TB-Profiler result

Run: ERR11488822
Summary

Run ID: ERR11488822

Sample name:

Date: 2024-04-15T08:38:44.113350

Number of reads: 2902949

Percentage reads mapped: 96.46

Median coverage: 78.0

Strain: lineage2.2.1;lineage4.1.2.1

Spoligotype:

Drug-resistance: Pre-XDR-TB

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Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family RDs Frequency
lineage2 East-Asian RD105 0.88
lineage4.1 Euro-American None 0.09
lineage4.1.2 Euro-American None 0.05
lineage4.1.2.1 Euro-American (Haarlem) RD182 0.06
lineage2.2.1 East-Asian (Beijing) RD105;RD207;RD181 0.89
lineage2.2 East-Asian (Beijing) RD105;RD207 0.89
lineage4 Euro-American None 0.11
Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations WHO confidence Comment
rifampicin rpoB p.Ser450Leu Assoc w R
isoniazid inhA c.-777C>T Assoc w R Alias fabG1_c.-15C>T. Low-level resistance (multiple, genetically linked low-level resistance mutations are additive and confer high-level resistance)
katG p.Ser315Thr Assoc w R High-level resistance
ethambutol embB p.Met306Val Assoc w R
pyrazinamide pncA p.Thr135Pro Assoc w R
streptomycin
fluoroquinolones
moxifloxacin gyrA p.Asp89Asn Assoc w R Low-level resistance (multiple, genetically linked low-level resistance mutations are additive and confer high-level resistance)
ofloxacin
levofloxacin gyrA p.Asp89Asn Assoc w R
ciprofloxacin
aminoglycosides
amikacin
capreomycin
kanamycin
cycloserine
ethionamide inhA c.-777C>T Assoc w R Alias fabG1_c.-15C>T
ethR p.Ala95Thr Uncertain significance Mutation from literature
clofazimine
para-aminosalicylic_acid
delamanid
bedaquiline
linezolid
Drug resistance-Associated Mutations: This table reports mutations found in candidate resistance genes which have been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs Confidence Comment
gyrA 7566 p.Asp89Asn missense_variant 0.79 levofloxacin Assoc w R
moxifloxacin Assoc w R Low-level resistance (multiple, genetically linked low-level resistance mutations are additive and confer high-level resistance)
rpoB 761155 p.Ser450Leu missense_variant 0.94 rifampicin Assoc w R
inhA 1673425 c.-777C>T upstream_gene_variant 0.9 ethionamide Assoc w R Alias fabG1_c.-15C>T
isoniazid Assoc w R Alias fabG1_c.-15C>T. Low-level resistance (multiple, genetically linked low-level resistance mutations are additive and confer high-level resistance)
katG 2155168 p.Ser315Thr missense_variant 0.14 isoniazid Assoc w R High-level resistance
pncA 2288839 p.Thr135Pro missense_variant 0.15 pyrazinamide Assoc w R
embB 4247429 p.Met306Val missense_variant 0.86 ethambutol Assoc w R
ethR 4327831 p.Ala95Thr missense_variant 0.9 ethionamide Uncertain significance Mutation from literature
Non-Associated Mutations: This table reports mutations found in candidate resistance genes which have not been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs Confidence
gyrA 7362 p.Glu21Gln missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 7585 p.Ser95Thr missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 8693 c.1392T>C synonymous_variant 0.2 levofloxacin
moxifloxacin
gyrA 8711 c.1410A>C synonymous_variant 0.19 levofloxacin
moxifloxacin
gyrA 8714 c.1413A>G synonymous_variant 0.19 levofloxacin
moxifloxacin
gyrA 8729 c.1428T>C synonymous_variant 0.16 levofloxacin
moxifloxacin
gyrA 8731 p.Gly477Ala missense_variant 0.16 levofloxacin
moxifloxacin
gyrA 8751 p.Ala484Asn missense_variant 0.14 levofloxacin
moxifloxacin
gyrA 8762 c.1461G>C synonymous_variant 0.15 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8767 p.Arg489Lys missense_variant 0.14 levofloxacin Uncertain significance
moxifloxacin Uncertain significance
gyrA 8783 c.1482G>C synonymous_variant 0.13 levofloxacin
moxifloxacin
gyrA 9304 p.Gly668Asp missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 9583 p.Arg761Lys missense_variant 0.14 levofloxacin
moxifloxacin
gyrA 9585 c.2284T>C synonymous_variant 0.14 levofloxacin
moxifloxacin
gyrA 9590 c.2289T>C synonymous_variant 0.14 levofloxacin
moxifloxacin
gyrA 9599 p.Leu766Phe missense_variant 0.13 levofloxacin
moxifloxacin
gyrA 9623 c.2322G>C synonymous_variant 0.17 levofloxacin
moxifloxacin
gyrA 9626 c.2325T>C synonymous_variant 0.16 levofloxacin
moxifloxacin
gyrA 9630 p.Val777Ile missense_variant 0.17 levofloxacin
moxifloxacin
gyrA 9635 c.2334T>C synonymous_variant 0.17 levofloxacin
moxifloxacin
gyrA 9644 c.2343T>C synonymous_variant 0.17 levofloxacin
moxifloxacin
gyrA 9650 c.2349G>C synonymous_variant 0.18 levofloxacin
moxifloxacin
gyrA 9665 c.2364A>G synonymous_variant 0.19 levofloxacin
moxifloxacin
gyrA 9674 c.2373T>C synonymous_variant 0.21 levofloxacin
moxifloxacin
fgd1 491742 c.960T>C synonymous_variant 0.96 clofazimine Not assoc w R
pretomanid
delamanid Not assoc w R - Interim
mshA 575772 p.Val142Ala missense_variant 0.13 ethionamide
isoniazid
mshA 575782 c.435G>C synonymous_variant 0.17 ethionamide
isoniazid
mshA 575785 c.438T>G synonymous_variant 0.2 ethionamide
isoniazid
mshA 575806 c.459G>C synonymous_variant 0.26 ethionamide
isoniazid
mshA 575824 c.477T>C synonymous_variant 0.28 ethionamide
isoniazid
mshA 575842 c.495G>C synonymous_variant 0.26 ethionamide
isoniazid
mshA 575848 c.501C>T synonymous_variant 0.26 ethionamide
isoniazid
mshA 575878 c.531A>C synonymous_variant 0.22 ethionamide
isoniazid
mshA 575881 c.534C>T synonymous_variant 0.22 ethionamide
isoniazid
mshA 575887 c.540G>C synonymous_variant 0.27 ethionamide
isoniazid
mshA 575893 c.546C>G synonymous_variant 0.26 ethionamide
isoniazid
mshA 575907 p.Ala187Val missense_variant 0.73 ethionamide Not assoc w R
isoniazid Not assoc w R
ccsA 620247 p.Leu119Phe missense_variant 0.18 capreomycin
amikacin
kanamycin
ccsA 620249 p.Ser120Cys missense_variant 0.18 capreomycin
amikacin
kanamycin
ccsA 620253 c.363G>C synonymous_variant 0.17 capreomycin
amikacin
kanamycin
ccsA 620256 c.366C>G synonymous_variant 0.18 capreomycin
amikacin
kanamycin
ccsA 620257 p.Ile123Val missense_variant 0.17 capreomycin
amikacin
kanamycin
ccsA 620268 c.378G>C synonymous_variant 0.17 capreomycin
amikacin
kanamycin
ccsA 620283 c.393T>G synonymous_variant 0.14 capreomycin
amikacin Not assoc w R - Interim
kanamycin Not assoc w R - Interim
ccsA 620284 p.Ala132Pro missense_variant 0.14 capreomycin
amikacin
