TB-Profiler result

Run: ERR4819322
Summary

Run ID: ERR4819322

Sample name:

Date: 2024-03-26T16:07:27.737467

Number of reads: 769565

Percentage reads mapped: 49.54

Median coverage: 18.0

Strain: lineage1.1;lineage4

Spoligotype:

Drug-resistance: Other

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Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family RDs Frequency
lineage1.1 Indo-Oceanic RD239 0.81
lineage4 Euro-American None 0.22
Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations WHO confidence Comment
rifampicin
isoniazid
ethambutol
pyrazinamide
streptomycin
fluoroquinolones
moxifloxacin
ofloxacin
levofloxacin
ciprofloxacin
aminoglycosides
amikacin
capreomycin
kanamycin
cycloserine
ethionamide
clofazimine
para-aminosalicylic_acid
delamanid fgd1 c.412_414delCTAinsTG Assoc w R - Interim Confers DLM-PMD cross-resistance
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
fgd1 491194 c.412_414delCTAinsTG frameshift_variant&stop_gained 0.32 delamanid Assoc w R - Interim Confers DLM-PMD cross-resistance
pretomanid Assoc w R - Interim Confers DLM-PMD cross-resistance
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 897 c.897A>G synonymous_variant 0.38 isoniazid
dnaA 1024 c.1024T>C synonymous_variant 0.3 isoniazid
dnaA 1038 c.1038A>T synonymous_variant 0.29 isoniazid
dnaA 1041 c.1041G>A synonymous_variant 0.32 isoniazid
dnaA 1047 c.1047A>G synonymous_variant 0.35 isoniazid
dnaA 1068 c.1068T>C synonymous_variant 0.35 isoniazid
dnaA 1092 c.1092T>C synonymous_variant 0.3 isoniazid Not assoc w R - Interim
dnaA 1098 c.1098A>G synonymous_variant 0.29 isoniazid
gyrB 5809 c.570C>G synonymous_variant 0.3 levofloxacin
moxifloxacin
gyrB 5824 c.585A>G synonymous_variant 0.3 levofloxacin
moxifloxacin
gyrB 5827 c.588G>A synonymous_variant 0.29 levofloxacin
moxifloxacin
gyrB 6112 p.Met291Ile missense_variant 0.89 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrB 6124 c.885C>T synonymous_variant 0.8 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 6967 c.-335T>C upstream_gene_variant 0.35 levofloxacin
moxifloxacin
gyrA 6973 c.-329G>C upstream_gene_variant 0.41 levofloxacin
moxifloxacin
gyrA 6982 c.-320A>C upstream_gene_variant 0.42 levofloxacin
moxifloxacin
gyrA 7007 c.-295C>T upstream_gene_variant 0.42 levofloxacin
moxifloxacin
gyrA 7010 c.-292C>T upstream_gene_variant 0.42 levofloxacin
moxifloxacin
gyrB 7023 p.Leu595Gln missense_variant 0.35 levofloxacin
moxifloxacin
gyrA 7033 c.-269G>C upstream_gene_variant 0.37 levofloxacin
moxifloxacin
gyrA 7178 c.-124T>C upstream_gene_variant 0.48 levofloxacin
moxifloxacin
gyrB 7186 c.1947C>G synonymous_variant 0.39 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrB 7216 c.1977G>C synonymous_variant 0.32 levofloxacin Not assoc w R - Interim
moxifloxacin
gyrA 7228 c.-74C>T upstream_gene_variant 0.29 levofloxacin
moxifloxacin
gyrA 7362 p.Glu21Gln missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 7442 c.141G>C synonymous_variant 0.48 levofloxacin
moxifloxacin
gyrA 7451 c.150C>G synonymous_variant 0.5 levofloxacin
moxifloxacin
gyrA 7457 c.156T>C synonymous_variant 0.52 levofloxacin
moxifloxacin
gyrA 7475 c.174A>G synonymous_variant 0.47 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 7480 p.Phe60Tyr missense_variant 0.5 levofloxacin
moxifloxacin
gyrA 7484 c.183T>C synonymous_variant 0.5 levofloxacin
moxifloxacin
gyrA 7514 c.213C>G synonymous_variant 0.36 levofloxacin
moxifloxacin
gyrA 7523 c.222C>A synonymous_variant 0.38 levofloxacin
moxifloxacin
gyrA 7585 p.Ser95Thr missense_variant 0.95 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 7595 c.294C>G synonymous_variant 0.43 levofloxacin
moxifloxacin
gyrA 7607 c.306C>G synonymous_variant 0.32 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 7622 c.321C>T synonymous_variant 0.35 levofloxacin
moxifloxacin
gyrA 7625 c.324G>C synonymous_variant 0.35 levofloxacin
moxifloxacin
gyrA 7631 c.330G>C synonymous_variant 0.42 levofloxacin
moxifloxacin
gyrA 7637 c.336C>G synonymous_variant 0.41 levofloxacin
moxifloxacin
gyrA 7658 c.357A>G synonymous_variant 0.48 levofloxacin
moxifloxacin
gyrA 7664 c.363T>C synonymous_variant 0.48 levofloxacin
moxifloxacin
gyrA 7670 c.369A>G synonymous_variant 0.46 levofloxacin
moxifloxacin
gyrA 7676 c.375G>C synonymous_variant 0.52 levofloxacin
moxifloxacin
gyrA 7683 c.382_384delAGGinsCC frameshift_variant&missense_variant 0.48 levofloxacin
moxifloxacin
gyrA 7694 c.393A>G synonymous_variant 0.37 levofloxacin
moxifloxacin
gyrA 7710 c.409_411delTTGinsCC frameshift_variant&missense_variant 0.46 levofloxacin
moxifloxacin
gyrA 7715 c.414G>C synonymous_variant 0.46 levofloxacin
moxifloxacin
gyrA 8435 c.1134C>G synonymous_variant 0.88 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8452 p.Ala384Val missense_variant 0.93 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 8588 c.1287G>A synonymous_variant 0.24 levofloxacin
moxifloxacin
gyrA 8636 c.1335A>C synonymous_variant 0.29 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8903 c.1602T>C synonymous_variant 0.33 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8933 c.1632G>C synonymous_variant 0.32 levofloxacin
moxifloxacin
gyrA 9143 c.1842T>C synonymous_variant 0.91 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 9200 c.1899A>G synonymous_variant 0.28 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 9204 p.Ser635Thr missense_variant 0.28 levofloxacin
moxifloxacin
gyrA 9218 c.1917C>T synonymous_variant 0.25 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 9304 p.Gly668Asp missense_variant 0.82 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
Rv0010c 13460 c.99T>C synonymous_variant 0.94 isoniazid Not assoc w R
fgd1 491173 c.391C>A synonymous_variant 0.35 clofazimine
pretomanid
delamanid
fgd1 491181 c.399T>C synonymous_variant 0.41 clofazimine
pretomanid
delamanid
fgd1 491184 c.402A>G synonymous_variant 0.3 clofazimine
pretomanid
delamanid
fgd1 491191 p.Gly137Arg missense_variant 0.41 clofazimine
pretomanid
delamanid
fgd1 491202 c.420G>C synonymous_variant 0.43 clofazimine
pretomanid
delamanid
fgd1 491203 p.Gln141Glu missense_variant 0.43 clofazimine
pretomanid
delamanid
fgd1 491212 p.Ser144Arg missense_variant 0.41 clofazimine
pretomanid
delamanid
fgd1 491217 c.435T>C synonymous_variant 0.4 clofazimine
pretomanid
delamanid
fgd1 491742 c.960T>C synonymous_variant 0.75 clofazimine Not assoc w R
pretomanid
delamanid Not assoc w R - Interim
mshA 575376 p.Ser10Leu missense_variant 0.88 ethionamide Uncertain significance
isoniazid Uncertain significance
mshA 575770 c.423G>A synonymous_variant 0.23 ethionamide
isoniazid
mshA 575771 p.Val142Ser missense_variant 0.22 ethionamide
isoniazid
mshA 575779 c.432A>G synonymous_variant 0.2 ethionamide
isoniazid
mshA 575782 c.435G>C synonymous_variant 0.23 ethionamide
isoniazid
mshA 575809 c.462C>T synonymous_variant 0.31 ethionamide
isoniazid
mshA 575812 c.465C>T synonymous_variant 0.33 ethionamide
isoniazid
mshA 575821 c.474G>C synonymous_variant 0.33 ethionamide
isoniazid
mshA 575824 c.477T>G synonymous_variant 0.36 ethionamide
isoniazid
mshA 575830 c.483C>G synonymous_variant 0.37 ethionamide
isoniazid
mshA 575833 c.486C>G synonymous_variant 0.38 ethionamide
isoniazid
mshA 575845 c.498C>T synonymous_variant 0.4 ethionamide
isoniazid Not assoc w R - Interim
mshA 575884 c.537G>C synonymous_variant 0.48 ethionamide
isoniazid
mshA 575887 c.540G>C synonymous_variant 0.46 ethionamide
isoniazid
mshA 575893 c.546C>G synonymous_variant 0.45 ethionamide
isoniazid
mshA 575896 c.549G>C synonymous_variant 0.38 ethionamide
isoniazid
mshA 576233 p.Ile296Val missense_variant 0.29 ethionamide
isoniazid
ccsA 619574 c.-317G>A upstream_gene_variant 0.39 capreomycin
amikacin
kanamycin
ccsA 619579 c.-312G>C upstream_gene_variant 0.39 capreomycin
amikacin
kanamycin
ccsA 619591 c.-300G>C upstream_gene_variant 0.39 capreomycin
amikacin
kanamycin
ccsA 620367 c.477T>C synonymous_variant 0.37 capreomycin
amikacin
kanamycin
ccsA 620373 c.483C>G synonymous_variant 0.32 capreomycin
amikacin
kanamycin
ccsA 620376 c.486G>C synonymous_variant 0.35 capreomycin
amikacin
kanamycin
ccsA 620385 c.495G>C synonymous_variant 0.32 capreomycin
amikacin
kanamycin
ccsA 620388 c.498A>G synonymous_variant 0.32 capreomycin
amikacin
kanamycin
ccsA 620389 c.499C>T synonymous_variant 0.3 capreomycin
amikacin
kanamycin
ccsA 620412 c.522T>C synonymous_variant 0.31 capreomycin
amikacin
kanamycin
ccsA 620415 c.525T>C synonymous_variant 0.33 capreomycin Not assoc w R - Interim
amikacin Not assoc w R - Interim
kanamycin Not assoc w R - Interim
Rv0565c 657578 c.-108T>C upstream_gene_variant 0.91 ethionamide
nusG 734116 c.-138T>C upstream_gene_variant 0.8 rifampicin Not assoc w R
nusG 734407 c.154_156delGTTinsAC frameshift_variant&missense_variant 0.26 rifampicin
nusG 734421 c.168A>G synonymous_variant 0.29 rifampicin
nusG 734424 c.171G>A synonymous_variant 0.27 rifampicin
nusG 734532 c.279A>G synonymous_variant 0.27 rifampicin Not assoc w R - Interim
nusG 734580 c.327T>C synonymous_variant 0.32 rifampicin Not assoc w R - Interim
nusG 734596 c.343T>C synonymous_variant 0.33 rifampicin
rpoB 760223 c.417T>C synonymous_variant 0.27 rifampicin
rpoB 760235 c.429T>C synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoB 760283 c.477G>C synonymous_variant 0.38 rifampicin Not assoc w R - Interim
rpoB 760307 c.501T>C synonymous_variant 0.35 rifampicin
rpoB 760406 c.600G>C synonymous_variant 0.33 rifampicin
rpoB 760412 c.606C>G synonymous_variant 0.3 rifampicin
rpoB 760424 c.618C>G synonymous_variant 0.33 rifampicin Not assoc w R - Interim
rpoB 760430 c.624T>C synonymous_variant 0.36 rifampicin Not assoc w R - Interim
rpoB 760475 c.669A>G synonymous_variant 0.3 rifampicin Not assoc w R - Interim
rpoB 760646 c.840C>G synonymous_variant 0.57 rifampicin Not assoc w R - Interim
rpoB 760655 c.849A>G synonymous_variant 0.5 rifampicin Not assoc w R - Interim
rpoB 760661 c.855A>C synonymous_variant 0.5 rifampicin Not assoc w R - Interim
rpoB 760670 c.864G>C synonymous_variant 0.5 rifampicin
rpoB 760674 c.868T>C synonymous_variant 0.47 rifampicin Not assoc w R - Interim
rpoB 760679 c.873A>G synonymous_variant 0.44 rifampicin Not assoc w R - Interim
rpoB 760683 c.877T>C synonymous_variant 0.44 rifampicin Not assoc w R - Interim
rpoB 760934 c.1128C>T synonymous_variant 0.21 rifampicin
rpoB 760946 c.1140A>G synonymous_variant 0.27 rifampicin Not assoc w R - Interim
rpoB 760991 c.1185G>C synonymous_variant 0.31 rifampicin
rpoB 761006 c.1200C>G synonymous_variant 0.3 rifampicin Not assoc w R - Interim
rpoB 761015 c.1209G>C synonymous_variant 0.4 rifampicin Not assoc w R - Interim
rpoB 761021 c.1215G>C synonymous_variant 0.41 rifampicin
rpoB 761027 c.1221A>G synonymous_variant 0.47 rifampicin Not assoc w R - Interim
rpoB 761036 c.1230G>C synonymous_variant 0.47 rifampicin Not assoc w R - Interim
rpoB 761037 c.1231T>C synonymous_variant 0.5 rifampicin Not assoc w R - Interim
rpoB 761057 c.1251G>C synonymous_variant 0.54 rifampicin Not assoc w R - Interim
rpoB 761102 c.1296A>G synonymous_variant 0.44 rifampicin
rpoB 761129 c.1323G>C synonymous_variant 0.32 rifampicin Not assoc w R - Interim
rpoB 761132 c.1326G>T synonymous_variant 0.32 rifampicin Not assoc w R - Interim
rpoB 761133 c.1327T>C synonymous_variant 0.32 rifampicin Not assoc w R - Interim
rpoB 761150 c.1344A>C synonymous_variant 0.35 rifampicin Not assoc w R - Interim
rpoB 761153 c.1347G>C synonymous_variant 0.32 rifampicin
rpoB 761165 c.1359G>C synonymous_variant 0.38 rifampicin Not assoc w R - Interim
rpoB 761180 c.1374A>C synonymous_variant 0.45 rifampicin Not assoc w R - Interim
rpoB 761207 c.1401C>T synonymous_variant 0.33 rifampicin
rpoB 761249 c.1443A>G synonymous_variant 0.43 rifampicin Not assoc w R - Interim
