Run ID: SRR9971029
Sample name:
Date: 04-04-2023 23:07:16
Number of reads: 4205016
Percentage reads mapped: 86.93
Strain: lineage2.2.2
Drug-resistance: MDR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage2 | East-Asian | Beijing | RD105 | 1.0 |
lineage2.2 | East-Asian (Beijing) | Beijing-RD207 | RD105;RD207 | 1.0 |
lineage2.2.2 | East-Asian (Beijing) | Beijing-RD105/RD207 | RD105;RD207 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Leu | missense_variant | 0.97 | rifampicin |
rrs | 1472359 | n.514A>C | non_coding_transcript_exon_variant | 0.99 | streptomycin |
rrs | 1472733 | n.888G>A | non_coding_transcript_exon_variant | 0.2 | streptomycin |
rrs | 1473247 | n.1402C>A | non_coding_transcript_exon_variant | 0.15 | kanamycin, capreomycin, aminoglycosides, amikacin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2289202 | p.Cys14Arg | missense_variant | 1.0 | pyrazinamide |
embB | 4247431 | p.Met306Ile | missense_variant | 1.0 | ethambutol |
embB | 4248002 | p.Gln497Lys | missense_variant | 1.0 | ethambutol |
ethA | 4326333 | p.Ala381Pro | missense_variant | 1.0 | ethionamide |
gid | 4407967 | p.Leu79Ser | missense_variant | 1.0 | streptomycin |
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 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.16 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 764817 | p.Val483Gly | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpS5 | 779615 | c.-710C>G | upstream_gene_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472150 | n.305T>A | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472172 | n.327T>C | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472517 | n.672T>A | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472518 | n.673G>T | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472530 | n.685G>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472537 | n.692C>T | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472544 | n.699C>A | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472545 | n.700A>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472599 | n.754G>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472616 | n.771G>A | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472655 | n.810G>A | non_coding_transcript_exon_variant | 0.28 |
rrs | 1472658 | n.813G>A | non_coding_transcript_exon_variant | 0.24 |
rrs | 1472660 | n.815T>C | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472661 | n.816A>G | non_coding_transcript_exon_variant | 0.24 |
rrs | 1472670 | n.825G>T | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472673 | n.828T>G | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472675 | n.830T>C | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472677 | n.832C>T | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472681 | n.837_838delTT | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472690 | n.845C>A | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472697 | n.852T>C | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472714 | n.869A>G | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.24 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.17 |
rrs | 1473035 | n.1190G>A | non_coding_transcript_exon_variant | 0.11 |
rrs | 1473055 | n.1210C>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1473056 | n.1211A>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1473066 | n.1221A>G | non_coding_transcript_exon_variant | 0.13 |
rrs | 1473088 | n.1243A>G | non_coding_transcript_exon_variant | 0.1 |
rrs | 1473121 | n.1276T>C | non_coding_transcript_exon_variant | 0.13 |
rrs | 1473145 | n.1300C>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1473166 | n.1321G>A | non_coding_transcript_exon_variant | 0.12 |
rrs | 1473252 | n.1407T>C | non_coding_transcript_exon_variant | 0.19 |
rrs | 1473259 | n.1414C>T | non_coding_transcript_exon_variant | 0.2 |
rrs | 1473270 | n.1425G>A | non_coding_transcript_exon_variant | 0.16 |
rrs | 1473276 | n.1431A>G | non_coding_transcript_exon_variant | 0.15 |
rrs | 1473316 | n.1471C>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1474249 | n.592G>T | non_coding_transcript_exon_variant | 0.13 |
rrl | 1474476 | n.819C>T | non_coding_transcript_exon_variant | 0.11 |
rrl | 1474488 | n.831G>T | non_coding_transcript_exon_variant | 0.11 |
rrl | 1474497 | n.840G>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1474506 | n.849C>G | non_coding_transcript_exon_variant | 0.11 |
rrl | 1474529 | n.872A>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1474540 | n.883T>G | non_coding_transcript_exon_variant | 0.11 |
rrl | 1474558 | n.901G>A | non_coding_transcript_exon_variant | 0.15 |
rrl | 1474584 | n.927C>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1474760 | n.1103A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474779 | n.1122G>A | non_coding_transcript_exon_variant | 0.14 |
rrl | 1474782 | n.1125G>A | non_coding_transcript_exon_variant | 0.15 |
rrl | 1474794 | n.1137C>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1474823 | n.1166C>G | non_coding_transcript_exon_variant | 0.15 |
rrl | 1474830 | n.1173A>G | non_coding_transcript_exon_variant | 0.1 |
rrl | 1474864 | n.1207C>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1475777 | n.2120A>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475883 | n.2226A>C | non_coding_transcript_exon_variant | 0.13 |