kanamycin
ccsA 620288 p.Arg133Gln missense_variant 0.14 capreomycin
amikacin
kanamycin
ccsA 620291 p.Tyr134Phe missense_variant 0.14 capreomycin
amikacin
kanamycin
ccsA 620295 c.405G>C synonymous_variant 0.16 capreomycin
amikacin
kanamycin
ccsA 620307 c.417C>G synonymous_variant 0.17 capreomycin
amikacin
kanamycin
ccsA 620310 c.420C>T synonymous_variant 0.17 capreomycin
amikacin
kanamycin
ccsA 620317 c.427_429delGTCinsCG frameshift_variant&missense_variant 0.17 capreomycin
amikacin
kanamycin
ccsA 620337 c.447C>G synonymous_variant 0.16 capreomycin
amikacin
kanamycin
ccsA 620343 c.453G>C synonymous_variant 0.16 capreomycin
amikacin
kanamycin
ccsA 620349 c.459A>T synonymous_variant 0.13 capreomycin
amikacin
kanamycin
ccsA 620625 p.Ile245Met missense_variant 0.85 capreomycin Not assoc w R
amikacin Not assoc w R
kanamycin Uncertain significance
Rv0565c 657081 c.390G>A synonymous_variant 0.88 ethionamide Not assoc w R - Interim
Rv0565c 657142 p.Arg110His missense_variant 0.89 ethionamide Uncertain significance
Rv0565c 657671 c.-201A>G upstream_gene_variant 0.15 ethionamide
Rv0565c 657686 c.-216C>A upstream_gene_variant 0.19 ethionamide
Rv0565c 657689 c.-220_-219delCAinsAG upstream_gene_variant 0.21 ethionamide
Rv0565c 657734 c.-264T>C upstream_gene_variant 0.27 ethionamide
nusG 734147 c.-107T>C upstream_gene_variant 0.15 rifampicin
nusG 734150 c.-104G>C upstream_gene_variant 0.15 rifampicin
nusG 734180 c.-74T>G upstream_gene_variant 0.16 rifampicin Uncertain significance
nusG 734186 c.-68G>C upstream_gene_variant 0.18 rifampicin Uncertain significance
nusG 734193 c.-61A>G upstream_gene_variant 0.17 rifampicin
nusG 734201 c.-53G>C upstream_gene_variant 0.18 rifampicin
nusG 734205 c.-49A>C upstream_gene_variant 0.19 rifampicin
nusG 734208 c.-46T>C upstream_gene_variant 0.19 rifampicin
nusG 734224 c.-30_-29delGCinsCTT upstream_gene_variant 0.19 rifampicin
nusG 734234 c.-20G>T upstream_gene_variant 0.18 rifampicin
nusG 734239 c.-15A>G upstream_gene_variant 0.18 rifampicin Uncertain significance
nusG 734240 c.-14G>A upstream_gene_variant 0.19 rifampicin
nusG 734249 c.-5A>C upstream_gene_variant 0.18 rifampicin
nusG 734514 c.261A>G synonymous_variant 0.17 rifampicin
nusG 734532 c.279A>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
nusG 734541 c.288A>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
nusG 734559 c.306T>C synonymous_variant 0.18 rifampicin
nusG 734580 c.327T>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
nusG 734589 c.336G>C synonymous_variant 0.17 rifampicin
nusG 734610 c.357C>G synonymous_variant 0.14 rifampicin
nusG 734625 c.372T>C synonymous_variant 0.14 rifampicin
rpoB 760115 c.309C>T synonymous_variant 0.19 rifampicin Not assoc w R
rpoB 760337 c.531C>G synonymous_variant 0.15 rifampicin
rpoB 760340 c.534G>T synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoB 760361 c.555T>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 760373 c.567C>T synonymous_variant 0.21 rifampicin
rpoB 760376 p.Asp190Glu missense_variant 0.23 rifampicin Uncertain significance
rpoB 760403 c.597C>T synonymous_variant 0.23 rifampicin Not assoc w R - Interim
rpoB 760406 c.600G>C synonymous_variant 0.23 rifampicin
rpoB 760418 c.612G>C synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoB 760430 c.624T>C synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoB 760475 c.669A>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 760484 c.678A>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 760919 c.1113C>G synonymous_variant 0.14 rifampicin
rpoB 760920 c.1114C>T synonymous_variant 0.14 rifampicin
rpoB 760925 c.1119T>C synonymous_variant 0.14 rifampicin
rpoB 760931 c.1125C>G synonymous_variant 0.16 rifampicin
rpoB 760946 c.1140A>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoB 760970 c.1164G>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoB 760971 c.1165C>A synonymous_variant 0.17 rifampicin
rpoB 760982 c.1176G>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 760985 c.1179G>C synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoB 761015 c.1209G>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoB 761021 c.1215G>C synonymous_variant 0.18 rifampicin
rpoB 761027 c.1221A>G synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 761234 c.1428G>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 761249 c.1443A>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 761252 c.1446C>G synonymous_variant 0.13 rifampicin
rpoB 761261 c.1455G>T synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 761264 c.1458C>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 761314 p.Phe503Ser missense_variant 0.62 rifampicin Uncertain significance
rpoB 761327 c.1521A>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 761330 c.1524G>C synonymous_variant 0.18 rifampicin
rpoB 761333 c.1527G>T synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoB 761354 c.1548C>T synonymous_variant 0.14 rifampicin
rpoB 761657 c.1851C>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 761675 c.1869G>C synonymous_variant 0.17 rifampicin
rpoC 762467 c.-903C>T upstream_gene_variant 0.16 rifampicin
rpoC 762476 c.-894C>G upstream_gene_variant 0.18 rifampicin
rpoB 762488 c.2682G>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoB 762491 c.2685T>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoB 762510 c.2704_2706delGCCinsCG frameshift_variant&missense_variant 0.2 rifampicin
rpoC 762533 c.-837T>C upstream_gene_variant 0.24 rifampicin
rpoC 762536 c.-834T>C upstream_gene_variant 0.23 rifampicin
rpoC 762537 c.-833T>C upstream_gene_variant 0.23 rifampicin
rpoC 762545 c.-825C>G upstream_gene_variant 0.26 rifampicin
rpoC 762551 c.-819C>T upstream_gene_variant 0.26 rifampicin
rpoC 762581 c.-789T>C upstream_gene_variant 0.22 rifampicin
rpoC 762582 c.-788T>C upstream_gene_variant 0.22 rifampicin
rpoC 762590 c.-780C>G upstream_gene_variant 0.2 rifampicin
rpoC 762596 c.-774G>C upstream_gene_variant 0.19 rifampicin
rpoB 762599 c.2793T>C synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoC 762605 c.-765T>C upstream_gene_variant 0.19 rifampicin
rpoC 762608 c.-762C>G upstream_gene_variant 0.16 rifampicin
rpoB 762929 c.3123G>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 762995 c.3189G>T synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 763031 c.3225T>C synonymous_variant 0.67 rifampicin Not assoc w R
rpoB 763070 c.3264T>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 763085 c.3279C>G synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 763103 c.-267G>C upstream_gene_variant 0.21 rifampicin
rpoB 763115 c.3309T>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 763127 c.3321G>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 763166 c.3360A>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 763169 c.-201A>G upstream_gene_variant 0.16 rifampicin
rpoC 763202 c.-168A>G upstream_gene_variant 0.15 rifampicin
rpoC 763408 c.39T>C synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoC 763411 c.42T>G synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 763414 c.45T>C synonymous_variant 0.18 rifampicin
rpoC 763441 c.72C>T synonymous_variant 0.19 rifampicin
rpoC 763444 c.75T>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 763456 c.87A>G synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoC 763486 c.117T>G synonymous_variant 0.22 rifampicin
rpoC 763528 c.159G>A synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 763537 c.168C>G synonymous_variant 0.16 rifampicin
rpoC 763546 c.177A>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 763555 c.186C>T synonymous_variant 0.72 rifampicin Not assoc w R - Interim
rpoC 763570 c.201G>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 763660 c.291T>G synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 763813 c.444C>G synonymous_variant 0.14 rifampicin
rpoC 763831 c.462A>G synonymous_variant 0.15 rifampicin
rpoC 763835 p.Ala156Met missense_variant 0.14 rifampicin
rpoC 763851 p.Ala161Gly missense_variant 0.14 rifampicin
rpoC 763894 c.525A>G synonymous_variant 0.17 rifampicin
rpoC 763921 c.552G>C synonymous_variant 0.22 rifampicin
rpoC 763933 c.564C>T synonymous_variant 0.26 rifampicin Not assoc w R - Interim
rpoC 763945 c.576T>C synonymous_variant 0.24 rifampicin
rpoC 763948 c.579G>C synonymous_variant 0.24 rifampicin
rpoC 763960 c.591T>C synonymous_variant 0.23 rifampicin Not assoc w R - Interim
rpoC 763963 c.594C>G synonymous_variant 0.24 rifampicin
rpoC 764005 c.636G>C synonymous_variant 0.23 rifampicin Not assoc w R - Interim
rpoC 764011 c.642T>C synonymous_variant 0.23 rifampicin
rpoC 764024 c.655T>C synonymous_variant 0.24 rifampicin
rpoC 764040 p.Ser224Asn missense_variant 0.22 rifampicin
rpoC 764044 c.675T>C synonymous_variant 0.22 rifampicin
rpoC 764059 c.690G>C synonymous_variant 0.19 rifampicin
rpoC 764083 c.714A>G synonymous_variant 0.19 rifampicin
rpoC 764087 p.Leu240Ile missense_variant 0.21 rifampicin
rpoC 764098 c.729A>G synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 764101 c.732C>G synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 764131 c.762T>C synonymous_variant 0.16 rifampicin
rpoC 764140 c.771C>T synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoC 764188 c.819A>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 764194 c.825G>A synonymous_variant 0.16 rifampicin
rpoC 764203 c.834G>T synonymous_variant 0.15 rifampicin
rpoC 764206 p.Asp279Glu missense_variant 0.14 rifampicin
rpoC 764217 p.Asn283Ser missense_variant 0.14 rifampicin
rpoC 764650 c.1281G>T synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 765383 p.Met672Leu missense_variant 0.15 rifampicin Uncertain significance
rpoC 765403 c.2034G>C synonymous_variant 0.17 rifampicin
rpoC 765404 p.Leu679Val missense_variant 0.17 rifampicin
rpoC 765409 c.2040T>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 765421 c.2052C>G synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoC 765454 c.2085C>G synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoC 765478 c.2109T>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 765499 c.2130C>G synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 765688 c.2319G>A synonymous_variant 0.16 rifampicin
rpoC 765694 c.2325G>C synonymous_variant 0.16 rifampicin
rpoC 765700 c.2331T>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 765712 c.2343C>G synonymous_variant 0.19 rifampicin
rpoC 765724 c.2355C>G synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoC 765734 c.2365T>C synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoC 765752 p.Asp795Ser missense_variant 0.23 rifampicin
rpoC 765763 c.2394G>C synonymous_variant 0.28 rifampicin
rpoC 765772 c.2403C>G synonymous_variant 0.23 rifampicin
rpoC 765784 c.2415C>G synonymous_variant 0.2 rifampicin
rpoC 765787 c.2418C>T synonymous_variant 0.23 rifampicin
rpoC 765793 c.2424C>G synonymous_variant 0.26 rifampicin
rpoC 765796 c.2427C>T synonymous_variant 0.25 rifampicin
rpoC 765811 c.2442T>C synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoC 765814 c.2445A>G synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoC 765826 c.2457T>C synonymous_variant 0.28 rifampicin Not assoc w R - Interim
rpoC 765835 c.2466C>T synonymous_variant 0.28 rifampicin Not assoc w R - Interim
rpoC 765883 c.2514C>G synonymous_variant 0.32 rifampicin
rpoC 765886 c.2517C>G synonymous_variant 0.33 rifampicin
rpoC 765892 c.2523T>C synonymous_variant 0.36 rifampicin Not assoc w R - Interim
rpoC 765967 c.2598C>T synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoC 765982 c.2613C>G synonymous_variant 0.26 rifampicin
rpoC 765994 c.2625A>T synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoC 766012 c.2643C>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 766021 c.2652G>C synonymous_variant 0.16 rifampicin
rpoC 766027 c.2658G>C synonymous_variant 0.15 rifampicin
rpoC 766030 c.2661C>G synonymous_variant 0.14 rifampicin
rpoC 766312 c.2943T>G synonymous_variant 0.18 rifampicin
rpoC 766315 c.2946C>G synonymous_variant 0.17 rifampicin
rpoC 766333 c.2964G>C synonymous_variant 0.19 rifampicin
rpoC 766345 c.2976T>C synonymous_variant 0.21 rifampicin
rpoC 766348 c.2979A>G synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoC 766366 c.2997C>G synonymous_variant 0.23 rifampicin
rpoC 766369 c.3000C>G synonymous_variant 0.23 rifampicin
rpoC 766381 c.3012C>T synonymous_variant 0.25 rifampicin
rpoC 766384 c.3015A>G synonymous_variant 0.27 rifampicin
rpoC 766387 c.3018C>G synonymous_variant 0.28 rifampicin Not assoc w R - Interim
rpoC 766393 c.3024C>G synonymous_variant 0.26 rifampicin
rpoC 766402 c.3033C>G synonymous_variant 0.26 rifampicin
rpoC 766408 c.3039C>G synonymous_variant 0.24 rifampicin
rpoC 766426 c.3057C>T synonymous_variant 0.21 rifampicin
rpoC 766447 c.3078T>C synonymous_variant 0.19 rifampicin
rpoC 766459 c.3090G>C synonymous_variant 0.16 rifampicin
rpoC 766483 c.3114G>C synonymous_variant 0.15 rifampicin
rpoC 766486 c.3117A>G synonymous_variant 0.15 rifampicin
rpoC 766488 p.Pro1040Arg missense_variant 0.16 rifampicin Uncertain significance
rpoC 766492 c.3123T>C synonymous_variant 0.15 rifampicin
rpoC 766726 c.3357T>C synonymous_variant 0.19 rifampicin
rpoC 766733 c.3364C>T synonymous_variant 0.19 rifampicin
rpoC 766738 c.3369G>C synonymous_variant 0.19 rifampicin
rpoC 766765 c.3396A>C synonymous_variant 0.23 rifampicin Not assoc w R - Interim
rpoC 766774 c.3405T>C synonymous_variant 0.24 rifampicin
rpoC 766801 c.3432C>G synonymous_variant 0.21 rifampicin
rpoC 766804 c.3435A>G synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoC 766861 c.3492G>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 766864 c.3495G>C synonymous_variant 0.17 rifampicin
rpoC 766882 c.3513C>T synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 766883 p.Ser1172Ala missense_variant 0.17 rifampicin Uncertain significance
rpoC 766945 c.3576A>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 766963 c.3594T>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 766972 c.3603G>C synonymous_variant 0.27 rifampicin
rpoC 766996 c.3627C>T synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoC 767023 c.3654C>T synonymous_variant 0.25 rifampicin Not assoc w R - Interim
rpoC 767033 c.3664_3666delTCGinsAGC synonymous_variant 0.28 rifampicin
rpoC 767059 c.3690T>G synonymous_variant 0.3 rifampicin Not assoc w R - Interim
rpoC 767062 c.3693C>A synonymous_variant 0.29 rifampicin
rpoC 767098 c.3729T>C synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoC 767119 c.3750A>G synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoC 767134 c.3765C>A synonymous_variant 0.19 rifampicin
rpoC 767152 c.3783T>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 767158 c.3789T>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 767167 c.3798C>G synonymous_variant 0.19 rifampicin Not assoc w R - Interim
mmpL5 775639 p.Ile948Val missense_variant 1.0 clofazimine Not assoc w R
bedaquiline Not assoc w R - Interim
mmpL5 775885 p.Ile866Leu missense_variant 0.17 clofazimine
bedaquiline
mmpL5 775909 p.Leu858Phe missense_variant 0.17 clofazimine
bedaquiline
mmpL5 775915 p.Ala856Ser missense_variant 0.19 clofazimine
bedaquiline
mmpL5 775937 c.2544G>C synonymous_variant 0.16 clofazimine
bedaquiline
mmpL5 776100 p.Thr794Ile missense_variant 0.87 clofazimine Not assoc w R
bedaquiline Not assoc w R - Interim
mmpL5 776182 p.Asp767Asn missense_variant 0.81 clofazimine Not assoc w R
bedaquiline Not assoc w R
mmpS5 778979 c.-74G>T upstream_gene_variant 0.85 clofazimine Uncertain significance
bedaquiline Not assoc w R - Interim
mmpS5 779615 c.-710C>G upstream_gene_variant 0.86 clofazimine
bedaquiline
rpsL 781395 c.-165T>C upstream_gene_variant 1.0 streptomycin Not assoc w R
rpsL 781760 c.201T>C synonymous_variant 0.14 streptomycin
rpsL 781763 c.204C>G synonymous_variant 0.15 streptomycin
rpsL 781811 c.252C>T synonymous_variant 0.13 streptomycin
rplC 800516 c.-293G>T upstream_gene_variant 0.15 linezolid
rplC 800537 c.-272C>T upstream_gene_variant 0.19 linezolid
rplC 800546 c.-263T>G upstream_gene_variant 0.22 linezolid
rplC 800567 c.-242A>G upstream_gene_variant 0.21 linezolid
rplC 800582 c.-227C>G upstream_gene_variant 0.23 linezolid
rplC 800612 c.-197A>G upstream_gene_variant 0.22 linezolid
rplC 800618 c.-191T>C upstream_gene_variant 0.22 linezolid
rplC 800648 c.-161A>C upstream_gene_variant 0.2 linezolid
rplC 800654 c.-155T>C upstream_gene_variant 0.19 linezolid
Rv1129c 1254562 c.-28T>C upstream_gene_variant 0.89 moxifloxacin Not assoc w R
levofloxacin Not assoc w R
rifampicin Not assoc w R
isoniazid Not assoc w R
fbiC 1303785 c.855G>A synonymous_variant 0.15 clofazimine
pretomanid
delamanid
fbiC 1303789 p.Ile287Val missense_variant 0.15 clofazimine
pretomanid
delamanid
fbiC 1303818 c.888C>G synonymous_variant 0.16 clofazimine
pretomanid
delamanid
fbiC 1304853 c.1923C>G synonymous_variant 0.15 clofazimine Not assoc w R - Interim
pretomanid
delamanid Not assoc w R - Interim
Rv1258c 1406760 c.580_581insC frameshift_variant 0.94 streptomycin Uncertain significance
isoniazid Uncertain significance
pyrazinamide Uncertain significance
rrs 1471659 n.-187C>T upstream_gene_variant 1.0 streptomycin
kanamycin
capreomycin
amikacin
rrs 1472489 n.644A>G non_coding_transcript_exon_variant 0.35 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473105 n.1260G>A non_coding_transcript_exon_variant 0.31 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473123 n.1278delAinsTT non_coding_transcript_exon_variant 0.28 streptomycin
kanamycin
capreomycin
amikacin
rrs 1473290 n.1445delCinsTT non_coding_transcript_exon_variant 0.29 streptomycin
kanamycin
capreomycin
amikacin
rrl 1473758 n.101G>T non_coding_transcript_exon_variant 0.28 capreomycin Uncertain significance
linezolid
rrl 1473806 n.149C>T non_coding_transcript_exon_variant 0.31 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473815 n.158T>C non_coding_transcript_exon_variant 0.29 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473876 n.219G>A non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474717 n.1060A>T non_coding_transcript_exon_variant 0.32 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.33 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 0.34 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474831 n.1174A>G non_coding_transcript_exon_variant 0.32 capreomycin Uncertain significance
linezolid
rrl 1474991 n.1334T>C non_coding_transcript_exon_variant 0.2 capreomycin
linezolid
rrl 1474995 n.1338T>G non_coding_transcript_exon_variant 0.21 capreomycin
linezolid
rrl 1475006 n.1349A>G non_coding_transcript_exon_variant 0.22 capreomycin
linezolid
rrl 1475027 n.1370G>T non_coding_transcript_exon_variant 0.21 capreomycin
linezolid
rrl 1475028 n.1371G>T non_coding_transcript_exon_variant 0.21 capreomycin
linezolid
rrl 1475061 n.1404C>T non_coding_transcript_exon_variant 0.28 capreomycin Uncertain significance
linezolid
rrl 1475088 n.1431A>T non_coding_transcript_exon_variant 0.31 capreomycin
linezolid
rrl 1475206 n.1549C>T non_coding_transcript_exon_variant 0.25 capreomycin Uncertain significance
linezolid
rrl 1475209 n.1552G>A non_coding_transcript_exon_variant 0.28 capreomycin Uncertain significance
linezolid
rrl 1475252 n.1595C>T non_coding_transcript_exon_variant 0.25 capreomycin
linezolid
rrl 1475266 n.1609T>C non_coding_transcript_exon_variant 0.23 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475267 n.1610G>A non_coding_transcript_exon_variant 0.23 capreomycin
linezolid
rrl 1475270 n.1613G>A non_coding_transcript_exon_variant 0.23 capreomycin
linezolid
rrl 1475275 n.1618C>T non_coding_transcript_exon_variant 0.23 capreomycin
linezolid
rrl 1475276 n.1619T>C non_coding_transcript_exon_variant 0.24 capreomycin
linezolid
rrl 1475289 n.1632G>A non_coding_transcript_exon_variant 0.24 capreomycin
linezolid
rrl 1475291 n.1634A>C non_coding_transcript_exon_variant 0.24 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475313 n.1656G>A non_coding_transcript_exon_variant 0.25 capreomycin
linezolid
rrl 1475315 n.1658A>T non_coding_transcript_exon_variant 0.25 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475355 n.1698C>T non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475369 n.1712G>C non_coding_transcript_exon_variant 0.15 capreomycin
linezolid
rrl 1475532 n.1875A>G non_coding_transcript_exon_variant 0.26 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475573 n.1916G>A non_coding_transcript_exon_variant 0.24 capreomycin Uncertain significance
linezolid
rrl 1475604 n.1947A>C non_coding_transcript_exon_variant 0.18 capreomycin Uncertain significance
linezolid
rrl 1475606 n.1949T>C non_coding_transcript_exon_variant 0.18 capreomycin Uncertain significance
linezolid
rrl 1475608 n.1951T>C non_coding_transcript_exon_variant 0.17 capreomycin Uncertain significance
linezolid
rrl 1475617 n.1960C>G non_coding_transcript_exon_variant 0.17 capreomycin
linezolid
rrl 1475625 n.1968G>C non_coding_transcript_exon_variant 0.18 capreomycin
linezolid
rrl 1475637 n.1980T>G non_coding_transcript_exon_variant 0.18 capreomycin Uncertain significance
linezolid
rrl 1475655 n.1998T>C non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475659 n.2002G>A non_coding_transcript_exon_variant 0.2 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475758 n.2104delC non_coding_transcript_exon_variant 0.48 capreomycin
linezolid
rrl 1475765 n.2111delG non_coding_transcript_exon_variant 0.5 capreomycin
linezolid
rrl 1475883 n.2226A>G non_coding_transcript_exon_variant 0.24 capreomycin Uncertain significance
linezolid
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.2 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476033 n.2376T>C non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid
rrl 1476035 n.2378G>A non_coding_transcript_exon_variant 0.19 capreomycin
linezolid
rrl 1476086 n.2429G>A non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476089 n.2432T>C non_coding_transcript_exon_variant 0.19 capreomycin
linezolid
rrl 1476095 n.2438C>G non_coding_transcript_exon_variant 0.18 capreomycin
linezolid
rrl 1476103 n.2446C>G non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid
rrl 1476105 n.2448G>A non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid
rrl 1476106 n.2449A>T non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid
rrl 1476110 n.2453G>C non_coding_transcript_exon_variant 0.18 capreomycin Uncertain significance
linezolid
rrl 1476115 n.2458T>C non_coding_transcript_exon_variant 0.18 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476117 n.2460G>C non_coding_transcript_exon_variant 0.18 capreomycin
linezolid
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 0.23 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.27 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476215 n.2558C>T non_coding_transcript_exon_variant 0.29 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.34 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476583 n.2926G>C non_coding_transcript_exon_variant 0.25 capreomycin
linezolid
rrl 1476597 n.2940G>A non_coding_transcript_exon_variant 0.22 capreomycin Uncertain significance
linezolid
rrl 1476628 n.2971T>A non_coding_transcript_exon_variant 0.2 capreomycin Uncertain significance
linezolid Uncertain significance
inhA 1673664 c.-538A>C upstream_gene_variant 0.14 ethionamide
isoniazid
inhA 1673712 c.-490A>G upstream_gene_variant 0.15 ethionamide
isoniazid
inhA 1673713 c.-489T>G upstream_gene_variant 0.15 ethionamide
isoniazid Uncertain significance
inhA 1673730 c.-472C>G upstream_gene_variant 0.14 ethionamide
isoniazid
inhA 1673838 c.-364T>C upstream_gene_variant 0.13 ethionamide
isoniazid
inhA 1673841 c.-361A>G upstream_gene_variant 0.15 ethionamide
isoniazid
inhA 1673847 c.-355A>C upstream_gene_variant 0.15 ethionamide
isoniazid
inhA 1673853 c.-349A>C upstream_gene_variant 0.16 ethionamide
isoniazid
inhA 1673856 c.-346T>G upstream_gene_variant 0.16 ethionamide
isoniazid
fabG1 1673870 p.Ser144Thr missense_variant 0.18 ethionamide
isoniazid
inhA 1673901 c.-301A>G upstream_gene_variant 0.19 ethionamide
isoniazid
inhA 1673904 c.-298C>G upstream_gene_variant 0.21 ethionamide
isoniazid
inhA 1673916 c.-286A>C upstream_gene_variant 0.22 ethionamide
isoniazid
inhA 1673919 c.-283G>C upstream_gene_variant 0.2 ethionamide
isoniazid
inhA 1673922 c.-280T>C upstream_gene_variant 0.19 ethionamide
isoniazid
inhA 1673934 c.-268C>T upstream_gene_variant 0.23 ethionamide
isoniazid
inhA 1673946 c.-256C>G upstream_gene_variant 0.22 ethionamide
isoniazid
fabG1 1673950 p.Leu171Met missense_variant 0.22 ethionamide
isoniazid
inhA 1673961 c.-241A>C upstream_gene_variant 0.24 ethionamide
isoniazid
inhA 1673973 c.-229G>C upstream_gene_variant 0.23 ethionamide
isoniazid Uncertain significance
inhA 1673976 c.-226T>C upstream_gene_variant 0.24 ethionamide
isoniazid
inhA 1673985 c.-217C>G upstream_gene_variant 0.23 ethionamide
isoniazid
inhA 1674006 c.-196T>C upstream_gene_variant 0.21 ethionamide
isoniazid
fabG1 1674017 p.Ala193Gly missense_variant 0.2 ethionamide
isoniazid
inhA 1674024 c.-178T>C upstream_gene_variant 0.18 ethionamide
isoniazid
