275,"{'23F': 99.3, '23A': 65.5, '23B': 49.1, '28A': 48.2, '06A-IV': 47.3}",1,99.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000146975,"{'11D': 99.4, '11A': 96.6, '11F': 41.6, '11C': 35.3, '11B': 33.8}",1,99.4,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235615,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223805,"{'01': 99.4, '19F': 32.0, '19F-I': 31.6, '19F-III': 31.3, '19F-II': 31.1}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001101145,"{'35F': 99.1, '47F': 74.4, '34': 26.7, '35B': 25.8, '36': 22.4}",1,99.1,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302465,"{'06A-V': 92.9, '06A-III': 89.9, '06A-II': 89.5, '06A-VI': 89.5, '06A': 89.1}",1,92.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234255,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901213285,"{'06B-I': 99.4, '06A-III': 97.2, '06B-II': 89.8, '06A': 89.5, '06A-V': 87.9}",1,99.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021645,"{'06A-I': 99.9, '06B': 94.4, '06A-V': 88.0, '06A': 87.0, '06A-III': 84.7}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245345,"{'14': 91.3, '19F-IV': 25.9, '09L': 24.8, '09N': 24.7, '36': 24.7}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032875,"{'03': 95.2, '01': 17.1, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001085045,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901243915,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169795,"{'14': 92.2, '36': 28.9, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273255,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306545,"{'33A': 99.8, '33F': 99.8, '33F2': 70.8, '35C': 43.0, '42': 42.0}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342175,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270445,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900058955,"{'07A': 99.5, '07F': 99.3, '19F-II': 36.7, '19F-IV': 36.1, '19F': 35.2}",1,99.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001087965,"{'11F': 61.8, '11D': 38.4, '11A': 36.8, '09V': 25.4, '09A': 25.3}",1,61.8,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027535,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019397345,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288295,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323215,"{'15C': 95.2, '15B': 95.1, '15A': 60.8, '15F': 47.3, '23A': 34.0}",1,95.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265135,"{'37': 98.8, '33F': 77.5, '33A': 75.9, '33F2': 71.0, '35B': 32.3}",1,98.8,,37,,,{},{},37,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907172165,"{'14': 92.7, '36': 28.4, '09L': 24.3, '15B': 24.2, '15C': 24.1}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900028395,"{'23B': 99.1, '23B1': 64.2, '23F': 45.6, '23A': 39.8, '06A-IV': 36.7}",1,99.1,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901217255,"{'01': 99.2, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259715,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322065,"{'15A': 99.4, '15F': 73.9, '15C': 61.8, '15B': 61.7, '23F': 31.7}",1,99.4,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259965,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.0, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193535,"{'33F': 99.7, '33A': 99.6, '33F2': 70.6, '35C': 43.0, '42': 42.0}",1,99.7,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900062165,"{'19A-I': 99.2, '19A-II': 97.5, '19A': 87.7, '19A-III': 87.6, '19AF': 61.7}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273425,"{'15C': 87.6, '15B': 87.4, '15A': 64.4, '15F': 49.8, '23A': 30.0}",1,87.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222005,"{'14': 92.7, '36': 29.0, '09L': 25.7, '09N': 24.5, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001167725,"{'06C': 85.6, '06C-I': 85.6, '06D': 84.7, '06A': 77.0, '06A-IV': 73.3}",1,85.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189455,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256075,"{'11D': 99.7, '11A': 96.9, '11F': 42.0, '11C': 35.8, '11B': 34.3}",1,99.7,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193245,"{'21': 99.0, '22F': 33.2, '06A-IV': 32.1, '06A-II': 31.4, '06A-VI': 31.3}",1,99.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194285,"{'06C-I': 89.3, '06C': 89.2, '06D': 86.9, '06A-I': 77.7, '06B': 77.4}",1,89.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023595,"{'03': 94.7, '01': 17.4, '36': 17.1, '09N': 15.8, '20': 15.7}",1,94.7,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292475,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262215,"{'31': 99.8, '41A': 57.3, '41F': 49.0, '06A-II': 36.5, '06A-VI': 36.5}",1,99.8,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329275,"{'10B': 99.3, '10A': 65.2, '10F': 20.1, '10C': 18.8, '22F': 14.0}",1,99.3,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001096765,"{'06E': 100.0, '06B-III': 97.6, '06B-I': 44.9, '06A-III': 44.4, '06B-II': 43.8}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260955,"{'09A': 95.8, '09V': 95.6, '09N': 39.0, '09L': 37.0, '06A-IV': 26.4}",1,95.8,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231175,"{'10A': 79.6, '10B': 66.9, '10C': 29.7, '10F': 18.5, '47A': 14.6}",1,79.6,,10A,,,{},{},10A,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242435,"{'06B-I': 98.4, '06A-III': 96.3, '06A': 89.4, '06B-II': 89.1, '06A-V': 87.2}",1,98.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216905,"{'14': 93.2, '36': 27.3, '09L': 25.8, '09N': 25.3, '15B': 24.3}",1,93.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900061795,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328495,"{'23F': 96.7, '23A': 63.9, '23B': 47.9, '28A': 47.7, '28F': 46.0}",1,96.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900060915,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333985,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252095,"{'20': 82.0, '47F': 25.9, '09L': 24.5, '35A': 24.5, '36': 24.0}",1,82.0,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026025,"{'09A': 99.7, '09V': 99.5, '09N': 38.2, '09L': 36.8, '06A-IV': 27.4}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249685,"{'35B': 99.4, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315235,"{'33F': 100.0, '33A': 99.7, '33F2': 70.9, '35C': 42.8, '42': 41.8}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257845,"{'07C': 99.1, '07B': 72.9, '40': 70.7, '24B': 48.7, '24F': 48.5}",1,99.1,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194585,"{'15A': 98.4, '15F': 73.7, '15C': 61.9, '15B': 61.8, '23F': 31.8}",1,98.4,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024605,"{'22F': 92.0, '22A': 74.2, '06A-IV': 45.1, '06A-II': 44.7, '06A-VI': 44.6}",1,92.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047775,"{'03': 95.2, '01': 17.3, '36': 17.1, '20': 15.9, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001173365,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398645,"{'14': 99.8, '36': 26.8, '09L': 25.8, '09N': 24.4, '15B': 24.3}",1,99.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253955,"{'15A': 98.3, '15F': 72.9, '15C': 61.6, '15B': 61.5, '23F': 32.2}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267165,"{'07A': 99.5, '07F': 99.3, '19F-II': 36.7, '19F-IV': 36.1, '19F': 35.2}",1,99.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273685,"{'06E': 99.5, '06B-III': 99.1, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 96.61]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258985,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019446595,"{'11D': 99.8, '11A': 97.0, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,99.8,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259295,"{'23B1': 98.1, '23B': 55.2, '19A-II': 36.0, '19A-I': 35.8, '19AF': 31.7}",1,98.1,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263705,"{'16F': 71.9, '28F': 43.8, '28A': 41.0, '18F': 34.1, '18A': 33.9}",1,71.9,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001140925,"{'06E': 100.0, '06B-III': 95.2, '06A-I': 42.6, '06B-I': 42.6, '06B': 42.2}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001206475,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237595,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.0, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222215,"{'23F': 99.2, '23A': 65.2, '23B': 47.7, '28A': 47.6, '06B-II': 45.4}",1,99.2,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001197855,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236285,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339715,"{'33B': 89.8, '33D': 89.7, '35B': 32.8, '33F2': 30.3, '22F': 26.4}",1,89.8,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327455,"{'23F': 96.5, '23A': 63.8, '23B': 47.9, '28A': 47.6, '06B-II': 46.1}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191965,"{'21': 99.5, '22F': 34.7, '06A-IV': 32.1, '06A-II': 31.4, '06A-VI': 31.3}",1,99.5,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258775,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310305,"{'15C': 95.6, '15B': 95.5, '15A': 61.1, '15F': 47.4, '23A': 34.7}",1,95.6,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171375,"{'14': 92.6, '36': 28.2, '09L': 24.8, '15B': 24.2, '15C': 24.1}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001101705,"{'11F': 61.8, '11D': 38.4, '11A': 36.8, '09V': 25.4, '09A': 25.3}",1,61.8,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237905,"{'14': 92.7, '36': 28.8, '09L': 25.8, '09N': 24.5, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260405,"{'06A-II': 86.0, '06A-VI': 86.0, '06A-III': 85.9, '06A-V': 85.1, '06B-I': 84.5}",1,86.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253565,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262435,"{'19F-I': 97.7, '19F': 97.0, '19F-III': 96.5, '19F-II': 95.0, '19F-IV': 90.1}",1,97.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337615,"{'19A-I': 99.4, '19A-II': 97.4, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001160085,"{'36': 12.6, '20': 8.1, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",2,12.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254895,"{'06A-II': 95.6, '06A-VI': 95.6, '06B-II': 89.5, '06A-V': 89.1, '06A-III': 88.5}",1,95.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332095,"{'07A': 91.2, '07F': 91.0, '19F-II': 39.3, '19F': 37.8, '19F-IV': 37.8}",1,91.2,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240825,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280675,"{'19F-IV': 73.6, '19F-II': 73.3, '19F': 72.3, '19F-I': 71.6, '19F-III': 71.2}",1,73.6,,19F,,,{},{},19F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001171025,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321995,"{'15C': 85.6, '15B': 85.5, '15A': 61.1, '15F': 47.9, '23A': 31.4}",1,85.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047685,"{'33F2': 99.6, '33F': 74.6, '33A': 70.3, '34': 41.9, '35B': 32.5}",1,99.6,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001095065,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 89.6, '06A': 87.7, '06A-III': 86.1}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321825,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-I': 41.8}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001113465,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031095,"{'31': 99.5, '41A': 57.2, '41F': 48.9, '06A-II': 36.5, '06A-VI': 36.5}",1,99.5,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168295,"{'09A': 99.7, '09V': 99.5, '09N': 38.2, '09L': 36.8, '06A-IV': 27.4}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276565,"{'06A-III': 94.8, '06B-I': 93.4, '06A': 90.3, '06A-IV': 89.5, '06B-II': 89.4}",1,94.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901272315,"{'01': 98.8, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298195,"{'01': 99.2, '19F': 32.1, '19F-I': 31.7, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055565,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001207375,"{'03': 95.2, '36': 17.0, '01': 15.9, '20': 15.7, '09L': 14.2}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169045,"{'09A': 99.7, '09V': 99.5, '09N': 36.4, '09L': 34.7, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248005,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169115,"{'14': 93.0, '36': 27.1, '09L': 24.9, '15B': 24.3, '15C': 24.2}",1,93.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001167945,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335175,"{'06A': 93.3, '06A-III': 91.3, '06B-I': 91.2, '06B-II': 91.0, '06A-V': 90.5}",1,93.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001163905,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227205,"{'35B': 99.4, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001147365,"{'22F': 99.0, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-I': 41.8}",1,99.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234395,"{'04': 99.6, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.6,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226745,"{'16F': 71.8, '28F': 43.4, '28A': 40.9, '18F': 33.9, '18A': 33.7}",1,71.8,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260715,"{'35B': 99.4, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001139065,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316065,"{'09A': 99.4, '09V': 99.2, '09N': 38.4, '09L': 36.5, '11F': 26.6}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001083985,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001089885,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329395,"{'23F': 96.7, '23A': 63.9, '23B': 48.0, '28A': 47.6, '06B-II': 46.0}",1,96.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001087525,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001301155,"{'17F': 99.3, '06B': 44.3, '06B-I': 44.2, '06A-III': 44.1, '06D': 43.7}",1,99.3,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333365,"{'14': 93.4, '36': 26.1, '09L': 25.1, '09N': 24.4, '15B': 24.0}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169585,"{'14': 91.8, '36': 27.9, '09L': 25.6, '09N': 24.5, '15B': 23.7}",1,91.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273695,"{'10B': 93.7, '10A': 69.8, '10F': 20.0, '10C': 18.7, '22F': 14.2}",1,93.7,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245755,"{'09A': 95.7, '09V': 95.5, '09N': 39.0, '09L': 37.0, '06A-IV': 26.4}",1,95.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239145,"{'18C': 88.1, '18B': 88.0, '18F': 77.7, '18A': 61.5, '16F': 37.6}",1,88.1,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247055,"{'06B-I': 98.4, '06A-III': 96.2, '06A': 89.7, '06B-II': 88.8, '06A-V': 86.9}",1,98.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169385,"{'14': 92.7, '36': 28.8, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285925,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280175,"{'01': 98.6, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.6,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901343045,"{'24F': 97.0, '24B': 89.7, '24F2': 86.4, '24A': 62.9, '07C': 51.9}",1,97.0,,24F/24B,,,{},{},24F/24B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278045,"{'23F': 97.0, '23A': 63.9, '23B': 47.9, '28A': 47.7, '28F': 46.0}",1,97.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347595,"{'19A-I': 99.0, '19A-II': 97.4, '19A': 87.6, '19A-III': 87.4, '19AF': 61.6}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001109065,"{'06C-I': 87.8, '06C': 87.7, '06D': 84.7, '06A': 77.0, '06A-IV': 75.2}",1,87.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001143265,"{'14': 89.9, '36': 29.0, '09L': 22.9, '19F-II': 22.2, '09N': 21.8}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194995,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000210955,"{'03': 95.2, '01': 17.4, '36': 17.1, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001150685,"{'36': 10.9, '06A-IV': 7.2, '20': 7.0, '23B1': 6.1, '06C': 6.0}",1,10.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273225,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246695,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.7, '06B-II': 35.1, '06A-V': 34.9}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236045,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398315,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254985,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216925,"{'19F-I': 99.9, '19F': 96.9, '19F-III': 96.9, '19F-II': 94.1, '19F-IV': 89.5}",1,99.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022835,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001566075,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215155,"{'06E': 83.5, '06B-III': 82.3, '06B-I': 55.5, '06A-III': 54.0, '06A-II': 53.4}",1,83.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001089665,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248455,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001340575,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001115865,"{'14': 89.9, '36': 29.3, '09L': 24.2, '09N': 23.0, '19F-II': 22.2}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001121505,"{'11F': 61.8, '11D': 38.4, '11A': 36.8, '09V': 25.4, '09A': 25.3}",1,61.8,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240595,"{'14': 99.4, '09L': 26.2, '36': 25.8, '09N': 24.8, '15B': 24.1}",1,99.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236925,"{'35B': 99.3, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.3,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901482365,"{'16A': 0.1, '28A': 0.1, '28F': 0.1}",1,0.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001148545,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325935,"{'14': 94.5, '36': 26.3, '09L': 25.5, '09N': 24.6, '15B': 24.3}",1,94.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001158485,"{'14': 89.9, '36': 29.3, '09L': 23.1, '19F-II': 22.2, '09N': 21.9}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017955,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 92.6, '19A-III': 92.4, '19AF': 62.1}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901286245,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221905,"{'09A': 99.4, '09V': 99.2, '09N': 37.6, '09L': 36.9, '06A-IV': 27.3}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227735,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.6, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288715,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318385,"{'06A-II': 85.9, '06A-VI': 85.9, '06A-III': 85.8, '06A-V': 85.2, '06B-I': 84.4}",1,85.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246885,"{'19A': 88.7, '19A-III': 88.5, '19A-II': 78.8, '19A-I': 78.0, '19AF': 59.6}",1,88.7,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287935,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233515,"{'17F': 99.8, '06B': 44.5, '06D': 43.7, '06B-I': 43.6, '06A-III': 43.5}",1,99.8,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900032985,"{'08': 99.3, '06A-II': 25.9, '06A-VI': 25.8, '06B-II': 25.2, '06A-V': 24.8}",1,99.3,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000233245,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000232765,"{'06A': 89.0, '06A-II': 89.0, '06A-III': 89.0, '06A-VI': 89.0, '06B-II': 89.0}",1,89.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 90.49]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226925,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218825,"{'01': 99.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001147625,"{'23A': 97.5, '23F': 68.8, '23B': 40.1, '19F-II': 39.2, '15B': 38.8}",1,97.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238985,"{'35B': 99.1, '33F': 33.4, '35C': 33.2, '34': 33.0, '35A': 32.8}",1,99.1,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900046715,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216065,"{'05': 95.0, '45': 22.6, '36': 21.7, '20': 20.3, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231165,"{'14': 91.4, '19F-IV': 25.9, '09L': 24.8, '09N': 24.7, '36': 24.6}",1,91.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248945,"{'06A-II': 85.8, '06A-VI': 85.8, '06A-III': 85.7, '06A-V': 84.9, '06B-I': 84.3}",1,85.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249725,"{'06B-I': 99.7, '06A-III': 97.6, '06B-II': 90.3, '06A': 89.8, '06A-V': 88.4}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317275,"{'06A-I': 98.4, '06B': 94.4, '06A-V': 89.4, '06A': 87.5, '06A-III': 85.9}",1,98.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001148385,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281975,"{'06A-II': 88.4, '06A-VI': 88.4, '06A-III': 88.3, '06A': 87.5, '06B-II': 87.5}",1,88.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191645,"{'15C': 95.6, '15B': 95.5, '15A': 61.2, '15F': 47.5, '23A': 34.7}",1,95.6,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273835,"{'15C': 87.7, '15B': 87.6, '15A': 64.6, '15F': 50.0, '23A': 30.1}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297625,"{'06E': 99.7, '06B-III': 99.4, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167735,"{'09A': 99.5, '09V': 99.3, '09N': 37.2, '09L': 35.7, '11F': 26.6}",1,99.5,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247415,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224385,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 96.61]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900054625,"{'05': 95.0, '36': 20.4, '12A': 19.8, '46': 19.7, '04': 19.4}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900042905,"{'23A': 99.6, '23F': 67.2, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325975,"{'21': 99.5, '22F': 35.6, '06A-IV': 30.9, '06A-II': 30.0, '06A-VI': 29.9}",1,99.5,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269145,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 32.7}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341715,"{'18C': 88.4, '18B': 88.3, '18F': 77.7, '18A': 61.7, '16F': 37.6}",1,88.4,,18C/18B,,,{},{},18C/18B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346815,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001163685,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265765,"{'07C': 94.0, '07B': 77.1, '40': 76.7, '24B': 48.6, '24F': 47.6}",1,94.0,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268295,"{'05': 95.0, '45': 22.6, '36': 21.7, '20': 20.3, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294365,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306835,"{'03': 95.2, '01': 18.2, '36': 17.4, '20': 16.1, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308875,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.0, '19A-II': 83.5, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244885,"{'09N': 99.8, '09L': 88.8, '09A': 32.7, '09V': 32.7, '36': 32.3}",1,99.8,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001138205,"{'03': 95.2, '36': 17.0, '01': 15.8, '20': 15.8, '09L': 14.2}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001173825,"{'06E': 100.0, '06B-III': 97.6, '06B-I': 44.9, '06A-III': 44.4, '06B-II': 43.8}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900059355,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001158325,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 94.0, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020139355,"{'35B': 99.6, '33F': 33.4, '35C': 33.2, '34': 32.9, '35A': 32.8}",1,99.6,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190745,"{'22F': 96.6, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,96.6,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051885,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001125365,"{'11F': 61.7, '11D': 38.3, '11A': 36.8, '09A': 25.3, '09V': 25.3}",1,61.7,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900038695,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251585,"{'21': 100.0, '22F': 36.1, '06A-IV': 32.9, '06A-II': 32.2, '06A-VI': 32.1}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314865,"{'06A-I': 98.4, '06B': 94.4, '06A-V': 89.4, '06A': 87.5, '06A-III': 85.9}",1,98.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327375,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318445,"{'01': 99.2, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193875,"{'23A': 99.5, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.5,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901249515,"{'14': 93.4, '36': 27.3, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259205,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001142705,"{'08': 98.0, '02': 24.4, '06A-IV': 23.3, '06A': 22.9, '22F': 22.5}",1,98.0,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221265,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 96.61]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001093705,"{'23A': 96.6, '23F': 67.7, '23B': 45.9, '19F-II': 39.4, '15B': 38.5}",1,96.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299035,"{'09L': 99.4, '09N': 90.1, '36': 32.6, '09A': 31.5, '09V': 31.5}",1,99.4,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001132365,"{'36': 11.7, '06A-IV': 7.3, '20': 7.0, '06C': 5.8, '06C-I': 5.8}",1,11.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000180555,"{'03': 95.2, '36': 17.3, '01': 16.8, '20': 15.9, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001095545,"{'35F': 80.2, '47F': 56.8, '35B': 26.5, '34': 21.0, '36': 18.1}",1,80.2,,35F,,,{},{},35F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337665,"{'11D': 99.8, '11A': 97.0, '11F': 41.8, '11C': 35.7, '11B': 34.2}",1,99.8,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314255,"{'03': 94.9, '01': 17.1, '36': 17.0, '20': 15.8, '09N': 15.7}",1,94.9,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338085,"{'12F': 95.9, '12B': 93.3, '44': 92.9, '12A': 84.8, '46': 81.7}",1,95.