TB-Profiler result

Run: ERR11465628
Summary

Run ID: ERR11465628

Sample name:

Date: 2024-10-05T04:00:00.409772

Number of reads: 3233335

Percentage reads mapped: 98.31

Median coverage: 74.0

Strain: lineage4.3.4.2.1

Spoligotype:

Drug-resistance: Sensitive

Download CSV Download TXT Download JSON
Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family RDs Frequency
lineage4.3 Euro-American (LAM) None 1.0
lineage4 Euro-American None 1.0
lineage4.3.4.2.1 Euro-American (LAM) RD174 0.97
lineage4.3.4 Euro-American (LAM) RD174 1.0
lineage4.3.4.2 Euro-American (LAM) RD174 0.98
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
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
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 6140 p.Val301Leu missense_variant 0.97 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 6547 c.-755T>C upstream_gene_variant 0.13 levofloxacin
moxifloxacin
gyrB 6551 c.1312T>C synonymous_variant 0.12 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 6556 c.-746C>G upstream_gene_variant 0.13 levofloxacin
moxifloxacin
gyrA 6571 c.-731T>C upstream_gene_variant 0.14 levofloxacin
moxifloxacin
gyrB 6577 c.1338T>C synonymous_variant 0.18 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 6583 c.-719G>C upstream_gene_variant 0.13 levofloxacin
moxifloxacin
gyrA 6586 c.-716T>C upstream_gene_variant 0.13 levofloxacin
moxifloxacin
gyrA 6592 c.-710C>T upstream_gene_variant 0.15 levofloxacin
moxifloxacin
gyrA 6610 c.-692C>G upstream_gene_variant 0.13 levofloxacin
moxifloxacin
gyrB 6793 c.1554T>C synonymous_variant 0.13 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrB 6798 p.Gly520Ala missense_variant 0.13 levofloxacin Not assoc w R
moxifloxacin Uncertain significance
gyrB 6802 c.1563G>A synonymous_variant 0.14 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrB 6811 c.1572C>T synonymous_variant 0.15 levofloxacin
moxifloxacin Not assoc w R - Interim
gyrA 6823 c.-479G>C upstream_gene_variant 0.13 levofloxacin
moxifloxacin
gyrB 6841 c.1602T>C synonymous_variant 0.13 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 6844 c.-458T>C upstream_gene_variant 0.14 levofloxacin
moxifloxacin
gyrA 6869 c.-433T>C upstream_gene_variant 0.13 levofloxacin
moxifloxacin
gyrA 6872 c.-430T>C upstream_gene_variant 0.13 levofloxacin
moxifloxacin
gyrB 6878 c.1639T>C synonymous_variant 0.13 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrB 6881 c.1642T>C synonymous_variant 0.13 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 7362 p.Glu21Gln missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 7382 c.81C>T synonymous_variant 0.16 levofloxacin
moxifloxacin
gyrA 7585 p.Ser95Thr missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 8198 c.897T>C synonymous_variant 0.13 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8261 c.960C>T synonymous_variant 0.14 levofloxacin
moxifloxacin
gyrA 9304 p.Gly668Asp missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
mshA 575821 c.474G>C synonymous_variant 0.12 isoniazid
ethionamide
ccsA 620373 c.483C>G synonymous_variant 0.12 kanamycin
capreomycin
amikacin
ccsA 620385 c.495G>C synonymous_variant 0.19 kanamycin
capreomycin
amikacin
ccsA 620388 c.498A>C synonymous_variant 0.19 kanamycin
capreomycin
amikacin
ccsA 620397 c.507C>G synonymous_variant 0.18 kanamycin
capreomycin
amikacin
ccsA 620412 c.522T>C synonymous_variant 0.18 kanamycin
capreomycin
amikacin
ccsA 620415 c.525T>C synonymous_variant 0.18 kanamycin Not assoc w R - Interim
capreomycin Not assoc w R - Interim
amikacin Not assoc w R - Interim
ccsA 620436 c.546T>G synonymous_variant 0.15 kanamycin
capreomycin
amikacin
nusG 734499 c.246G>C synonymous_variant 0.2 rifampicin
nusG 734508 c.255C>G synonymous_variant 0.17 rifampicin
rpoB 760196 c.390C>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 760310 c.504G>C synonymous_variant 0.13 rifampicin
rpoB 760316 c.510C>G synonymous_variant 0.14 rifampicin
rpoB 760415 c.609C>T synonymous_variant 0.15 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 0.18 rifampicin Not assoc w R - Interim
rpoB 760475 c.669A>G synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoB 760481 c.675G>T synonymous_variant 0.17 rifampicin
rpoB 760484 c.678A>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoB 761132 c.1326G>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 761195 c.1389G>C synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoB 761198 c.1392G>C synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoB 761217 p.Pro471Ala missense_variant 0.23 rifampicin
rpoB 761234 c.1428G>C synonymous_variant 0.23 rifampicin Not assoc w R - Interim
rpoB 761249 c.1443A>G synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoB 761255 c.1449T>G synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoB 761261 c.1455G>T synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoB 761264 c.1458C>G synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoB 761273 c.1467T>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoB 761675 c.1869G>T synonymous_variant 0.15 rifampicin
rpoB 761682 c.1876C>T synonymous_variant 0.17 rifampicin
rpoB 761687 c.1881C>T synonymous_variant 0.17 rifampicin
rpoB 761690 c.1884G>C synonymous_variant 0.17 rifampicin
rpoB 761705 c.1899C>T synonymous_variant 0.16 rifampicin
rpoB 761765 c.1959T>C synonymous_variant 0.13 rifampicin
rpoB 761813 c.2007T>C synonymous_variant 0.18 rifampicin
rpoB 761816 c.2010C>G synonymous_variant 0.19 rifampicin
rpoB 761864 c.2058G>C synonymous_variant 0.12 rifampicin Not assoc w R - Interim
rpoB 761868 p.Asp688His missense_variant 0.12 rifampicin
rpoB 761873 c.2067A>G synonymous_variant 0.13 rifampicin
rpoB 761891 c.2085G>C synonymous_variant 0.17 rifampicin
rpoB 761948 c.2142G>C synonymous_variant 0.12 rifampicin Not assoc w R - Interim
rpoB 761954 c.2148C>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 762083 c.2277T>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 762086 c.2280G>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoB 762101 c.2295C>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 762114 p.Ile770Val missense_variant 0.13 rifampicin Uncertain significance
rpoB 762122 c.2316C>T synonymous_variant 0.14 rifampicin
rpoC 762575 c.-795C>T upstream_gene_variant 0.18 rifampicin
rpoC 762581 c.-789T>C upstream_gene_variant 0.13 rifampicin
rpoC 762911 c.-459C>T upstream_gene_variant 0.16 rifampicin
rpoB 762929 c.3123G>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoB 763070 c.3264T>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoB 763085 c.3279C>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 763158 c.-212C>T upstream_gene_variant 0.15 rifampicin
rpoC 763187 c.-183C>G upstream_gene_variant 0.17 rifampicin
rpoC 763456 c.87A>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 763468 c.99G>C synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoC 763486 c.117T>G synonymous_variant 0.17 rifampicin
rpoC 763528 c.159G>A synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 763546 c.177A>G synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoC 763570 c.201G>C synonymous_variant 0.16 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 0.24 rifampicin Not assoc w R - Interim
rpoC 763615 c.246G>C synonymous_variant 0.27 rifampicin Not assoc w R - Interim
rpoC 763618 c.249C>T synonymous_variant 0.27 rifampicin
rpoC 763660 c.291T>G synonymous_variant 0.12 rifampicin Not assoc w R - Interim