inhA 1674033 c.-169T>C upstream_gene_variant 0.18 ethionamide
isoniazid
fabG1 1674037 p.Gln200Glu missense_variant 0.18 ethionamide
isoniazid
inhA 1674051 c.-151A>G upstream_gene_variant 0.14 ethionamide
isoniazid
inhA 1674714 c.513C>G synonymous_variant 0.14 ethionamide
isoniazid
inhA 1674718 c.517A>C synonymous_variant 0.15 ethionamide
isoniazid
inhA 1674729 c.528G>C synonymous_variant 0.18 ethionamide
isoniazid
inhA 1674735 c.534G>A synonymous_variant 0.18 ethionamide
isoniazid
inhA 1674738 c.537C>G synonymous_variant 0.17 ethionamide
isoniazid
inhA 1674743 p.Lys181Thr missense_variant 0.15 ethionamide
isoniazid
inhA 1674750 c.549T>C synonymous_variant 0.16 ethionamide
isoniazid
inhA 1674756 c.555T>C synonymous_variant 0.17 ethionamide Not assoc w R - Interim
isoniazid Not assoc w R - Interim
inhA 1674765 c.564C>T synonymous_variant 0.17 ethionamide
isoniazid
inhA 1674774 c.573A>G synonymous_variant 0.17 ethionamide
isoniazid
inhA 1674777 c.576C>A synonymous_variant 0.16 ethionamide
isoniazid
inhA 1674780 c.579T>G synonymous_variant 0.16 ethionamide
isoniazid
inhA 1674801 c.600T>C synonymous_variant 0.15 ethionamide
isoniazid
inhA 1674825 c.624C>T synonymous_variant 0.13 ethionamide
isoniazid Not assoc w R - Interim
rpsA 1833589 c.48A>T synonymous_variant 0.15 pyrazinamide
rpsA 1833595 c.54T>G synonymous_variant 0.17 pyrazinamide
rpsA 1833646 c.105T>C synonymous_variant 0.27 pyrazinamide Not assoc w R - Interim
rpsA 1833667 c.126C>G synonymous_variant 0.28 pyrazinamide
rpsA 1833724 c.183C>G synonymous_variant 0.24 pyrazinamide
rpsA 1833727 c.186G>C synonymous_variant 0.25 pyrazinamide
rpsA 1833742 c.201A>G synonymous_variant 0.22 pyrazinamide
rpsA 1833745 c.204G>C synonymous_variant 0.23 pyrazinamide
rpsA 1833748 c.207C>G synonymous_variant 0.23 pyrazinamide
rpsA 1833778 c.237C>T synonymous_variant 0.16 pyrazinamide
rpsA 1833781 c.240T>C synonymous_variant 0.16 pyrazinamide
rpsA 1834177 c.636A>C synonymous_variant 0.92 pyrazinamide Not assoc w R - Interim
rpsA 1834366 c.825A>G synonymous_variant 0.13 pyrazinamide Not assoc w R - Interim
rpsA 1834369 c.828C>G synonymous_variant 0.13 pyrazinamide
rpsA 1834375 c.834G>A synonymous_variant 0.13 pyrazinamide
rpsA 1834411 c.870T>C synonymous_variant 0.16 pyrazinamide
rpsA 1834417 c.876G>C synonymous_variant 0.17 pyrazinamide
rpsA 1834423 c.882G>C synonymous_variant 0.15 pyrazinamide
rpsA 1834451 c.910T>C synonymous_variant 0.15 pyrazinamide
rpsA 1834456 c.915T>G synonymous_variant 0.14 pyrazinamide
rpsA 1834459 c.918G>A synonymous_variant 0.14 pyrazinamide
rpsA 1834468 c.927A>G synonymous_variant 0.14 pyrazinamide
rpsA 1834525 c.984G>A synonymous_variant 0.15 pyrazinamide
rpsA 1834528 c.987T>C synonymous_variant 0.17 pyrazinamide
rpsA 1834546 c.1005T>C synonymous_variant 0.21 pyrazinamide
rpsA 1834555 c.1014T>C synonymous_variant 0.22 pyrazinamide
rpsA 1834609 c.1068T>C synonymous_variant 0.21 pyrazinamide
rpsA 1834633 c.1092A>G synonymous_variant 0.21 pyrazinamide
rpsA 1834639 c.1098T>C synonymous_variant 0.23 pyrazinamide
rpsA 1834669 c.1128G>C synonymous_variant 0.22 pyrazinamide
rpsA 1834690 c.1149T>C synonymous_variant 0.17 pyrazinamide
rpsA 1834732 c.1191T>C synonymous_variant 0.15 pyrazinamide
tsnR 1853370 c.-236_-234delGCAinsTC upstream_gene_variant 0.17 linezolid
tsnR 1853387 c.-219T>G upstream_gene_variant 0.16 linezolid
tsnR 1853390 c.-216G>C upstream_gene_variant 0.16 linezolid
tsnR 1853394 c.-212_-211delCTinsGC upstream_gene_variant 0.15 linezolid
tsnR 1853408 c.-198C>G upstream_gene_variant 0.15 linezolid
tsnR 1853420 c.-186T>G upstream_gene_variant 0.22 linezolid
tsnR 1853429 c.-177G>C upstream_gene_variant 0.19 linezolid
tsnR 1853432 c.-174G>C upstream_gene_variant 0.18 linezolid
tsnR 1853438 c.-168C>G upstream_gene_variant 0.18 linezolid
tsnR 1853444 c.-162C>G upstream_gene_variant 0.17 linezolid
tsnR 1853459 c.-147G>C upstream_gene_variant 0.15 linezolid
tsnR 1853465 c.-141C>T upstream_gene_variant 0.14 linezolid
tsnR 1854300 p.Leu232Pro missense_variant 1.0 linezolid Not assoc w R
tlyA 1917972 c.33A>G synonymous_variant 1.0 capreomycin Not assoc w R
katG 2154113 p.Thr667Pro missense_variant 0.92 isoniazid Uncertain significance
katG 2154724 p.Arg463Leu missense_variant 0.83 isoniazid Not assoc w R
PPE35 2167926 p.Leu896Ser missense_variant 0.87 pyrazinamide Not assoc w R
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0 clofazimine Not assoc w R
bedaquiline Not assoc w R - Interim
kasA 2517941 c.-174C>G upstream_gene_variant 0.26 isoniazid
kasA 2517974 c.-141T>C upstream_gene_variant 0.22 isoniazid
kasA 2517989 c.-126T>G upstream_gene_variant 0.22 isoniazid
kasA 2518076 c.-39C>T upstream_gene_variant 0.15 isoniazid
kasA 2518684 c.570C>T synonymous_variant 0.15 isoniazid
kasA 2518696 c.582C>G synonymous_variant 0.16 isoniazid
kasA 2518705 c.591T>C synonymous_variant 0.19 isoniazid
kasA 2518714 c.600A>C synonymous_variant 0.18 isoniazid
kasA 2518732 c.618C>G synonymous_variant 0.2 isoniazid
kasA 2518741 c.627G>T synonymous_variant 0.24 isoniazid
kasA 2518747 c.633C>G synonymous_variant 0.26 isoniazid
kasA 2518783 c.669T>G synonymous_variant 0.25 isoniazid
kasA 2518789 c.675G>C synonymous_variant 0.21 isoniazid
kasA 2518792 c.678C>G synonymous_variant 0.18 isoniazid
kasA 2518795 c.681C>G synonymous_variant 0.17 isoniazid
kasA 2518798 c.684G>T synonymous_variant 0.16 isoniazid
kasA 2518825 c.711T>C synonymous_variant 0.2 isoniazid
kasA 2518828 c.714G>C synonymous_variant 0.19 isoniazid
kasA 2518864 c.750G>C synonymous_variant 0.16 isoniazid
kasA 2518879 c.765A>G synonymous_variant 0.16 isoniazid
Rv2477c 2782978 c.1065C>G synonymous_variant 0.16 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2782984 c.1059T>C synonymous_variant 0.16 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783040 p.Ala335Thr missense_variant 0.14 ethambutol Uncertain significance
moxifloxacin Uncertain significance
streptomycin Uncertain significance
levofloxacin Uncertain significance
kanamycin Uncertain significance
rifampicin Uncertain significance
amikacin Uncertain significance
Rv2681 2997005 c.267C>T synonymous_variant 0.14 capreomycin
Rv2681 2997013 p.Gly92Ala missense_variant 0.14 capreomycin
Rv2681 2997028 p.Val97Ala missense_variant 0.14 capreomycin
Rv2681 2997035 c.297G>A synonymous_variant 0.15 capreomycin Not assoc w R - Interim
