Run ID: SRR13861520
Sample name:
Date: 03-04-2023 09:33:52
Number of reads: 323500
Percentage reads mapped: 10.79
Strain: lineage4.9
Drug-resistance: RR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.9 | Euro-American (H37Rv-like) | T1 | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761131 | p.Gly442Glu | missense_variant | 0.3 | rifampicin |
rrs | 1472122 | n.277G>C | non_coding_transcript_exon_variant | 1.0 | streptomycin |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5319 | p.Arg27Leu | missense_variant | 1.0 |
rpoB | 760867 | p.Gly354Asp | missense_variant | 1.0 |
rpoB | 761126 | c.1320G>T | synonymous_variant | 0.3 |
rpoB | 761129 | c.1323G>C | synonymous_variant | 0.3 |
rpoB | 761133 | p.Leu443Ile | missense_variant | 0.27 |
rpoB | 761150 | c.1344A>C | synonymous_variant | 0.25 |
rpoB | 761151 | p.Leu449Val | missense_variant | 0.25 |
rpoB | 761156 | c.1350G>C | synonymous_variant | 0.25 |
rpoB | 761162 | c.1356G>C | synonymous_variant | 0.25 |
rpoB | 761165 | c.1359G>C | synonymous_variant | 0.3 |
rpoB | 761168 | c.1362C>G | synonymous_variant | 0.27 |
rpoB | 761178 | p.Ser458Thr | missense_variant | 0.27 |
rpoB | 761192 | c.1386C>G | synonymous_variant | 0.23 |
rpoB | 761195 | c.1389G>C | synonymous_variant | 0.23 |
rpoB | 761196 | p.Leu464Phe | missense_variant | 0.21 |
rpoB | 761204 | c.1398C>T | synonymous_variant | 0.2 |
rpoB | 761207 | c.1401C>T | synonymous_variant | 0.2 |
rpoB | 761213 | c.1407G>A | synonymous_variant | 0.19 |
rpoB | 761220 | p.Ser472Thr | missense_variant | 0.2 |
rpoB | 761234 | c.1428G>C | synonymous_variant | 0.23 |
rpoB | 761235 | p.Met477Val | missense_variant | 0.21 |
rpoB | 762496 | c.2691delC | frameshift_variant | 1.0 |
rpoB | 762911 | p.Ile1035Met | missense_variant | 0.11 |
rpoC | 762929 | c.-441G>C | upstream_gene_variant | 0.12 |
rpoB | 762942 | p.Ile1046Val | missense_variant | 0.15 |
rpoC | 764387 | c.1018T>C | synonymous_variant | 0.17 |
rpoC | 764401 | c.1032C>T | synonymous_variant | 0.2 |
rpoC | 764404 | c.1035C>T | synonymous_variant | 0.2 |
rpoC | 764405 | c.1036A>C | synonymous_variant | 0.2 |
rpoC | 764419 | c.1050C>T | synonymous_variant | 0.2 |
rpoC | 764428 | c.1059G>T | synonymous_variant | 0.19 |
rpoC | 764434 | c.1065A>G | synonymous_variant | 0.21 |
rpoC | 764435 | c.1066_1068delAGGinsCGC | synonymous_variant | 0.21 |
rpoC | 764441 | p.Ile358Leu | missense_variant | 0.21 |
rpoC | 764446 | c.1077T>C | synonymous_variant | 0.23 |
rpoC | 764451 | p.Gly361Ala | missense_variant | 0.23 |
rpoC | 764455 | c.1086G>T | synonymous_variant | 0.2 |
rpoC | 764461 | p.Glu364Asp | missense_variant | 0.2 |
rpoC | 764470 | c.1101C>G | synonymous_variant | 0.2 |
rpoC | 764471 | p.Asn368Arg | missense_variant | 0.2 |
rpoC | 764479 | c.1110G>A | synonymous_variant | 0.2 |
rpoC | 764485 | c.1116G>C | synonymous_variant | 0.21 |
rpoC | 764498 | p.Ser377Ala | missense_variant | 0.2 |
rpoC | 764503 | c.1134G>C | synonymous_variant | 0.19 |
rpoC | 764509 | c.1140G>C | synonymous_variant | 0.18 |
rpoC | 764513 | p.Phe382Leu | missense_variant | 0.19 |
rpoC | 764521 | c.1152T>C | synonymous_variant | 0.2 |
rpoC | 764793 | p.Met475Arg | missense_variant | 1.0 |
rpoC | 766563 | p.Thr1065Ser | missense_variant | 1.0 |
mmpL5 | 775976 | c.2505G>C | synonymous_variant | 1.0 |
mmpL5 | 776814 | p.Gln556Arg | missense_variant | 1.0 |
rplC | 800623 | c.-186A>C | upstream_gene_variant | 1.0 |
rplC | 800769 | c.-40A>T | upstream_gene_variant | 1.0 |
fbiC | 1302878 | c.-53C>G | upstream_gene_variant | 1.0 |
fbiC | 1303535 | p.Ser202Leu | missense_variant | 1.0 |
atpE | 1461256 | p.Met71Arg | missense_variant | 1.0 |
rrs | 1471836 | n.-10A>G | upstream_gene_variant | 1.0 |