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170975,"{'14': 92.3, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276505,"{'19F-I': 97.3, '19F': 96.6, '19F-III': 96.1, '19F-II': 94.6, '19F-IV': 89.7}",1,97.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170525,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021022465,"{'02': 57.6, '06C': 23.2, '06B-I': 23.2, '06C-I': 23.2, '06A-II': 22.9}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167165,"{'14': 93.4, '36': 27.1, '09L': 24.5, '15B': 24.3, '15C': 24.2}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256295,"{'03': 95.2, '01': 17.3, '36': 16.5, '20': 15.8, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310715,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901294725,"{'14': 93.4, '36': 27.3, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234575,"{'19F-I': 95.7, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303585,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307725,"{'05': 95.2, '45': 22.2, '36': 21.8, '20': 20.3, '12A': 19.7}",1,95.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001137285,"{'10A': 99.4, '10B': 67.1, '10C': 27.7, '10F': 18.1, '06B-I': 13.5}",1,99.4,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256055,"{'23F': 96.9, '23A': 63.9, '23B': 48.2, '28A': 47.6, '06B-II': 46.4}",1,96.9,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900063475,"{'23B': 99.4, '23B1': 64.7, '23F': 47.2, '35B': 41.9, '23A': 39.9}",1,99.4,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901248535,"{'11D': 80.2, '11A': 78.9, '11F': 45.1, '11B': 34.6, '11C': 31.0}",1,80.2,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324135,"{'04': 99.3, '45': 33.3, '12F': 23.4, '44': 23.2, '12A': 22.3}",1,99.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018835,"{'12F': 96.7, '44': 93.4, '12B': 92.7, '12A': 80.4, '46': 77.3}",1,96.7,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321595,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001204915,"{'33B': 89.8, '33D': 89.7, '35B': 32.5, '33F2': 30.3, '22F': 26.5}",1,89.8,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901212775,"{'34': 92.8, '33F2': 34.7, '35B': 32.1, '33F': 29.0, '33C': 28.0}",1,92.8,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001139825,"{'34': 92.9, '33F2': 34.7, '35B': 30.2, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033995,"{'06A-III': 99.4, '06B-I': 97.8, '06B-II': 91.0, '06A': 90.9, '06A-V': 90.1}",1,99.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_020139715,"{'35B': 99.5, '33F': 33.2, '35C': 33.1, '34': 32.7, '35A': 32.7}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900037035,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901268545,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001108405,"{'10A': 99.3, '10B': 67.0, '10C': 27.7, '10F': 18.1, '06B-I': 15.2}",1,99.3,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900056365,"{'19A': 99.8, '19A-III': 99.6, '19A-I': 86.0, '19A-II': 83.5, '19AF': 57.2}",1,99.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247395,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 46.8, '06A-III': 46.3, '06A-IV': 45.4}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346155,"{'25F': 5.7, '45': 5.6, '25A': 5.5, '20': 5.1, '22F': 4.9}",3,5.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341725,"{'13': 83.3, '36': 28.8, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334445,"{'23F': 96.4, '23A': 64.1, '06A-IV': 49.1, '23B': 48.4, '06A-V': 47.4}",1,96.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274415,"{'11D': 80.3, '11A': 79.0, '11F': 45.3, '11B': 34.8, '11C': 31.1}",1,80.3,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901333625,"{'33D': 80.3, '33B': 75.4, '06A-I': 36.8, '06B': 35.4, '06A-IV': 35.3}",1,80.3,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256895,"{'15C': 87.6, '15B': 87.5, '15A': 64.4, '15F': 49.8, '23A': 30.0}",1,87.6,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018525,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287075,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304585,"{'19F-I': 97.3, '19F': 96.7, '19F-III': 96.6, '19F-II': 92.5, '19F-IV': 88.1}",1,97.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275845,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244565,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307735,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001150025,"{'06C': 85.2, '06C-I': 85.2, '06D': 84.2, '06A': 76.9, '06A-IV': 73.3}",1,85.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900065205,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240655,"{'33D': 80.3, '33B': 75.4, '06A-I': 36.8, '06B': 35.4, '35B': 35.2}",1,80.3,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019398965,"{'16F': 97.4, '28F': 42.2, '18A': 41.0, '18F': 40.7, '19F-IV': 40.6}",1,97.4,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220405,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.8, '06A-IV': 46.6}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290405,"{'01': 92.2, '19F': 33.3, '19F-I': 32.6, '19F-III': 32.5, '19F-II': 32.4}",1,92.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900038135,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298075,"{'25F': 99.9, '25A': 98.9, '38': 80.9, '36': 9.0, '01': 7.9}",1,99.9,25F_25A_38,25F_25A_38,,"[[8], [18]]","{'wcyD': ['a', 100.0], 'wcyV': 0.12}","{'wcyD': 'a', 'wcyV': 'not_detected'}",25F/25A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253275,"{'23B': 80.5, '23B1': 64.6, '06B-II': 33.5, '06A-IV': 33.4, '06A-V': 33.3}",1,80.5,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318075,"{'09A': 95.9, '09V': 95.7, '09N': 38.8, '09L': 37.4, '11F': 26.6}",1,95.9,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001329435,"{'06E': 100.0, '06B-III': 97.5, '06B-I': 44.8, '06A-III': 44.3, '06B-II': 43.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302045,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270695,"{'06A-II': 94.7, '06A-VI': 94.7, '06B-II': 89.0, '06A-V': 88.5, '06A-III': 87.9}",1,94.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001132145,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234305,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342055,"{'03': 95.1, '20': 15.1, '09L': 14.7, '09N': 14.5, '01': 14.4}",1,95.1,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326255,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 46.5, '06A': 46.2}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900061845,"{'33F': 99.8, '33A': 97.3, '33F2': 70.7, '35C': 42.6, '42': 41.6}",1,99.8,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263955,"{'14': 93.9, '36': 25.9, '09L': 25.3, '09N': 24.1, '15B': 24.0}",1,93.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001165105,"{'01': 6.8, '25F': 5.7, '45': 5.7, '20': 5.5, '25A': 5.5}",2,6.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051525,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252275,"{'16F': 96.8, '19F-IV': 44.9, '19F-II': 44.1, '19F': 43.1, '19F-I': 42.5}",1,96.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001300475,"{'06A': 99.7, '06A-IV': 99.4, '06B-II': 95.2, '06A-V': 93.5, '06A-III': 91.5}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312635,"{'01': 99.5, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001202215,"{'14': 90.1, '36': 29.2, '09L': 23.1, '19F-II': 22.2, '09N': 21.9}",1,90.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237855,"{'13': 98.9, '09N': 29.1, '09L': 28.7, '20': 28.7, '36': 27.5}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338455,"{'08': 99.6, '06A-IV': 27.0, '06A-II': 26.5, '06A-VI': 26.4, '06B-II': 25.9}",1,99.6,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227215,"{'14': 91.2, '36': 26.7, '09L': 26.5, '09N': 26.2, '15B': 23.3}",1,91.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314215,"{'03': 95.6, '01': 17.8, '09N': 15.4, '09L': 15.3, '20': 15.2}",1,95.6,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001207135,"{'36': 10.1, '06A-IV': 7.1, '06B-I': 5.9, '06C': 5.8, '06C-I': 5.8}",1,10.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025385,"{'33F2': 99.9, '33F': 74.7, '33A': 70.3, '34': 41.6, '35B': 32.5}",1,99.9,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314295,"{'03': 94.9, '20': 17.6, '01': 16.7, '09L': 16.4, '36': 16.4}",1,94.9,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901237495,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901245845,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001581715,"{'01': 7.0, '45': 5.9, '25F': 5.7, '20': 5.5, '25A': 5.5}",4,7.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001301235,"{'23A': 97.6, '23F': 68.9, '23B': 40.1, '19F-II': 39.3, '15B': 38.7}",1,97.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291915,"{'07C': 99.0, '07B': 72.7, '40': 70.5, '24B': 48.6, '24F': 48.4}",1,99.0,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001131105,"{'23F': 94.5, '23A': 63.7, '28A': 47.6, '23B': 47.0, '06A': 46.3}",1,94.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001204395,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321755,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001136205,"{'16F': 98.2, '28F': 43.0, '19F-IV': 41.3, '18F': 41.1, '19F-II': 40.9}",1,98.2,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001139665,"{'06C-I': 88.0, '06C': 87.9, '06D': 84.6, '06A': 76.9, '06A-IV': 75.5}",1,88.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 83.5']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260485,"{'13': 98.9, '09N': 29.1, '20': 28.9, '09L': 28.7, '36': 27.9}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231925,"{'01': 98.8, '19F': 32.0, '19F-I': 31.5, '19F-III': 31.3, '19F-II': 31.0}",1,98.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314505,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001095205,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225005,"{'03': 97.4, '01': 17.7, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030355,"{'01': 99.8, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.3}",1,99.8,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900025885,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001343475,"{'15C': 87.9, '15B': 87.7, '15A': 64.6, '15F': 50.0, '23A': 30.2}",1,87.9,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901332015,"{'15C': 95.8, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901309345,"{'15A': 99.7, '15F': 74.0, '15C': 61.9, '15B': 61.8, '23F': 31.7}",1,99.7,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019038975,"{'19F-I': 95.4, '19F': 95.1, '19F-III': 93.5, '19F-II': 92.3, '19F-IV': 88.3}",1,95.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284965,"{'14': 93.2, '36': 27.4, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319425,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267755,"{'15A': 98.3, '15F': 72.9, '15C': 61.6, '15B': 61.5, '23F': 32.2}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030425,"{'03': 95.2, '01': 17.2, '36': 17.1, '20': 15.8, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900035305,"{'33F2': 99.7, '33F': 74.7, '33A': 70.3, '34': 41.7, '35B': 32.5}",1,99.7,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233335,"{'06A': 90.1, '06A-III': 89.5, '06B-II': 89.5, '06A-II': 89.4, '06A-VI': 89.4}",1,90.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311705,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307985,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334775,"{'19F-I': 95.9, '19F': 95.6, '19F-III': 94.0, '19F-II': 92.8, '19F-IV': 88.8}",1,95.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017415,"{'22F': 98.9, '22A': 73.2, '06A': 42.4, '06B': 41.9, '06A-II': 41.7}",1,98.9,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901343035,"{'10F': 98.0, '10C': 80.7, '10B': 22.4, '10A': 19.2, '22F': 15.6}",1,98.0,,10F,,,{},{},10F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334745,"{'35B': 99.4, '33F': 33.8, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901265405,"{'23F': 96.5, '23A': 64.1, '23B': 48.0, '28A': 47.2, '06A-V': 46.7}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020735,"{'23A': 99.7, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.7,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017825,"{'04': 99.7, '45': 33.5, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901232505,"{'14': 93.4, '36': 27.3, '09L': 25.9, '09N': 25.4, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001106185,"{'14': 89.9, '36': 29.3, '09L': 24.0, '09N': 22.8, '19F-II': 22.2}",1,89.9,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293015,"{'06A-V': 100.0, '06B-II': 95.1, '06A': 92.0, '06A-II': 90.6, '06A-VI': 90.