rpoB 761255 c.1449T>G synonymous_variant 0.42 rifampicin Not assoc w R - Interim
rpoB 761261 c.1455G>T synonymous_variant 0.38 rifampicin Not assoc w R - Interim
rpoB 761306 c.1500C>G synonymous_variant 0.43 rifampicin
rpoB 761312 c.1506G>C synonymous_variant 0.46 rifampicin
rpoB 761327 c.1521A>G synonymous_variant 0.48 rifampicin Not assoc w R - Interim
rpoB 761408 c.1602G>C synonymous_variant 0.38 rifampicin
rpoB 761492 c.1686G>C synonymous_variant 0.23 rifampicin
rpoB 761510 c.1704T>C synonymous_variant 0.27 rifampicin
rpoB 761537 c.1731C>G synonymous_variant 0.31 rifampicin Not assoc w R - Interim
rpoB 761570 c.1764T>C synonymous_variant 0.33 rifampicin Not assoc w R - Interim
rpoB 761573 c.1767C>G synonymous_variant 0.37 rifampicin Not assoc w R - Interim
rpoB 761579 c.1773G>C synonymous_variant 0.33 rifampicin Not assoc w R - Interim
rpoB 761588 c.1782C>T synonymous_variant 0.33 rifampicin
rpoB 761606 c.1800C>G synonymous_variant 0.35 rifampicin
rpoB 761612 c.1806G>C synonymous_variant 0.3 rifampicin Not assoc w R - Interim
rpoB 761615 c.1809A>C synonymous_variant 0.32 rifampicin Not assoc w R - Interim
rpoB 761636 c.1830G>T synonymous_variant 0.37 rifampicin Not assoc w R - Interim
rpoB 761645 c.1839C>G synonymous_variant 0.37 rifampicin Not assoc w R - Interim
rpoB 761648 c.1842T>C synonymous_variant 0.39 rifampicin
rpoB 761848 p.Cys681Ser missense_variant 0.35 rifampicin
rpoB 761852 c.2046C>G synonymous_variant 0.41 rifampicin
rpoB 761858 c.2052G>C synonymous_variant 0.39 rifampicin
rpoB 761873 c.2067A>C synonymous_variant 0.41 rifampicin
rpoB 761885 c.2079T>C synonymous_variant 0.43 rifampicin
rpoB 761948 c.2142G>C synonymous_variant 0.44 rifampicin Not assoc w R - Interim
rpoB 761954 c.2148C>G synonymous_variant 0.44 rifampicin Not assoc w R - Interim
rpoB 762008 c.2202C>T synonymous_variant 0.46 rifampicin Not assoc w R - Interim
rpoB 762014 c.2208C>T synonymous_variant 0.48 rifampicin
rpoB 762017 c.2211A>G synonymous_variant 0.46 rifampicin Not assoc w R - Interim
rpoB 762167 c.2361T>C synonymous_variant 0.33 rifampicin Not assoc w R - Interim
rpoB 762176 c.2370T>C synonymous_variant 0.32 rifampicin Not assoc w R - Interim
rpoB 762185 c.2379G>C synonymous_variant 0.33 rifampicin Not assoc w R - Interim
rpoB 762347 c.2541T>C synonymous_variant 0.33 rifampicin
rpoB 762362 p.Glu852Asp missense_variant 0.33 rifampicin
rpoB 762369 c.2563T>C synonymous_variant 0.32 rifampicin
rpoC 762398 c.-972T>C upstream_gene_variant 0.23 rifampicin
rpoC 762401 c.-969G>C upstream_gene_variant 0.23 rifampicin
rpoB 762404 c.2598T>C synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoC 762410 c.-960T>C upstream_gene_variant 0.24 rifampicin
rpoB 762416 c.2610A>G synonymous_variant 0.23 rifampicin Not assoc w R - Interim
rpoB 763031 c.3225T>C synonymous_variant 0.53 rifampicin Not assoc w R
rpoB 763031 c.3225T>G synonymous_variant 0.4 rifampicin Not assoc w R - Interim
rpoB 763040 c.3234C>G synonymous_variant 0.47 rifampicin Not assoc w R - Interim
rpoB 763070 c.3264T>C synonymous_variant 0.45 rifampicin Not assoc w R - Interim
rpoB 763085 c.3279C>G synonymous_variant 0.41 rifampicin Not assoc w R - Interim
rpoB 763115 c.3309T>C synonymous_variant 0.33 rifampicin Not assoc w R - Interim
rpoB 763136 c.3330C>T synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoC 763148 c.-222G>C upstream_gene_variant 0.28 rifampicin
rpoC 763158 c.-212C>T upstream_gene_variant 0.34 rifampicin
rpoB 763166 c.3360A>G synonymous_variant 0.36 rifampicin Not assoc w R - Interim
rpoC 763190 c.-180C>T upstream_gene_variant 0.32 rifampicin
rpoC 763202 c.-168A>G upstream_gene_variant 0.29 rifampicin
rpoC 763205 c.-165G>C upstream_gene_variant 0.32 rifampicin
rpoC 763206 c.-164_-162delAGTinsTCG upstream_gene_variant 0.33 rifampicin
rpoB 763214 c.3408T>C synonymous_variant 0.36 rifampicin Not assoc w R - Interim
rpoC 763226 c.-144A>G upstream_gene_variant 0.35 rifampicin
rpoB 763227 c.3421C>T synonymous_variant 0.32 rifampicin Not assoc w R - Interim
rpoB 763238 c.3432T>C synonymous_variant 0.39 rifampicin Not assoc w R - Interim
rpoC 763441 c.72C>T synonymous_variant 0.32 rifampicin
rpoC 763444 c.75T>C synonymous_variant 0.33 rifampicin Not assoc w R - Interim
rpoC 763456 c.87A>G synonymous_variant 0.33 rifampicin Not assoc w R - Interim
rpoC 763486 c.117T>G synonymous_variant 0.45 rifampicin
rpoC 763528 c.159G>A synonymous_variant 0.69 rifampicin Not assoc w R - Interim
rpoC 763546 c.177A>G synonymous_variant 0.71 rifampicin Not assoc w R - Interim
rpoC 763570 c.201G>C synonymous_variant 0.73 rifampicin Not assoc w R - Interim
rpoC 763573 c.204G>C synonymous_variant 0.73 rifampicin Not assoc w R - Interim
rpoC 763594 c.225C>T synonymous_variant 0.53 rifampicin Not assoc w R - Interim
rpoC 763603 c.234C>T synonymous_variant 0.55 rifampicin Not assoc w R - Interim
rpoC 763636 c.267T>C synonymous_variant 0.52 rifampicin
rpoC 763660 c.291T>G synonymous_variant 0.47 rifampicin Not assoc w R - Interim
rpoC 763675 c.306C>G synonymous_variant 0.38 rifampicin Not assoc w R - Interim
rpoC 763696 c.327T>C synonymous_variant 0.32 rifampicin Not assoc w R - Interim
rpoC 763702 c.333C>G synonymous_variant 0.33 rifampicin Not assoc w R - Interim
rpoC 763717 c.348T>C synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoC 763723 c.354G>C synonymous_variant 0.29 rifampicin
rpoC 763732 c.363C>G synonymous_variant 0.32 rifampicin
rpoC 763765 c.396T>C synonymous_variant 0.33 rifampicin
rpoC 763774 c.405G>C synonymous_variant 0.3 rifampicin
rpoC 764140 c.771C>T synonymous_variant 0.33 rifampicin Not assoc w R - Interim
rpoC 764338 c.969G>A synonymous_variant 0.64 rifampicin Not assoc w R - Interim
rpoC 764353 c.984G>C synonymous_variant 0.5 rifampicin
rpoC 764365 c.996C>T synonymous_variant 0.47 rifampicin Not assoc w R - Interim
rpoC 764497 c.1128A>G synonymous_variant 0.23 rifampicin Not assoc w R - Interim