rrs | 1472936 | n.1091C>T | non_coding_transcript_exon_variant | 0.54 |
rrs | 1472956 | n.1111T>C | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472957 | n.1112C>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472958 | n.1113A>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472959 | n.1114T>A | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472963 | n.1118G>A | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472971 | n.1126G>C | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472982 | n.1137G>C | non_coding_transcript_exon_variant | 0.47 |
rrs | 1472987 | n.1142G>T | non_coding_transcript_exon_variant | 0.44 |
rrs | 1472988 | n.1143T>A | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472989 | n.1144G>A | non_coding_transcript_exon_variant | 0.41 |
rrs | 1472990 | n.1145A>G | non_coding_transcript_exon_variant | 0.41 |
rrs | 1473002 | n.1157G>T | non_coding_transcript_exon_variant | 0.39 |
rrs | 1473004 | n.1159T>A | non_coding_transcript_exon_variant | 0.39 |
rrs | 1473008 | n.1163C>A | non_coding_transcript_exon_variant | 0.39 |
rrs | 1473009 | n.1164T>C | non_coding_transcript_exon_variant | 0.33 |
rrs | 1473044 | n.1199C>G | non_coding_transcript_exon_variant | 0.41 |
rrs | 1473051 | n.1206T>C | non_coding_transcript_exon_variant | 0.27 |
rrs | 1473053 | n.1208T>G | non_coding_transcript_exon_variant | 0.27 |
rrl | 1476311 | n.2654G>C | non_coding_transcript_exon_variant | 0.27 |
rrl | 1476312 | n.2655T>C | non_coding_transcript_exon_variant | 0.27 |
rrl | 1476313 | n.2656G>A | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476336 | n.2679C>T | non_coding_transcript_exon_variant | 0.84 |
rrl | 1476356 | n.2699C>A | non_coding_transcript_exon_variant | 0.86 |
rrl | 1476357 | n.2700T>C | non_coding_transcript_exon_variant | 0.84 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.84 |
rrl | 1476359 | n.2702C>G | non_coding_transcript_exon_variant | 0.85 |
rrl | 1476369 | n.2712C>T | non_coding_transcript_exon_variant | 0.88 |
rrl | 1476381 | n.2724G>C | non_coding_transcript_exon_variant | 0.9 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.9 |
rrl | 1476383 | n.2726T>G | non_coding_transcript_exon_variant | 0.89 |
rrl | 1476384 | n.2727G>T | non_coding_transcript_exon_variant | 0.91 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.87 |
rrl | 1476411 | n.2754G>A | non_coding_transcript_exon_variant | 0.87 |
rrl | 1476425 | n.2768G>A | non_coding_transcript_exon_variant | 0.84 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.84 |
rrl | 1476442 | n.2785T>A | non_coding_transcript_exon_variant | 0.82 |
rrl | 1476443 | n.2786G>T | non_coding_transcript_exon_variant | 0.82 |
rrl | 1476455 | n.2798C>A | non_coding_transcript_exon_variant | 0.81 |
rrl | 1476456 | n.2799A>T | non_coding_transcript_exon_variant | 0.81 |
rrl | 1476463 | n.2806C>T | non_coding_transcript_exon_variant | 0.8 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.79 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.5 |
katG | 2156157 | c.-46C>A | upstream_gene_variant | 1.0 |
PPE35 | 2168627 | p.Ile662Met | missense_variant | 1.0 |
Rv1979c | 2222100 | c.1065T>A | synonymous_variant | 1.0 |
pncA | 2289242 | c.-1T>C | upstream_gene_variant | 1.0 |
ribD | 2987205 | p.Ser123Ala | missense_variant | 1.0 |
ribD | 2987347 | p.Pro170Leu | missense_variant | 1.0 |
Rv2752c | 3066163 | p.Pro10Leu | missense_variant | 0.29 |
Rv3083 | 3448903 | p.Asp134His | missense_variant | 1.0 |
clpC1 | 4039663 | p.Gly348Ser | missense_variant | 1.0 |
embC | 4241256 | p.Arg465Thr | missense_variant | 1.0 |
embA | 4246449 | p.Val1073Phe | missense_variant | 1.0 |
aftB | 4268192 | c.645G>C | synonymous_variant | 1.0 |