Run ID: SRR18002932
Sample name:
Date: 03-04-2023 19:10:14
Number of reads: 2838048
Percentage reads mapped: 84.96
Strain: lineage2.2.1
Drug-resistance: Pre-XDR-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 |
lineage2.2.1 | East-Asian (Beijing) | Beijing-RD181 | RD105;RD207;RD181 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
gyrA | 7582 | p.Asp94Gly | missense_variant | 1.0 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
rpoB | 761140 | p.His445Arg | missense_variant | 1.0 | rifampicin |
rrs | 1472733 | n.888G>A | non_coding_transcript_exon_variant | 0.7 | streptomycin |
fabG1 | 1673432 | c.-8T>G | upstream_gene_variant | 1.0 | isoniazid |
katG | 2155168 | p.Ser315Asn | missense_variant | 1.0 | isoniazid |
embA | 4243221 | c.-12C>T | upstream_gene_variant | 0.95 | ethambutol |
ethA | 4326853 | c.620dupG | frameshift_variant | 1.0 | ethionamide |
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 | 575907 | p.Ala187Val | missense_variant | 1.0 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.24 |
ccsA | 620625 | p.Ile245Met | missense_variant | 1.0 |
rpoB | 760090 | c.289_294dupATGTCG | conservative_inframe_insertion | 0.89 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpL5 | 776182 | p.Asp767Asn | missense_variant | 1.0 |
mmpL5 | 777745 | p.Gly246Ser | missense_variant | 1.0 |
mmpS5 | 779615 | c.-710C>G | upstream_gene_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
Rv1258c | 1406760 | c.580_581insC | frameshift_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472378 | n.533G>T | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472379 | n.534T>C | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472380 | n.535G>C | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472396 | n.551A>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472507 | n.662C>G | non_coding_transcript_exon_variant | 0.61 |
rrs | 1472517 | n.672T>A | non_coding_transcript_exon_variant | 0.73 |
rrs | 1472518 | n.673G>T | non_coding_transcript_exon_variant | 0.73 |
rrs | 1472530 | n.685G>A | non_coding_transcript_exon_variant | 0.81 |
rrs | 1472537 | n.692C>T | non_coding_transcript_exon_variant | 0.78 |
rrs | 1472544 | n.699C>A | non_coding_transcript_exon_variant | 0.78 |
rrs | 1472545 | n.700A>T | non_coding_transcript_exon_variant | 0.78 |
rrs | 1472566 | n.721G>A | non_coding_transcript_exon_variant | 0.79 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.79 |
rrs | 1472579 | n.734G>T | non_coding_transcript_exon_variant | 0.79 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.79 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.82 |
rrs | 1472599 | n.754G>T | non_coding_transcript_exon_variant | 0.82 |
rrs | 1472655 | n.810G>A | non_coding_transcript_exon_variant | 0.83 |
rrs | 1472658 | n.813G>A | non_coding_transcript_exon_variant | 0.82 |
rrs | 1472661 | n.816A>G | non_coding_transcript_exon_variant | 0.8 |
rrs | 1472670 | n.825G>T | non_coding_transcript_exon_variant | 0.78 |
rrs | 1472673 | n.828T>A | non_coding_transcript_exon_variant | 0.77 |
rrs | 1472675 | n.830T>C | non_coding_transcript_exon_variant | 0.77 |
rrs | 1472677 | n.832C>T | non_coding_transcript_exon_variant | 0.77 |
rrs | 1472681 | n.837_838delTT | non_coding_transcript_exon_variant | 0.77 |
rrs | 1472687 | n.843dupT | non_coding_transcript_exon_variant | 0.77 |
rrs | 1472690 | n.845C>A | non_coding_transcript_exon_variant | 0.77 |
rrs | 1472697 | n.852T>A | non_coding_transcript_exon_variant | 0.58 |
rrs | 1472697 | n.852T>C | non_coding_transcript_exon_variant | 0.64 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.73 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.73 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.63 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.63 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.27 |
rrl | 1473687 | n.30G>A | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474425 | n.768A>G | non_coding_transcript_exon_variant | 0.29 |
rrl | 1474428 | n.771C>T | non_coding_transcript_exon_variant | 0.22 |