rrl | 1475884 | n.2227A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475896 | n.2239A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475898 | n.2241A>G | non_coding_transcript_exon_variant | 0.22 |
rrl | 1475899 | n.2242G>A | non_coding_transcript_exon_variant | 0.23 |
rrl | 1475916 | n.2259C>G | non_coding_transcript_exon_variant | 0.24 |
rrl | 1475937 | n.2280A>T | non_coding_transcript_exon_variant | 0.2 |
rrl | 1475943 | n.2286G>A | non_coding_transcript_exon_variant | 0.19 |
rrl | 1475945 | n.2288C>A | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475952 | n.2295A>G | non_coding_transcript_exon_variant | 0.17 |
rrl | 1475977 | n.2320A>G | non_coding_transcript_exon_variant | 0.11 |
rrl | 1475988 | n.2331A>G | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476001 | n.2344T>C | non_coding_transcript_exon_variant | 0.1 |
rrl | 1476153 | n.2496T>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476194 | n.2537A>G | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476195 | n.2538C>A | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476196 | n.2539C>A | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476200 | n.2543A>T | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476201 | n.2544C>T | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476204 | n.2547C>A | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476210 | n.2553G>T | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476211 | n.2554G>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476212 | n.2555T>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476214 | n.2557G>T | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476215 | n.2558C>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476224 | n.2567A>G | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476225 | n.2568T>G | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476245 | n.2588C>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476250 | n.2593C>G | non_coding_transcript_exon_variant | 0.19 |
rrl | 1476251 | n.2594T>C | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476252 | n.2595T>G | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476253 | n.2596A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476256 | n.2599A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476257 | n.2600G>C | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476260 | n.2603A>G | non_coding_transcript_exon_variant | 0.35 |
rrl | 1476280 | n.2623A>C | non_coding_transcript_exon_variant | 0.26 |
rrl | 1476281 | n.2624T>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476293 | n.2636C>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476294 | n.2637A>G | non_coding_transcript_exon_variant | 0.26 |
rrl | 1476295 | n.2638C>G | non_coding_transcript_exon_variant | 0.26 |
rrl | 1476296 | n.2639C>T | non_coding_transcript_exon_variant | 0.26 |
rrl | 1476297 | n.2640C>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476300 | n.2643G>T | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476301 | n.2644A>T | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476302 | n.2645G>A | non_coding_transcript_exon_variant | 0.17 |
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 | 0.2 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.28 |
rrl | 1476337 | n.2680C>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476338 | n.2681C>T | non_coding_transcript_exon_variant | 0.3 |
rrl | 1476353 | n.2696G>T | non_coding_transcript_exon_variant | 0.37 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.37 |
rrl | 1476359 | n.2702C>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476369 | n.2712C>T | non_coding_transcript_exon_variant | 0.38 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.4 |
rrl | 1476381 | n.2724G>C | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.35 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.34 |
rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.29 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.47 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.44 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.39 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.28 |
rrl | 1476515 | n.2858C>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476524 | n.2867C>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476525 | n.2868A>G | non_coding_transcript_exon_variant | 0.19 |
rrl | 1476530 | n.2873C>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476536 | n.2879G>A | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476539 | n.2882A>G | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476540 | n.2883C>G | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476547 | n.2890C>T | non_coding_transcript_exon_variant | 0.15 |
rpsA | 1834177 | c.636A>C | synonymous_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
Rv1979c | 2221939 | p.Arg409Gln | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | 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 |
Rv3236c | 3612813 | p.Thr102Ala | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243460 | c.228C>T | synonymous_variant | 1.0 |
aftB | 4267647 | p.Asp397Gly | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
gid | 4407927 | p.Glu92Asp | missense_variant | 1.0 |