Rv2681 2997053 c.315C>G synonymous_variant 0.14 capreomycin
Rv2681 2997054 p.Ser106Asp missense_variant 0.14 capreomycin
Rv2681 2997060 p.Asn108Asp missense_variant 0.14 capreomycin
Rv2681 2997065 c.327G>A synonymous_variant 0.14 capreomycin
Rv2681 2997086 c.348T>C synonymous_variant 0.13 capreomycin
ald 3086788 c.-32T>C upstream_gene_variant 1.0 cycloserine
Rv3236c 3612813 p.Thr102Ala missense_variant 0.85 pyrazinamide Not assoc w R - Interim
mtrB 3625065 p.Met517Leu missense_variant 1.0 bedaquiline Uncertain significance
rifampicin Not assoc w R
mtrB 3626562 p.Pro18Ser missense_variant 0.85 bedaquiline Uncertain significance
rifampicin Not assoc w R
mtrB 3626987 c.-374C>G upstream_gene_variant 0.15 bedaquiline
rifampicin
mtrB 3626999 c.-386G>C upstream_gene_variant 0.17 bedaquiline
rifampicin
mtrB 3627005 c.-392G>C upstream_gene_variant 0.17 bedaquiline
rifampicin
mtrB 3627008 c.-395G>C upstream_gene_variant 0.17 bedaquiline
rifampicin
mtrB 3627011 c.-398T>C upstream_gene_variant 0.17 bedaquiline
rifampicin
rpoA 3877587 c.921A>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoA 3877593 c.915C>T synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoA 3877613 p.Ile299Val missense_variant 0.21 rifampicin
rpoA 3877638 c.870T>G synonymous_variant 0.18 rifampicin
rpoA 3877656 c.852T>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoA 3877668 c.840A>G synonymous_variant 0.19 rifampicin
rpoA 3877677 p.Ala277Ser missense_variant 0.21 rifampicin
rpoA 3877686 c.822A>G synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoA 3877692 c.816G>C synonymous_variant 0.23 rifampicin Not assoc w R - Interim
rpoA 3877704 c.804G>C synonymous_variant 0.18 rifampicin
rpoA 3877737 c.771G>C synonymous_variant 0.15 rifampicin
rpoA 3877818 c.690A>G synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoA 3877841 c.667C>A synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoA 3877875 c.633T>G synonymous_variant 0.16 rifampicin
rpoA 3877893 c.615C>T synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoA 3877896 c.612G>C synonymous_variant 0.16 rifampicin
rpoA 3877962 c.546G>T synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoA 3877986 c.522G>C synonymous_variant 0.22 rifampicin
rpoA 3877989 c.519A>G synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoA 3878001 c.507A>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoA 3878019 c.489A>G synonymous_variant 0.2 rifampicin
rpoA 3878022 c.486T>C synonymous_variant 0.2 rifampicin
rpoA 3878028 c.480G>C synonymous_variant 0.2 rifampicin
rpoA 3878031 c.477T>C synonymous_variant 0.2 rifampicin
rpoA 3878040 c.468T>C synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoA 3878046 c.462T>G synonymous_variant 0.21 rifampicin
rpoA 3878049 c.459G>C synonymous_variant 0.22 rifampicin
rpoA 3878055 c.453A>G synonymous_variant 0.26 rifampicin
rpoA 3878067 c.441C>G synonymous_variant 0.25 rifampicin
rpoA 3878070 c.438T>C synonymous_variant 0.26 rifampicin
rpoA 3878082 c.426T>C synonymous_variant 0.29 rifampicin
rpoA 3878103 c.405A>G synonymous_variant 0.25 rifampicin
rpoA 3878106 c.402G>C synonymous_variant 0.24 rifampicin
rpoA 3878118 c.390T>C synonymous_variant 0.25 rifampicin
rpoA 3878130 c.378C>G synonymous_variant 0.22 rifampicin
rpoA 3878157 c.351C>G synonymous_variant 0.24 rifampicin
rpoA 3878160 c.348C>G synonymous_variant 0.26 rifampicin Not assoc w R - Interim
rpoA 3878187 c.321C>G synonymous_variant 0.27 rifampicin
rpoA 3878193 c.315T>G synonymous_variant 0.24 rifampicin
rpoA 3878205 c.303T>C synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoA 3878217 c.291A>G synonymous_variant 0.23 rifampicin Not assoc w R - Interim
rpoA 3878232 c.276G>C synonymous_variant 0.2 rifampicin
rpoA 3878235 c.273G>A synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoA 3878247 c.261G>C synonymous_variant 0.16 rifampicin
rpoA 3878264 p.Ser82Gly missense_variant 0.14 rifampicin
rpoA 3878283 p.Glu75Asp missense_variant 0.13 rifampicin Uncertain significance
rpoA 3878292 c.216T>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoA 3878304 c.204G>C synonymous_variant 0.14 rifampicin
rpoA 3878313 c.195G>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoA 3878322 c.186A>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoA 3878331 c.177A>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoA 3878334 c.174T>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoA 3878337 c.171T>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoA 3878346 c.162T>C synonymous_variant 0.22 rifampicin
rpoA 3878364 c.144A>C synonymous_variant 0.22 rifampicin
rpoA 3878367 c.141C>G synonymous_variant 0.22 rifampicin
rpoA 3878370 c.138T>C synonymous_variant 0.22 rifampicin
rpoA 3878385 c.123C>G synonymous_variant 0.23 rifampicin
rpoA 3878391 c.117T>G synonymous_variant 0.23 rifampicin Not assoc w R - Interim
rpoA 3878415 c.93C>T synonymous_variant 0.22 rifampicin
rpoA 3878424 c.84G>C synonymous_variant 0.17 rifampicin
rpoA 3878436 c.72A>G synonymous_variant 0.16 rifampicin
rpoA 3878442 c.66G>C synonymous_variant 0.16 rifampicin
rpoA 3878454 c.54A>G synonymous_variant 0.16 rifampicin
rpoA 3878458 p.Asn17Thr missense_variant 0.15 rifampicin
rpoA 3878698 c.-191A>G upstream_gene_variant 0.17 rifampicin
rpoA 3878701 c.-194C>G upstream_gene_variant 0.18 rifampicin
rpoA 3878725 c.-218A>G upstream_gene_variant 0.2 rifampicin
rpoA 3878742 c.-235G>A upstream_gene_variant 0.27 rifampicin
rpoA 3878746 c.-239A>G upstream_gene_variant 0.28 rifampicin Uncertain significance
rpoA 3878749 c.-242G>C upstream_gene_variant 0.28 rifampicin
rpoA 3878758 c.-251G>C upstream_gene_variant 0.26 rifampicin
rpoA 3878764 c.-257A>G upstream_gene_variant 0.3 rifampicin
rpoA 3878785 c.-278T>C upstream_gene_variant 0.35 rifampicin
rpoA 3878788 c.-281G>C upstream_gene_variant 0.36 rifampicin Uncertain significance
rpoA 3878791 c.-284C>T upstream_gene_variant 0.36 rifampicin Uncertain significance
rpoA 3878806 c.-299C>G upstream_gene_variant 0.3 rifampicin
rpoA 3878809 c.-302T>C upstream_gene_variant 0.32 rifampicin
rpoA 3878824 c.-318_-317delCGinsGC upstream_gene_variant 0.3 rifampicin
rpoA 3878833 c.-326C>G upstream_gene_variant 0.26 rifampicin
rpoA 3878837 c.-331_-330delAAinsTC upstream_gene_variant 0.22 rifampicin
