TB-Profiler result

Run: ERR11465665
Summary

Run ID: ERR11465665

Sample name:

Date: 2024-04-14T06:42:09.405390

Number of reads: 2999224

Percentage reads mapped: 96.0

Median coverage: 65.0

Strain: lineage4.1.1.3

Spoligotype:

Drug-resistance: Other

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Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family RDs Frequency
lineage4.1 Euro-American None 0.99
lineage4.1.1.3 Euro-American (X-type) RD193 0.99
lineage4 Euro-American None 1.0
lineage4.1.1 Euro-American (X-type) None 1.0
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 rrs n.462C>T Uncertain significance Mutation from literature
fluoroquinolones
moxifloxacin
ofloxacin
levofloxacin
ciprofloxacin
aminoglycosides
amikacin
capreomycin
kanamycin
cycloserine
ethionamide
clofazimine
para-aminosalicylic_acid
delamanid fbiC c.859_861delATCinsGG Assoc w R - Interim Confers DLM-PMD cross-resistance
c.916_918delTTCinsGT 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
fbiC 1303789 c.859_861delATCinsGG frameshift_variant&missense_variant 0.2 delamanid Assoc w R - Interim Confers DLM-PMD cross-resistance
pretomanid Assoc w R - Interim Confers DLM-PMD cross-resistance
fbiC 1303846 c.916_918delTTCinsGT frameshift_variant&missense_variant 0.18 delamanid Assoc w R - Interim Confers DLM-PMD cross-resistance
pretomanid Assoc w R - Interim Confers DLM-PMD cross-resistance
rrs 1472307 n.462C>T non_coding_transcript_exon_variant 0.23 streptomycin Uncertain significance Mutation from literature
Non-Associated Mutations: This table reports mutations found in candidate resistance genes which have not been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs Confidence
gyrB 4982 c.-258C>G upstream_gene_variant 1.0 levofloxacin
moxifloxacin
gyrB 6130 c.891T>C synonymous_variant 0.14 levofloxacin
moxifloxacin
gyrA 7136 c.-166T>C upstream_gene_variant 0.16 levofloxacin
moxifloxacin
gyrB 7153 c.1914G>C synonymous_variant 0.15 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 7178 c.-124T>C upstream_gene_variant 0.16 levofloxacin
moxifloxacin
gyrA 7362 p.Glu21Gln missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 7585 p.Ser95Thr missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 7760 c.459C>T synonymous_variant 0.13 levofloxacin
moxifloxacin
gyrA 7763 c.462T>C synonymous_variant 0.13 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 9304 p.Gly668Asp missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
mshA 575566 c.219G>A synonymous_variant 1.0 ethionamide Not assoc w R - Interim
isoniazid Not assoc w R - Interim
ccsA 620362 p.Ala158Thr missense_variant 0.14 capreomycin
amikacin
kanamycin
Rv0565c 657269 p.Ser68Pro missense_variant 0.98 ethionamide Uncertain significance
nusG 734532 c.279A>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
nusG 734541 c.288A>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
nusG 734559 c.306T>C synonymous_variant 0.18 rifampicin
nusG 734580 c.327T>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
nusG 734589 c.336G>C synonymous_variant 0.18 rifampicin
nusG 734596 c.343T>C synonymous_variant 0.15 rifampicin
nusG 734610 c.357C>G synonymous_variant 0.18 rifampicin
nusG 734625 c.372T>C synonymous_variant 0.13 rifampicin
rpoB 760181 c.375T>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoB 760184 c.378A>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 760196 c.390C>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 760223 c.417T>C synonymous_variant 0.16 rifampicin
rpoB 760235 c.429T>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoB 760280 c.474C>A synonymous_variant 0.15 rifampicin
rpoB 760283 c.477G>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 760298 c.492G>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 760310 c.504G>C synonymous_variant 0.15 rifampicin
rpoB 760328 c.522G>C synonymous_variant 0.17 rifampicin
rpoB 760331 c.525G>C synonymous_variant 0.16 rifampicin
rpoB 760340 c.534G>T synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 760358 c.552C>G synonymous_variant 0.15 rifampicin
rpoB 760361 c.555T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 760376 p.Asp190Glu missense_variant 0.14 rifampicin Uncertain significance
rpoB 760380 p.Thr192Pro missense_variant 0.13 rifampicin
rpoB 760406 c.600G>C synonymous_variant 0.18 rifampicin
rpoB 760412 c.606C>G synonymous_variant 0.19 rifampicin
rpoB 760418 c.612G>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoB 760424 c.618C>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 760430 c.624T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 760460 c.654G>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoB 760591 p.Val262Ala missense_variant 0.14 rifampicin
rpoB 762929 c.3123G>T synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 762947 c.-423C>G upstream_gene_variant 0.15 rifampicin
rpoB 762962 c.3156C>T synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 762983 c.-387C>T upstream_gene_variant 0.15 rifampicin
rpoC 762989 c.-381G>C upstream_gene_variant 0.16 rifampicin
rpoB 763085 c.3279C>G synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 763136 c.3330C>T synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 763148 c.-222G>C upstream_gene_variant 0.16 rifampicin
rpoC 763158 c.-212C>T upstream_gene_variant 0.18 rifampicin
rpoB 763166 c.3360A>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 763169 c.-201A>G upstream_gene_variant 0.18 rifampicin
rpoC 763660 c.291T>G synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 763666 c.297G>T synonymous_variant 0.17 rifampicin
rpoC 763675 c.306C>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 763696 c.327T>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 763702 c.333C>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 763717 c.348T>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 763723 c.354G>C synonymous_variant 0.2 rifampicin
rpoC 763732 c.363C>G synonymous_variant 0.21 rifampicin
rpoC 763735 c.366G>C synonymous_variant 0.2 rifampicin
rpoC 763741 c.372C>T synonymous_variant 0.18 rifampicin
rpoC 763744 c.375G>C synonymous_variant 0.18 rifampicin
rpoC 763765 c.396T>C synonymous_variant 0.15 rifampicin
rpoC 763774 c.405G>C synonymous_variant 0.17 rifampicin
rpoC 763987 c.618C>T synonymous_variant 0.14 rifampicin
rpoC 763993 p.Ile208Met missense_variant 0.13 rifampicin
rpoC 763996 c.627T>C synonymous_variant 0.13 rifampicin
rpoC 764005 c.636G>T synonymous_variant 0.13 rifampicin
rpoC 764011 c.642T>C synonymous_variant 0.16 rifampicin
rpoC 764024 c.655_657delTTGinsCC frameshift_variant&missense_variant 0.18 rifampicin
rpoC 764032 p.Asp221Glu missense_variant 0.17 rifampicin
rpoC 764040 p.Ser224Thr missense_variant 0.16 rifampicin
rpoC 764044 c.675T>C synonymous_variant 0.17 rifampicin
rpoC 764059 c.690G>C synonymous_variant 0.18 rifampicin
rpoC 764083 c.714A>G synonymous_variant 0.19 rifampicin
rpoC 764521 c.1152T>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 764536 c.1167G>C synonymous_variant 0.17 rifampicin