rpoC 764510 c.1141C>T synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoC 764521 c.1152T>C synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoC 764527 c.1158C>T synonymous_variant 0.3 rifampicin Not assoc w R - Interim
rpoC 764536 c.1167G>C synonymous_variant 0.29 rifampicin
rpoC 764539 c.1170C>G synonymous_variant 0.31 rifampicin Not assoc w R - Interim
rpoC 764554 c.1185C>T synonymous_variant 0.28 rifampicin
rpoC 764560 c.1191T>C synonymous_variant 0.39 rifampicin Not assoc w R - Interim
rpoC 764566 c.1197C>G synonymous_variant 0.39 rifampicin Not assoc w R - Interim
rpoC 764575 c.1206T>G synonymous_variant 0.35 rifampicin Not assoc w R - Interim
rpoC 764581 c.1212T>C synonymous_variant 0.36 rifampicin
rpoC 764752 c.1383G>C synonymous_variant 0.35 rifampicin Not assoc w R - Interim
rpoC 764764 c.1395T>C synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoC 764809 c.1440C>T synonymous_variant 0.34 rifampicin Not assoc w R
rpoC 764815 c.1446A>G synonymous_variant 0.32 rifampicin Not assoc w R - Interim
rpoC 765171 p.Pro601Leu missense_variant 0.8 rifampicin Not assoc w R
rpoC 765478 c.2109T>C synonymous_variant 0.25 rifampicin Not assoc w R - Interim
rpoC 765541 c.2172C>G synonymous_variant 0.32 rifampicin
rpoC 765700 c.2331T>C synonymous_variant 0.54 rifampicin Not assoc w R - Interim
rpoC 765734 c.2365T>C synonymous_variant 0.5 rifampicin Not assoc w R - Interim
rpoC 765751 c.2382C>G synonymous_variant 0.43 rifampicin
rpoC 765753 p.Asp795Ala missense_variant 0.43 rifampicin Uncertain significance
rpoC 765826 c.2457T>C synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoC 765835 c.2466C>T synonymous_variant 0.3 rifampicin Not assoc w R - Interim
rpoC 765850 c.2481G>C synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoC 765883 c.2514C>G synonymous_variant 0.3 rifampicin
rpoC 765886 c.2517C>G synonymous_variant 0.3 rifampicin
rpoC 765892 c.2523T>C synonymous_variant 0.34 rifampicin Not assoc w R - Interim
rpoC 765937 c.2568T>C synonymous_variant 0.28 rifampicin Not assoc w R - Interim
rpoC 766021 c.2652G>C synonymous_variant 0.53 rifampicin
rpoC 766027 c.2658G>C synonymous_variant 0.47 rifampicin
rpoC 766030 c.2661C>G synonymous_variant 0.47 rifampicin
rpoC 766043 p.Gln892Glu missense_variant 0.48 rifampicin
rpoC 766054 c.2685C>G synonymous_variant 0.5 rifampicin
rpoC 766384 c.3015A>G synonymous_variant 0.27 rifampicin
rpoC 766390 c.3021C>T synonymous_variant 0.31 rifampicin
rpoC 766426 c.3057C>T synonymous_variant 0.5 rifampicin
rpoC 766447 c.3078T>C synonymous_variant 0.46 rifampicin
rpoC 766462 c.3093G>C synonymous_variant 0.47 rifampicin
rpoC 766483 c.3114G>C synonymous_variant 0.44 rifampicin
rpoC 766484 c.3115_3117delGTAinsAC frameshift_variant&missense_variant 0.44 rifampicin
rpoC 766492 c.3123T>C synonymous_variant 0.4 rifampicin
rpoC 766522 c.3153C>G synonymous_variant 0.36 rifampicin
rpoC 766528 c.3159T>C synonymous_variant 0.35 rifampicin
rpoC 766531 c.3162G>C synonymous_variant 0.33 rifampicin
rpoC 766540 p.Asp1057Glu missense_variant 0.35 rifampicin
rpoC 766549 c.3180G>T synonymous_variant 0.35 rifampicin
rpoC 766657 c.3288A>G synonymous_variant 0.33 rifampicin
rpoC 766660 c.3291G>C synonymous_variant 0.31 rifampicin
rpoC 766672 c.3303T>C synonymous_variant 0.37 rifampicin
rpoC 766673 p.Gly1102Asn missense_variant 0.37 rifampicin
rpoC 766726 c.3357T>C synonymous_variant 0.36 rifampicin
rpoC 766738 c.3369G>C synonymous_variant 0.3 rifampicin
rpoC 766765 c.3396A>C synonymous_variant 0.28 rifampicin Not assoc w R - Interim
rpoC 766774 c.3405T>C synonymous_variant 0.3 rifampicin
rpoC 766801 c.3432C>G synonymous_variant 0.31 rifampicin
rpoC 766804 c.3435A>G synonymous_variant 0.3 rifampicin Not assoc w R - Interim
rpoC 766861 c.3492G>C synonymous_variant 0.34 rifampicin Not assoc w R - Interim
rpoC 766864 c.3495G>C synonymous_variant 0.38 rifampicin
rpoC 766876 c.3507C>T synonymous_variant 0.31 rifampicin Not assoc w R - Interim
rpoC 766882 c.3513C>T synonymous_variant 0.32 rifampicin Not assoc w R - Interim
rpoC 766894 c.3525T>C synonymous_variant 0.29 rifampicin
rpoC 766895 c.3526T>C synonymous_variant 0.29 rifampicin
rpoC 766972 c.3603G>C synonymous_variant 0.33 rifampicin
rpoC 767119 c.3750A>G synonymous_variant 0.43 rifampicin Not assoc w R - Interim
rpoC 767134 c.3765C>A synonymous_variant 0.46 rifampicin
rpoC 767158 c.3789T>C synonymous_variant 0.37 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
rpsL 781395 c.-165T>C upstream_gene_variant 1.0 streptomycin Not assoc w R
rpsL 781595 c.36T>C synonymous_variant 0.2 streptomycin
rpsL 781605 p.Ile16Val missense_variant 0.19 streptomycin Uncertain significance
rpsL 781608 p.Ser17Ala missense_variant 0.23 streptomycin
rpsL 781628 c.69T>C synonymous_variant 0.29 streptomycin Not assoc w R - Interim
rpsL 781631 c.72G>C synonymous_variant 0.38 streptomycin
rpsL 781649 c.90T>C synonymous_variant 0.42 streptomycin
rpsL 781655 c.96T>C synonymous_variant 0.42 streptomycin
rpsL 781715 c.156T>C synonymous_variant 0.35 streptomycin
rpsL 781728 c.169T>C synonymous_variant 0.35 streptomycin
rpsL 781736 c.177T>C synonymous_variant 0.33 streptomycin
rpsL 781754 c.195G>C synonymous_variant 0.29 streptomycin
rpsL 781760 c.201T>C synonymous_variant 0.28 streptomycin
rpsL 781832 c.273T>C synonymous_variant 0.31 streptomycin
rpsL 781838 c.279G>C synonymous_variant 0.28 streptomycin
rpsL 781841 c.282C>G synonymous_variant 0.29 streptomycin
rpsL 781865 c.306G>C synonymous_variant 0.32 streptomycin
rpsL 781868 c.309T>C synonymous_variant 0.36 streptomycin
rpsL 781871 c.312G>C synonymous_variant 0.36 streptomycin
rpsL 781877 c.318T>C synonymous_variant 0.29 streptomycin
rpsL 781892 c.333A>G synonymous_variant 0.37 streptomycin
rpsL 781898 c.339A>T synonymous_variant 0.39 streptomycin
rpsL 781929 p.Gly124Ser missense_variant 0.3 streptomycin Uncertain significance
rplC 800357 c.-452C>A upstream_gene_variant 0.71 linezolid Not assoc w R
rplC 800537 c.-272C>T upstream_gene_variant 0.37 linezolid
rplC 800540 c.-269T>C upstream_gene_variant 0.37 linezolid
rplC 800546 c.-263T>G upstream_gene_variant 0.38 linezolid
rplC 800567 c.-242A>G upstream_gene_variant 0.42 linezolid
rplC 800582 c.-227C>G upstream_gene_variant 0.4 linezolid
rplC 800612 c.-197A>G upstream_gene_variant 0.38 linezolid
rplC 800618 c.-191T>C upstream_gene_variant 0.37 linezolid
rplC 800627 c.-182C>T upstream_gene_variant 0.37 linezolid
rplC 800693 c.-116A>G upstream_gene_variant 0.26 linezolid
rplC 800703 c.-106T>C upstream_gene_variant 0.25 linezolid
rplC 800715 c.-94A>C upstream_gene_variant 0.26 linezolid
rplC 800747 c.-62C>G upstream_gene_variant 0.28 linezolid
rplC 800771 c.-38C>T upstream_gene_variant 0.44 linezolid
rplC 800794 c.-15_-9delAGATTGGinsGGGTT upstream_gene_variant 0.28 linezolid
rplC 800814 c.6A>G synonymous_variant 0.38 linezolid
rplC 800817 c.9A>T synonymous_variant 0.37 linezolid
rplC 800844 c.36T>C synonymous_variant 0.28 linezolid
Rv1129c 1254562 c.-28T>C upstream_gene_variant 0.83 moxifloxacin Not assoc w R
levofloxacin Not assoc w R
rifampicin Not assoc w R
isoniazid Not assoc w R
fbiC 1303545 c.615A>G synonymous_variant 0.27 clofazimine
pretomanid
delamanid
embR 1417554 c.-207C>G upstream_gene_variant 0.82 ethambutol
embR 1417793 c.-446C>T upstream_gene_variant 1.0 ethambutol
rrs 1471659 n.-187C>T upstream_gene_variant 1.0 streptomycin
kanamycin
capreomycin
amikacin
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.75 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472754 n.909G>T non_coding_transcript_exon_variant 0.75 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.81 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Not assoc w R
amikacin Not assoc w R
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.81 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Not assoc w R
amikacin Not assoc w R
inhA 1674561 c.360C>T synonymous_variant 0.43 ethionamide
isoniazid
inhA 1674703 c.502T>C synonymous_variant 0.4 ethionamide
isoniazid
inhA 1674718 c.517A>C synonymous_variant 0.3 ethionamide
isoniazid
rpsA 1833811 c.270G>T synonymous_variant 0.33 pyrazinamide
rpsA 1833928 c.387G>C synonymous_variant 0.33 pyrazinamide
rpsA 1833940 c.399C>G synonymous_variant 0.31 pyrazinamide
rpsA 1833979 c.438T>C synonymous_variant 0.38 pyrazinamide
rpsA 1834000 c.459G>C synonymous_variant 0.38 pyrazinamide
rpsA 1834021 c.480C>T synonymous_variant 0.45 pyrazinamide
rpsA 1834249 c.708T>C synonymous_variant 0.36 pyrazinamide
rpsA 1834306 c.765T>C synonymous_variant 0.25 pyrazinamide
rpsA 1834417 c.876G>C synonymous_variant 0.33 pyrazinamide
rpsA 1834423 c.882G>C synonymous_variant 0.42 pyrazinamide
rpsA 1834435 c.894G>C synonymous_variant 0.45 pyrazinamide
rpsA 1834513 c.972C>G synonymous_variant 0.47 pyrazinamide
rpsA 1834528 c.987T>C synonymous_variant 0.38 pyrazinamide
rpsA 1834546 c.1005T>C synonymous_variant 0.35 pyrazinamide
rpsA 1834555 c.1014T>G synonymous_variant 0.38 pyrazinamide
rpsA 1834633 c.1092A>G synonymous_variant 0.32 pyrazinamide
rpsA 1834639 c.1098T>C synonymous_variant 0.32 pyrazinamide
rpsA 1834726 c.1185C>A synonymous_variant 0.24 pyrazinamide
rpsA 1834732 c.1191T>C synonymous_variant 0.57 pyrazinamide
rpsA 1834753 c.1212T>C synonymous_variant 0.52 pyrazinamide
rpsA 1834765 p.Glu408Asp missense_variant 0.43 pyrazinamide
rpsA 1834775 p.Ala412Thr missense_variant 0.4 pyrazinamide
rpsA 1834780 c.1239A>G synonymous_variant 0.48 pyrazinamide
rpsA 1834786 c.1245A>G synonymous_variant 0.46 pyrazinamide
rpsA 1834789 c.1248T>C synonymous_variant 0.4 pyrazinamide
rpsA 1834792 c.1251G>C synonymous_variant 0.37 pyrazinamide
tsnR 1853361 c.-245T>C upstream_gene_variant 0.35 linezolid
tsnR 1853370 c.-236_-234delGCAinsTG upstream_gene_variant 0.35 linezolid
tsnR 1853387 c.-219T>G upstream_gene_variant 0.41 linezolid
tsnR 1853394 c.-212_-211delCTinsGC upstream_gene_variant 0.36 linezolid
tsnR 1853974 c.369C>T synonymous_variant 0.64 linezolid Not assoc w R
tsnR 1854045 p.Tyr147Cys missense_variant 0.75 linezolid Not assoc w R
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 2062922 p.Ile603Val missense_variant 0.75 streptomycin Not assoc w R
kanamycin Not assoc w R
capreomycin Not assoc w R
amikacin Not assoc w R
PPE35 2167926 p.Leu896Ser missense_variant 0.93 pyrazinamide Not assoc w R
PPE35 2167983 p.Gly877Asp missense_variant 0.79 pyrazinamide Uncertain significance
kasA 2518132 c.18C>T synonymous_variant 0.92 isoniazid
kasA 2518768 c.654C>T synonymous_variant 0.41 isoniazid
kasA 2518777 c.663C>T synonymous_variant 0.44 isoniazid
kasA 2518783 c.669T>C synonymous_variant 0.47 isoniazid
kasA 2518789 c.675G>C synonymous_variant 0.5 isoniazid
kasA 2518792 c.678C>A synonymous_variant 0.44 isoniazid
kasA 2518795 c.681C>G synonymous_variant 0.44 isoniazid
kasA 2518825 c.711T>C synonymous_variant 0.4 isoniazid
kasA 2518864 c.750G>C synonymous_variant 0.5 isoniazid
kasA 2518879 c.765A>G synonymous_variant 0.4 isoniazid
kasA 2518885 c.771T>C synonymous_variant 0.41 isoniazid
kasA 2518898 c.784T>C synonymous_variant 0.47 isoniazid
kasA 2518906 c.792A>G synonymous_variant 0.4 isoniazid
kasA 2518910 p.Leu266Met missense_variant 0.35 isoniazid
kasA 2518921 c.807T>C synonymous_variant 0.38 isoniazid
kasA 2518969 c.855T>G synonymous_variant 0.35 isoniazid
ahpC 2726051 c.-142G>A upstream_gene_variant 0.67 isoniazid
ahpC 2726638 p.Ala149Val missense_variant 0.53 isoniazid
ahpC 2726645 c.453C>G synonymous_variant 0.5 isoniazid
ahpC 2726657 c.465A>C synonymous_variant 0.5 isoniazid Not assoc w R - Interim
ahpC 2726669 p.Asp159Glu missense_variant 0.5 isoniazid
ahpC 2726672 c.480G>A synonymous_variant 0.47 isoniazid Not assoc w R - Interim
ahpC 2726693 c.501C>G synonymous_variant 0.5 isoniazid
ahpC 2726696 c.504C>G synonymous_variant 0.5 isoniazid
Rv2477c 2783440 c.603T>C synonymous_variant 0.28 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783461 c.582T>C synonymous_variant 0.33 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783467 c.576G>C synonymous_variant 0.33 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783683 c.360A>G synonymous_variant 0.35 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783700 p.Thr115Ser missense_variant 0.38 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783953 c.90G>A synonymous_variant 0.5 ethambutol Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
streptomycin
levofloxacin Not assoc w R - Interim
kanamycin Not assoc w R - Interim
rifampicin Not assoc w R - Interim
amikacin Not assoc w R - Interim
Rv2477c 2783962 c.81T>C synonymous_variant 0.41 ethambutol Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
streptomycin Not assoc w R - Interim
levofloxacin
kanamycin Not assoc w R - Interim
rifampicin Not assoc w R - Interim
amikacin Not assoc w R - Interim
Rv2477c 2783971 c.72G>C synonymous_variant 0.44 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783980 c.63C>G synonymous_variant 0.47 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2681 2996912 c.174C>T synonymous_variant 0.84 capreomycin Not assoc w R
Rv2752c 3064632 c.1560C>T synonymous_variant 0.94 ethambutol Not assoc w R
moxifloxacin Not assoc w R
levofloxacin Not assoc w R
rifampicin Not assoc w R
isoniazid Not assoc w R
thyX 3067349 c.597G>C synonymous_variant 0.27 para-aminosalicylic_acid
thyX 3067355 c.591A>C synonymous_variant 0.3 para-aminosalicylic_acid
thyX 3067367 c.579G>C synonymous_variant 0.36 para-aminosalicylic_acid
thyX 3067373 c.573C>G synonymous_variant 0.4 para-aminosalicylic_acid
thyX 3067376 c.570G>A synonymous_variant 0.37 para-aminosalicylic_acid
thyX 3067391 c.555G>C synonymous_variant 0.4 para-aminosalicylic_acid
thyX 3067394 c.552G>C synonymous_variant 0.38 para-aminosalicylic_acid
thyX 3067457 c.489C>G synonymous_variant 0.39 para-aminosalicylic_acid
thyX 3067465 p.Ile161Val missense_variant 0.33 para-aminosalicylic_acid
thyX 3067475 c.471A>G synonymous_variant 0.32 para-aminosalicylic_acid
thyX 3067490 c.456C>G synonymous_variant 0.32 para-aminosalicylic_acid
thyX 3067493 c.453A>G synonymous_variant 0.33 para-aminosalicylic_acid
thyX 3067515 p.Ser144Thr missense_variant 0.38 para-aminosalicylic_acid
thyX 3067814 c.132T>C synonymous_variant 0.35 para-aminosalicylic_acid
thyX 3067850 c.96A>C synonymous_variant 0.41 para-aminosalicylic_acid
thyA 3074205 p.Glu89Asp missense_variant 0.38 para-aminosalicylic_acid
thyA 3074214 c.258T>C synonymous_variant 0.35 para-aminosalicylic_acid
ald 3086788 c.-32T>C upstream_gene_variant 1.0 cycloserine
Rv3083 3448714 p.Asp71His missense_variant 0.82 ethionamide Uncertain significance
lpqB 3624236 c.675C>A synonymous_variant 0.89 bedaquiline
rifampicin Not assoc w R - Interim
lpqB 3624486 p.Asp142Gly missense_variant 0.71 bedaquiline Uncertain significance
rifampicin Not assoc w R
lpqB 3624701 c.210T>C synonymous_variant 0.3 bedaquiline
rifampicin
lpqB 3624722 c.189C>G synonymous_variant 0.32 bedaquiline Not assoc w R - Interim
rifampicin Not assoc w R - Interim
lpqB 3624728 c.183C>T synonymous_variant 0.3 bedaquiline
rifampicin
mtrB 3625065 p.Met517Leu missense_variant 0.64 bedaquiline Uncertain significance
rifampicin Not assoc w R
mtrB 3625267 c.1347T>C synonymous_variant 0.38 bedaquiline
rifampicin Not assoc w R - Interim
lpqB 3625270 c.-360G>C upstream_gene_variant 0.38 bedaquiline
rifampicin
lpqB 3625279 c.-369C>G upstream_gene_variant 0.38 bedaquiline
rifampicin
lpqB 3625291 c.-381A>G upstream_gene_variant 0.42 bedaquiline
rifampicin
mtrB 3625313 p.Arg434Lys missense_variant 0.3 bedaquiline
rifampicin
lpqB 3625315 c.-405G>C upstream_gene_variant 0.3 bedaquiline
rifampicin
mtrB 3625321 c.1293A>G synonymous_variant 0.32 bedaquiline Not assoc w R - Interim
rifampicin Not assoc w R - Interim
lpqB 3625327 c.-417A>G upstream_gene_variant 0.33 bedaquiline
rifampicin
mtrB 3625656 c.958T>C synonymous_variant 0.27 bedaquiline Not assoc w R - Interim
rifampicin Not assoc w R - Interim
lpqB 3625663 c.-753G>C upstream_gene_variant 0.29 bedaquiline
rifampicin
lpqB 3625669 c.-759G>C upstream_gene_variant 0.3 bedaquiline
rifampicin
mtrB 3625705 c.909C>G synonymous_variant 0.6 bedaquiline
rifampicin Not assoc w R - Interim
lpqB 3625714 c.-804C>T upstream_gene_variant 0.58 bedaquiline
rifampicin
mtrB 3625720 c.894G>C synonymous_variant 0.6 bedaquiline
rifampicin Not assoc w R - Interim
mtrA 3626804 c.546A>G synonymous_variant 0.32 bedaquiline
rifampicin Not assoc w R - Interim
mtrB 3626930 c.-317A>G upstream_gene_variant 0.41 bedaquiline
rifampicin
mtrA 3626939 c.411A>G synonymous_variant 0.38 bedaquiline
rifampicin Not assoc w R - Interim
mtrB 3626957 c.-344G>C upstream_gene_variant 0.29 bedaquiline
rifampicin
mtrB 3626972 c.-359A>G upstream_gene_variant 0.28 bedaquiline
rifampicin
mtrB 3627008 c.-395G>C upstream_gene_variant 0.32 bedaquiline
rifampicin
mtrB 3627011 c.-398T>G upstream_gene_variant 0.29 bedaquiline
rifampicin
mtrB 3627167 c.-554T>C upstream_gene_variant 0.35 bedaquiline
rifampicin
mtrB 3627181 c.-568T>C upstream_gene_variant 0.38 bedaquiline
rifampicin
mtrB 3627182 c.-569T>C upstream_gene_variant 0.36 bedaquiline
rifampicin
mtrA 3627188 c.162A>G synonymous_variant 0.45 bedaquiline
rifampicin Not assoc w R - Interim
mtrB 3627254 c.-641C>T upstream_gene_variant 0.35 bedaquiline
rifampicin
mtrB 3627263 c.-650C>T upstream_gene_variant 0.31 bedaquiline
rifampicin
mtrB 3627266 c.-653A>G upstream_gene_variant 0.32 bedaquiline
rifampicin
mtrB 3627272 c.-659G>T upstream_gene_variant 0.35 bedaquiline
rifampicin
mtrB 3627275 c.-662G>T upstream_gene_variant 0.27 bedaquiline
rifampicin
mtrB 3627296 c.-683T>C upstream_gene_variant 0.36 bedaquiline