rpoA 3878853 c.-346G>A upstream_gene_variant 0.22 rifampicin
clpC1 4038653 c.2052C>T synonymous_variant 0.14 pyrazinamide
clpC1 4038695 c.2010C>G synonymous_variant 0.13 pyrazinamide
clpC1 4038713 c.1992T>C synonymous_variant 0.14 pyrazinamide
clpC1 4038755 c.1950G>C synonymous_variant 0.15 pyrazinamide
clpC1 4038764 c.1941C>G synonymous_variant 0.14 pyrazinamide
clpC1 4038767 c.1938G>T synonymous_variant 0.14 pyrazinamide
clpC1 4038790 c.1915C>T synonymous_variant 0.14 pyrazinamide Not assoc w R - Interim
clpC1 4038812 c.1893T>C synonymous_variant 0.22 pyrazinamide
clpC1 4038821 c.1884G>A synonymous_variant 0.24 pyrazinamide
clpC1 4038878 c.1827A>G synonymous_variant 0.21 pyrazinamide Not assoc w R - Interim
clpC1 4038908 c.1797C>G synonymous_variant 0.25 pyrazinamide
clpC1 4038914 c.1791G>C synonymous_variant 0.26 pyrazinamide
clpC1 4038923 c.1782A>G synonymous_variant 0.26 pyrazinamide
clpC1 4038953 c.1752A>G synonymous_variant 0.18 pyrazinamide
clpC1 4038956 c.1749T>C synonymous_variant 0.19 pyrazinamide
clpC1 4038965 c.1740T>C synonymous_variant 0.2 pyrazinamide
clpC1 4038971 c.1734T>C synonymous_variant 0.19 pyrazinamide
clpC1 4038974 c.1731T>C synonymous_variant 0.19 pyrazinamide Not assoc w R - Interim
clpC1 4038997 c.1708T>C synonymous_variant 0.19 pyrazinamide Not assoc w R - Interim
clpC1 4039022 c.1683A>G synonymous_variant 0.16 pyrazinamide
clpC1 4040695 c.10C>A synonymous_variant 0.14 pyrazinamide
clpC1 4040711 c.-7G>A upstream_gene_variant 0.14 pyrazinamide
glpK 4138514 c.1242A>G synonymous_variant 0.15 ethambutol
moxifloxacin
streptomycin
levofloxacin
rifampicin
isoniazid
glpK 4138535 c.1221T>C synonymous_variant 0.18 ethambutol
moxifloxacin
streptomycin
levofloxacin
rifampicin
isoniazid
glpK 4138568 c.1188A>G synonymous_variant 0.2 ethambutol
moxifloxacin
streptomycin
levofloxacin
rifampicin
isoniazid
glpK 4138574 c.1182G>C synonymous_variant 0.19 ethambutol
moxifloxacin
streptomycin
levofloxacin
rifampicin
isoniazid
glpK 4138580 c.1176C>T synonymous_variant 0.19 ethambutol
moxifloxacin
streptomycin
levofloxacin
rifampicin
isoniazid
glpK 4138583 c.1173G>C synonymous_variant 0.19 ethambutol
moxifloxacin
streptomycin
levofloxacin
rifampicin
isoniazid
glpK 4138604 p.Leu384Phe missense_variant 0.15 ethambutol
moxifloxacin
streptomycin
levofloxacin
rifampicin
isoniazid
glpK 4138607 c.1149G>T synonymous_variant 0.14 ethambutol
moxifloxacin
streptomycin
levofloxacin
rifampicin
isoniazid
glpK 4138661 c.1095T>C synonymous_variant 0.15 ethambutol
moxifloxacin
streptomycin
levofloxacin
rifampicin
isoniazid
glpK 4138695 p.Pro354Asp missense_variant 0.16 ethambutol
moxifloxacin
streptomycin
levofloxacin
rifampicin
isoniazid
glpK 4138703 c.1053C>T synonymous_variant 0.18 ethambutol
moxifloxacin
streptomycin
levofloxacin
rifampicin
isoniazid
glpK 4138712 c.1042_1044delGCGinsTA frameshift_variant&missense_variant 0.19 ethambutol Uncertain significance
moxifloxacin Uncertain significance
streptomycin Uncertain significance
levofloxacin Uncertain significance
rifampicin Uncertain significance
isoniazid Uncertain significance
glpK 4138718 c.1038T>C synonymous_variant 0.18 ethambutol
moxifloxacin
streptomycin
levofloxacin
rifampicin
isoniazid
glpK 4138724 c.1032A>G synonymous_variant 0.19 ethambutol
moxifloxacin
streptomycin
levofloxacin
rifampicin
isoniazid
glpK 4138745 c.1011G>C synonymous_variant 0.26 ethambutol
moxifloxacin
streptomycin
levofloxacin
rifampicin
isoniazid
glpK 4138751 c.1005T>C synonymous_variant 0.25 ethambutol
moxifloxacin
streptomycin
levofloxacin
rifampicin
isoniazid
glpK 4138754 c.1002C>G synonymous_variant 0.25 ethambutol
moxifloxacin
streptomycin
levofloxacin
rifampicin
isoniazid
glpK 4138757 c.999A>G synonymous_variant 0.25 ethambutol
moxifloxacin
streptomycin
levofloxacin
rifampicin
isoniazid
glpK 4138763 c.993G>A synonymous_variant 0.26 ethambutol
moxifloxacin
streptomycin
levofloxacin
rifampicin
isoniazid
glpK 4138775 c.981C>A synonymous_variant 0.26 ethambutol
moxifloxacin
streptomycin
levofloxacin
rifampicin
isoniazid
glpK 4138781 c.975G>C synonymous_variant 0.27 ethambutol
moxifloxacin
streptomycin
levofloxacin
rifampicin
isoniazid
glpK 4138802 c.954G>C synonymous_variant 0.24 ethambutol
moxifloxacin
streptomycin
levofloxacin
rifampicin
isoniazid
glpK 4138817 c.939T>G synonymous_variant 0.14 ethambutol
moxifloxacin
streptomycin
levofloxacin
rifampicin
isoniazid
glpK 4138822 p.Asn312Asp missense_variant 0.14 ethambutol
moxifloxacin
streptomycin
levofloxacin
rifampicin
isoniazid
glpK 4138823 c.933G>C synonymous_variant 0.13 ethambutol
moxifloxacin
streptomycin
levofloxacin
rifampicin
isoniazid
embC 4239298 c.-565C>T upstream_gene_variant 0.19 ethambutol Not assoc w R
embC 4242643 c.2781C>T synonymous_variant 1.0 ethambutol Not assoc w R
embC 4242803 p.Val981Leu missense_variant 0.17 ethambutol Not assoc w R
embA 4243460 c.228C>T synonymous_variant 0.91 ethambutol Not assoc w R
embB 4247491 c.978G>C synonymous_variant 0.19 ethambutol
embB 4247497 c.984T>C synonymous_variant 0.21 ethambutol
embB 4247506 c.993C>G synonymous_variant 0.2 ethambutol
embB 4247512 c.999T>C synonymous_variant 0.17 ethambutol
embB 4247536 c.1023C>A synonymous_variant 0.15 ethambutol
embB 4247539 c.1026T>C synonymous_variant 0.15 ethambutol
embB 4247550 p.Ala346Gly missense_variant 0.15 ethambutol
embB 4247554 c.1041T>C synonymous_variant 0.14 ethambutol
embB 4247566 c.1053C>G synonymous_variant 0.15 ethambutol
embB 4247567 c.1054C>T synonymous_variant 0.14 ethambutol
embB 4247572 c.1059A>C synonymous_variant 0.17 ethambutol
embB 4247579 p.Ala356Ile missense_variant 0.17 ethambutol
embB 4247590 c.1077A>G synonymous_variant 0.15 ethambutol Not assoc w R - Interim
aftB 4267647 p.Asp397Gly missense_variant 0.86 ethambutol Not assoc w R
whiB6 4338595 c.-75delG upstream_gene_variant 1.0 capreomycin Not assoc w R
amikacin Not assoc w R
kanamycin Not assoc w R
whiB6 4338635 c.-114A>C upstream_gene_variant 0.23 capreomycin Uncertain significance
amikacin Uncertain significance
kanamycin Uncertain significance
whiB6 4338732 c.-211C>T upstream_gene_variant 1.0 capreomycin
amikacin
kanamycin
gid 4407588 c.615A>G synonymous_variant 0.9 streptomycin Not assoc w R
gid 4407927 p.Glu92Asp missense_variant 0.89 streptomycin Not assoc w R