rpoC 764539 c.1170C>G synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 764554 c.1185C>T synonymous_variant 0.18 rifampicin
rpoC 764560 c.1191T>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 764566 c.1197C>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 764827 c.1458G>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 764858 c.1489T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 764872 c.1503A>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 764888 c.1519T>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 764908 c.1539G>A synonymous_variant 0.16 rifampicin
rpoC 764911 c.1542A>G synonymous_variant 0.14 rifampicin
rpoC 765150 p.Gly594Glu missense_variant 0.99 rifampicin Not assoc w R
rpoC 765700 c.2331T>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 765753 p.Asp795Ala missense_variant 0.13 rifampicin Uncertain significance
rpoC 766963 c.3594T>C synonymous_variant 0.26 rifampicin Not assoc w R - Interim
rpoC 766978 c.3609C>G synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoC 766996 c.3627C>T synonymous_variant 0.34 rifampicin Not assoc w R - Interim
rpoC 767035 c.3666G>C synonymous_variant 0.38 rifampicin Not assoc w R - Interim
rpoC 767059 c.3690T>G synonymous_variant 0.37 rifampicin Not assoc w R - Interim
rpoC 767062 c.3693C>A synonymous_variant 0.37 rifampicin
rpoC 767098 c.3729T>C synonymous_variant 0.38 rifampicin Not assoc w R - Interim
rpoC 767119 c.3750A>G synonymous_variant 0.36 rifampicin Not assoc w R - Interim
rpoC 767134 c.3765C>A synonymous_variant 0.34 rifampicin
rpoC 767167 c.3798C>G synonymous_variant 0.25 rifampicin Not assoc w R - Interim
rpoC 767180 p.Ala1271Gln missense_variant 0.22 rifampicin
rpoC 767191 c.3822C>G synonymous_variant 0.2 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 781871 c.312G>C synonymous_variant 0.14 streptomycin
rpsL 781892 c.333A>G synonymous_variant 0.14 streptomycin
rpsL 781898 c.339A>T synonymous_variant 0.14 streptomycin
rpsL 781901 c.342C>T synonymous_variant 0.14 streptomycin
rpsL 781916 c.357T>C synonymous_variant 0.14 streptomycin
rplC 800219 c.-590T>C upstream_gene_variant 1.0 linezolid
fbiC 1303695 c.765T>C synonymous_variant 0.13 clofazimine
pretomanid
delamanid
fbiC 1303704 c.774T>C synonymous_variant 0.13 clofazimine
pretomanid
delamanid
fbiC 1303708 c.778T>C synonymous_variant 0.14 clofazimine
pretomanid
delamanid
fbiC 1303731 c.801A>C synonymous_variant 0.14 clofazimine
pretomanid
delamanid
fbiC 1303732 p.Ser268Ala missense_variant 0.14 clofazimine
pretomanid
delamanid
fbiC 1303746 c.816T>C synonymous_variant 0.16 clofazimine
pretomanid
delamanid
fbiC 1303749 c.819G>C synonymous_variant 0.15 clofazimine
pretomanid
delamanid
fbiC 1303752 c.822A>G synonymous_variant 0.15 clofazimine Not assoc w R - Interim
pretomanid
delamanid Not assoc w R - Interim
fbiC 1303761 c.831T>C synonymous_variant 0.21 clofazimine
pretomanid
delamanid
fbiC 1303768 p.Ser280Ala missense_variant 0.2 clofazimine
pretomanid
delamanid
fbiC 1303785 c.855G>T synonymous_variant 0.2 clofazimine
pretomanid
delamanid
fbiC 1303797 c.867A>G synonymous_variant 0.2 clofazimine
pretomanid
delamanid
fbiC 1303818 c.888C>G synonymous_variant 0.21 clofazimine
pretomanid
delamanid
fbiC 1303854 c.924T>C synonymous_variant 0.16 clofazimine
pretomanid
delamanid
fbiC 1303860 c.930A>C synonymous_variant 0.16 clofazimine
pretomanid
delamanid
rrs 1471659 n.-187C>T upstream_gene_variant 1.0 streptomycin
kanamycin
capreomycin
amikacin
rrl 1473758 n.101G>T non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid
rrl 1473806 n.149C>T non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473839 n.182G>T non_coding_transcript_exon_variant 0.16 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 0.21 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474181 n.524C>T non_coding_transcript_exon_variant 0.29 capreomycin Uncertain significance
linezolid
rrl 1474356 n.699T>C non_coding_transcript_exon_variant 0.14 capreomycin Uncertain significance
linezolid
rrl 1474362 n.705A>G non_coding_transcript_exon_variant 0.2 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474376 n.719T>C non_coding_transcript_exon_variant 0.15 capreomycin
linezolid
rrl 1474427 n.770A>C non_coding_transcript_exon_variant 0.15 capreomycin
linezolid
rrl 1474429 n.772G>C non_coding_transcript_exon_variant 0.15 capreomycin
linezolid
rrl 1474431 n.774_775delGCinsTTTGGG non_coding_transcript_exon_variant 0.16 capreomycin
linezolid
rrl 1474435 n.780_783delGAAT non_coding_transcript_exon_variant 0.15 capreomycin
linezolid
rrl 1474639 n.982G>A non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.14 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 1474823 n.1166C>T non_coding_transcript_exon_variant 0.19 capreomycin
linezolid
rrl 1474904 n.1247G>A non_coding_transcript_exon_variant 0.22 capreomycin
linezolid
rrl 1475061 n.1404C>T non_coding_transcript_exon_variant 0.23 capreomycin Uncertain significance
linezolid
rrl 1475088 n.1431A>T non_coding_transcript_exon_variant 0.24 capreomycin
linezolid
rrl 1475291 n.1634A>C non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475315 n.1658A>T non_coding_transcript_exon_variant 0.17 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475505 n.1848G>A non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid
rrl 1475526 n.1869C>A non_coding_transcript_exon_variant 0.23 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475761 n.2104_2106delCGCinsGT non_coding_transcript_exon_variant 0.21 capreomycin
linezolid
rrl 1475765 n.2111delG non_coding_transcript_exon_variant 0.22 capreomycin
linezolid
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.26 capreomycin
linezolid
rrl 1476597 n.2940G>A non_coding_transcript_exon_variant 0.21 capreomycin Uncertain significance
linezolid
rrl 1476608 n.2951C>G non_coding_transcript_exon_variant 0.17 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476628 n.2971T>A non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476689 n.3032A>T non_coding_transcript_exon_variant 0.15 capreomycin
linezolid
rrl 1476690 n.3033C>T non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid
rrl 1476693 n.3036G>A non_coding_transcript_exon_variant 0.15 capreomycin
linezolid
rrl 1476695 n.3038T>A non_coding_transcript_exon_variant 0.15 capreomycin
linezolid
rrl 1476716 n.3059A>C non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid
rrl 1476732 n.3075T>C non_coding_transcript_exon_variant 0.14 capreomycin
linezolid
inhA 1674480 c.279T>C synonymous_variant 0.16 ethionamide
isoniazid
inhA 1674486 c.285T>C synonymous_variant 0.17 ethionamide
isoniazid
inhA 1674489 c.288G>T synonymous_variant 0.17 ethionamide
isoniazid
inhA 1674542 p.Ala114Glu missense_variant 0.16 ethionamide
isoniazid
inhA 1674549 c.348G>C synonymous_variant 0.17 ethionamide
isoniazid
inhA 1674552 c.351C>G synonymous_variant 0.17 ethionamide
isoniazid
inhA 1674555 c.354G>A synonymous_variant 0.17 ethionamide Not assoc w R - Interim
isoniazid Not assoc w R - Interim
inhA 1674561 c.360C>T synonymous_variant 0.18 ethionamide
isoniazid
rpsA 1833554 p.Thr5Ala missense_variant 0.17 pyrazinamide Uncertain significance
rpsA 1833589 c.48A>T synonymous_variant 0.21 pyrazinamide
rpsA 1833595 c.54T>G synonymous_variant 0.18 pyrazinamide
rpsA 1833604 c.63C>T synonymous_variant 0.18 pyrazinamide
rpsA 1833667 c.126C>G synonymous_variant 0.22 pyrazinamide
rpsA 1833703 c.162C>T synonymous_variant 0.15 pyrazinamide Not assoc w R - Interim
rpsA 1833928 c.387G>C synonymous_variant 0.16 pyrazinamide
rpsA 1834102 c.561T>C synonymous_variant 0.23 pyrazinamide
rpsA 1834108 c.567C>G synonymous_variant 0.26 pyrazinamide
rpsA 1834114 c.573G>C synonymous_variant 0.24 pyrazinamide
rpsA 1834144 c.603G>A synonymous_variant 0.17 pyrazinamide Not assoc w R - Interim
rpsA 1834150 c.609G>C synonymous_variant 0.16 pyrazinamide
rpsA 1834153 c.612T>C synonymous_variant 0.16 pyrazinamide
rpsA 1834154 c.613_615delAACinsCG frameshift_variant&missense_variant 0.17 pyrazinamide Uncertain significance
rpsA 1834157 c.616T>C synonymous_variant 0.17 pyrazinamide
rpsA 1834162 c.621A>G synonymous_variant 0.17 pyrazinamide Not assoc w R - Interim
rpsA 1834165 c.624A>G synonymous_variant 0.17 pyrazinamide
rpsA 1834169 p.Thr210Ala missense_variant 0.17 pyrazinamide Uncertain significance
rpsA 1834177 c.636A>C synonymous_variant 0.19 pyrazinamide Not assoc w R - Interim
rpsA 1834189 c.648G>C synonymous_variant 0.22 pyrazinamide
rpsA 1834210 c.669C>T synonymous_variant 0.19 pyrazinamide
rpsA 1834213 c.672G>A synonymous_variant 0.2 pyrazinamide
rpsA 1834222 c.681T>C synonymous_variant 0.2 pyrazinamide
rpsA 1834294 c.753G>C synonymous_variant 0.19 pyrazinamide
rpsA 1834303 c.762T>C synonymous_variant 0.19 pyrazinamide
rpsA 1834306 c.765T>C synonymous_variant 0.18 pyrazinamide
rpsA 1834345 c.804C>T synonymous_variant 0.23 pyrazinamide
rpsA 1834348 c.807T>C synonymous_variant 0.25 pyrazinamide Not assoc w R - Interim
rpsA 1834366 c.825A>G synonymous_variant 0.24 pyrazinamide Not assoc w R - Interim
rpsA 1834369 c.828C>G synonymous_variant 0.24 pyrazinamide
rpsA 1834396 c.855G>C synonymous_variant 0.31 pyrazinamide
rpsA 1834411 c.870T>C synonymous_variant 0.3 pyrazinamide
rpsA 1834417 c.876G>C synonymous_variant 0.28 pyrazinamide
rpsA 1834423 c.882G>C synonymous_variant 0.26 pyrazinamide
rpsA 1834435 c.894G>C synonymous_variant 0.24 pyrazinamide
rpsA 1834451 c.910T>C synonymous_variant 0.28 pyrazinamide
rpsA 1834468 c.927A>G synonymous_variant 0.25 pyrazinamide
rpsA 1834474 c.933C>G synonymous_variant 0.19 pyrazinamide
rpsA 1834489 c.948T>C synonymous_variant 0.26 pyrazinamide
rpsA 1834528 c.987T>C synonymous_variant 0.25 pyrazinamide
rpsA 1834534 c.993C>G synonymous_variant 0.2 pyrazinamide
rpsA 1834540 c.999G>C synonymous_variant 0.2 pyrazinamide
rpsA 1834546 c.1005T>C synonymous_variant 0.21 pyrazinamide
rpsA 1834609 c.1068T>C synonymous_variant 0.18 pyrazinamide
rpsA 1834633 c.1092A>G synonymous_variant 0.18 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
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0 clofazimine Not assoc w R
bedaquiline Not assoc w R - Interim
kasA 2518504 c.390T>C synonymous_variant 0.13 isoniazid
kasA 2518528 c.414C>G synonymous_variant 0.15 isoniazid
kasA 2518534 c.420G>C synonymous_variant 0.15 isoniazid
kasA 2518561 c.447T>C synonymous_variant 0.16 isoniazid
kasA 2518574 c.460_462delATCinsGG frameshift_variant&missense_variant 0.16 isoniazid
kasA 2518579 c.465T>C synonymous_variant 0.16 isoniazid
kasA 2518588 c.474T>G synonymous_variant 0.15 isoniazid
kasA 2518591 c.477G>C synonymous_variant 0.16 isoniazid