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900044805,"{'19A': 99.1, '19A-III': 98.9, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.1}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242305,"{'07A': 91.2, '07F': 91.0, '19F-II': 39.3, '19F': 37.8, '19F-IV': 37.8}",1,91.2,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189885,"{'06B-I': 99.5, '06A-III': 97.4, '06B-II': 90.1, '06A': 89.8, '06A-V': 88.2}",1,99.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901297765,"{'23F': 97.0, '23A': 63.9, '28A': 47.7, '28F': 46.0, '06A': 45.0}",1,97.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001145005,"{'06E': 99.7, '06B-III': 99.4, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.7}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283025,"{'04': 99.2, '45': 33.6, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341255,"{'19F-I': 95.3, '19F': 95.0, '19F-III': 93.5, '19F-II': 92.2, '19F-IV': 88.2}",1,95.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901334105,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277465,"{'25F': 99.9, '25A': 98.9, '38': 80.9, '36': 9.0, '01': 7.5}",1,99.9,25F_25A_38,25F_25A_38,,"[[8], [18]]","{'wcyD': ['a', 100.0], 'wcyV': 0.12}","{'wcyD': 'a', 'wcyV': 'not_detected'}",25F/25A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001169985,"{'19F': 94.7, '19F-I': 94.2, '19F-III': 93.1, '19F-II': 91.8, '19F-IV': 88.1}",1,94.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285585,"{'03': 95.2, '01': 17.5, '36': 17.4, '20': 16.1, '09N': 15.8}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230245,"{'06A-I': 98.7, '06B': 94.4, '06A-V': 88.4, '06A': 87.9, '06A-III': 84.7}",1,98.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900037205,"{'04': 99.4, '45': 33.4, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.4,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263665,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901303155,"{'36': 8.6, '45': 6.9, '01': 5.9, '25F': 5.9, '25A': 5.7}",1,8.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337775,"{'06A-II': 92.4, '06A-VI': 92.4, '06B-II': 89.6, '06A-V': 89.3, '06A-III': 88.3}",1,92.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 84.81']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290565,"{'23F': 96.5, '23A': 64.1, '23B': 48.0, '28A': 47.2, '06A-V': 46.7}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322655,"{'05': 95.0, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340545,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171385,"{'14': 92.1, '36': 28.3, '09L': 25.0, '09N': 24.0, '15B': 23.9}",1,92.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252265,"{'14': 94.2, '36': 25.8, '09L': 25.2, '09N': 24.6, '15B': 24.3}",1,94.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022955,"{'04': 99.8, '45': 33.5, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275395,"{'01': 99.2, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259605,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001151305,"{'14': 93.9, '15B': 24.3, '15C': 24.2, '09L': 24.1, '36': 23.0}",1,93.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001200195,"{'06A-II': 87.4, '06A-VI': 87.4, '06A': 85.9, '06A-IV': 85.2, '06A-V': 85.1}",1,87.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001100025,"{'36': 6.5, '25F': 5.7, '25A': 5.6, '45': 5.0, '23B1': 4.5}",1,6.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279395,"{'14': 91.0, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,91.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221505,"{'01': 99.3, '19F': 32.2, '19F-I': 31.7, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001202255,"{'10A': 93.3, '10B': 73.6, '10C': 27.9, '10F': 18.1, '22F': 13.8}",1,93.3,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900033595,"{'08': 99.1, '06A-II': 25.9, '06A-VI': 25.8, '06B-II': 25.2, '06A-V': 24.8}",1,99.1,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018815,"{'06C-I': 99.7, '06C': 99.5, '06D': 84.6, '06A-II': 79.3, '06A-VI': 79.3}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001174685,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900692895,"{'34': 92.5, '33F2': 34.5, '35B': 31.9, '33F': 28.8, '33C': 27.7}",1,92.5,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900189235,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281055,"{'14': 99.7, '09L': 25.8, '36': 25.7, '09N': 24.9, '15B': 24.3}",1,99.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300185,"{'09N': 99.8, '09L': 89.0, '09A': 32.7, '09V': 32.7, '36': 32.3}",1,99.8,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901256475,"{'06A-III': 93.6, '06B-I': 92.2, '06A': 90.3, '06A-IV': 88.7, '06B-II': 88.5}",1,93.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327745,"{'35B': 99.8, '33F': 33.5, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.8,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001195285,"{'06A': 89.6, '06A-III': 89.2, '06B-I': 87.9, '06B-II': 87.7, '06A-II': 87.2}",1,89.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001301095,"{'23B': 99.5, '23B1': 64.6, '23F': 45.7, '23A': 39.9, '06A-IV': 36.8}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331935,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238175,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001105125,"{'03': 95.2, '36': 16.9, '01': 16.1, '20': 15.8, '09N': 14.5}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030565,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282275,"{'15A': 97.2, '15F': 75.0, '15C': 61.6, '15B': 61.5, '23F': 31.7}",1,97.2,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001160685,"{'06D': 31.4, '06C': 30.8, '06C-I': 30.8, '22F': 29.7, '35B': 29.5}",1,31.4,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222225,"{'15B': 99.8, '15C': 99.6, '15A': 62.7, '15F': 48.3, '23A': 32.9}",1,99.8,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331795,"{'11D': 99.8, '11A': 97.0, '11F': 41.8, '11C': 35.9, '11B': 34.4}",1,99.8,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019399675,"{'07C': 99.4, '07B': 73.0, '40': 70.8, '24B': 48.9, '24F': 48.7}",1,99.4,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214305,"{'23F': 96.3, '23A': 66.2, '28A': 47.4, '06A': 46.0, '28F': 45.1}",1,96.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235515,"{'38': 99.3, '25F': 84.6, '25A': 83.6, '36': 11.8, '20': 8.2}",1,99.3,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001334175,"{'25F': 4.9, '06A-IV': 4.9, '25A': 4.8, '45': 4.4, '20': 4.2}",1,4.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900047025,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001159865,"{'06A-II': 97.9, '06A-VI': 97.9, '06B-II': 90.4, '06A-V': 89.6, '06A-III': 89.2}",1,97.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228325,"{'19A-I': 99.0, '19A-II': 97.3, '19A': 87.6, '19A-III': 87.4, '19AF': 61.8}",1,99.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900058125,"{'07A': 99.7, '07F': 99.5, '19A': 56.6, '19A-III': 56.4, '19A-I': 48.4}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320365,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339695,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001111565,"{'15C': 87.8, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335735,"{'06D': 99.1, '06C': 84.4, '06C-I': 84.4, '06A-III': 77.4, '06B-I': 77.3}",1,99.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 89.0']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901212885,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_021398235,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001104785,"{'35B': 96.6, '33F': 33.9, '35C': 33.6, '35A': 33.2, '34': 33.1}",1,96.6,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900051605,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.5, '46': 81.4}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331555,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001173665,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900058455,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001084425,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169135,"{'14': 93.1, '36': 27.1, '09L': 25.1, '09N': 24.1, '15B': 24.1}",1,93.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900061755,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001084465,"{'32A': 97.5, '32F': 97.4, '06A-II': 40.3, '06A-VI': 40.2, '06B-II': 39.7}",1,97.5,,32F/32A,,,{},{},32F/32A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001345555,"{'06E': 100.0, '06B-III': 98.7, '06B-I': 46.3, '06A-III': 45.8, '06A-II': 44.8}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263045,"{'23F': 99.3, '23A': 65.1, '23B': 47.9, '28A': 47.8, '06A-V': 45.8}",1,99.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057455,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261205,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900035015,"{'06B-I': 99.7, '06A-III': 97.6, '06B-II': 90.3, '06A': 89.8, '06A-V': 88.4}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907172365,"{'19A': 99.4, '19A-III': 99.2, '19A-I': 86.1, '19A-II': 83.9, '19AF': 57.1}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001161225,"{'11D': 99.8, '11A': 97.0, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,99.8,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223765,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340985,"{'23A': 96.6, '23F': 67.7, '23B': 45.9, '19F-II': 39.4, '15B': 38.5}",1,96.6,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296495,"{'19A': 92.4, '19A-III': 92.2, '19A-II': 83.1, '19A-I': 81.1, '19AF': 56.1}",1,92.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001205155,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001345875,"{'06A-III': 88.6, '06B-I': 86.3, '06A': 83.1, '06A-II': 83.0, '06A-VI': 83.0}",1,88.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222155,"{'23B1': 98.7, '23B': 59.0, '19A-II': 36.7, '19A-I': 35.5, '19AF': 32.0}",1,98.7,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167665,"{'09A': 99.7, '09V': 99.5, '09N': 37.3, '09L': 35.7, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901322005,"{'19F-I': 95.9, '19F': 95.6, '19F-III': 94.0, '19F-II': 92.8, '19F-IV': 88.8}",1,95.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030335,"{'19F-I': 96.8, '19F': 96.3, '19F-III': 96.1, '19F-II': 92.1, '19F-IV': 87.7}",1,96.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001084725,"{'11D': 100.0, '11A': 97.2, '11F': 42.0, '11C': 35.9, '11B': 34.4}",1,100.0,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000279025,"{'08': 99.2, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.2, '06B-II': 24.1}",1,99.2,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023135,"{'15C': 93.9, '15B': 93.8, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225315,"{'19AF': 92.3, '19A-II': 61.8, '19A-I': 59.7, '19A': 50.9, '19A-III': 50.7}",1,92.3,19A_19AF,19A_19AF,,[[7]],"{'wzy': [2, 97.62]}",{'wzy': 2},19A_19AF,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055775,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290455,"{'34': 92.7, '33F2': 34.6, '35B': 32.2, '33F': 29.0, '33C': 28.0}",1,92.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266065,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001192395,"{'11F': 61.8, '11D': 38.4, '11A': 36.8, '09V': 25.4, '09A': 25.3}",1,61.8,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001093445,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021865,"{'15C': 86.8, '15B': 86.7, '15A': 66.2, '15F': 51.2, '23A': 28.4}",1,86.8,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001860575,"{'22F': 98.7, '22A': 73.2, '06A': 42.6, '06B': 42.1, '06A-I': 41.8}",1,98.7,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055315,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001347695,"{'14': 93.2, '36': 25.1, '15B': 24.3, '15C': 24.2, '09L': 23.0}",1,93.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234465,"{'19F': 94.9, '19F-I': 94.4, '19F-III': 93.3, '19F-II': 92.0, '19F-IV': 88.3}",1,94.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227345,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224595,"{'23F': 96.7, '23A': 63.8, '06A-IV': 50.8, '23B': 50.3, '06B-II': 48.5}",1,96.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001165445,"{'19F-I': 95.4, '19F': 95.2, '19F-III': 93.7, '19F-II': 92.3, '19F-IV': 88.3}",1,95.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055925,"{'06A-II': 95.5, '06A-VI': 95.5, '06B-II': 89.4, '06A-V': 89.0, '06A-III': 88.4}",1,95.