rifampicin
mtrB 3627314 c.-701C>T upstream_gene_variant 0.38 bedaquiline
rifampicin
mtrB 3627317 c.-704T>C upstream_gene_variant 0.38 bedaquiline
rifampicin
mtrA 3627343 p.Thr3Ser missense_variant 0.35 bedaquiline
rifampicin
rpoA 3877503 c.1005G>C synonymous_variant 0.29 rifampicin
rpoA 3877507 p.Gly334Ala missense_variant 0.27 rifampicin
rpoA 3877515 c.993G>C synonymous_variant 0.29 rifampicin
rpoA 3877553 p.Glu319Gln missense_variant 0.39 rifampicin
rpoA 3877571 p.Pro313Ala missense_variant 0.43 rifampicin
rpoA 3877587 c.921A>G synonymous_variant 0.48 rifampicin Not assoc w R - Interim
rpoA 3877613 p.Ile299Val missense_variant 0.54 rifampicin
rpoA 3877656 c.852T>G synonymous_variant 0.55 rifampicin Not assoc w R - Interim
rpoA 3877668 c.840A>G synonymous_variant 0.59 rifampicin
rpoA 3877679 p.Ala277Ser missense_variant 0.58 rifampicin
rpoA 3877686 c.822A>G synonymous_variant 0.58 rifampicin Not assoc w R - Interim
rpoA 3877692 c.816G>C synonymous_variant 0.52 rifampicin Not assoc w R - Interim
rpoA 3877857 c.651G>A synonymous_variant 0.5 rifampicin
rpoA 3877866 c.642G>C synonymous_variant 0.42 rifampicin
rpoA 3877905 c.603A>G synonymous_variant 0.37 rifampicin Not assoc w R - Interim
rpoA 3877909 p.Asn200Ser missense_variant 0.41 rifampicin
rpoA 3877920 c.588G>C synonymous_variant 0.27 rifampicin Not assoc w R - Interim
rpoA 3877923 c.585C>T synonymous_variant 0.27 rifampicin Not assoc w R - Interim
rpoA 3877926 c.582G>C synonymous_variant 0.25 rifampicin
rpoA 3877962 c.546G>T synonymous_variant 0.28 rifampicin Not assoc w R - Interim
rpoA 3877986 c.522G>C synonymous_variant 0.23 rifampicin
rpoA 3877989 c.519A>G synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoA 3878001 c.507A>G synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoA 3878187 c.321C>G synonymous_variant 0.4 rifampicin
rpoA 3878199 c.309T>C synonymous_variant 0.35 rifampicin
rpoA 3878217 c.291A>G synonymous_variant 0.4 rifampicin Not assoc w R - Interim
rpoA 3878247 c.261G>C synonymous_variant 0.29 rifampicin
rpoA 3878271 c.237T>C synonymous_variant 0.44 rifampicin Not assoc w R - Interim
rpoA 3878284 p.Glu75Ala missense_variant 0.42 rifampicin
rpoA 3878292 c.216T>C synonymous_variant 0.43 rifampicin Not assoc w R - Interim
rpoA 3878298 c.210A>G synonymous_variant 0.37 rifampicin Not assoc w R - Interim
rpoA 3878304 c.204G>C synonymous_variant 0.39 rifampicin
rpoA 3878322 c.186A>G synonymous_variant 0.45 rifampicin Not assoc w R - Interim
rpoA 3878761 c.-254G>C upstream_gene_variant 0.41 rifampicin
rpoA 3878764 c.-257A>G upstream_gene_variant 0.53 rifampicin
rpoA 3878785 c.-278T>G upstream_gene_variant 0.55 rifampicin
rpoA 3878788 c.-281G>C upstream_gene_variant 0.61 rifampicin Uncertain significance
rpoA 3878806 c.-299C>G upstream_gene_variant 0.5 rifampicin
rpoA 3878809 c.-302T>C upstream_gene_variant 0.5 rifampicin
rpoA 3878853 c.-346G>A upstream_gene_variant 0.43 rifampicin
rpoA 3878860 c.-353C>T upstream_gene_variant 0.33 rifampicin
rpoA 3878914 c.-407T>C upstream_gene_variant 0.28 rifampicin Uncertain significance
rpoA 3878917 c.-410G>A upstream_gene_variant 0.27 rifampicin Uncertain significance
ddn 3986636 c.-208C>G upstream_gene_variant 0.29 delamanid
pretomanid
ddn 3986648 c.-196C>G upstream_gene_variant 0.26 delamanid
pretomanid
clpC1 4038356 c.2349T>C synonymous_variant 0.35 pyrazinamide
clpC1 4038359 c.2346A>G synonymous_variant 0.35 pyrazinamide
clpC1 4038368 c.2337T>C synonymous_variant 0.36 pyrazinamide
clpC1 4038388 c.2317T>C synonymous_variant 0.38 pyrazinamide
clpC1 4038392 c.2313C>T synonymous_variant 0.38 pyrazinamide
clpC1 4038398 c.2307G>T synonymous_variant 0.32 pyrazinamide
clpC1 4038403 c.2302T>C synonymous_variant 0.31 pyrazinamide Not assoc w R - Interim
clpC1 4038407 c.2298G>C synonymous_variant 0.38 pyrazinamide
clpC1 4038419 c.2286T>C synonymous_variant 0.33 pyrazinamide
clpC1 4038433 c.2272C>T synonymous_variant 0.3 pyrazinamide
clpC1 4038434 c.2271G>A synonymous_variant 0.29 pyrazinamide
clpC1 4038456 p.Val750Glu missense_variant 0.32 pyrazinamide
clpC1 4038460 p.Leu749Met missense_variant 0.32 pyrazinamide
clpC1 4038530 p.Glu725Asp missense_variant 0.3 pyrazinamide
clpC1 4038908 c.1797C>G synonymous_variant 0.35 pyrazinamide
clpC1 4038914 c.1791G>C synonymous_variant 0.35 pyrazinamide
clpC1 4038923 c.1780_1782delCTAinsTG frameshift_variant&synonymous_variant 0.39 pyrazinamide
clpC1 4038956 c.1749T>C synonymous_variant 0.37 pyrazinamide
clpC1 4038965 c.1740T>C synonymous_variant 0.42 pyrazinamide
clpC1 4038971 c.1734T>C synonymous_variant 0.42 pyrazinamide
clpC1 4038974 c.1731T>C synonymous_variant 0.42 pyrazinamide Not assoc w R - Interim
clpC1 4038989 c.1716T>C synonymous_variant 0.5 pyrazinamide
clpC1 4038997 c.1708T>C synonymous_variant 0.47 pyrazinamide Not assoc w R - Interim
clpC1 4039064 c.1641C>T synonymous_variant 0.5 pyrazinamide
clpC1 4039097 c.1608G>C synonymous_variant 0.5 pyrazinamide
clpC1 4039103 c.1602T>C synonymous_variant 0.38 pyrazinamide
clpC1 4039106 c.1599G>C synonymous_variant 0.41 pyrazinamide
clpC1 4039112 c.1593C>G synonymous_variant 0.41 pyrazinamide
clpC1 4039121 c.1584T>C synonymous_variant 0.36 pyrazinamide
clpC1 4039442 c.1263A>G synonymous_variant 0.44 pyrazinamide
clpC1 4039454 c.1251A>G synonymous_variant 0.4 pyrazinamide Not assoc w R - Interim
clpC1 4039463 c.1242C>G synonymous_variant 0.4 pyrazinamide
clpC1 4039466 c.1239T>C synonymous_variant 0.4 pyrazinamide
clpC1 4039469 c.1236T>C synonymous_variant 0.4 pyrazinamide
clpC1 4039481 c.1224T>G synonymous_variant 0.38 pyrazinamide Not assoc w R - Interim
clpC1 4039517 c.1188C>G synonymous_variant 0.46 pyrazinamide
clpC1 4039610 c.1095G>C synonymous_variant 0.59 pyrazinamide
clpC1 4039616 c.1089G>C synonymous_variant 0.52 pyrazinamide
clpC1 4039625 c.1080G>A synonymous_variant 0.4 pyrazinamide
clpC1 4039661 c.1044T>G synonymous_variant 0.42 pyrazinamide