rrl | 1474571 | n.914G>A | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476135 | n.2478T>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476141 | n.2484A>G | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476153 | n.2496T>C | non_coding_transcript_exon_variant | 0.44 |
rrl | 1476165 | n.2508T>G | non_coding_transcript_exon_variant | 0.46 |
rrl | 1476194 | n.2537A>G | non_coding_transcript_exon_variant | 0.5 |
rrl | 1476195 | n.2538C>A | non_coding_transcript_exon_variant | 0.5 |
rrl | 1476196 | n.2539C>A | non_coding_transcript_exon_variant | 0.5 |
rrl | 1476200 | n.2543A>T | non_coding_transcript_exon_variant | 0.5 |
rrl | 1476201 | n.2544C>T | non_coding_transcript_exon_variant | 0.48 |
rrl | 1476204 | n.2547C>A | non_coding_transcript_exon_variant | 0.48 |
rrl | 1476210 | n.2553G>T | non_coding_transcript_exon_variant | 0.48 |
rrl | 1476211 | n.2554G>T | non_coding_transcript_exon_variant | 0.48 |
rrl | 1476212 | n.2555T>C | non_coding_transcript_exon_variant | 0.48 |
rrl | 1476214 | n.2557G>C | non_coding_transcript_exon_variant | 0.44 |
rrl | 1476215 | n.2558C>A | non_coding_transcript_exon_variant | 0.42 |
rrl | 1476225 | n.2568T>G | non_coding_transcript_exon_variant | 0.47 |
rrl | 1476227 | n.2570C>T | non_coding_transcript_exon_variant | 0.45 |
rrl | 1476229 | n.2572C>T | non_coding_transcript_exon_variant | 0.44 |
rrl | 1476250 | n.2593C>G | non_coding_transcript_exon_variant | 0.51 |
rrl | 1476251 | n.2594T>C | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476257 | n.2600G>C | non_coding_transcript_exon_variant | 0.5 |
rrl | 1476260 | n.2603A>G | non_coding_transcript_exon_variant | 0.51 |
rrl | 1476280 | n.2623A>C | non_coding_transcript_exon_variant | 0.56 |
rrl | 1476293 | n.2636C>T | non_coding_transcript_exon_variant | 0.44 |
rrl | 1476294 | n.2637A>G | non_coding_transcript_exon_variant | 0.47 |
rrl | 1476295 | n.2638C>G | non_coding_transcript_exon_variant | 0.47 |
rrl | 1476296 | n.2639C>T | non_coding_transcript_exon_variant | 0.47 |
rrl | 1476297 | n.2640C>T | non_coding_transcript_exon_variant | 0.43 |
rrl | 1476301 | n.2644A>T | non_coding_transcript_exon_variant | 0.42 |
rrl | 1476302 | n.2645G>A | non_coding_transcript_exon_variant | 0.42 |
rrl | 1476311 | n.2654G>C | non_coding_transcript_exon_variant | 0.4 |
rrl | 1476312 | n.2655T>C | non_coding_transcript_exon_variant | 0.42 |
rrl | 1476313 | n.2656G>A | non_coding_transcript_exon_variant | 0.42 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.72 |
rrl | 1476338 | n.2681C>T | non_coding_transcript_exon_variant | 0.72 |
rrl | 1476353 | n.2696G>T | non_coding_transcript_exon_variant | 0.74 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.76 |
rrl | 1476369 | n.2712C>T | non_coding_transcript_exon_variant | 0.79 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.79 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.81 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.8 |
rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.77 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.77 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.77 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.61 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.45 |
rrl | 1476514 | n.2857C>T | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476519 | n.2862C>G | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476524 | n.2867C>A | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476525 | n.2868A>G | non_coding_transcript_exon_variant | 0.1 |
rpsA | 1833590 | p.Gly17Ser | missense_variant | 1.0 |
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 | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2288994 | c.245_247delATC | disruptive_inframe_deletion | 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 |
embB | 4248320 | p.Gly603Arg | missense_variant | 1.0 |
aftB | 4267647 | p.Asp397Gly | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 0.93 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
gid | 4407927 | p.Glu92Asp | missense_variant | 1.0 |