Run ID: SRR1002691
Sample name:
Date: 02-04-2023 14:19:59
Number of reads: 829567
Percentage reads mapped: 80.94
Strain: lineage4.2.1
Drug-resistance: HR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.2 | Euro-American | H;T;LAM | None | 1.0 |
lineage4.2.1 | Euro-American (TUR) | H3;H4 | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rrs | 1472733 | n.888G>A | non_coding_transcript_exon_variant | 0.14 | streptomycin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
mshA | 575703 | p.Gly119Asp | missense_variant | 0.12 |
rpoB | 761421 | p.Asn539Tyr | missense_variant | 0.13 |
rpoC | 766965 | p.Glu1199Val | missense_variant | 0.12 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
embR | 1417001 | p.Val116Asp | missense_variant | 0.11 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472537 | n.692C>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472544 | n.699C>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472545 | n.700A>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472579 | n.734G>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472895 | n.1050C>T | non_coding_transcript_exon_variant | 0.13 |
rrs | 1473035 | n.1190G>A | non_coding_transcript_exon_variant | 0.22 |
rrs | 1473053 | n.1208T>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1473056 | n.1211A>T | non_coding_transcript_exon_variant | 0.2 |
rrs | 1473145 | n.1300C>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1473166 | n.1321G>A | non_coding_transcript_exon_variant | 0.15 |
rrs | 1473252 | n.1407T>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1474249 | n.592G>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1474316 | n.659T>C | non_coding_transcript_exon_variant | 0.15 |
rrl | 1474516 | n.859C>A | non_coding_transcript_exon_variant | 0.16 |
rrl | 1474558 | n.901G>A | non_coding_transcript_exon_variant | 0.21 |
rrl | 1474584 | n.927C>T | non_coding_transcript_exon_variant | 0.21 |
rrl | 1474627 | n.970G>A | non_coding_transcript_exon_variant | 0.15 |
rrl | 1474777 | n.1120T>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474794 | n.1137C>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1474866 | n.1209C>A | non_coding_transcript_exon_variant | 0.13 |
rrl | 1475673 | n.2016T>C | non_coding_transcript_exon_variant | 0.17 |
rrl | 1475699 | n.2042C>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1475869 | n.2212C>A | non_coding_transcript_exon_variant | 0.14 |
rrl | 1475881 | n.2224T>C | non_coding_transcript_exon_variant | 0.15 |
rrl | 1475883 | n.2226A>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1475898 | n.2241A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475916 | n.2259C>G | non_coding_transcript_exon_variant | 0.16 |
rrl | 1475943 | n.2286G>A | non_coding_transcript_exon_variant | 0.16 |
rrl | 1475952 | n.2295A>G | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476141 | n.2484A>G | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476194 | n.2537A>G | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476200 | n.2543A>T | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476201 | n.2544C>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476214 | n.2557G>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476215 | n.2558C>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476224 | n.2567A>G | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476252 | n.2595T>G | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476256 | n.2599A>G | non_coding_transcript_exon_variant | 0.19 |
rrl | 1476260 | n.2603A>G | non_coding_transcript_exon_variant | 0.29 |
rrl | 1476280 | n.2623A>C | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476281 | n.2624T>C | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476293 | n.2636C>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476294 | n.2637A>G | non_coding_transcript_exon_variant | 0.26 |
rrl | 1476295 | n.2638C>G | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476296 | n.2639C>T | non_coding_transcript_exon_variant | 0.26 |
rrl | 1476301 | n.2644A>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476311 | n.2654G>C | non_coding_transcript_exon_variant | 0.26 |
rrl | 1476312 | n.2655T>C | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476313 | n.2656G>A | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.29 |
rrl | 1476338 | n.2681C>T | non_coding_transcript_exon_variant | 0.3 |
rrl | 1476353 | n.2696G>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476369 | n.2712C>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.19 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476463 | n.2806C>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.27 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.41 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476515 | n.2858C>T | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476519 | n.2862C>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476524 | n.2867C>T | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476525 | n.2868A>G | non_coding_transcript_exon_variant | 0.29 |
rrl | 1476530 | n.2873C>T | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476536 | n.2879G>A | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476537 | n.2880A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476539 | n.2882A>G | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476540 | n.2883C>G | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476544 | n.2887T>C | non_coding_transcript_exon_variant | 0.16 |
fabG1 | 1673380 | c.-60C>G | upstream_gene_variant | 0.24 |
inhA | 1674343 | p.Gln48* | stop_gained | 0.14 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2169269 | c.1344A>G | synonymous_variant | 0.31 |
PPE35 | 2169272 | c.1341C>G | synonymous_variant | 0.3 |
PPE35 | 2169278 | c.1335T>C | synonymous_variant | 0.11 |
PPE35 | 2169281 | c.1332T>G | synonymous_variant | 0.11 |
PPE35 | 2169707 | c.906T>C | synonymous_variant | 0.1 |
PPE35 | 2169713 | c.900C>T | synonymous_variant | 0.11 |
PPE35 | 2169725 | c.888T>C | synonymous_variant | 0.19 |
PPE35 | 2169879 | p.Phe245Cys | missense_variant | 1.0 |
PPE35 | 2169902 | p.Leu237Phe | missense_variant | 0.27 |
PPE35 | 2169910 | p.Asn235Tyr | missense_variant | 0.27 |
PPE35 | 2169974 | c.639T>C | synonymous_variant | 0.12 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2519140 | c.1026G>C | synonymous_variant | 0.2 |
kasA | 2519143 | c.1029G>C | synonymous_variant | 0.2 |
kasA | 2519323 | c.1209G>A | synonymous_variant | 0.11 |
folC | 2747536 | c.63G>A | synonymous_variant | 1.0 |
ribD | 2986686 | c.-153A>G | upstream_gene_variant | 0.11 |
ribD | 2987331 | p.Cys165Ser | missense_variant | 0.18 |
ribD | 2987401 | p.Arg188Leu | missense_variant | 0.18 |
ald | 3086742 | c.-78A>C | upstream_gene_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
clpC1 | 4039508 | c.1197G>C | synonymous_variant | 0.12 |
embC | 4240801 | c.939C>T | synonymous_variant | 0.15 |
embC | 4240803 | p.Tyr314Phe | missense_variant | 0.15 |
embA | 4242613 | c.-620C>T | upstream_gene_variant | 0.29 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242689 | p.Val943Phe | missense_variant | 0.14 |
embA | 4245733 | p.Pro834Leu | missense_variant | 0.12 |
embB | 4249594 | c.3081G>A | synonymous_variant | 1.0 |
aftB | 4267771 | c.1066T>C | synonymous_variant | 0.2 |
ethA | 4328376 | c.-903G>C | upstream_gene_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |