TB-Profiler result

Run: SRR5341332
Summary

Run ID: SRR5341332

Sample name:

Date: 2024-10-03T22:49:30.231228

Number of reads: 3153174

Percentage reads mapped: 55.31

Median coverage: 80.5

Strain: lineage3

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
lineage3 East-African-Indian RD750 0.97
Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations WHO confidence Comment
rifampicin rpoB p.Asp435Val Assoc w R
isoniazid katG p.Gln461Pro Uncertain significance Mutation from literature
p.Ser315Thr Assoc w R High-level resistance
ethambutol embB p.Met306Ile Assoc w R
pyrazinamide pncA p.Ala146Thr Assoc w R
streptomycin gid c.87delC Assoc w R
fluoroquinolones
moxifloxacin gyrA p.Asp94Gly Assoc w R High-level resistance
ofloxacin
levofloxacin gyrA p.Asp94Gly Assoc w R
ciprofloxacin
aminoglycosides
amikacin rrs n.1401A>G Assoc w R
capreomycin rrs n.1401A>G Assoc w R
kanamycin rrs n.1401A>G Assoc w R
cycloserine
ethionamide
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 7582 p.Asp94Gly missense_variant 0.91 levofloxacin Assoc w R
moxifloxacin Assoc w R High-level resistance
rpoB 761110 p.Asp435Val missense_variant 0.86 rifampicin Assoc w R
rrs 1473246 n.1401A>G non_coding_transcript_exon_variant 0.82 amikacin Assoc w R
capreomycin Assoc w R
kanamycin Assoc w R
katG 2154730 p.Gln461Pro missense_variant 1.0 isoniazid Uncertain significance Mutation from literature
katG 2155168 p.Ser315Thr missense_variant 0.96 isoniazid Assoc w R High-level resistance
pncA 2288806 p.Ala146Thr missense_variant 1.0 pyrazinamide Assoc w R
embB 4247431 p.Met306Ile missense_variant 0.93 ethambutol Assoc w R
gid 4408115 c.87delC frameshift_variant 1.0 streptomycin Assoc w R
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
dnaA 1125 c.1125G>C synonymous_variant 0.14 isoniazid
dnaA 1230 c.1230A>G synonymous_variant 0.15 isoniazid
dnaA 1236 c.1236C>T synonymous_variant 0.16 isoniazid
dnaA 1242 c.1242G>C synonymous_variant 0.16 isoniazid
dnaA 1245 c.1245G>C synonymous_variant 0.16 isoniazid Not assoc w R - Interim
dnaA 1254 c.1254T>C synonymous_variant 0.17 isoniazid
dnaA 1278 c.1278T>C synonymous_variant 0.17 isoniazid
dnaA 1293 c.1293T>C synonymous_variant 0.15 isoniazid
dnaA 1299 c.1299G>C synonymous_variant 0.14 isoniazid Not assoc w R - Interim
dnaA 1353 c.1353T>C synonymous_variant 0.14 isoniazid
dnaA 1371 c.1371T>G synonymous_variant 0.16 isoniazid
dnaA 1375 c.1375T>C synonymous_variant 0.15 isoniazid
dnaA 1389 c.1389C>G synonymous_variant 0.15 isoniazid
dnaA 1392 c.1392A>G synonymous_variant 0.15 isoniazid
dnaA 1395 c.1395G>C synonymous_variant 0.16 isoniazid
dnaA 1404 c.1404T>C synonymous_variant 0.16 isoniazid
dnaA 1407 c.1407T>C synonymous_variant 0.16 isoniazid
dnaA 1413 c.1413A>C synonymous_variant 0.16 isoniazid
dnaA 1416 c.1416C>G synonymous_variant 0.15 isoniazid
gyrB 6242 c.1003_1005delCGCinsAGA synonymous_variant 0.14 levofloxacin
moxifloxacin
gyrB 6250 c.1011A>G synonymous_variant 0.16 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrB 6256 c.1017G>A synonymous_variant 0.15 levofloxacin
moxifloxacin
gyrB 6265 c.1026C>T synonymous_variant 0.16 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrB 6268 c.1029C>G synonymous_variant 0.17 levofloxacin
moxifloxacin
gyrB 6280 c.1041T>C synonymous_variant 0.16 levofloxacin
moxifloxacin
gyrB 6286 c.1047T>C synonymous_variant 0.15 levofloxacin
moxifloxacin
gyrB 6289 c.1050C>T synonymous_variant 0.14 levofloxacin
moxifloxacin
gyrA 6304 c.-998C>G upstream_gene_variant 0.14 levofloxacin
moxifloxacin
gyrB 6307 c.1068T>G synonymous_variant 0.15 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 6649 c.-653T>C upstream_gene_variant 0.14 levofloxacin
moxifloxacin
gyrA 6655 c.-647T>C upstream_gene_variant 0.15 levofloxacin
moxifloxacin
gyrA 6670 c.-632G>C upstream_gene_variant 0.15 levofloxacin
moxifloxacin
gyrA 6673 c.-629A>C upstream_gene_variant 0.14 levofloxacin
moxifloxacin
gyrA 6676 c.-626T>G upstream_gene_variant 0.14 levofloxacin
moxifloxacin
gyrA 6700 c.-602T>C upstream_gene_variant 0.14 levofloxacin
moxifloxacin
gyrB 6963 p.Arg575His missense_variant 0.92 levofloxacin Uncertain significance
moxifloxacin Uncertain significance
gyrA 7362 p.Glu21Gln missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 7457 c.156T>C synonymous_variant 0.14 levofloxacin
moxifloxacin
gyrA 7585 p.Ser95Thr missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 8324 c.1023T>C synonymous_variant 0.15 levofloxacin
moxifloxacin
gyrA 8588 c.1287G>A synonymous_variant 0.16 levofloxacin
moxifloxacin
gyrA 8603 c.1302A>G synonymous_variant 0.16 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8891 c.1590G>A synonymous_variant 0.16 levofloxacin
moxifloxacin
gyrA 8897 c.1596T>C synonymous_variant 0.18 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8903 c.1602T>C synonymous_variant 0.17 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8933 c.1632G>C synonymous_variant 0.15 levofloxacin
moxifloxacin
gyrA 9233 c.1932C>G synonymous_variant 0.16 levofloxacin
moxifloxacin
gyrA 9239 c.1938C>T synonymous_variant 0.15 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 9252 p.Val651Ile missense_variant 0.15 levofloxacin Uncertain significance
moxifloxacin Uncertain significance
gyrA 9304 p.Gly668Asp missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
fgd1 491742 c.960T>C synonymous_variant 1.0 pretomanid
delamanid Not assoc w R - Interim
clofazimine Not assoc w R
mshA 575833 c.486C>G synonymous_variant 0.14 isoniazid
ethionamide
mshA 575896 c.549G>C synonymous_variant 0.14 isoniazid
ethionamide
mshA 575924 p.Gly193Trp missense_variant 0.14 isoniazid
ethionamide
ccsA 619574 c.-317G>A upstream_gene_variant 0.14 kanamycin
capreomycin
amikacin
ccsA 619584 c.-307A>T upstream_gene_variant 0.17 kanamycin
capreomycin
amikacin
ccsA 619591 c.-300G>C upstream_gene_variant 0.16 kanamycin
capreomycin
amikacin
ccsA 620682 c.792G>A synonymous_variant 0.14 kanamycin
capreomycin
amikacin
ccsA 620688 c.798G>C synonymous_variant 0.16 kanamycin
capreomycin
amikacin
ccsA 620710 p.Val274Met missense_variant 0.14 kanamycin
capreomycin
amikacin
Rv0565c 657081 c.390G>A synonymous_variant 1.0 ethionamide Not assoc w R - Interim
hadA 732337 c.408G>A synonymous_variant 0.15 isoniazid
hadA 732378 c.450_452dupAGA disruptive_inframe_insertion 0.16 isoniazid
hadA 732396 p.Gly156Ala missense_variant 0.19 isoniazid
hadA 732398 p.Ala157Thr missense_variant 0.21 isoniazid
rpoB 759746 c.-61C>T upstream_gene_variant 1.0 rifampicin Not assoc w R
rpoB 760283 c.477G>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 760298 c.492G>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoB 760307 c.501T>C synonymous_variant 0.17 rifampicin
rpoB 760310 c.504G>C synonymous_variant 0.16 rifampicin
rpoB 760328 c.522G>C synonymous_variant 0.19 rifampicin
rpoB 760331 c.525G>C synonymous_variant 0.18 rifampicin
rpoB 760340 c.534G>T synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoB 760361 c.555T>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 760370 c.564C>G synonymous_variant 0.17 rifampicin
rpoB 760563 p.Arg253Met missense_variant 0.14 rifampicin Uncertain significance
rpoB 760591 p.Val262Ala missense_variant 0.16 rifampicin
rpoB 760611 c.805T>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 760634 c.828T>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 760991 c.1185G>C synonymous_variant 0.14 rifampicin
rpoB 761021 c.1215G>C synonymous_variant 0.15 rifampicin
rpoB 761036 c.1230G>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 761037 c.1231T>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 761057 c.1251G>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoB 761102 c.1296A>G synonymous_variant 0.17 rifampicin
rpoB 761150 c.1344A>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 761153 c.1347G>C synonymous_variant 0.15 rifampicin
rpoB 761207 c.1401C>T synonymous_variant 0.15 rifampicin
rpoB 761213 c.1407G>C synonymous_variant 0.16 rifampicin
rpoB 761219 c.1413G>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoB 761249 c.1443A>G synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoB 761255 c.1449T>G synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoB 761261 c.1455G>T synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoB 761306 c.1500C>G synonymous_variant 0.17 rifampicin
rpoB 761312 c.1506G>C synonymous_variant 0.18 rifampicin
rpoB 761327 c.1521A>G synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 761330 c.1524G>C synonymous_variant 0.15 rifampicin
rpoB 761570 c.1764T>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 761573 c.1767C>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 761579 c.1773G>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 761588 c.1782C>T synonymous_variant 0.14 rifampicin
rpoB 761948 c.2142G>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 761954 c.2148C>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoB 762008 c.2202C>T synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 762347 c.2541T>C synonymous_variant 0.15 rifampicin
rpoB 762362 p.Glu852Asp missense_variant 0.15 rifampicin
rpoB 762434 c.2628T>G synonymous_variant 1.0 rifampicin Not assoc w R
rpoB 762929 c.3123G>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 762989 c.-381G>C upstream_gene_variant 0.19 rifampicin
rpoB 762995 c.3189G>T synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 763013 c.-357C>G upstream_gene_variant 0.2 rifampicin
rpoB 763028 c.3222T>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoB 763031 c.3225T>C synonymous_variant 1.0 rifampicin Not assoc w R
rpoB 763034 c.3228C>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoB 763040 c.3234C>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 763070 c.3264T>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 763085 c.3279C>G synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 763190 c.-180C>T upstream_gene_variant 0.15 rifampicin
rpoB 763214 c.3408T>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 763226 c.-144A>G upstream_gene_variant 0.14 rifampicin
rpoC 763546 c.177A>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 763570 c.201G>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 763573 c.204G>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 763594 c.225C>T synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 763603 c.234C>T synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 763636 c.267T>C synonymous_variant 0.18 rifampicin
rpoC 763717 c.348T>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 763723 c.354G>C synonymous_variant 0.15 rifampicin
rpoC 763732 c.363C>G synonymous_variant 0.14 rifampicin
rpoC 763741 c.372C>T synonymous_variant 0.18 rifampicin
rpoC 763744 c.375G>C synonymous_variant 0.17 rifampicin
rpoC 763765 c.396T>C synonymous_variant 0.19 rifampicin
rpoC 763774 c.405G>C synonymous_variant 0.18 rifampicin
rpoC 763807 c.438T>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 763816 c.447C>G synonymous_variant 0.18 rifampicin
rpoC 763825 c.456G>A synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 763835 p.Ala156Met missense_variant 0.16 rifampicin
rpoC 763853 p.Val162Ile missense_variant 0.17 rifampicin
rpoC 763858 c.489A>G synonymous_variant 0.16 rifampicin
rpoC 764489 c.1120C>T synonymous_variant 0.15 rifampicin
rpoC 764497 c.1128A>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 764510 c.1141C>T synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 764521 c.1152T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 764527 c.1158C>T synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 764554 c.1185C>T synonymous_variant 0.15 rifampicin
rpoC 764560 c.1191T>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 764566 c.1197C>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 764575 c.1206T>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 764581 c.1212T>C synonymous_variant 0.19 rifampicin
rpoC 764593 c.1224C>T synonymous_variant 0.18 rifampicin
rpoC 764611 c.1242G>T synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 764651 p.Ser428Thr missense_variant 0.14 rifampicin
rpoC 764995 c.1626C>G synonymous_variant 0.15 rifampicin Not assoc w R
rpoC 765529 c.2160C>T synonymous_variant 0.16 rifampicin
rpoC 765541 c.2172C>G synonymous_variant 0.17 rifampicin
rpoC 765553 c.2184C>T synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 765556 c.2187G>C synonymous_variant 0.18 rifampicin
rpoC 765559 c.2190G>C synonymous_variant 0.18 rifampicin
rpoC 765580 c.2211G>C synonymous_variant 0.17 rifampicin
rpoC 765613 p.His748Gln missense_variant 0.18 rifampicin
rpoC 765625 c.2256C>G synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 765631 p.Asp754Glu missense_variant 0.16 rifampicin
rpoC 765700 c.2331T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 765883 c.2514C>G synonymous_variant 0.15 rifampicin
rpoC 765886 c.2517C>G synonymous_variant 0.16 rifampicin
rpoC 765892 c.2523T>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 766054 c.2685C>G synonymous_variant 0.15 rifampicin
rpoC 766483 c.3114G>C synonymous_variant 0.15 rifampicin
rpoC 766484 p.Val1039Ile missense_variant 0.15 rifampicin Uncertain significance
rpoC 766492 c.3123T>C synonymous_variant 0.15 rifampicin
rpoC 766738 c.3369G>C synonymous_variant 0.14 rifampicin
rpoC 766747 c.3378C>T synonymous_variant 0.13 rifampicin
rpoC 766765 c.3396A>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 766774 c.3405T>C synonymous_variant 0.19 rifampicin
rpoC 766801 c.3432C>G synonymous_variant 0.18 rifampicin
rpoC 766804 c.3435A>G synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 766861 c.3492G>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 766864 c.3495G>C synonymous_variant 0.16 rifampicin
rpoC 766867 c.3498C>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 766882 c.3513C>T synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 766933 c.3564A>G synonymous_variant 0.17 rifampicin
rpoC 766945 c.3576A>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 766963 c.3594T>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 766972 c.3603G>C synonymous_variant 0.17 rifampicin
rpoC 766987 c.3618G>C synonymous_variant 0.18 rifampicin
rpoC 766996 c.3627C>T synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 767009 c.3640_3642delTCGinsAGC synonymous_variant 0.15 rifampicin
rpoC 767014 c.3645G>C synonymous_variant 0.15 rifampicin
rpoC 767098 c.3729T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 767119 c.3750A>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 767134 c.3765C>A synonymous_variant 0.15 rifampicin
rpoC 767158 c.3789T>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 767206 c.3837C>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
mmpL5 775639 p.Ile948Val missense_variant 1.0 bedaquiline Not assoc w R - Interim
clofazimine Not assoc w R
mmpL5 776100 p.Thr794Ile missense_variant 1.0 bedaquiline Not assoc w R - Interim
clofazimine Not assoc w R
mmpL5 776181 p.Asp767Ala missense_variant 1.0 bedaquiline Uncertain significance
clofazimine Uncertain significance
rpsL 781395 c.-165T>C upstream_gene_variant 1.0 streptomycin Not assoc w R
rpsL 781655 c.96T>C synonymous_variant 0.15 streptomycin
rpsL 781700 c.141G>C synonymous_variant 0.19 streptomycin
rpsL 781703 c.144G>T synonymous_variant 0.2 streptomycin
rpsL 781715 c.156T>C synonymous_variant 0.15 streptomycin
rpsL 781736 c.177T>C synonymous_variant 0.17 streptomycin
rpsL 781742 c.183C>T synonymous_variant 0.14 streptomycin
rpsL 781748 c.189C>G synonymous_variant 0.15 streptomycin
rpsL 781754 c.195G>C synonymous_variant 0.16 streptomycin
rpsL 781760 c.201T>C synonymous_variant 0.16 streptomycin
rpsL 781772 c.213C>A synonymous_variant 0.15 streptomycin
rpsL 781832 c.273T>C synonymous_variant 0.16 streptomycin
rpsL 781838 c.279G>C synonymous_variant 0.16 streptomycin
rpsL 781841 c.282C>G synonymous_variant 0.16 streptomycin
rpsL 781898 c.339A>T synonymous_variant 0.15 streptomycin
rpsL 781916 c.357T>C synonymous_variant 0.15 streptomycin
rpsL 781929 p.Gly124Ser missense_variant 0.14 streptomycin Uncertain significance
rplC 800516 c.-293G>T upstream_gene_variant 0.16 linezolid
rplC 800537 c.-272C>T upstream_gene_variant 0.18 linezolid
rplC 800540 c.-269T>C upstream_gene_variant 0.17 linezolid
rplC 800546 c.-263T>G upstream_gene_variant 0.17 linezolid
rplC 800567 c.-242A>G upstream_gene_variant 0.18 linezolid
rplC 800582 c.-227C>G upstream_gene_variant 0.2 linezolid
rplC 800612 c.-197A>G upstream_gene_variant 0.19 linezolid
rplC 800618 c.-191T>C upstream_gene_variant 0.22 linezolid
rplC 800627 c.-182C>T upstream_gene_variant 0.21 linezolid
rplC 800648 c.-161A>T upstream_gene_variant 0.18 linezolid
rplC 800654 c.-155T>C upstream_gene_variant 0.18 linezolid
rplC 800693 c.-116A>G upstream_gene_variant 0.19 linezolid
rplC 800703 c.-106T>C upstream_gene_variant 0.2 linezolid
rplC 800715 c.-94A>C upstream_gene_variant 0.19 linezolid
rplC 800720 c.-89T>C upstream_gene_variant 0.18 linezolid
rplC 800723 c.-86C>G upstream_gene_variant 0.19 linezolid
rplC 800747 c.-62C>G upstream_gene_variant 0.16 linezolid
Rv1129c 1254562 c.-28T>C upstream_gene_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
isoniazid Not assoc w R
rifampicin Not assoc w R
fbiC 1303905 c.975G>C synonymous_variant 0.14 pretomanid
delamanid
clofazimine
fbiC 1303914 c.984C>G synonymous_variant 0.16 pretomanid
delamanid
clofazimine
fbiC 1303920 c.990C>T synonymous_variant 0.16 pretomanid
delamanid
clofazimine
fbiC 1303944 c.1014G>C synonymous_variant 0.15 pretomanid
delamanid
clofazimine
fbiC 1303947 c.1017T>G synonymous_variant 0.15 pretomanid
delamanid
clofazimine
fbiC 1303948 p.Gly340Arg missense_variant 0.15 pretomanid
delamanid
clofazimine
fbiC 1303953 p.Asp341Glu missense_variant 0.15 pretomanid
delamanid
clofazimine
fbiC 1303956 c.1026A>G synonymous_variant 0.15 pretomanid
delamanid
clofazimine
fbiC 1303961 p.Arg344Leu missense_variant 0.15 pretomanid
delamanid
clofazimine
fbiC 1303971 c.1041T>C synonymous_variant 0.16 pretomanid
delamanid
clofazimine
fbiC 1303980 c.1050G>A synonymous_variant 0.15 pretomanid
delamanid
clofazimine
fbiC 1304004 c.1074A>G synonymous_variant 0.15 pretomanid
delamanid
clofazimine
fbiC 1304008 c.1078T>C synonymous_variant 0.15 pretomanid
delamanid
clofazimine
fbiC 1304163 c.1233G>C synonymous_variant 0.14 pretomanid
delamanid
clofazimine
fbiC 1304169 c.1239T>C synonymous_variant 0.14 pretomanid
delamanid
clofazimine
fbiC 1304174 p.Val415Ala missense_variant 0.14 pretomanid
delamanid
clofazimine
fbiC 1304727 c.1797A>G synonymous_variant 0.14 pretomanid
delamanid
clofazimine
fbiC 1304757 c.1827A>G synonymous_variant 0.15 pretomanid
delamanid
clofazimine
fbiC 1304778 c.1848T>C synonymous_variant 0.16 pretomanid
delamanid
clofazimine
fbiC 1304784 c.1854T>C synonymous_variant 0.16 pretomanid
delamanid
clofazimine
fbiC 1304787 c.1857T>G synonymous_variant 0.17 pretomanid
delamanid
clofazimine
fbiC 1304891 p.Ile654Thr missense_variant 0.14 pretomanid
delamanid
clofazimine
fbiC 1304893 p.Gly655Ser missense_variant 0.14 pretomanid
delamanid
clofazimine
fbiC 1304907 c.1977C>G synonymous_variant 0.16 pretomanid
delamanid
clofazimine
fbiC 1304910 c.1980G>C synonymous_variant 0.14 pretomanid
delamanid
clofazimine
fbiC 1304916 c.1986T>C synonymous_variant 0.15 pretomanid
delamanid
clofazimine
fbiC 1304928 c.1998T>C synonymous_variant 0.15 pretomanid
delamanid
clofazimine
fbiC 1304958 c.2028T>G synonymous_variant 0.14 pretomanid
delamanid
clofazimine
rrs 1471659 n.-187C>T upstream_gene_variant 1.0 kanamycin
capreomycin
streptomycin
amikacin
rrs 1472969 n.1124A>G non_coding_transcript_exon_variant 0.19 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472970 n.1125C>G non_coding_transcript_exon_variant 0.19 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1472977 n.1132G>C non_coding_transcript_exon_variant 0.19 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1472978 n.1133T>C non_coding_transcript_exon_variant 0.18 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473105 n.1260G>A non_coding_transcript_exon_variant 0.14 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.14 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473290 n.1445C>T non_coding_transcript_exon_variant 0.17 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrl 1473756 n.99G>A non_coding_transcript_exon_variant 0.21 capreomycin
linezolid
rrl 1473758 n.101G>T non_coding_transcript_exon_variant 0.21 capreomycin Uncertain significance
linezolid
rrl 1473806 n.149C>T non_coding_transcript_exon_variant 0.22 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473877 n.220G>A non_coding_transcript_exon_variant 0.17 capreomycin
linezolid
rrl 1473898 n.241C>T non_coding_transcript_exon_variant 0.21 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473899 n.242A>C non_coding_transcript_exon_variant 0.2 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473938 n.281G>A non_coding_transcript_exon_variant 0.25 capreomycin
linezolid
rrl 1473939 n.282C>T non_coding_transcript_exon_variant 0.25 capreomycin
linezolid
rrl 1473943 n.286G>T non_coding_transcript_exon_variant 0.26 capreomycin Uncertain significance
linezolid
rrl 1473981 n.324G>T non_coding_transcript_exon_variant 0.21 capreomycin
linezolid
rrl 1473986 n.329T>C non_coding_transcript_exon_variant 0.21 capreomycin
linezolid
rrl 1473987 n.330G>A non_coding_transcript_exon_variant 0.23 capreomycin
linezolid
rrl 1473995 n.338G>T non_coding_transcript_exon_variant 0.22 capreomycin
linezolid
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 0.19 capreomycin Not assoc w R
linezolid Not assoc w R
rrl 1474009 n.352A>G non_coding_transcript_exon_variant 0.19 capreomycin
linezolid
rrl 1474012 n.355C>T non_coding_transcript_exon_variant 0.21 capreomycin
linezolid
rrl 1474044 n.387C>T non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid
rrl 1474054 n.397T>C non_coding_transcript_exon_variant 0.21 capreomycin Uncertain significance
linezolid
rrl 1474091 n.434C>T non_coding_transcript_exon_variant 0.2 capreomycin
linezolid
rrl 1474093 n.436G>T non_coding_transcript_exon_variant 0.2 capreomycin
linezolid
rrl 1474099 n.442G>A non_coding_transcript_exon_variant 0.2 capreomycin
linezolid
rrl 1474103 n.446A>T non_coding_transcript_exon_variant 0.19 capreomycin
linezolid
rrl 1474140 n.483C>T non_coding_transcript_exon_variant 0.18 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474151 n.494C>T non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474181 n.524C>T non_coding_transcript_exon_variant 0.16 capreomycin Uncertain significance
linezolid
rrl 1474639 n.982G>A non_coding_transcript_exon_variant 0.14 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.18 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 0.17 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474831 n.1174A>G non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid
rrl 1474904 n.1247G>A non_coding_transcript_exon_variant 0.19 capreomycin
linezolid
rrl 1474956 n.1299C>T non_coding_transcript_exon_variant 0.23 capreomycin
linezolid
rrl 1474961 n.1304T>G non_coding_transcript_exon_variant 0.2 capreomycin
linezolid
rrl 1474963 n.1306G>A non_coding_transcript_exon_variant 0.2 capreomycin
linezolid
rrl 1474964 n.1307T>C non_coding_transcript_exon_variant 0.2 capreomycin
linezolid
rrl 1474970 n.1313G>A non_coding_transcript_exon_variant 0.22 capreomycin
linezolid
rrl 1475006 n.1349A>T non_coding_transcript_exon_variant 0.24 capreomycin
linezolid
rrl 1475028 n.1371G>A non_coding_transcript_exon_variant 0.24 capreomycin
linezolid
rrl 1475061 n.1404C>T non_coding_transcript_exon_variant 0.21 capreomycin Uncertain significance
linezolid
rrl 1475088 n.1431A>T non_coding_transcript_exon_variant 0.27 capreomycin
linezolid
rrl 1475199 n.1542G>A non_coding_transcript_exon_variant 0.18 capreomycin
linezolid
rrl 1475206 n.1549C>T non_coding_transcript_exon_variant 0.14 capreomycin Uncertain significance
linezolid
rrl 1475291 n.1634A>C non_coding_transcript_exon_variant 0.18 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475315 n.1658A>T non_coding_transcript_exon_variant 0.2 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475355 n.1698C>T non_coding_transcript_exon_variant 0.2 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475369 n.1712G>T non_coding_transcript_exon_variant 0.18 capreomycin
linezolid
rrl 1475402 n.1745C>T non_coding_transcript_exon_variant 0.18 capreomycin
linezolid
rrl 1475419 n.1762C>T non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid
rrl 1475483 n.1826C>T non_coding_transcript_exon_variant 0.22 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475505 n.1848G>A non_coding_transcript_exon_variant 0.2 capreomycin Uncertain significance
linezolid
rrl 1475526 n.1869C>A non_coding_transcript_exon_variant 0.23 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475573 n.1916G>A non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid
rrl 1475599 n.1942A>G non_coding_transcript_exon_variant 0.21 capreomycin
linezolid Uncertain significance
rrl 1475608 n.1951T>C non_coding_transcript_exon_variant 0.21 capreomycin Uncertain significance
linezolid
rrl 1475642 n.1985T>C non_coding_transcript_exon_variant 0.18 capreomycin
linezolid
rrl 1475657 n.2000A>G non_coding_transcript_exon_variant 0.17 capreomycin
linezolid
rrl 1475659 n.2002G>T non_coding_transcript_exon_variant 0.16 capreomycin
linezolid
rrl 1475761 n.2104_2106delCGCinsGT non_coding_transcript_exon_variant 0.17 capreomycin
linezolid
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.15 capreomycin
linezolid
rrl 1476086 n.2429G>A non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476089 n.2432T>C non_coding_transcript_exon_variant 0.16 capreomycin
linezolid
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.18 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.21 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476299 n.2642C>T non_coding_transcript_exon_variant 0.21 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476583 n.2926G>A non_coding_transcript_exon_variant 0.16 capreomycin Uncertain significance
linezolid
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.16 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476594 n.2937C>T non_coding_transcript_exon_variant 0.17 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476597 n.2940G>A non_coding_transcript_exon_variant 0.17 capreomycin Uncertain significance
linezolid
rrl 1476603 n.2946G>A non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476608 n.2951C>G non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476628 n.2971T>A non_coding_transcript_exon_variant 0.16 capreomycin Uncertain significance
linezolid Uncertain significance
inhA 1673922 c.-280T>C upstream_gene_variant 0.15 isoniazid
ethionamide
inhA 1673941 c.-261G>T upstream_gene_variant 0.16 isoniazid
ethionamide
inhA 1673961 c.-241A>C upstream_gene_variant 0.15 isoniazid
ethionamide
inhA 1673985 c.-217C>G upstream_gene_variant 0.16 isoniazid
ethionamide
inhA 1674006 c.-196T>G upstream_gene_variant 0.15 isoniazid
ethionamide
inhA 1674015 c.-187C>T upstream_gene_variant 0.15 isoniazid Uncertain significance
ethionamide
inhA 1674542 p.Ala114Glu missense_variant 0.14 isoniazid
ethionamide
inhA 1674549 c.348G>C synonymous_variant 0.15 isoniazid
ethionamide
inhA 1674561 c.360C>T synonymous_variant 0.14 isoniazid
ethionamide
inhA 1674582 c.381T>C synonymous_variant 0.15 isoniazid
ethionamide
rpsA 1833787 c.246C>G synonymous_variant 0.15 pyrazinamide
rpsA 1833790 c.249T>C synonymous_variant 0.15 pyrazinamide
rpsA 1833802 c.261A>G synonymous_variant 0.17 pyrazinamide
rpsA 1833811 c.270G>T synonymous_variant 0.17 pyrazinamide
rpsA 1833838 c.297G>C synonymous_variant 0.22 pyrazinamide
rpsA 1833841 c.300C>G synonymous_variant 0.23 pyrazinamide
rpsA 1833847 c.306C>G synonymous_variant 0.23 pyrazinamide
rpsA 1833856 c.315A>G synonymous_variant 0.23 pyrazinamide
rpsA 1833874 c.333T>C synonymous_variant 0.19 pyrazinamide
rpsA 1833940 c.399C>G synonymous_variant 0.16 pyrazinamide
rpsA 1834333 c.792C>T synonymous_variant 0.17 pyrazinamide
rpsA 1834348 c.807T>C synonymous_variant 0.17 pyrazinamide Not assoc w R - Interim
rpsA 1834366 c.825A>G synonymous_variant 0.18 pyrazinamide Not assoc w R - Interim
rpsA 1834396 c.855G>C synonymous_variant 0.15 pyrazinamide
rpsA 1834411 c.870T>C synonymous_variant 0.15 pyrazinamide
rpsA 1834417 c.876G>C synonymous_variant 0.15 pyrazinamide
rpsA 1834423 c.882G>C synonymous_variant 0.16 pyrazinamide
rpsA 1834435 c.894G>C synonymous_variant 0.18 pyrazinamide
rpsA 1834451 c.910T>C synonymous_variant 0.15 pyrazinamide
rpsA 1834465 c.924T>C synonymous_variant 0.16 pyrazinamide
rpsA 1834468 c.927A>G synonymous_variant 0.18 pyrazinamide
rpsA 1834489 c.948T>C synonymous_variant 0.2 pyrazinamide
rpsA 1834528 c.987T>C synonymous_variant 0.2 pyrazinamide
rpsA 1834540 c.999G>C synonymous_variant 0.19 pyrazinamide
rpsA 1834546 c.1005T>C synonymous_variant 0.18 pyrazinamide
rpsA 1834606 c.1065C>G synonymous_variant 0.19 pyrazinamide
rpsA 1834609 c.1068T>C synonymous_variant 0.18 pyrazinamide
rpsA 1834618 c.1077G>C synonymous_variant 0.17 pyrazinamide
rpsA 1834633 c.1092A>G synonymous_variant 0.18 pyrazinamide
rpsA 1834639 c.1098T>C synonymous_variant 0.19 pyrazinamide
rpsA 1834654 p.Glu371Asp missense_variant 0.2 pyrazinamide
rpsA 1834690 c.1149T>C synonymous_variant 0.21 pyrazinamide
rpsA 1834732 c.1191T>C synonymous_variant 0.14 pyrazinamide
rpsA 1834733 p.Ala398Ser missense_variant 0.14 pyrazinamide
rpsA 1834738 c.1197A>G synonymous_variant 0.15 pyrazinamide
rpsA 1834753 c.1212T>C synonymous_variant 0.15 pyrazinamide
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
bacA 2064897 c.-169C>G upstream_gene_variant 0.15 kanamycin
capreomycin
streptomycin
amikacin
bacA 2064903 c.-175G>A upstream_gene_variant 0.15 kanamycin
capreomycin
streptomycin
amikacin
bacA 2064915 c.-187G>C upstream_gene_variant 0.15 kanamycin
capreomycin
streptomycin
amikacin
bacA 2064933 c.-205A>G upstream_gene_variant 0.17 kanamycin
capreomycin
streptomycin
amikacin
bacA 2064936 c.-208C>G upstream_gene_variant 0.16 kanamycin
capreomycin
streptomycin
amikacin
bacA 2064942 c.-214G>A upstream_gene_variant 0.19 kanamycin
capreomycin
streptomycin
amikacin
bacA 2064948 c.-220G>C upstream_gene_variant 0.19 kanamycin
capreomycin
streptomycin
amikacin
bacA 2064972 c.-244T>C upstream_gene_variant 0.19 kanamycin
capreomycin
streptomycin
amikacin
bacA 2064978 c.-250G>C upstream_gene_variant 0.18 kanamycin
capreomycin
streptomycin
amikacin
bacA 2064979 c.-251C>T upstream_gene_variant 0.16 kanamycin
capreomycin
streptomycin
amikacin
bacA 2064984 c.-256A>G upstream_gene_variant 0.16 kanamycin
capreomycin
streptomycin
amikacin
bacA 2064993 c.-265T>C upstream_gene_variant 0.19 kanamycin
capreomycin
streptomycin
amikacin
katG 2154724 p.Arg463Leu missense_variant 1.0 isoniazid Not assoc w R
PPE35 2167926 p.Leu896Ser missense_variant 1.0 pyrazinamide Not assoc w R
Rv1979c 2223293 c.-129A>G upstream_gene_variant 0.98 bedaquiline Not assoc w R - Interim
clofazimine Not assoc w R
pncA 2289365 c.-125delC upstream_gene_variant 1.0 pyrazinamide
kasA 2517950 c.-165C>G upstream_gene_variant 0.15 isoniazid
kasA 2518506 p.Ala131Glu missense_variant 0.14 isoniazid
kasA 2518519 c.405G>C synonymous_variant 0.15 isoniazid
kasA 2518528 c.414C>G synonymous_variant 0.16 isoniazid
kasA 2518540 c.426T>C synonymous_variant 0.16 isoniazid
kasA 2518561 c.447T>C synonymous_variant 0.15 isoniazid
kasA 2518795 c.681C>G synonymous_variant 0.14 isoniazid
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0 isoniazid Not assoc w R
folC 2747289 p.Pro104Ala missense_variant 0.15 para-aminosalicylic_acid
folC 2747290 c.309A>G synonymous_variant 0.15 para-aminosalicylic_acid
folC 2747293 c.306G>A synonymous_variant 0.15 para-aminosalicylic_acid
folC 2747302 c.297A>C synonymous_variant 0.15 para-aminosalicylic_acid
folC 2747314 c.285A>C synonymous_variant 0.16 para-aminosalicylic_acid
folC 2747317 c.282C>G synonymous_variant 0.16 para-aminosalicylic_acid
folC 2747343 p.Val86Ile missense_variant 0.16 para-aminosalicylic_acid
Rv2477c 2782498 c.1545C>T synonymous_variant 0.92 kanamycin Not assoc w R
levofloxacin Not assoc w R
moxifloxacin Not assoc w R
streptomycin Not assoc w R - Interim
rifampicin Not assoc w R
ethambutol Not assoc w R
amikacin Not assoc w R
Rv2477c 2782928 p.Thr372Glu missense_variant 0.15 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2782936 c.1107G>T synonymous_variant 0.18 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2782948 c.1095A>G synonymous_variant 0.16 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2782957 c.1086A>G synonymous_variant 0.16 kanamycin Not assoc w R - Interim
levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
streptomycin Not assoc w R - Interim
rifampicin Not assoc w R - Interim
ethambutol Not assoc w R - Interim
amikacin Not assoc w R - Interim
Rv2477c 2782966 c.1077C>A synonymous_variant 0.14 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2782969 c.1074A>C synonymous_variant 0.15 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2782981 c.1062G>C synonymous_variant 0.15 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2782984 c.1059T>C synonymous_variant 0.15 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2782990 c.1053C>G synonymous_variant 0.17 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783002 c.1041T>C synonymous_variant 0.16 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783008 c.1035C>G synonymous_variant 0.14 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783035 c.1008G>C synonymous_variant 0.15 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783040 p.Ala335Thr missense_variant 0.15 kanamycin Uncertain significance
levofloxacin Uncertain significance
moxifloxacin Uncertain significance
streptomycin Uncertain significance
rifampicin Uncertain significance
ethambutol Uncertain significance
amikacin Uncertain significance
Rv2477c 2783044 c.999G>C synonymous_variant 0.16 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783048 p.Asp332Gly missense_variant 0.17 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783059 c.984T>C synonymous_variant 0.15 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783068 p.Asp325Glu missense_variant 0.17 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783077 c.966T>C synonymous_variant 0.18 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783092 c.951A>G synonymous_variant 0.18 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin Not assoc w R - Interim
ethambutol Not assoc w R - Interim
amikacin
Rv2477c 2783095 c.948C>G synonymous_variant 0.18 kanamycin Not assoc w R - Interim
levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
streptomycin Not assoc w R - Interim
rifampicin Not assoc w R
ethambutol Not assoc w R - Interim
amikacin Not assoc w R - Interim
Rv2477c 2783098 c.945C>G synonymous_variant 0.18 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783101 c.942G>T synonymous_variant 0.18 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783116 c.927T>C synonymous_variant 0.19 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783140 c.903C>G synonymous_variant 0.2 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783146 c.897G>A synonymous_variant 0.18 kanamycin Not assoc w R - Interim
levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
streptomycin
rifampicin
ethambutol
amikacin Not assoc w R - Interim
Rv2477c 2783149 c.894G>C synonymous_variant 0.17 kanamycin Not assoc w R - Interim
levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
streptomycin
rifampicin Not assoc w R - Interim
ethambutol
amikacin Not assoc w R - Interim
Rv2477c 2783158 c.885A>C synonymous_variant 0.17 kanamycin Not assoc w R - Interim
levofloxacin Not assoc w R - Interim
moxifloxacin
streptomycin
rifampicin Not assoc w R - Interim
ethambutol Not assoc w R - Interim
amikacin Not assoc w R - Interim
Rv2477c 2783182 c.861C>G synonymous_variant 0.15 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783185 c.858G>A synonymous_variant 0.15 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783194 c.849A>G synonymous_variant 0.16 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783230 c.813T>G synonymous_variant 0.17 kanamycin
levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
streptomycin Not assoc w R - Interim
rifampicin Not assoc w R - Interim
ethambutol Not assoc w R - Interim
amikacin
Rv2477c 2783235 c.808T>C synonymous_variant 0.16 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783254 c.789A>G synonymous_variant 0.15 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783263 c.780G>C synonymous_variant 0.15 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783293 c.750G>A synonymous_variant 0.14 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783662 c.381G>A synonymous_variant 0.14 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783674 c.369T>C synonymous_variant 0.14 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783683 c.360A>G synonymous_variant 0.16 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783700 p.Thr115Ser missense_variant 0.14 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783914 c.129T>C synonymous_variant 0.14 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783920 c.123G>C synonymous_variant 0.15 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783929 c.114C>G synonymous_variant 0.17 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783932 c.111C>T synonymous_variant 0.16 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783938 c.105T>C synonymous_variant 0.18 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783953 c.90G>A synonymous_variant 0.16 kanamycin Not assoc w R - Interim
levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
streptomycin
rifampicin Not assoc w R - Interim
ethambutol Not assoc w R - Interim
amikacin Not assoc w R - Interim
Rv2477c 2783962 c.81T>C synonymous_variant 0.17 kanamycin Not assoc w R - Interim
levofloxacin
moxifloxacin Not assoc w R - Interim
streptomycin Not assoc w R - Interim
rifampicin Not assoc w R - Interim
ethambutol Not assoc w R - Interim
amikacin Not assoc w R - Interim
Rv2477c 2783971 c.72G>C synonymous_variant 0.17 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783980 c.63C>G synonymous_variant 0.15 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783992 c.51T>C synonymous_variant 0.16 kanamycin Not assoc w R - Interim
levofloxacin Not assoc w R - Interim
moxifloxacin
streptomycin Not assoc w R - Interim
rifampicin Not assoc w R - Interim
ethambutol Not assoc w R - Interim
amikacin
thyX 3067316 c.630A>G synonymous_variant 0.15 para-aminosalicylic_acid
thyX 3067325 c.621A>G synonymous_variant 0.15 para-aminosalicylic_acid
thyX 3067328 c.618G>A synonymous_variant 0.16 para-aminosalicylic_acid
thyX 3067349 c.597G>C synonymous_variant 0.16 para-aminosalicylic_acid
thyX 3067439 c.507A>G synonymous_variant 0.15 para-aminosalicylic_acid
thyX 3067445 c.501C>G synonymous_variant 0.15 para-aminosalicylic_acid
thyX 3067475 c.471A>G synonymous_variant 0.15 para-aminosalicylic_acid
thyX 3067490 c.456C>G synonymous_variant 0.19 para-aminosalicylic_acid
thyX 3067493 c.453A>G synonymous_variant 0.2 para-aminosalicylic_acid
thyX 3067515 p.Ser144Thr missense_variant 0.2 para-aminosalicylic_acid
thyX 3067530 p.Ala139Ser missense_variant 0.22 para-aminosalicylic_acid
thyX 3067545 p.Glu134Ala missense_variant 0.2 para-aminosalicylic_acid
thyX 3067549 p.Thr133Ala missense_variant 0.21 para-aminosalicylic_acid
thyX 3067556 p.His130Gln missense_variant 0.18 para-aminosalicylic_acid
thyX 3067559 c.387C>G synonymous_variant 0.18 para-aminosalicylic_acid
thyX 3067565 p.Asp127Glu missense_variant 0.18 para-aminosalicylic_acid
thyX 3067570 p.Ala126Pro missense_variant 0.18 para-aminosalicylic_acid
thyX 3067577 c.369G>A synonymous_variant 0.18 para-aminosalicylic_acid
ald 3086788 c.-32T>C upstream_gene_variant 1.0 cycloserine
mtrB 3625065 p.Met517Leu missense_variant 1.0 rifampicin Not assoc w R
bedaquiline Uncertain significance
mtrB 3625729 c.885A>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
bedaquiline
lpqB 3625735 c.-825C>T upstream_gene_variant 0.18 rifampicin
bedaquiline
lpqB 3625749 c.-839C>T upstream_gene_variant 0.15 rifampicin
bedaquiline
mtrB 3625755 p.Ala287Thr missense_variant 0.16 rifampicin Uncertain significance
bedaquiline
mtrB 3625765 c.849C>G synonymous_variant 0.16 rifampicin Not assoc w R - Interim
bedaquiline
mtrB 3625774 c.840G>A synonymous_variant 0.15 rifampicin Not assoc w R - Interim
bedaquiline
mtrB 3625797 p.Val273Met missense_variant 0.14 rifampicin Uncertain significance
bedaquiline Uncertain significance
mtrB 3626927 c.-314G>C upstream_gene_variant 0.16 rifampicin
bedaquiline
mtrB 3626930 c.-317A>G upstream_gene_variant 0.14 rifampicin
bedaquiline
mtrB 3626945 c.-332C>T upstream_gene_variant 0.14 rifampicin
bedaquiline
mtrB 3627008 c.-395G>C upstream_gene_variant 0.17 rifampicin
bedaquiline
mtrB 3627011 c.-398T>G upstream_gene_variant 0.18 rifampicin
bedaquiline
mtrB 3627074 c.-461G>C upstream_gene_variant 0.15 rifampicin
bedaquiline
mtrA 3627080 c.270T>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
bedaquiline
mtrB 3627083 c.-470G>C upstream_gene_variant 0.16 rifampicin
bedaquiline
mtrA 3627098 c.252A>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
bedaquiline
mtrB 3627104 c.-491C>G upstream_gene_variant 0.17 rifampicin
bedaquiline
mtrA 3627119 c.231T>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
bedaquiline
mtrB 3627122 c.-509T>C upstream_gene_variant 0.16 rifampicin
bedaquiline
mtrA 3627188 c.162A>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
bedaquiline
mtrB 3627209 c.-596G>A upstream_gene_variant 0.15 rifampicin
bedaquiline
mtrA 3627221 c.129C>T synonymous_variant 0.13 rifampicin Not assoc w R - Interim
bedaquiline
mtrB 3627254 c.-641C>T upstream_gene_variant 0.13 rifampicin
bedaquiline
alr 3841590 c.-170G>A upstream_gene_variant 0.99 cycloserine
rpoA 3877571 p.Pro313Ala missense_variant 0.14 rifampicin
rpoA 3877587 c.921A>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoA 3877613 p.Ile299Val missense_variant 0.18 rifampicin
rpoA 3877656 c.852T>G synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoA 3877668 c.840A>G synonymous_variant 0.15 rifampicin
rpoA 3877686 c.822A>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoA 3877962 c.546G>T synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoA 3877986 c.522G>C synonymous_variant 0.16 rifampicin
rpoA 3877989 c.519A>G synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoA 3878001 c.507A>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoA 3878247 c.261G>C synonymous_variant 0.15 rifampicin
rpoA 3878271 c.237T>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoA 3878284 p.Glu75Ala missense_variant 0.16 rifampicin
rpoA 3878313 c.195G>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoA 3878331 c.177A>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoA 3878340 c.168C>T synonymous_variant 0.14 rifampicin
rpoA 3878346 c.162T>C synonymous_variant 0.16 rifampicin
rpoA 3878364 c.144A>T synonymous_variant 0.17 rifampicin
rpoA 3878367 c.141C>G synonymous_variant 0.16 rifampicin
rpoA 3878376 c.132G>C synonymous_variant 0.18 rifampicin
rpoA 3878385 c.123C>G synonymous_variant 0.14 rifampicin
rpoA 3878388 c.120C>G synonymous_variant 0.16 rifampicin
rpoA 3878391 c.117T>C synonymous_variant 0.16 rifampicin
rpoA 3878415 c.93C>T synonymous_variant 0.17 rifampicin
rpoA 3878424 c.84G>C synonymous_variant 0.16 rifampicin
rpoA 3878436 c.72A>G synonymous_variant 0.14 rifampicin
rpoA 3878764 c.-257A>G upstream_gene_variant 0.15 rifampicin
rpoA 3878785 c.-278T>G upstream_gene_variant 0.18 rifampicin
rpoA 3878788 c.-281G>C upstream_gene_variant 0.17 rifampicin Uncertain significance
rpoA 3878853 c.-346G>A upstream_gene_variant 0.17 rifampicin
rpoA 3878860 c.-353C>T upstream_gene_variant 0.18 rifampicin
rpoA 3878878 c.-371T>C upstream_gene_variant 0.17 rifampicin Uncertain significance
rpoA 3878938 c.-431T>A upstream_gene_variant 0.14 rifampicin
rpoA 3878947 c.-440G>C upstream_gene_variant 0.16 rifampicin Uncertain significance
rpoA 3878962 c.-455G>A upstream_gene_variant 0.18 rifampicin Uncertain significance
rpoA 3878968 c.-461T>C upstream_gene_variant 0.18 rifampicin Uncertain significance
rpoA 3878976 c.-469A>G upstream_gene_variant 0.17 rifampicin Uncertain significance
rpoA 3878986 c.-479G>C upstream_gene_variant 0.14 rifampicin
rpoA 3879088 c.-581A>C upstream_gene_variant 0.15 rifampicin
rpoA 3879094 c.-587T>C upstream_gene_variant 0.17 rifampicin
rpoA 3879121 c.-614T>G upstream_gene_variant 0.2 rifampicin
rpoA 3879127 c.-620T>C upstream_gene_variant 0.18 rifampicin
clpC1 4039022 c.1683A>G synonymous_variant 0.14 pyrazinamide
clpC1 4039064 c.1641C>T synonymous_variant 0.17 pyrazinamide
clpC1 4039097 c.1608G>C synonymous_variant 0.2 pyrazinamide
clpC1 4039103 c.1602T>C synonymous_variant 0.19 pyrazinamide
clpC1 4039106 c.1599G>C synonymous_variant 0.19 pyrazinamide
clpC1 4039112 c.1593C>G synonymous_variant 0.2 pyrazinamide
clpC1 4039121 c.1584T>C synonymous_variant 0.21 pyrazinamide
clpC1 4039142 c.1563A>G synonymous_variant 0.21 pyrazinamide
clpC1 4039145 c.1560G>C synonymous_variant 0.21 pyrazinamide
clpC1 4039169 p.Glu512Asp missense_variant 0.21 pyrazinamide
clpC1 4039172 c.1533A>G synonymous_variant 0.19 pyrazinamide
clpC1 4039178 c.1527G>C synonymous_variant 0.19 pyrazinamide
clpC1 4039183 c.1522T>C synonymous_variant 0.18 pyrazinamide
clpC1 4039186 c.1519C>T synonymous_variant 0.17 pyrazinamide
clpC1 4039226 c.1479T>C synonymous_variant 0.14 pyrazinamide Not assoc w R - Interim
clpC1 4039319 c.1386T>C synonymous_variant 0.14 pyrazinamide Not assoc w R - Interim
clpC1 4039322 c.1383T>C synonymous_variant 0.15 pyrazinamide
clpC1 4039328 c.1377A>C synonymous_variant 0.15 pyrazinamide
clpC1 4039331 c.1374C>G synonymous_variant 0.15 pyrazinamide
clpC1 4039338 p.Thr456Lys missense_variant 0.14 pyrazinamide
clpC1 4039349 c.1356C>T synonymous_variant 0.15 pyrazinamide
clpC1 4039352 c.1353C>G synonymous_variant 0.16 pyrazinamide
clpC1 4039364 c.1341C>G synonymous_variant 0.17 pyrazinamide
clpC1 4039409 c.1296T>C synonymous_variant 0.15 pyrazinamide
clpC1 4039412 c.1293T>G synonymous_variant 0.15 pyrazinamide
clpC1 4039415 p.Glu430Asp missense_variant 0.14 pyrazinamide Uncertain significance
clpC1 4039517 c.1188C>G synonymous_variant 0.15 pyrazinamide
panD 4044872 c.-591C>T upstream_gene_variant 1.0 pyrazinamide
glpK 4138622 c.1134C>T synonymous_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
isoniazid Not assoc w R
streptomycin Not assoc w R - Interim
rifampicin Not assoc w R
ethambutol Not assoc w R
glpK 4139126 c.630G>C synonymous_variant 0.14 levofloxacin
moxifloxacin
isoniazid
streptomycin
rifampicin
ethambutol
glpK 4139135 p.Asp207Asn missense_variant 0.14 levofloxacin
moxifloxacin
isoniazid
streptomycin
rifampicin
ethambutol
glpK 4139143 c.613T>C synonymous_variant 0.15 levofloxacin
moxifloxacin
isoniazid
streptomycin
rifampicin
ethambutol
glpK 4139165 c.591A>G synonymous_variant 0.15 levofloxacin
moxifloxacin
isoniazid
streptomycin
rifampicin
ethambutol
glpK 4139168 c.588T>C synonymous_variant 0.16 levofloxacin
moxifloxacin
isoniazid
streptomycin
rifampicin
ethambutol
glpK 4139177 c.579T>C synonymous_variant 0.16 levofloxacin
moxifloxacin
isoniazid
streptomycin
rifampicin
ethambutol
glpK 4139183 c.573T>C synonymous_variant 0.18 levofloxacin
moxifloxacin
isoniazid
streptomycin
rifampicin
ethambutol
glpK 4139186 c.570G>C synonymous_variant 0.19 levofloxacin
moxifloxacin
isoniazid Not assoc w R - Interim
streptomycin Not assoc w R - Interim
rifampicin Not assoc w R - Interim
ethambutol Not assoc w R - Interim
glpK 4139195 c.561G>T synonymous_variant 0.19 levofloxacin
moxifloxacin
isoniazid Not assoc w R - Interim
streptomycin
rifampicin Not assoc w R - Interim
ethambutol Not assoc w R - Interim
glpK 4139198 c.558C>G synonymous_variant 0.19 levofloxacin
moxifloxacin
isoniazid Not assoc w R - Interim
streptomycin Not assoc w R - Interim
rifampicin Not assoc w R - Interim
ethambutol Not assoc w R - Interim
glpK 4139207 c.549T>C synonymous_variant 0.18 levofloxacin
moxifloxacin
isoniazid
streptomycin
rifampicin
ethambutol
embC 4242075 p.Arg738Gln missense_variant 1.0 ethambutol Not assoc w R
embC 4242643 c.2781C>T synonymous_variant 1.0 ethambutol Not assoc w R
aftB 4268719 p.Asn40Asp missense_variant 0.98 ethambutol Uncertain significance
whiB6 4338595 c.-75delG upstream_gene_variant 1.0 kanamycin Not assoc w R
capreomycin Not assoc w R
amikacin Not assoc w R
whiB6 4338732 c.-211C>T upstream_gene_variant 1.0 kanamycin
capreomycin
amikacin
gid 4407588 c.615A>G synonymous_variant 1.0 streptomycin Not assoc w R