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001339955,"{'01': 3.0, '06A-IV': 2.2, '14': 0.3, '07C': 0.2, '17F': 0.2}",1,3.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001173485,"{'06E': 100.0, '06B-III': 95.2, '06B-I': 42.7, '06A-I': 42.6, '06B': 42.2}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001129805,"{'36': 7.6, '20': 6.9, '25F': 5.6, '25A': 5.4, '45': 5.3}",1,7.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235635,"{'04': 99.8, '45': 33.8, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238375,"{'03': 95.2, '01': 17.0, '36': 16.8, '20': 15.8, '09N': 15.7}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001133885,"{'19F-II': 99.3, '19F': 95.1, '19F-III': 94.1, '19F-I': 93.8, '19F-IV': 93.0}",1,99.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001149085,"{'36': 12.8, '20': 7.7, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",2,12.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336625,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270745,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216215,"{'09A': 95.7, '09V': 95.5, '09N': 38.6, '09L': 37.2, '35B': 26.9}",1,95.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052035,"{'05': 95.0, '36': 20.8, '45': 20.6, '12A': 19.8, '46': 19.7}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226035,"{'22F': 99.1, '22A': 73.4, '06A': 42.6, '06B': 42.1, '06A-II': 41.9}",1,99.1,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283765,"{'04': 99.2, '45': 33.4, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900017925,"{'06A-II': 100.0, '06A-VI': 100.0, '06B-II': 91.8, '06A-V': 91.0, '06A-III': 89.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 89.84']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338275,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254205,"{'35B': 99.4, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.4,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901312365,"{'18C': 99.7, '18B': 99.6, '18F': 75.6, '18A': 62.4, '16F': 39.2}",1,99.7,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337015,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901300195,"{'17F': 82.1, '06A-I': 42.2, '06B': 41.8, '06A': 41.2, '22F': 40.7}",1,82.1,,17F,,,{},{},17F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301825,"{'14': 94.6, '36': 28.0, '09L': 25.2, '09N': 24.0, '15B': 23.9}",1,94.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262455,"{'09A': 99.4, '09V': 99.2, '09N': 38.5, '09L': 36.8, '11F': 27.0}",1,99.4,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257625,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304085,"{'02': 92.6, '22F': 40.2, '06B-I': 38.9, '06A-III': 38.8, '06A-II': 38.6}",1,92.6,,2,,,{},{},2,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289505,"{'06E': 83.5, '06B-III': 83.2, '06B-I': 57.5, '06A-III': 56.0, '06A-II': 54.7}",1,83.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228905,"{'14': 95.1, '36': 26.3, '09L': 25.2, '09N': 24.4, '15B': 24.3}",1,95.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001127845,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.3}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193165,"{'23B': 99.5, '23B1': 64.7, '23F': 45.7, '23A': 39.9, '06A-IV': 36.8}",1,99.5,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901299545,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325145,"{'23B': 81.3, '23B1': 66.1, '06A-IV': 36.7, '06B-II': 35.1, '06A-V': 34.9}",1,81.3,,23B,,,{},{},23B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227045,"{'06E': 99.8, '06B-III': 99.4, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900060275,"{'10A': 94.1, '10B': 68.8, '10C': 27.2, '10F': 17.6, '22F': 13.4}",1,94.1,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276725,"{'15A': 99.6, '15F': 73.9, '15C': 62.3, '15B': 62.2, '23F': 31.3}",1,99.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240305,"{'19A': 99.7, '19A-III': 99.5, '19A-I': 85.9, '19A-II': 83.4, '19AF': 56.9}",1,99.7,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001154945,"{'37': 98.8, '33F': 77.0, '33A': 75.7, '33F2': 70.6, '35B': 30.4}",1,98.8,,37,,,{},{},37,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216045,"{'06E': 87.2, '06B-III': 85.6, '06B-I': 50.8, '06A-III': 49.5, '06A-V': 48.9}",1,87.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327645,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901218125,"{'14': 93.4, '36': 27.3, '09L': 25.9, '09N': 25.3, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901242245,"{'16F': 71.5, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 32.9}",1,71.5,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900049095,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340705,"{'19A': 99.1, '19A-III': 98.9, '19A-I': 86.0, '19A-II': 83.7, '19AF': 57.0}",1,99.1,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317695,"{'19B': 92.6, '19C': 72.8, '19F-II': 51.4, '19F-IV': 51.1, '19F-I': 50.8}",1,92.6,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901307115,"{'15C': 95.3, '15B': 95.2, '15A': 60.8, '15F': 47.3, '23A': 34.0}",1,95.3,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273865,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.4, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274025,"{'06A-V': 93.2, '06A-III': 90.1, '06A-II': 89.8, '06A-VI': 89.8, '06B-I': 89.3}",1,93.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000170095,"{'14': 99.4, '09L': 27.1, '36': 25.9, '09N': 24.9, '15B': 24.2}",1,99.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901225795,"{'01': 99.0, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001200215,"{'06A-III': 98.6, '06B-I': 97.0, '06A': 90.6, '06B-II': 90.5, '06A-V': 89.6}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327795,"{'06E': 99.9, '06B-III': 98.0, '06B-I': 45.6, '06A-III': 45.1, '06A-II': 44.2}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900191315,"{'06B-I': 99.3, '06A-III': 97.2, '06B-II': 89.9, '06A': 89.8, '06A-V': 88.0}",1,99.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900476455,"{'06B-I': 99.1, '06A-III': 97.3, '06B-II': 89.9, '06A': 89.6, '06A-V': 88.0}",1,99.1,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001168045,"{'06E': 99.9, '06B-III': 98.0, '06B-I': 45.7, '06A-III': 45.2, '06A-II': 44.2}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023125,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310365,"{'03': 95.2, '01': 17.5, '09L': 15.5, '09N': 15.1, '14': 13.9}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901293295,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901335375,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270635,"{'03': 97.4, '01': 17.5, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282605,"{'01': 99.2, '19F': 32.1, '19F-I': 31.6, '19F-III': 31.4, '19F-II': 31.1}",1,99.2,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223465,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266635,"{'10A': 99.4, '10B': 67.1, '10C': 27.7, '10F': 18.1, '22F': 15.5}",1,99.4,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001088585,"{'45': 6.0, '25F': 5.5, '25A': 5.3, '36': 5.0, '20': 4.8}",2,6.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901292045,"{'03': 95.2, '01': 17.5, '09L': 15.5, '09N': 15.1, '14': 13.9}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310745,"{'23F': 96.7, '23A': 63.9, '28A': 47.7, '28F': 46.0, '23B': 45.7}",1,96.7,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221765,"{'06A-II': 95.5, '06A-VI': 95.5, '06B-II': 89.4, '06A-V': 89.0, '06A-III': 88.4}",1,95.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900027155,"{'22F': 92.0, '22A': 74.2, '06A-IV': 44.9, '06A-II': 44.5, '06A-VI': 44.4}",1,92.0,,22F,,,{},{},22F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900039645,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.7, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169055,"{'19F-I': 96.9, '19F': 96.3, '19F-III': 96.2, '19F-II': 92.1, '19F-IV': 87.7}",1,96.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328945,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290655,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001329355,"{'06E': 100.0, '06B-III': 99.0, '06B-I': 46.4, '06A-III': 45.9, '06A-II': 44.9}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001336915,"{'11F': 61.7, '11D': 38.3, '11A': 36.8, '09A': 25.3, '09V': 25.3}",1,61.7,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278605,"{'02': 92.6, '22F': 40.2, '06B-I': 38.9, '06A-III': 38.8, '06A-II': 38.6}",1,92.6,,2,,,{},{},2,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288655,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339265,"{'23A': 95.1, '23F': 68.0, '23B': 43.2, '19F-II': 40.0, '15B': 39.1}",1,95.1,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901253095,"{'23B1': 99.6, '23B': 56.3, '19A-II': 36.1, '19A-I': 35.9, '19AF': 31.7}",1,99.6,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337995,"{'15C': 93.9, '15B': 93.8, '15A': 62.1, '15F': 48.6, '14': 33.0}",1,93.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270255,"{'05': 95.0, '45': 22.4, '36': 21.8, '20': 20.1, '12A': 19.8}",1,95.0,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259405,"{'01': 100.0, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,100.0,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221255,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001159705,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302885,"{'12F': 96.0, '12B': 93.4, '44': 93.0, '12A': 84.9, '46': 81.8}",1,96.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320345,"{'08': 99.3, '06A-II': 26.5, '06A-VI': 26.4, '06B-II': 25.8, '06A-V': 25.4}",1,99.3,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168335,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900022185,"{'09N': 100.0, '09L': 88.9, '09A': 32.7, '09V': 32.7, '36': 31.3}",1,100.0,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907169895,"{'14': 92.2, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.2,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235965,"{'04': 99.4, '45': 33.4, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.4,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216255,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221085,"{'33D': 89.5, '33B': 88.6, '35B': 35.1, '33F2': 29.9, '22F': 28.0}",1,89.5,,"Mixed serotypes- {'33D', '33B'}",,,{},{},"Mixed serotypes- {'33D', '33B'}",AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215185,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 93.9, '19F-II': 92.9, '19F-IV': 88.9}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235785,"{'31': 99.5, '41A': 57.2, '41F': 49.3, '06A-II': 36.4, '06A-VI': 36.4}",1,99.5,,31,,,{},{},31,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339285,"{'06A-II': 85.4, '06A-VI': 85.4, '06A-III': 85.2, '06A-V': 84.6, '06A': 83.8}",1,85.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337265,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_009721025,"{'10A': 99.9, '10B': 66.7, '11D': 58.6, '11A': 57.2, '15B': 48.1}",1,99.9,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255925,"{'06A-I': 100.0, '06B': 94.5, '06A-V': 89.7, '06A': 87.1, '06A-III': 86.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001139365,"{'06A-I': 98.6, '06B': 94.6, '06A-V': 89.3, '06A': 87.7, '06A-III': 85.8}",1,98.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900052145,"{'19F-I': 74.1, '19F': 73.5, '19F-III': 73.1, '19F-II': 70.7, '19F-IV': 67.1}",1,74.1,,19F,,,{},{},19F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319015,"{'10A': 98.3, '10B': 66.9, '10C': 27.5, '10F': 18.1, '22F': 15.5}",1,98.3,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001126985,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319295,"{'14': 91.5, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.5,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288825,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900055935,"{'06E': 83.5, '06B-III': 82.4, '06B-I': 55.6, '06A-III': 54.1, '06A-II': 53.5}",1,83.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215685,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328985,"{'19A-II': 100.0, '19A-I': 96.6, '19A': 85.0, '19A-III': 84.8, '19AF': 62.1}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001098805,"{'13': 83.6, '36': 25.5, '14': 25.4, '09L': 24.6, '09N': 24.4}",1,83.6,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336205,"{'06A-V': 93.2, '06A-III': 90.2, '06A-II': 89.8, '06A-VI': 89.8, '06B-I': 89.4}",1,93.