rpoC 763675 c.306C>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 763732 c.363C>G synonymous_variant 0.27 rifampicin
rpoC 763741 c.372C>T synonymous_variant 0.26 rifampicin
rpoC 763744 c.375G>C synonymous_variant 0.25 rifampicin
rpoC 763765 c.396T>C synonymous_variant 0.13 rifampicin
rpoC 763792 p.Glu141Asp missense_variant 0.15 rifampicin
rpoC 763807 c.438T>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 764002 c.633C>G synonymous_variant 0.12 rifampicin
rpoC 764005 c.636G>C synonymous_variant 0.12 rifampicin Not assoc w R - Interim
rpoC 764011 c.642T>G synonymous_variant 0.15 rifampicin
rpoC 764024 c.655_657delTTGinsCTC synonymous_variant 0.26 rifampicin
rpoC 764032 p.Asp221Glu missense_variant 0.26 rifampicin
rpoC 764040 p.Ser224Asn missense_variant 0.14 rifampicin
rpoC 764044 c.675T>C synonymous_variant 0.18 rifampicin
rpoC 764071 c.702G>C synonymous_variant 0.16 rifampicin
rpoC 764072 p.Ile235Val missense_variant 0.16 rifampicin
rpoC 764134 c.765C>G synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 764161 c.792G>C synonymous_variant 0.16 rifampicin
rpoC 764248 c.879C>G synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 764266 c.897T>C synonymous_variant 0.13 rifampicin
rpoC 764278 c.909A>G synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 764284 c.915G>T synonymous_variant 0.16 rifampicin
rpoC 764285 p.Gly306Ser missense_variant 0.16 rifampicin
rpoC 764320 c.951C>T synonymous_variant 0.2 rifampicin
rpoC 764461 c.1092A>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 764485 c.1116G>C synonymous_variant 0.15 rifampicin
rpoC 764491 c.1122G>T synonymous_variant 0.15 rifampicin
rpoC 764497 c.1128A>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 764500 c.1131C>G synonymous_variant 0.19 rifampicin
rpoC 764875 c.1506C>G synonymous_variant 0.17 rifampicin
rpoC 764878 c.1509C>G synonymous_variant 0.17 rifampicin
rpoC 764902 c.1533C>G synonymous_variant 0.12 rifampicin
rpoC 764995 c.1626C>G synonymous_variant 0.92 rifampicin Not assoc w R
rpoC 765007 c.1638T>G synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 765008 c.1639T>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 765875 p.Val836Ile missense_variant 0.14 rifampicin Uncertain significance
rpoC 765886 c.2517C>G synonymous_variant 0.2 rifampicin
rpoC 765904 c.2535C>G synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoC 765937 c.2568T>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 765946 c.2577C>T synonymous_variant 0.16 rifampicin
rpoC 765947 c.2578T>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 766411 c.3042C>G synonymous_variant 0.13 rifampicin
rpoC 766423 c.3054T>C synonymous_variant 0.12 rifampicin
rpoC 766429 c.3060C>G synonymous_variant 0.14 rifampicin
rpoC 766459 c.3090G>T synonymous_variant 0.25 rifampicin
rpoC 766483 c.3114G>C synonymous_variant 0.2 rifampicin
rpoC 766484 p.Val1039Ile missense_variant 0.2 rifampicin Uncertain significance
rpoC 766489 c.3120G>A synonymous_variant 0.2 rifampicin
rpoC 766492 c.3123T>G synonymous_variant 0.2 rifampicin
rpoC 766493 p.Gly1042Asn missense_variant 0.2 rifampicin
rpoC 766537 c.3168G>A synonymous_variant 0.17 rifampicin
rpoC 766540 p.Asp1057Glu missense_variant 0.16 rifampicin
rpoC 766837 c.3468G>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 766894 c.3525T>C synonymous_variant 0.15 rifampicin
rpoC 766895 c.3526T>C synonymous_variant 0.15 rifampicin
rpoC 767023 c.3654C>T 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 777188 c.1293T>C synonymous_variant 0.12 bedaquiline
clofazimine
mmpL5 777194 c.1287A>G synonymous_variant 0.16 bedaquiline
clofazimine
mmpL5 777206 c.1275A>G synonymous_variant 0.19 bedaquiline
clofazimine
rpsL 781395 c.-165T>C upstream_gene_variant 1.0 streptomycin Not assoc w R
rpsL 781880 c.321C>G synonymous_variant 0.13 streptomycin
rpsL 781907 c.348T>C synonymous_variant 0.13 streptomycin
rpsL 781916 c.357T>C synonymous_variant 0.16 streptomycin
rpsL 781929 p.Gly124Ser missense_variant 0.15 streptomycin Uncertain significance
sigE 1364976 c.564T>C synonymous_variant 0.12 pyrazinamide Not assoc w R - Interim
sigE 1364980 c.568T>C synonymous_variant 0.12 pyrazinamide
sigE 1364984 p.Ala191Asp missense_variant 0.13 pyrazinamide
sigE 1364994 c.582G>T synonymous_variant 0.13 pyrazinamide
sigE 1365006 c.594T>C synonymous_variant 0.14 pyrazinamide
sigE 1365015 c.603G>C synonymous_variant 0.13 pyrazinamide
rrs 1471659 n.-187C>T upstream_gene_variant 1.0 kanamycin
capreomycin
streptomycin
amikacin
rrs 1471986 n.141C>T non_coding_transcript_exon_variant 0.17 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472380 n.535G>C non_coding_transcript_exon_variant 0.18 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472755 n.910G>A non_coding_transcript_exon_variant 0.28 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1472969 n.1124A>G non_coding_transcript_exon_variant 0.34 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472973 n.1128A>G non_coding_transcript_exon_variant 0.34 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472978 n.1133T>C non_coding_transcript_exon_variant 0.41 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrl 1473770 n.113T>G non_coding_transcript_exon_variant 0.18 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474174 n.517A>G non_coding_transcript_exon_variant 0.21 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474181 n.524C>T non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid
rrl 1474185 n.528G>A non_coding_transcript_exon_variant 0.17 capreomycin Uncertain significance
linezolid
rrl 1474186 n.529A>G non_coding_transcript_exon_variant 0.16 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474202 n.545T>C non_coding_transcript_exon_variant 0.33 capreomycin
linezolid
rrl 1474362 n.705A>G non_coding_transcript_exon_variant 0.17 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474753 n.1096A>G non_coding_transcript_exon_variant 0.23 capreomycin Uncertain significance
linezolid
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.3 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 0.29 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 0.28 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475031 n.1374G>T non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid
rrl 1475061 n.1404C>T non_coding_transcript_exon_variant 0.17 capreomycin Uncertain significance
linezolid
rrl 1475088 n.1431A>G non_coding_transcript_exon_variant 0.24 capreomycin
linezolid
rrl 1475315 n.1658A>T non_coding_transcript_exon_variant 0.17 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475355 n.1698C>T non_coding_transcript_exon_variant 0.23 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475505 n.1848G>A non_coding_transcript_exon_variant 0.22 capreomycin Uncertain significance
linezolid
rrl 1475526 n.1869C>A non_coding_transcript_exon_variant 0.25 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475544 n.1887A>T non_coding_transcript_exon_variant 0.2 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475545 n.1888T>G non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475707 n.2050T>G non_coding_transcript_exon_variant 0.15 capreomycin
linezolid
rrl 1475884 n.2227A>G non_coding_transcript_exon_variant 0.34 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475916 n.2259C>T non_coding_transcript_exon_variant 0.39 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.22 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1475991 n.2334T>C non_coding_transcript_exon_variant 0.23 capreomycin Uncertain significance
linezolid
rrl 1475995 n.2338G>A non_coding_transcript_exon_variant 0.23 capreomycin Uncertain significance
linezolid
rrl 1476032 n.2375C>A non_coding_transcript_exon_variant 0.41 capreomycin
linezolid
rrl 1476033 n.2376T>C non_coding_transcript_exon_variant 0.41 capreomycin Uncertain significance
linezolid
rrl 1476034 n.2377C>A non_coding_transcript_exon_variant 0.41 capreomycin Uncertain significance
linezolid
rrl 1476045 n.2388G>T non_coding_transcript_exon_variant 0.37 capreomycin Uncertain significance
linezolid
rrl 1476047 n.2390G>T non_coding_transcript_exon_variant 0.37 capreomycin
linezolid
rrl 1476049 n.2392C>T non_coding_transcript_exon_variant 0.36 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476088 n.2431A>C non_coding_transcript_exon_variant 0.26 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476165 n.2508T>A non_coding_transcript_exon_variant 0.31 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476529 n.2872A>G non_coding_transcript_exon_variant 0.14 capreomycin Uncertain significance
linezolid
rrl 1476583 n.2926G>A non_coding_transcript_exon_variant 0.21 capreomycin Uncertain significance
linezolid
inhA 1673941 c.-261G>T upstream_gene_variant 0.13 isoniazid
ethionamide
inhA 1674486 c.285T>C synonymous_variant 0.19 isoniazid
ethionamide
inhA 1674489 c.288G>C synonymous_variant 0.19 isoniazid
ethionamide
inhA 1674542 p.Ala114Glu missense_variant 0.14 isoniazid
ethionamide
inhA 1674546 c.345T>C synonymous_variant 0.14 isoniazid
ethionamide
inhA 1674555 c.354G>A synonymous_variant 0.14 isoniazid Not assoc w R - Interim
ethionamide Not assoc w R - Interim
inhA 1674561 c.360C>T synonymous_variant 0.18 isoniazid
ethionamide
inhA 1674573 c.372G>T synonymous_variant 0.17 isoniazid
ethionamide
inhA 1674582 c.381T>C synonymous_variant 0.13 isoniazid
ethionamide
inhA 1674585 c.384T>C synonymous_variant 0.13 isoniazid
ethionamide
inhA 1674589 p.Met130Leu missense_variant 0.12 isoniazid
ethionamide
inhA 1674594 c.393C>G synonymous_variant 0.13 isoniazid
ethionamide
inhA 1674602 p.Leu134Pro missense_variant 0.12 isoniazid
ethionamide
inhA 1674609 c.408G>C synonymous_variant 0.13 isoniazid
ethionamide
inhA 1674620 p.Pro140Arg missense_variant 0.12 isoniazid
ethionamide
inhA 1674627 c.426T>C synonymous_variant 0.12 isoniazid
ethionamide
inhA 1674656 p.Ser152Thr missense_variant 0.15 isoniazid
ethionamide
inhA 1674669 c.468G>C synonymous_variant 0.15 isoniazid
ethionamide
inhA 1674690 c.489C>G synonymous_variant 0.13 isoniazid
ethionamide
rpsA 1833589 c.48A>C synonymous_variant 0.15 pyrazinamide
rpsA 1833595 c.54T>G synonymous_variant 0.12 pyrazinamide
rpsA 1833661 c.120A>G synonymous_variant 0.16 pyrazinamide
rpsA 1833664 c.123C>A synonymous_variant 0.15 pyrazinamide
rpsA 1833709 c.168C>T synonymous_variant 0.13 pyrazinamide
rpsA 1833727 c.186G>C synonymous_variant 0.13 pyrazinamide
rpsA 1833739 c.198C>T synonymous_variant 0.14 pyrazinamide
rpsA 1833742 c.201A>G synonymous_variant 0.15 pyrazinamide
rpsA 1833745 c.204G>C synonymous_variant 0.14 pyrazinamide
rpsA 1833787 c.246C>G synonymous_variant 0.21 pyrazinamide
rpsA 1833790 c.249T>C synonymous_variant 0.21 pyrazinamide
rpsA 1833793 c.252C>T synonymous_variant 0.21 pyrazinamide
rpsA 1833808 c.267G>C synonymous_variant 0.19 pyrazinamide
rpsA 1833811 c.270G>T synonymous_variant 0.19 pyrazinamide
rpsA 1833829 c.288A>G synonymous_variant 0.14 pyrazinamide
rpsA 1833832 c.291G>A synonymous_variant 0.15 pyrazinamide
rpsA 1833838 c.297G>C synonymous_variant 0.14 pyrazinamide
rpsA 1833841 c.300C>G synonymous_variant 0.14 pyrazinamide
rpsA 1833862 c.321G>C synonymous_variant 0.12 pyrazinamide
rpsA 1833874 c.333T>C synonymous_variant 0.15 pyrazinamide
rpsA 1833928 c.387G>C synonymous_variant 0.22 pyrazinamide
rpsA 1833949 c.408T>C synonymous_variant 0.22 pyrazinamide
rpsA 1833952 c.411C>A synonymous_variant 0.22 pyrazinamide
rpsA 1834015 c.474G>C synonymous_variant 0.12 pyrazinamide
rpsA 1834021 c.480C>T synonymous_variant 0.19 pyrazinamide
rpsA 1834030 c.489C>G synonymous_variant 0.2 pyrazinamide
rpsA 1834069 c.528G>C synonymous_variant 0.19 pyrazinamide
rpsA 1834249 c.708T>C synonymous_variant 0.17 pyrazinamide
rpsA 1834255 c.714C>G synonymous_variant 0.15 pyrazinamide
rpsA 1834411 c.870T>G synonymous_variant 0.15 pyrazinamide
rpsA 1834429 c.888C>T synonymous_variant 0.15 pyrazinamide
rpsA 1834489 c.948T>C synonymous_variant 0.12 pyrazinamide
rpsA 1834519 c.978G>C synonymous_variant 0.15 pyrazinamide
rpsA 1834520 p.Ala327Ser missense_variant 0.15 pyrazinamide
rpsA 1834528 c.987T>C synonymous_variant 0.15 pyrazinamide
rpsA 1834531 c.990C>T synonymous_variant 0.15 pyrazinamide
rpsA 1834690 c.1149T>C synonymous_variant 0.18 pyrazinamide
rpsA 1834720 c.1179C>G 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
PPE35 2169902 p.Leu237Phe missense_variant 0.15 pyrazinamide
PPE35 2169910 p.Asn235Tyr missense_variant 0.16 pyrazinamide
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0 bedaquiline Not assoc w R - Interim
clofazimine Not assoc w R
Rv2477c 2783185 c.858G>C synonymous_variant 0.14 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
thyX 3067248 p.Thr233Ile missense_variant 1.0 para-aminosalicylic_acid
thyX 3067716 p.Ser77Thr missense_variant 0.12 para-aminosalicylic_acid
thyX 3067721 c.225T>C synonymous_variant 0.12 para-aminosalicylic_acid
thyX 3067727 c.219A>C synonymous_variant 0.12 para-aminosalicylic_acid
thyX 3067760 c.186G>C synonymous_variant 0.14 para-aminosalicylic_acid
thyA 3073868 p.Thr202Ala missense_variant 0.97 para-aminosalicylic_acid
ald 3086788 c.-32T>C upstream_gene_variant 1.0 cycloserine
Rv3236c 3612009 p.Ala370Thr missense_variant 1.0 pyrazinamide Not assoc w R
mtrB 3625065 p.Met517Leu missense_variant 1.0 rifampicin Not assoc w R
bedaquiline Uncertain significance
lpqB 3625687 c.-777G>C upstream_gene_variant 0.13 rifampicin
bedaquiline
lpqB 3625690 c.-780T>C upstream_gene_variant 0.12 rifampicin
bedaquiline
mtrB 3625699 c.915C>T synonymous_variant 0.16 rifampicin Not assoc w R - Interim
bedaquiline
mtrA 3626804 c.546A>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
bedaquiline
mtrA 3626978 p.Asp124Glu missense_variant 0.16 rifampicin Uncertain significance
bedaquiline
fbiB 3640863 c.-672C>G upstream_gene_variant 0.13 pretomanid
delamanid
clofazimine
fbiB 3640872 c.-663C>G upstream_gene_variant 0.13 pretomanid
delamanid
clofazimine
alr 3840719 c.702A>G synonymous_variant 1.0 cycloserine
rpoA 3877587 c.921A>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoA 3877593 c.915C>T synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoA 3877602 c.906C>T synonymous_variant 0.19 rifampicin
rpoA 3877656 c.852T>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoA 3877668 c.840A>G synonymous_variant 0.14 rifampicin
rpoA 3877671 c.837C>G synonymous_variant 0.13 rifampicin
rpoA 3877695 c.813C>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoA 3877809 c.699G>A 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 3877821 c.687C>T synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoA 3877848 c.660C>T synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoA 3877926 c.582G>C synonymous_variant 0.16 rifampicin
rpoA 3877929 c.579C>T synonymous_variant 0.15 rifampicin
rpoA 3877962 c.546G>T synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoA 3877971 p.Asp179Glu missense_variant 0.14 rifampicin Uncertain significance
rpoA 3878184 c.324C>G synonymous_variant 0.13 rifampicin
rpoA 3878187 c.321C>G synonymous_variant 0.14 rifampicin
rpoA 3879079 c.-572A>G upstream_gene_variant 0.15 rifampicin
rpoA 3879094 c.-587T>C upstream_gene_variant 0.13 rifampicin
clpC1 4038287 c.2418C>T synonymous_variant 1.0 pyrazinamide Not assoc w R
clpC1 4038491 c.2214C>G synonymous_variant 0.12 pyrazinamide
clpC1 4038499 p.Ser736Gly missense_variant 0.19 pyrazinamide
clpC1 4038530 p.Glu725Asp missense_variant 0.27 pyrazinamide
clpC1 4038584 c.2121G>C synonymous_variant 0.2 pyrazinamide
clpC1 4038587 c.2116_2118delCGCinsAGG synonymous_variant 0.2 pyrazinamide
clpC1 4038596 c.2109A>G synonymous_variant 0.24 pyrazinamide
clpC1 4038623 c.2082A>G synonymous_variant 0.21 pyrazinamide
clpC1 4038640 p.Asp689Asn missense_variant 0.21 pyrazinamide
clpC1 4038679 p.Pro676Ala missense_variant 0.18 pyrazinamide
clpC1 4038683 c.2022T>C synonymous_variant 0.19 pyrazinamide Not assoc w R - Interim
clpC1 4038740 c.1965G>C synonymous_variant 0.18 pyrazinamide
clpC1 4038746 c.1959C>T synonymous_variant 0.14 pyrazinamide Not assoc w R - Interim
clpC1 4038749 c.1956C>T synonymous_variant 0.14 pyrazinamide Not assoc w R - Interim
clpC1 4038764 c.1941C>G synonymous_variant 0.13 pyrazinamide
clpC1 4038767 c.1938G>C synonymous_variant 0.13 pyrazinamide
clpC1 4038773 c.1932T>C synonymous_variant 0.14 pyrazinamide
clpC1 4038782 c.1923G>C synonymous_variant 0.2 pyrazinamide
clpC1 4038812 c.1893T>C synonymous_variant 0.17 pyrazinamide
clpC1 4038815 c.1890G>A synonymous_variant 0.16 pyrazinamide
clpC1 4038842 c.1863G>C synonymous_variant 0.13 pyrazinamide
clpC1 4038953 c.1752A>G synonymous_variant 0.17 pyrazinamide
clpC1 4038965 c.1740T>C synonymous_variant 0.18 pyrazinamide
clpC1 4038997 c.1708T>C synonymous_variant 0.15 pyrazinamide Not assoc w R - Interim
clpC1 4039022 c.1683A>G synonymous_variant 0.21 pyrazinamide
clpC1 4039031 c.1674T>G synonymous_variant 0.28 pyrazinamide
clpC1 4039043 c.1662G>C synonymous_variant 0.26 pyrazinamide
clpC1 4039064 c.1641C>T synonymous_variant 0.28 pyrazinamide
clpC1 4039067 c.1638G>C synonymous_variant 0.27 pyrazinamide
clpC1 4039073 c.1632C>T synonymous_variant 0.25 pyrazinamide
clpC1 4039085 c.1620A>G synonymous_variant 0.24 pyrazinamide
clpC1 4039091 c.1614G>C synonymous_variant 0.22 pyrazinamide
clpC1 4039097 c.1608G>T synonymous_variant 0.18 pyrazinamide
clpC1 4039112 c.1593C>G synonymous_variant 0.15 pyrazinamide
clpC1 4039199 p.Ala502Glu missense_variant 0.17 pyrazinamide
clpC1 4039208 c.1497C>G synonymous_variant 0.2 pyrazinamide
clpC1 4039220 c.1485G>C synonymous_variant 0.13 pyrazinamide
clpC1 4039430 c.1275T>C synonymous_variant 0.13 pyrazinamide
clpC1 4039898 c.807C>G synonymous_variant 0.26 pyrazinamide
clpC1 4039931 c.774T>C synonymous_variant 0.14 pyrazinamide
clpC1 4039937 c.768G>C synonymous_variant 0.14 pyrazinamide
clpC1 4039946 c.759A>C synonymous_variant 0.17 pyrazinamide
clpC1 4039952 c.753T>C synonymous_variant 0.16 pyrazinamide
clpC1 4039955 c.750G>C synonymous_variant 0.16 pyrazinamide
clpC1 4040105 c.600C>G synonymous_variant 0.17 pyrazinamide
clpC1 4040291 c.414G>C synonymous_variant 0.18 pyrazinamide
clpC1 4040300 c.405C>T synonymous_variant 0.15 pyrazinamide
clpC1 4040531 c.174T>C synonymous_variant 0.14 pyrazinamide
clpC1 4040644 c.61A>C synonymous_variant 0.13 pyrazinamide
glpK 4139408 c.348T>C synonymous_variant 0.12 levofloxacin
moxifloxacin
isoniazid
streptomycin
rifampicin
ethambutol
embC 4241083 c.1221G>T synonymous_variant 0.17 ethambutol
embC 4241086 c.1224G>C synonymous_variant 0.18 ethambutol
embC 4242643 c.2781C>T synonymous_variant 1.0 ethambutol Not assoc w R
embA 4244714 c.1482C>G synonymous_variant 0.14 ethambutol
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 4408156 p.Leu16Arg missense_variant 1.0 streptomycin Not assoc w R