clpC1 4039664 c.1041G>C synonymous_variant 0.42 pyrazinamide
clpC1 4039694 c.1011G>C synonymous_variant 0.32 pyrazinamide
clpC1 4039898 c.807C>G synonymous_variant 0.29 pyrazinamide
clpC1 4039928 c.775_777delAGCinsTCG synonymous_variant 0.26 pyrazinamide
clpC1 4039931 c.774T>C synonymous_variant 0.29 pyrazinamide
clpC1 4039937 c.768G>C synonymous_variant 0.21 pyrazinamide
clpC1 4039946 c.759A>C synonymous_variant 0.22 pyrazinamide
clpC1 4039952 c.753T>C synonymous_variant 0.29 pyrazinamide
clpC1 4039979 c.726C>G synonymous_variant 0.44 pyrazinamide
clpC1 4039991 c.714G>C synonymous_variant 0.28 pyrazinamide
clpC1 4040033 c.672G>C synonymous_variant 0.43 pyrazinamide
clpC1 4040036 c.669C>G synonymous_variant 0.43 pyrazinamide
clpC1 4040105 c.600C>G synonymous_variant 0.53 pyrazinamide
clpC1 4040444 c.261C>T synonymous_variant 0.32 pyrazinamide
clpC1 4040450 c.255A>G synonymous_variant 0.29 pyrazinamide Not assoc w R - Interim
clpC1 4040459 c.246C>G synonymous_variant 0.29 pyrazinamide
clpC1 4040465 c.240T>C synonymous_variant 0.29 pyrazinamide
clpC1 4040471 c.234T>C synonymous_variant 0.29 pyrazinamide Not assoc w R - Interim
clpC1 4040477 c.228G>C synonymous_variant 0.33 pyrazinamide
clpC1 4040480 c.225T>G synonymous_variant 0.33 pyrazinamide
clpC1 4040517 p.Val63Ala missense_variant 0.62 pyrazinamide Not assoc w R - Interim
panD 4044818 c.-538_-537delCGinsAC upstream_gene_variant 0.28 pyrazinamide
glpK 4138377 p.Val460Ala missense_variant 0.85 ethambutol Not assoc w R
moxifloxacin Not assoc w R
streptomycin Not assoc w R
levofloxacin Not assoc w R
rifampicin Not assoc w R
isoniazid Not assoc w R
glpK 4138757 c.999A>G synonymous_variant 0.35 ethambutol
moxifloxacin
streptomycin
levofloxacin
rifampicin
isoniazid
embC 4240671 p.Thr270Ile missense_variant 0.8 ethambutol Not assoc w R
embC 4241140 c.1278A>G synonymous_variant 0.38 ethambutol Not assoc w R - Interim
embC 4241146 c.1284C>G synonymous_variant 0.39 ethambutol
embC 4241158 c.1296T>C synonymous_variant 0.33 ethambutol
embC 4241161 c.1299C>G synonymous_variant 0.33 ethambutol Not assoc w R - Interim
embC 4241162 c.1300T>C synonymous_variant 0.33 ethambutol
embC 4241170 c.1308G>C synonymous_variant 0.34 ethambutol
embC 4241173 c.1311C>T synonymous_variant 0.33 ethambutol
embC 4242643 c.2781C>T synonymous_variant 1.0 ethambutol Not assoc w R
embA 4243848 p.Val206Met missense_variant 0.89 ethambutol Not assoc w R
embA 4245083 c.1851A>C synonymous_variant 0.42 ethambutol
embA 4245089 c.1857G>C synonymous_variant 0.4 ethambutol
embA 4245092 c.1860C>G synonymous_variant 0.42 ethambutol
embA 4245101 c.1869G>C synonymous_variant 0.43 ethambutol
embA 4245137 c.1905T>C synonymous_variant 0.44 ethambutol
embA 4245146 c.1914G>A synonymous_variant 0.48 ethambutol
embA 4245149 c.1917C>G synonymous_variant 0.52 ethambutol
embA 4245153 p.Ile641Val missense_variant 0.41 ethambutol
embA 4245182 c.1950T>C synonymous_variant 0.41 ethambutol
embA 4245189 c.1957C>T synonymous_variant 0.43 ethambutol
embA 4245693 p.Ile821Val missense_variant 0.27 ethambutol
embB 4245701 c.-813G>C upstream_gene_variant 0.27 ethambutol
embB 4245726 c.-788T>C upstream_gene_variant 0.23 ethambutol
embB 4245737 c.-777A>C upstream_gene_variant 0.28 ethambutol
embB 4245740 c.-774T>C upstream_gene_variant 0.28 ethambutol
embB 4245764 c.-750G>C upstream_gene_variant 0.23 ethambutol
embA 4245969 p.Pro913Ser missense_variant 0.88 ethambutol Not assoc w R
embB 4247356 c.843C>T synonymous_variant 0.82 ethambutol Not assoc w R - Interim
embB 4247539 c.1026T>C synonymous_variant 0.24 ethambutol
embB 4247646 p.Glu378Ala missense_variant 0.89 ethambutol Not assoc w R
embB 4247746 c.1233C>T synonymous_variant 0.29 ethambutol
embB 4247761 c.1248T>C synonymous_variant 0.23 ethambutol
embB 4247773 c.1260G>A synonymous_variant 0.21 ethambutol
embB 4247776 c.1263G>T synonymous_variant 0.27 ethambutol
embB 4247797 c.1284C>G synonymous_variant 0.3 ethambutol
embB 4247800 c.1287A>T synonymous_variant 0.3 ethambutol
embB 4247803 c.1290G>C synonymous_variant 0.3 ethambutol
embB 4247815 c.1302C>G synonymous_variant 0.32 ethambutol
embB 4247819 c.1306_1308delGTTinsAC frameshift_variant&missense_variant 0.37 ethambutol
embB 4247830 c.1317A>G synonymous_variant 0.35 ethambutol Not assoc w R - Interim
embB 4247836 c.1323A>G synonymous_variant 0.35 ethambutol Not assoc w R - Interim
embB 4248070 c.1557T>C synonymous_variant 0.24 ethambutol
embB 4248085 c.1572T>C synonymous_variant 0.24 ethambutol
embB 4248097 c.1584C>G synonymous_variant 0.3 ethambutol
embB 4248130 c.1617G>C synonymous_variant 0.36 ethambutol
embB 4248133 c.1620C>G synonymous_variant 0.36 ethambutol
embB 4248139 c.1626C>G synonymous_variant 0.36 ethambutol
embB 4248142 c.1629T>C synonymous_variant 0.32 ethambutol
embB 4248143 c.1630T>C synonymous_variant 0.32 ethambutol
embB 4248157 c.1644A>G synonymous_variant 0.27 ethambutol Not assoc w R - Interim
embB 4248304 c.1791G>C synonymous_variant 0.27 ethambutol
embB 4248319 c.1806A>G synonymous_variant 0.26 ethambutol
embB 4248343 c.1830G>C synonymous_variant 0.27 ethambutol
ubiA 4269387 p.Glu149Asp missense_variant 0.85 ethambutol Not assoc w R
ubiA 4269606 c.228T>C synonymous_variant 0.87 ethambutol Not assoc w R
whiB6 4338441 p.Tyr27* stop_gained 0.8 capreomycin Uncertain significance
amikacin Uncertain significance
kanamycin Uncertain significance
whiB6 4338449 p.Ala25Pro missense_variant 0.79 capreomycin Uncertain significance
amikacin Uncertain significance
kanamycin Uncertain significance
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 4338603 c.-82C>T upstream_gene_variant 0.81 capreomycin Not assoc w R
amikacin Not assoc w R
kanamycin Not assoc w R
whiB6 4338732 c.-211C>T upstream_gene_variant 1.0 capreomycin
amikacin
kanamycin
gid 4407873 c.330G>T synonymous_variant 0.75 streptomycin Not assoc w R