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289385,"{'14': 91.1, '09L': 26.5, '36': 26.5, '09N': 26.2, '15B': 23.2}",1,91.1,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001146245,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901226555,"{'05': 94.2, '45': 21.6, '36': 20.3, '20': 19.3, '12A': 19.0}",1,94.2,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907170195,"{'14': 91.8, '36': 27.7, '09L': 25.5, '09N': 24.5, '15B': 23.7}",1,91.8,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900016985,"{'19F-II': 99.6, '19F': 95.4, '19F-III': 94.4, '19F-I': 94.1, '19F-IV': 93.3}",1,99.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336155,"{'10A': 99.7, '10B': 66.5, '10C': 27.2, '10F': 17.6, '22F': 15.4}",1,99.7,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900036575,"{'04': 99.8, '45': 33.1, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190055,"{'19A-II': 100.0, '19A-I': 96.6, '19A': 85.0, '19A-III': 84.8, '19AF': 62.1}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001124225,"{'06E': 99.7, '06B-III': 99.3, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323635,"{'34': 98.7, '33F2': 35.2, '35B': 33.7, '33F': 29.8, '33C': 28.5}",1,98.7,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001088545,"{'36': 13.7, '20': 8.7, '06A-IV': 8.5, '06B-I': 7.3, '06C': 7.2}",2,13.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263875,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 33.0}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031845,"{'03': 95.2, '01': 17.4, '36': 16.8, '20': 15.8, '09L': 15.6}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315515,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311095,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900058465,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193985,"{'06C-I': 98.0, '06C': 97.8, '06D': 82.9, '06A-II': 77.9, '06A-VI': 77.9}",1,98.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[2]],"{'wciN': ['b', 91.3]}",{'wciN': 'b'},6C/6D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331355,"{'09A': 99.7, '09V': 99.5, '09N': 38.7, '09L': 36.8, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298925,"{'23F': 97.0, '23A': 63.9, '28A': 47.7, '28F': 46.0, '06A': 45.0}",1,97.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901270665,"{'19F-I': 95.4, '19F': 95.1, '19F-III': 93.6, '19F-II': 92.3, '19F-IV': 88.3}",1,95.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262825,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328625,"{'16F': 98.8, '28F': 42.9, '18A': 41.4, '19F-IV': 41.4, '18F': 41.1}",1,98.8,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331625,"{'12F': 95.9, '12B': 93.3, '44': 92.9, '12A': 84.8, '46': 81.7}",1,95.9,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224635,"{'21': 100.0, '22F': 35.7, '06A-IV': 32.9, '06A-II': 32.2, '06A-VI': 32.1}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228645,"{'35B': 100.0, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,100.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001198595,"{'06E': 100.0, '06B-III': 99.3, '06B-I': 46.9, '06A-III': 46.4, '06A-II': 45.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254735,"{'20': 82.2, '47F': 25.9, '35A': 24.6, '09L': 24.5, '36': 24.1}",1,82.2,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901342585,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193425,"{'07A': 99.5, '07F': 99.4, '19F-II': 36.3, '19F-IV': 35.7, '19F': 34.8}",1,99.5,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324615,"{'13': 98.9, '20': 29.0, '09L': 28.6, '09N': 28.2, '36': 28.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901326615,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.4, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001205595,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255165,"{'13': 83.7, '36': 32.6, '14': 27.2, '15B': 26.7, '15C': 26.3}",1,83.7,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255855,"{'06A-III': 94.7, '06B-I': 93.3, '06A': 90.2, '06A-IV': 89.4, '06B-II': 89.3}",1,94.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001161985,"{'25F': 5.7, '45': 5.6, '25A': 5.5, '20': 5.1, '22F': 4.8}",3,5.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901259565,"{'06A-II': 95.5, '06A-VI': 95.5, '06B-II': 89.4, '06A-V': 89.0, '06A-III': 88.4}",1,95.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001330235,"{'06E': 100.0, '06B-III': 96.9, '06B-I': 44.2, '06A-III': 43.7, '06B-II': 42.9}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193305,"{'33F': 99.4, '33A': 96.9, '33F2': 70.3, '35C': 42.4, '42': 41.4}",1,99.4,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901314095,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269025,"{'16F': 98.5, '28F': 42.9, '18A': 41.5, '19F-IV': 41.5, '19F-II': 41.1}",1,98.5,,16F,,,{},{},16F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024145,"{'14': 99.9, '09L': 27.2, '36': 26.0, '09N': 24.9, '15B': 24.3}",1,99.9,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001110805,"{'04': 99.8, '45': 33.8, '12F': 23.5, '44': 23.3, '12A': 22.4}",1,99.8,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901263375,"{'05': 95.1, '45': 22.6, '36': 21.7, '20': 20.3, '12A': 19.8}",1,95.1,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284805,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 61.9}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288445,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001142505,"{'15A': 97.3, '15F': 73.5, '15C': 61.6, '15B': 61.5, '23F': 31.3}",1,97.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001087585,"{'15A': 97.0, '15F': 73.4, '15C': 61.2, '15B': 61.1, '23F': 31.1}",1,97.0,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001097985,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192175,"{'06A-IV': 99.9, '06A': 99.7, '06B-II': 95.1, '06A-V': 93.5, '06A-III': 91.3}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335755,"{'36': 11.7, '20': 8.2, '23B1': 7.9, '06C': 6.8, '06B-I': 6.8}",1,11.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907166885,"{'09A': 99.2, '09V': 99.0, '09N': 35.9, '09L': 34.3, '11F': 26.6}",1,99.2,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310345,"{'03': 95.8, '20': 17.9, '01': 17.8, '09L': 16.4, '36': 16.4}",1,95.8,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901257425,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001092025,"{'15C': 87.7, '15B': 87.6, '15A': 64.5, '15F': 49.9, '23A': 30.2}",1,87.7,,15B/15C,,,{},{},15B/15C,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901313005,"{'15A': 98.6, '15F': 73.8, '15C': 62.1, '15B': 62.0, '23F': 31.9}",1,98.6,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323465,"{'14': 95.0, '36': 26.1, '09L': 25.2, '15B': 24.3, '15C': 24.2}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241145,"{'14': 95.0, '36': 26.1, '09L': 25.4, '09N': 24.6, '15B': 24.3}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901241595,"{'14': 92.7, '36': 29.0, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339985,"{'13': 83.3, '36': 28.7, '09N': 26.0, '09L': 25.7, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001108865,"{'25F': 5.7, '45': 5.7, '25A': 5.5, '01': 5.1, '22F': 5.1}",3,5.7,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336285,"{'08': 99.8, '06A-II': 24.7, '06A-VI': 24.6, '02': 24.4, '06B-II': 24.1}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338405,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287865,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901246565,"{'07C': 99.5, '07B': 73.1, '40': 70.9, '24B': 48.9, '24F': 48.7}",1,99.5,,7C,,,{},{},7C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901279335,"{'14': 93.4, '36': 26.2, '09L': 25.2, '09N': 24.3, '15B': 24.0}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236965,"{'23F': 78.4, '23A': 58.1, '23B': 52.0, '28A': 39.2, '28F': 36.6}",1,78.4,,23F,,,{},{},23F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900018455,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233885,"{'16F': 71.7, '28F': 43.2, '28A': 40.7, '18F': 33.7, '18A': 33.1}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001140045,"{'11F': 61.8, '11D': 38.4, '11A': 36.8, '09V': 25.4, '09A': 25.3}",1,61.8,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224345,"{'35F': 91.1, '47F': 67.7, '35B': 25.9, '29': 25.7, '34': 25.3}",1,91.1,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900050165,"{'07A': 90.8, '07F': 90.6, '19F-II': 39.3, '19F': 37.8, '19F-IV': 37.8}",1,90.8,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337225,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.2, '06A-III': 88.6}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001161145,"{'11F': 61.8, '11D': 38.4, '11A': 36.8, '09V': 25.4, '09A': 25.3}",1,61.8,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001133905,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001158105,"{'06D': 95.4, '06C': 87.5, '06C-I': 87.5, '06B-I': 75.6, '06A-III': 75.2}",1,95.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['b: 89.0']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901329955,"{'14': 94.6, '36': 26.1, '09L': 25.2, '09N': 24.7, '15B': 24.3}",1,94.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316805,"{'08': 99.8, '02': 24.4, '06A-II': 24.3, '06A-VI': 24.2, '06B-II': 23.7}",1,99.8,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001149105,"{'10B': 99.5, '10A': 65.3, '10F': 20.1, '10C': 18.8, '47A': 12.6}",1,99.5,,10B,,,{},{},10B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901310475,"{'09N': 100.0, '09L': 90.7, '09A': 32.7, '09V': 32.7, '36': 32.1}",1,100.0,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001116705,"{'19F-I': 95.9, '19F': 95.6, '19F-III': 94.0, '19F-II': 92.8, '19F-IV': 88.8}",1,95.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221395,"{'01': 99.5, '19F': 32.6, '19F-I': 32.1, '19F-III': 31.9, '19F-II': 31.6}",1,99.5,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001112765,"{'36': 12.9, '20': 8.1, '06A-IV': 7.6, '01': 6.5, '06C': 6.2}",2,12.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900061205,"{'19A': 93.4, '19A-III': 93.2, '19A-II': 81.8, '19A-I': 80.0, '19AF': 55.9}",1,93.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001146705,"{'13': 98.9, '09L': 28.5, '20': 28.1, '09N': 28.0, '14': 26.8}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901258855,"{'21': 99.3, '22F': 35.7, '06A-IV': 30.9, '06B': 30.2, '06A': 30.1}",1,99.3,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282645,"{'34': 98.6, '33F2': 35.2, '35B': 33.5, '33F': 29.8, '33C': 28.5}",1,98.6,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305565,"{'06A-V': 97.2, '06A-IV': 94.6, '06A': 94.1, '06B-II': 92.7, '06A-II': 89.9}",1,97.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340095,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.1}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001140905,"{'36': 11.5, '20': 7.9, '06A-IV': 7.6, '06C': 6.2, '06B-I': 6.2}",1,11.5,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900024315,"{'04': 99.7, '45': 32.9, '12A': 26.9, '46': 26.8, '12F': 23.5}",1,99.7,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001104945,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267315,"{'19A-I': 98.0, '19A-II': 97.1, '19A': 86.5, '19A-III': 86.3, '19AF': 61.8}",1,98.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001091045,"{'34': 92.9, '33F2': 34.7, '35B': 31.3, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278215,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216805,"{'09A': 95.3, '09V': 95.1, '09N': 38.8, '09L': 37.0, '06A-IV': 26.4}",1,95.3,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304525,"{'18C': 99.5, '18B': 99.4, '18F': 75.4, '18A': 62.4, '16F': 39.2}",1,99.5,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325155,"{'23F': 97.4, '23A': 64.0, '06A-IV': 48.0, '23B': 47.7, '28A': 47.7}",1,97.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900193995,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 14.9}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001205815,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224015,"{'15C': 96.2, '15B': 96.1, '15A': 61.5, '15F': 47.8, '23A': 34.7}",1,96.2,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901337375,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001341175,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001335835,"{'32A': 97.5, '32F': 97.4, '06A-II': 40.5, '06A-VI': 40.4, '06B-II': 39.7}",1,97.5,,32F/32A,,,{},{},32F/32A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239315,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264575,"{'06E': 100.0, '06B-III': 99.2, '06B-I': 46.6, '06A-III': 46.1, '06A-II': 45.3}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336555,"{'06E': 99.9, '06B-III': 99.5, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,99.