kasA 2518609 p.Met165Ile missense_variant 0.16 isoniazid
kasA 2518624 c.510C>G synonymous_variant 0.19 isoniazid
kasA 2518627 c.513T>C synonymous_variant 0.19 isoniazid
kasA 2518642 c.528A>G synonymous_variant 0.19 isoniazid
kasA 2518651 c.537C>G synonymous_variant 0.2 isoniazid
kasA 2518663 c.549T>C synonymous_variant 0.2 isoniazid
kasA 2518671 p.Val186Ala missense_variant 0.21 isoniazid
kasA 2518678 c.564C>T synonymous_variant 0.21 isoniazid
kasA 2518687 c.573C>T synonymous_variant 0.2 isoniazid
kasA 2518688 p.Val192Phe missense_variant 0.2 isoniazid
kasA 2518705 c.591T>G synonymous_variant 0.18 isoniazid
kasA 2518711 c.597A>G synonymous_variant 0.16 isoniazid
kasA 2518714 c.600A>T synonymous_variant 0.15 isoniazid
kasA 2518732 c.618C>G synonymous_variant 0.19 isoniazid
eis 2715620 c.-288C>T upstream_gene_variant 1.0 amikacin
kanamycin
Rv2477c 2783077 c.966T>C synonymous_variant 0.13 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783092 c.951A>G synonymous_variant 0.15 ethambutol Not assoc w R - Interim
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin Not assoc w R - Interim
amikacin
Rv2477c 2783095 c.948C>G synonymous_variant 0.15 ethambutol Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
streptomycin Not assoc w R - Interim
levofloxacin Not assoc w R - Interim
kanamycin Not assoc w R - Interim
rifampicin Not assoc w R
amikacin Not assoc w R - Interim
Rv2477c 2783098 c.945C>G synonymous_variant 0.15 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783101 c.942G>T synonymous_variant 0.16 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783116 c.927T>C synonymous_variant 0.16 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783140 c.903C>G synonymous_variant 0.2 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783149 c.894G>C synonymous_variant 0.21 ethambutol
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 2783158 c.885A>C synonymous_variant 0.19 ethambutol Not assoc w R - Interim
moxifloxacin
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 2783182 c.861C>G synonymous_variant 0.23 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783185 c.858G>C synonymous_variant 0.25 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783194 c.849A>G synonymous_variant 0.26 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783221 c.822G>C synonymous_variant 0.25 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783224 c.819C>G synonymous_variant 0.25 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783230 c.813T>G synonymous_variant 0.24 ethambutol Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
streptomycin Not assoc w R - Interim
levofloxacin Not assoc w R - Interim
kanamycin
rifampicin Not assoc w R - Interim
amikacin
Rv2477c 2783235 c.808T>C synonymous_variant 0.21 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783244 p.Thr267Ala missense_variant 0.19 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783263 c.780G>C synonymous_variant 0.19 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783278 c.765A>G synonymous_variant 0.2 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783284 c.759G>C synonymous_variant 0.2 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783289 p.Leu252Ile missense_variant 0.19 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783299 c.744A>G synonymous_variant 0.17 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783302 c.741A>G synonymous_variant 0.17 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783311 c.732T>C synonymous_variant 0.13 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783362 c.681G>C synonymous_variant 0.13 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