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280435,"{'16F': 71.6, '28F': 43.1, '28A': 40.6, '18F': 33.7, '18A': 32.9}",1,71.6,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283425,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001121165,"{'04': 98.3, '45': 33.9, '12F': 23.8, '44': 23.6, '12A': 22.7}",1,98.3,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001154105,"{'03': 97.4, '09N': 15.2, '20': 15.0, '09L': 14.9, '14': 13.3}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001909955,"{'03': 95.2, '36': 17.3, '20': 15.7, '09N': 15.4, '09L': 15.0}",1,95.2,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306225,"{'02': 92.5, '22F': 40.2, '06B-I': 38.9, '06A-III': 38.8, '06A-II': 38.6}",1,92.5,,2,,,{},{},2,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331805,"{'14': 91.3, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.3,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900043745,"{'19A': 99.5, '19A-III': 99.3, '19A-I': 85.7, '19A-II': 83.2, '19AF': 57.0}",1,99.5,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001156805,"{'19F-I': 95.9, '19F': 95.6, '19F-III': 94.0, '19F-II': 92.8, '19F-IV': 88.8}",1,95.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304075,"{'12F': 96.3, '12B': 93.2, '44': 93.0, '12A': 80.3, '46': 77.2}",1,96.3,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 94.56]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251025,"{'15A': 98.3, '15F': 73.0, '15C': 61.8, '15B': 61.7, '23F': 32.3}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001198535,"{'11F': 61.8, '11D': 38.4, '11A': 36.8, '09V': 25.4, '09A': 25.3}",1,61.8,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901288625,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901296215,"{'10F': 98.2, '10C': 80.9, '10B': 22.4, '10A': 19.2, '22F': 15.5}",1,98.2,,10F,,,{},{},10F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284105,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252945,"{'34': 93.0, '33F2': 34.6, '35B': 32.2, '33F': 29.0, '33C': 28.0}",1,93.0,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285705,"{'23F': 96.8, '23A': 63.7, '23B': 48.0, '28A': 47.7, '06B-II': 46.1}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291575,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235695,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001100845,"{'19A-I': 99.3, '19A-II': 97.7, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280925,"{'01': 99.3, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900188715,"{'06B-I': 99.4, '06A-III': 97.3, '06B-II': 89.9, '06A': 89.8, '06A-V': 88.0}",1,99.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247685,"{'23F': 92.6, '23A': 61.3, '28A': 48.1, '23B': 46.6, '06A-IV': 46.4}",1,92.6,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901331875,"{'19B': 92.8, '19C': 71.8, '19F-IV': 50.8, '19F-II': 50.7, '19F-I': 49.8}",1,92.8,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_000506645,"{'01': 7.1, '45': 6.5, '20': 5.9, '25F': 5.8, '25A': 5.6}",5,7.1,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001151905,"{'35A': 99.9, '35C': 85.2, '42': 84.6, '33A': 42.9, '33F': 42.6}",1,99.9,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901323265,"{'02': 92.4, '22F': 40.0, '06A-I': 38.2, '06B': 37.9, '06A': 37.5}",1,92.4,,2,,,{},{},2,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901220185,"{'19A': 92.6, '19A-III': 92.4, '19A-II': 83.3, '19A-I': 81.3, '19AF': 56.1}",1,92.6,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 97.62]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901254795,"{'35B': 99.9, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.9,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001164005,"{'17F': 93.5, '06A-III': 45.6, '06B-I': 45.4, '06A-IV': 45.3, '06A': 44.5}",1,93.5,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900023425,"{'20': 98.8, '13': 25.9, '09L': 25.5, '09N': 24.6, '36': 24.5}",1,98.8,,20,,,{},{},20,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284315,"{'11D': 96.5, '11A': 95.3, '11F': 43.3, '11C': 36.2, '11B': 34.8}",1,96.5,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901215945,"{'09N': 99.9, '09L': 89.1, '09A': 32.7, '09V': 32.7, '36': 31.7}",1,99.9,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260255,"{'19F-III': 98.4, '19F': 98.0, '19F-I': 98.0, '19F-II': 93.8, '19F-IV': 89.2}",1,98.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901276695,"{'23F': 96.8, '23A': 63.7, '23B': 48.0, '28A': 47.7, '06B-II': 46.1}",1,96.8,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306725,"{'07B': 99.9, '40': 92.9, '07C': 77.2, '24F2': 48.1, '24F': 47.7}",1,99.9,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190005,"{'06B-I': 99.3, '06A-III': 97.1, '06B-II': 89.7, '06A': 89.5, '06A-V': 87.8}",1,99.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901277085,"{'40': 99.5, '07B': 93.8, '07C': 75.3, '24F2': 48.1, '24F': 47.8}",1,99.5,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327055,"{'21': 99.1, '22F': 35.9, '06A-IV': 30.9, '06B': 30.2, '06A': 30.1}",1,99.1,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901244675,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901311215,"{'19F-III': 100.0, '19F': 98.0, '19F-I': 97.3, '19F-II': 94.8, '19F-IV': 89.5}",1,100.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001101165,"{'06A-II': 87.3, '06A-VI': 87.3, '06A': 86.0, '06A-IV': 85.2, '06A-V': 85.0}",1,87.3,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.5]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901247865,"{'01': 99.3, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901274715,"{'06A-II': 95.7, '06A-VI': 95.7, '06B-II': 89.6, '06A-V': 89.1, '06A-III': 88.5}",1,95.7,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001136325,"{'01': 5.9, '45': 5.8, '25F': 5.7, '25A': 5.5, '22F': 5.1}",2,5.9,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001342515,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.5, '06A-III': 46.6, '06A-IV': 45.7}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901302025,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 48.0, '06A-III': 47.5, '06A-II': 46.4}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901282375,"{'35B': 99.6, '33F': 33.6, '35C': 33.3, '34': 33.1, '35A': 32.9}",1,99.6,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901214935,"{'33F': 99.9, '33A': 99.8, '33F2': 70.9, '35C': 42.9, '42': 41.9}",1,99.9,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283005,"{'06A': 83.0, '06A-IV': 81.9, '06A-V': 81.5, '06B-II': 81.4, '06B-I': 81.2}",1,83.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 83.83']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346255,"{'34': 92.9, '33F2': 34.7, '35B': 30.5, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001199315,"{'06E': 100.0, '06B-III': 99.4, '06B-I': 46.8, '06A-III': 46.3, '06A-II': 45.3}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901224935,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901285365,"{'15C': 95.7, '15B': 95.5, '15A': 61.0, '15F': 47.5, '23A': 34.8}",1,95.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001103065,"{'17F': 93.5, '06A-III': 45.6, '06B-I': 45.4, '06A-IV': 45.3, '06A': 44.5}",1,93.5,,17F,,,{},{},17F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901336055,"{'19F-I': 91.8, '19F': 91.6, '19F-III': 91.2, '19F-II': 89.1, '19F-IV': 84.3}",1,91.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901308035,"{'06A-I': 98.4, '06B': 94.4, '06A-V': 89.4, '06A': 87.5, '06A-III': 85.9}",1,98.4,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 96.61]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900020815,"{'33F': 100.0, '33A': 97.4, '33F2': 70.9, '35C': 42.8, '42': 41.8}",1,100.0,,33F/33A,,,{},{},33F/33A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901262205,"{'20': 86.3, '36': 27.8, '13': 26.4, '09L': 25.9, '09N': 24.8}",1,86.3,,20,,,{},{},20,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001088165,"{'14': 95.0, '36': 26.3, '09L': 25.1, '15B': 24.3, '15C': 24.2}",1,95.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901269055,"{'21': 100.0, '22F': 36.0, '06A-IV': 32.3, '06A-II': 31.6, '06A-VI': 31.5}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_002081465,"{'36': 9.0, '20': 7.0, '06A-IV': 6.2, '06C': 5.0, '06C-I': 4.9}",1,9.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901304055,"{'23B1': 98.7, '23B': 59.0, '19A-II': 36.7, '19A-I': 35.5, '19AF': 32.0}",1,98.7,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001637415,"{'23F': 96.5, '23A': 63.2, '06A-IV': 48.8, '23B': 48.4, '28A': 47.2}",1,96.5,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901267035,"{'01': 7.6, '25F': 6.9, '25A': 6.7, '45': 6.5, '22F': 5.5}",5,7.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900061235,"{'18C': 99.9, '18B': 99.8, '18F': 75.8, '18A': 62.4, '16F': 39.3}",1,99.9,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001192555,"{'22F': 85.8, '22A': 71.4, '06A': 39.6, '06A-III': 39.5, '06A-I': 39.4}",1,85.8,,22F,,,{},{},22F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900190695,"{'19A-II': 99.8, '19A-I': 96.4, '19A': 84.8, '19A-III': 84.6, '19AF': 62.0}",1,99.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900459575,"{'09A': 99.9, '09V': 99.7, '09N': 38.7, '09L': 36.8, '35B': 26.5}",1,99.9,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001345655,"{'34': 92.9, '33F2': 34.7, '35B': 31.0, '33F': 29.0, '33C': 28.0}",1,92.9,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901280425,"{'19A-I': 99.3, '19A-II': 97.6, '19A': 87.9, '19A-III': 87.7, '19AF': 62.0}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001346535,"{'19F-I': 95.8, '19F': 95.5, '19F-III': 94.0, '19F-II': 92.7, '19F-IV': 88.7}",1,95.8,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901324405,"{'23F': 91.3, '23A': 59.9, '06A-IV': 47.0, '28A': 46.8, '23B': 46.3}",1,91.3,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900059295,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001171785,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168005,"{'14': 93.0, '36': 27.0, '09L': 25.2, '15B': 24.3, '15C': 24.2}",1,93.0,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341215,"{'19F-I': 99.7, '19F': 96.7, '19F-III': 96.7, '19F-II': 93.9, '19F-IV': 89.3}",1,99.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234595,"{'18C': 99.2, '18B': 99.1, '18F': 75.9, '18A': 62.9, '16F': 39.3}",1,99.2,,18C/18B,,,{},{},18C/18B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900021815,"{'15C': 95.9, '15B': 95.7, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.9,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901341685,"{'01': 99.3, '19F': 32.2, '19F-I': 31.8, '19F-III': 31.5, '19F-II': 31.2}",1,99.3,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001154825,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901222725,"{'35C': 99.6, '42': 98.6, '35A': 85.6, '33A': 45.6, '33F': 45.1}",1,99.6,,35A/35C/42,,,{},{},35A/35C/42,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261785,"{'09N': 100.0, '09L': 89.1, '09A': 32.7, '09V': 32.7, '36': 32.3}",1,100.0,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901287375,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216415,"{'19F-I': 96.4, '19F': 95.8, '19F-III': 95.4, '19F-II': 93.7, '19F-IV': 88.8}",1,96.4,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001120585,"{'23B1': 98.8, '23B': 55.9, '19A-II': 36.0, '19A-I': 35.7, '19AF': 31.5}",1,98.8,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001164865,"{'19B': 91.7, '19C': 70.5, '19F-II': 49.3, '19F-IV': 49.3, '19F-I': 48.5}",1,91.7,,19B,,,{},{},19B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901233255,"{'11D': 99.8, '11A': 97.0, '11F': 42.0, '11C': 35.7, '11B': 34.2}",1,99.8,,11A/11D,,,{},{},11A/11D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901252725,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901221155,"{'08': 97.6, '02': 24.2, '22F': 23.3, '06A-IV': 23.2, '06A': 22.8}",1,97.6,,8,,,{},{},8,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901319125,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901251805,"{'01': 98.9, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,98.9,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901320615,"{'15A': 98.7, '15F': 73.6, '15C': 61.3, '15B': 61.2, '23F': 31.0}",1,98.7,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901219545,"{'14': 92.4, '36': 29.8, '09L': 25.3, '09N': 24.4, '15B': 24.0}",1,92.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328465,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585405,"{'12F': 96.8, '44': 93.5, '12B': 92.8, '12A': 80.6, '46': 77.5}",1,96.8,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338555,"{'36': 11.8, '20': 7.9, '06A-IV': 7.0, '06B-I': 5.6, '06C': 5.5}",1,11.8,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_019397845,"{'06A': 83.2, '06A-IV': 82.9, '06A-V': 82.2, '06B-I': 82.2, '06B-II': 82.2}",1,83.2,6A_6B_6C_6D,6A_6B_6C_6D,,[[0]],{'wciN': ['a: 83.83']},{'wciN': 0},6A_6B_6C_6D,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900046585,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318195,"{'14': 93.4, '09L': 27.5, '36': 27.3, '09N': 25.3, '15B': 24.3}",1,93.4,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001087025,"{'19F-I': 95.6, '19F': 95.3, '19F-III': 93.8, '19F-II': 92.5, '19F-IV': 88.5}",1,95.6,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901283245,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266245,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900059385,"{'06B-I': 99.6, '06A-III': 97.4, '06B-II': 90.0, '06A': 89.7, '06A-V': 88.1}",1,99.6,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 100.0]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901290495,"{'19A': 99.3, '19A-III': 99.1, '19A-I': 86.2, '19A-II': 83.9, '19AF': 57.2}",1,99.3,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901235325,"{'23F': 99.4, '23A': 65.2, '23B': 47.9, '28A': 47.8, '06A-V': 45.8}",1,99.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291665,"{'19F': 94.9, '19F-I': 94.4, '19F-III': 93.3, '19F-II': 92.0, '19F-IV': 88.3}",1,94.9,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001168745,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001585155,"{'12F': 97.0, '44': 93.7, '12B': 93.0, '12A': 80.7, '46': 77.6}",1,97.0,12F_12A_12B_44_46,12F_12A_12B_44_46,,[[5]],"{'wciI': [2, 100.0]}",{'wciI': 2},12F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901234645,"{'16F': 71.5, '28F': 43.1, '28A': 40.6, '18F': 33.6, '18A': 32.9}",1,71.5,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901289585,"{'19A-I': 99.2, '19A-II': 97.5, '19A': 87.8, '19A-III': 87.6, '19AF': 61.8}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901236205,"{'07B': 99.9, '40': 92.9, '07C': 77.2, '24F2': 48.1, '24F': 47.7}",1,99.9,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901239075,"{'16F': 71.7, '28F': 43.2, '28A': 40.7, '18F': 33.7, '18A': 32.9}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001338915,"{'23F': 94.0, '23A': 63.5, '28A': 48.5, '23B': 47.0, '06A-III': 46.4}",1,94.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339615,"{'06A-II': 94.5, '06A-VI': 94.5, '06B-II': 88.5, '06A-V': 88.1, '06A': 87.6}",1,94.5,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001165025,"{'25F': 6.3, '36': 6.3, '25A': 6.1, '45': 6.0, '38': 4.9}",2,6.3,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001128785,"{'36': 10.6, '06A-IV': 7.1, '20': 5.9, '06B-I': 5.9, '06C': 5.8}",1,10.6,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907168665,"{'09A': 99.0, '09V': 98.8, '09N': 36.3, '09L': 35.0, '11F': 26.3}",1,99.0,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273075,"{'19F-I': 99.3, '19F': 96.3, '19F-III': 96.3, '19F-II': 93.5, '19F-IV': 88.9}",1,99.3,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901260275,"{'19F-I': 98.0, '19F': 97.3, '19F-III': 96.8, '19F-II': 95.3, '19F-IV': 90.4}",1,98.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901227775,"{'14': 92.6, '36': 28.7, '09L': 25.8, '09N': 24.7, '15B': 24.2}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001191735,"{'09N': 97.2, '09L': 87.0, '09A': 32.4, '09V': 32.4, '36': 30.5}",1,97.2,,9N/9L,,,{},{},9N/9L,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339475,"{'15A': 98.3, '15F': 73.0, '15C': 61.8, '15B': 61.7, '23F': 32.3}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901325395,"{'06A-II': 85.8, '06A-VI': 85.8, '06A-III': 85.7, '06A-V': 84.9, '06B-I': 84.3}",1,85.8,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901328055,"{'13': 83.3, '36': 26.6, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001196205,"{'03': 94.8, '36': 16.9, '20': 15.6, '01': 14.7, '09L': 14.2}",1,94.8,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901278405,"{'09A': 95.8, '09V': 95.6, '09N': 39.0, '09L': 36.9, '06A-IV': 26.4}",1,95.8,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901281565,"{'19A-I': 99.4, '19A-II': 97.7, '19A': 88.0, '19A-III': 87.8, '19AF': 62.0}",1,99.4,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901275065,"{'05': 95.3, '36': 23.2, '45': 22.5, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900061255,"{'19A-II': 93.8, '19A-I': 90.5, '19A': 78.9, '19A-III': 78.8, '19AF': 59.3}",1,93.8,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901255265,"{'23B1': 99.1, '23B': 55.9, '19A-II': 36.0, '19A-I': 35.8, '19AF': 31.7}",1,99.1,,23B,,,{},{},23B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901298665,"{'23F': 97.0, '23A': 63.9, '28A': 47.7, '28F': 46.0, '23B': 45.7}",1,97.0,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901316915,"{'11D': 80.1, '11A': 78.8, '11F': 45.3, '11B': 34.6, '11C': 30.9}",1,80.1,,11A/11D,,,{},{},11A/11D,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907171685,"{'14': 92.6, '36': 28.5, '09L': 25.1, '15B': 24.2, '09N': 24.1}",1,92.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001144485,"{'19F-I': 95.5, '19F': 95.2, '19F-III': 93.7, '19F-II': 92.4, '19F-IV': 88.4}",1,95.5,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900323435,"{'23A': 99.4, '23F': 67.3, '23B': 43.6, '19F-II': 37.9, '15B': 37.2}",1,99.4,,23A,,,{},{},23A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901305775,"{'15C': 95.7, '15B': 95.6, '15A': 61.2, '15F': 47.6, '23A': 34.7}",1,95.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001110065,"{'19F-I': 96.0, '19F': 95.7, '19F-III': 94.1, '19F-II': 92.9, '19F-IV': 88.9}",1,96.0,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901291595,"{'15A': 99.9, '15F': 74.2, '15C': 61.9, '15B': 61.8, '23F': 31.6}",1,99.9,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901264585,"{'05': 95.3, '45': 22.3, '36': 21.7, '20': 20.3, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900192415,"{'21': 100.0, '22F': 33.9, '06A-IV': 31.9, '06A-II': 31.2, '06A-VI': 31.1}",1,100.0,,21,,,{},{},21,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001140825,"{'14': 89.6, '36': 28.9, '09L': 23.2, '09N': 22.2, '19F-II': 22.2}",1,89.6,,14,,,{},{},14,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901240955,"{'19A': 79.4, '19A-III': 79.2, '19A-I': 68.1, '19A-II': 66.7, '19AF': 60.2}",1,79.4,19A_19AF,19A_19AF,,[[0]],{'wzy': ['2: 69.2']},{'wzy': 0},19A_19AF,RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900031225,"{'19A-II': 100.0, '19A-I': 96.6, '19A': 85.0, '19A-III': 84.8, '19AF': 62.1}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900030175,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901231845,"{'06A-II': 97.9, '06A-VI': 97.9, '06B-II': 90.4, '06A-V': 89.6, '06A-III': 89.2}",1,97.9,6A_6B_6C_6D,6A_6B_6C_6D,,[[1]],"{'wciN': ['a', 93.22]}",{'wciN': 'a'},6A/6B,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001171585,"{'19A': 100.0, '19A-III': 99.8, '19A-I': 86.2, '19A-II': 83.7, '19AF': 57.2}",1,100.0,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901266905,"{'13': 98.9, '09N': 29.1, '20': 28.9, '09L': 28.7, '36': 28.0}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901228875,"{'35F': 99.3, '47F': 74.6, '34': 26.7, '35B': 26.3, '29': 22.5}",1,99.3,,35F,,,{},{},35F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900194725,"{'38': 99.4, '25F': 84.7, '25A': 83.7, '36': 11.8, '20': 8.2}",1,99.4,25F_25A_38,25F_25A_38,,"[[9], [19]]","{'wcyD': ['b', 100.0], 'wcyV': 100.0}","{'wcyD': 'b', 'wcyV': 'detected'}",38,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223245,"{'34': 95.5, '33F2': 35.6, '35B': 34.0, '33F': 30.2, '35C': 28.9}",1,95.5,,34,,,{},{},34,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901340675,"{'19F-I': 95.7, '19F': 95.4, '19F-III': 93.9, '19F-II': 92.6, '19F-IV': 88.6}",1,95.7,,19F,,,{},{},19F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901315265,"{'03': 75.1, '20': 7.9, '36': 7.1, '01': 6.9, '22F': 6.8}",1,75.1,,3,,,{},{},3,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901317465,"{'14': 91.6, '09L': 26.7, '36': 26.7, '09N': 26.4, '15B': 23.4}",1,91.6,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901327065,"{'05': 95.3, '45': 22.6, '36': 21.9, '20': 20.4, '12A': 19.8}",1,95.3,,5,,,{},{},5,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901273985,"{'13': 98.9, '09N': 29.1, '09L': 28.7, '20': 28.4, '36': 27.9}",1,98.9,,13,,,{},{},13,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_907167965,"{'09A': 99.7, '09V': 99.5, '09N': 37.3, '09L': 36.0, '11F': 26.6}",1,99.7,,9A/9V,,,{},{},9A/9V,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901223415,"{'10A': 100.0, '10B': 66.8, '10C': 27.5, '10F': 17.9, '22F': 15.5}",1,100.0,,10A,,,{},{},10A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001085885,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.1, '06A-III': 46.6, '06A-II': 45.6}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001337635,"{'35B': 91.0, '34': 33.5, '33F': 32.9, '35C': 31.9, '35A': 31.6}",1,91.0,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901261705,"{'13': 83.3, '36': 28.5, '09N': 26.0, '09L': 25.8, '14': 25.7}",1,83.3,,13,,,{},{},13,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900057405,"{'19A': 99.2, '19A-III': 99.0, '19A-I': 86.1, '19A-II': 83.8, '19AF': 57.1}",1,99.2,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 100.0]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901230545,"{'36': 12.0, '06A-IV': 7.8, '20': 7.6, '01': 6.8, '06B-I': 6.5}",1,12.0,,"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",,,{},{},"Below 20% hit - possible acapsular organism, check species identity and sequence quality.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901321055,"{'15C': 95.7, '15B': 95.6, '15A': 61.1, '15F': 47.5, '23A': 34.7}",1,95.7,,15B/15C,,,{},{},15B/15C,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901284775,"{'06E': 100.0, '06B-III': 99.6, '06B-I': 47.0, '06A-III': 46.5, '06A-II': 45.5}",1,100.0,6A_6B_6C_6D,6A_6B_6C_6D,,[[3]],"{'wciN': ['g', 100.0]}",{'wciN': 'g'},Serogroup_6_(6E),GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901238105,"{'15A': 98.3, '15F': 72.9, '15C': 61.6, '15B': 61.5, '23F': 32.2}",1,98.3,15F_15A,15F_15A,,"[[11], [13], [15], [17]]","{'glf': 0, 'rmlB': 0, 'rmlD': 0, 'wcjE': 0}","{'glf': 'not_detected', 'rmlB': 'not_detected', 'rmlD': 'not_detected', 'wcjE': 'not_detected'}",15A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_004331935,"{'02': 57.6, '06C': 23.4, '06B-I': 23.4, '06C-I': 23.4, '06A-II': 23.1}",1,57.6,,"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",,,{},{},"Below 70% hit - Poor Sequence quality, variant or non-typeable organism.",RED
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901216105,"{'03': 97.4, '01': 17.7, '20': 15.5, '09N': 15.4, '09L': 15.1}",1,97.4,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901229075,"{'35B': 99.5, '33F': 33.7, '35C': 33.5, '34': 33.3, '35A': 33.1}",1,99.5,,35B/35D,,,{},{},35B/35D,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_001161845,"{'07B': 99.9, '40': 92.9, '07C': 77.2, '24F2': 48.1, '24F': 47.7}",1,99.9,,7B/40,,,{},{},7B/40,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901306805,"{'01': 99.4, '19F': 32.3, '19F-I': 31.8, '19F-III': 31.6, '19F-II': 31.3}",1,99.4,,1,,,{},{},1,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900039385,"{'04': 99.2, '45': 33.1, '12F': 23.2, '44': 23.0, '12A': 22.1}",1,99.2,,4,,,{},{},4,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901301945,"{'19A-II': 98.9, '19A-I': 97.0, '19A': 85.6, '19A-III': 85.4, '19AF': 62.0}",1,98.9,19A_19AF,19A_19AF,,[[6]],"{'wzy': [1, 95.25]}",{'wzy': 1},19A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901318875,"{'03': 95.8, '20': 17.9, '01': 17.7, '09L': 16.4, '36': 16.4}",1,95.8,,3,,,{},{},3,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_909594835,"{'14': 92.7, '36': 28.3, '09L': 25.5, '09N': 24.6, '15B': 24.2}",1,92.7,,14,,,{},{},14,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901339645,"{'23F': 92.4, '23A': 61.1, '28A': 48.1, '23B': 46.6, '06A-IV': 46.6}",1,92.4,,23F,,,{},{},23F,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900026235,"{'07A': 99.7, '07F': 99.5, '19F-II': 36.4, '19F-IV': 35.8, '19F': 34.9}",1,99.7,,7F/7A,,,{},{},7F/7A,GREEN
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_901338895,"{'16F': 71.7, '28F': 43.2, '28A': 40.7, '18F': 33.7, '18A': 33.6}",1,71.7,,16F,,,{},{},16F,AMBER
sampleid,top_hits,max_mm,max_percent,folder,stage1_result,mix_mm,stage2_varids,stage2_hits,stage2_result,predicted_serotype,rag_status
GCA_900459625,"{'14': 92.7, '36': 28.4, '09L': 25.9, '09N': 25.1, '15B': 24.3}",1,92.7,,14,,,{},{},14,GREEN