ald 3086788 c.-32T>C upstream_gene_variant 1.0 cycloserine
mtrB 3625065 p.Met517Leu missense_variant 1.0 bedaquiline Uncertain significance
rifampicin Not assoc w R
fbiB 3641298 c.-237G>A upstream_gene_variant 1.0 clofazimine
pretomanid
delamanid
rpoA 3877743 c.765T>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoA 3877764 c.744C>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoA 3877770 c.738A>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoA 3877776 c.732T>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoA 3877782 c.726T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoA 3877818 c.690A>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoA 3877839 c.669G>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoA 3879121 c.-614T>G upstream_gene_variant 0.15 rifampicin
rpoA 3879127 c.-620T>C upstream_gene_variant 0.14 rifampicin
rpoA 3879154 c.-647T>C upstream_gene_variant 0.13 rifampicin
clpC1 4038350 c.2355C>G synonymous_variant 0.14 pyrazinamide
clpC1 4038878 c.1827A>G synonymous_variant 0.24 pyrazinamide Not assoc w R - Interim
clpC1 4038908 c.1797C>G synonymous_variant 0.28 pyrazinamide
clpC1 4038914 c.1791G>C synonymous_variant 0.3 pyrazinamide
clpC1 4038923 c.1780_1782delCTAinsTG frameshift_variant&synonymous_variant 0.27 pyrazinamide
clpC1 4038953 c.1752A>G synonymous_variant 0.33 pyrazinamide
clpC1 4038965 c.1740T>C synonymous_variant 0.32 pyrazinamide
clpC1 4038971 c.1734T>C synonymous_variant 0.28 pyrazinamide
clpC1 4038974 c.1731T>C synonymous_variant 0.27 pyrazinamide Not assoc w R - Interim
clpC1 4038989 c.1716T>C synonymous_variant 0.33 pyrazinamide
clpC1 4038997 c.1708T>C synonymous_variant 0.33 pyrazinamide Not assoc w R - Interim
clpC1 4039022 c.1683A>G synonymous_variant 0.3 pyrazinamide
clpC1 4039064 c.1641C>T synonymous_variant 0.27 pyrazinamide
clpC1 4039103 c.1602T>C synonymous_variant 0.19 pyrazinamide
clpC1 4039106 c.1599G>C synonymous_variant 0.21 pyrazinamide
clpC1 4039112 c.1593C>G synonymous_variant 0.23 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 0.16 pyrazinamide
clpC1 4039172 c.1533A>G synonymous_variant 0.16 pyrazinamide
clpC1 4039178 c.1527G>C synonymous_variant 0.16 pyrazinamide
clpC1 4039183 c.1522T>C synonymous_variant 0.15 pyrazinamide
clpC1 4039274 c.1431G>C synonymous_variant 0.18 pyrazinamide Not assoc w R - Interim
clpC1 4039286 c.1419T>C synonymous_variant 0.18 pyrazinamide
clpC1 4039295 c.1410A>G synonymous_variant 0.17 pyrazinamide
clpC1 4039298 c.1407T>C synonymous_variant 0.17 pyrazinamide
clpC1 4039319 c.1386T>C synonymous_variant 0.15 pyrazinamide Not assoc w R - Interim
clpC1 4039322 c.1383T>C synonymous_variant 0.15 pyrazinamide
clpC1 4039328 p.Ala459Gly missense_variant 0.15 pyrazinamide
clpC1 4039331 c.1374C>G synonymous_variant 0.16 pyrazinamide
clpC1 4039338 p.Thr456Gln missense_variant 0.15 pyrazinamide
clpC1 4039346 c.1359G>C synonymous_variant 0.16 pyrazinamide
clpC1 4039361 c.1344C>G synonymous_variant 0.17 pyrazinamide
embC 4242643 c.2781C>T synonymous_variant 0.93 ethambutol Not assoc w R
embC 4242803 p.Val981Leu missense_variant 1.0 ethambutol Not assoc w R
embB 4249408 c.2895G>A synonymous_variant 1.0 ethambutol Not assoc w R
whiB6 4338595 c.-75delG upstream_gene_variant 1.0 capreomycin Not assoc w R
amikacin Not assoc w R
kanamycin Not assoc w R
whiB6 4338732 c.-211C>T upstream_gene_variant 1.0 capreomycin
amikacin
kanamycin