TB-Profiler result

Run: SRR21733183
Summary

Run ID: SRR21733183

Sample name:

Date: 2024-04-14T09:15:27.159928

Number of reads: 4328156

Percentage reads mapped: 94.82

Median coverage: 146.0

Strain: lineage1.1.2

Spoligotype:

Drug-resistance: RR-TB

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Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family RDs Frequency
lineage1.1.2 Indo-Oceanic RD239 0.97
lineage1.1 Indo-Oceanic RD239 1.0
lineage1 Indo-Oceanic RD239 0.93
Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations WHO confidence Comment
rifampicin rpoB p.Ser431Thr Assoc w R - Interim Expert rule: Non-silent variants in RRDR of rpoB
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.916_918delTTCinsGG Assoc w R - Interim Confers DLM-PMD cross-resistance
c.1078_1080delTTGinsCT 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
rpoB 761098 p.Ser431Thr missense_variant 0.17 rifampicin Assoc w R - Interim Expert rule: Non-silent variants in RRDR of rpoB
fbiC 1303846 c.916_918delTTCinsGG frameshift_variant&missense_variant 0.19 delamanid Assoc w R - Interim Confers DLM-PMD cross-resistance
pretomanid Assoc w R - Interim Confers DLM-PMD cross-resistance
fbiC 1304008 c.1078_1080delTTGinsCT frameshift_variant&synonymous_variant 0.22 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 0.36 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
dnaA 1224 c.1224C>G synonymous_variant 0.18 isoniazid
dnaA 1230 c.1230A>G synonymous_variant 0.19 isoniazid
dnaA 1254 c.1254T>C synonymous_variant 0.2 isoniazid
dnaA 1266 c.1266A>G synonymous_variant 0.19 isoniazid
dnaA 1278 c.1278T>C synonymous_variant 0.18 isoniazid
gyrB 6112 p.Met291Ile missense_variant 0.98 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrB 6124 c.885C>T synonymous_variant 0.97 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrB 6196 c.957C>T synonymous_variant 0.16 levofloxacin
moxifloxacin
gyrB 6208 c.969G>C synonymous_variant 0.18 levofloxacin
moxifloxacin
gyrB 6238 c.999G>A synonymous_variant 0.17 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrB 6244 c.1005C>G synonymous_variant 0.17 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 8401 p.Asp367Ala missense_variant 0.16 levofloxacin
moxifloxacin
gyrA 8420 c.1119T>C synonymous_variant 0.17 levofloxacin
moxifloxacin
gyrA 8426 c.1125G>C synonymous_variant 0.17 levofloxacin
moxifloxacin
gyrA 8438 c.1137C>T synonymous_variant 0.19 levofloxacin
moxifloxacin
gyrA 8452 p.Ala384Val missense_variant 0.82 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 8459 c.1158G>A synonymous_variant 0.17 levofloxacin
moxifloxacin
gyrA 8462 c.1161A>C synonymous_variant 0.2 levofloxacin
moxifloxacin
gyrA 8471 c.1170T>C synonymous_variant 0.2 levofloxacin
moxifloxacin
gyrA 8480 c.1179C>T synonymous_variant 0.2 levofloxacin
moxifloxacin
gyrA 8486 c.1185T>C synonymous_variant 0.19 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8489 c.1188A>G synonymous_variant 0.2 levofloxacin
moxifloxacin
gyrA 8513 c.1212C>G synonymous_variant 0.2 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8516 c.1215T>C synonymous_variant 0.2 levofloxacin
moxifloxacin
gyrA 8519 c.1218A>C synonymous_variant 0.2 levofloxacin
moxifloxacin
gyrA 8543 c.1242C>G synonymous_variant 0.25 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8546 c.1245T>C synonymous_variant 0.24 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8555 c.1254G>C synonymous_variant 0.24 levofloxacin
moxifloxacin
gyrA 8561 c.1260A>G synonymous_variant 0.23 levofloxacin
moxifloxacin
gyrA 8603 c.1302A>G synonymous_variant 0.24 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8619 c.1318T>C synonymous_variant 0.21 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8630 c.1329G>C synonymous_variant 0.2 levofloxacin
moxifloxacin
gyrA 8633 c.1332C>G synonymous_variant 0.21 levofloxacin
moxifloxacin
gyrA 8636 c.1335A>C synonymous_variant 0.22 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8645 c.1344C>T synonymous_variant 0.2 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8672 c.1371A>G synonymous_variant 0.19 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8693 c.1392T>C synonymous_variant 0.16 levofloxacin
moxifloxacin
gyrA 9143 c.1842T>C synonymous_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 9304 p.Gly668Asp missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 9680 c.2379G>A synonymous_variant 0.98 levofloxacin
moxifloxacin
Rv0010c 13298 p.Ile87Met missense_variant 1.0 isoniazid Not assoc w R
Rv0010c 13460 c.99T>C synonymous_variant 1.0 isoniazid Not assoc w R
fgd1 491742 c.960T>C synonymous_variant 1.0 clofazimine Not assoc w R
pretomanid
delamanid Not assoc w R - Interim
mshA 575728 c.381C>G synonymous_variant 0.17 ethionamide
isoniazid
mshA 575785 c.438T>C synonymous_variant 0.16 ethionamide
isoniazid
mshA 575803 c.456C>T synonymous_variant 0.21 ethionamide
isoniazid Not assoc w R - Interim
mshA 575806 c.459G>C synonymous_variant 0.23 ethionamide
isoniazid
mshA 575824 c.477T>A synonymous_variant 0.22 ethionamide
isoniazid
mshA 575842 c.495G>C synonymous_variant 0.21 ethionamide
isoniazid
mshA 575864 c.517T>C synonymous_variant 0.21 ethionamide
isoniazid
mshA 575878 c.531A>C synonymous_variant 0.19 ethionamide
isoniazid
Rv0565c 657578 c.-108T>C upstream_gene_variant 1.0 ethionamide
nusG 734116 c.-138T>C upstream_gene_variant 1.0 rifampicin Not assoc w R
rpoB 759546 c.-261A>G upstream_gene_variant 1.0 rifampicin Not assoc w R
rpoB 760490 c.684C>T synonymous_variant 0.93 rifampicin Not assoc w R
rpoB 760925 c.1119T>C synonymous_variant 0.17 rifampicin
rpoB 760931 c.1125C>G synonymous_variant 0.17 rifampicin
rpoB 760934 c.1128C>T synonymous_variant 0.18 rifampicin
rpoB 760946 c.1140A>G synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoB 760982 c.1176G>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 760985 c.1179G>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 760991 c.1185G>C synonymous_variant 0.16 rifampicin
rpoB 760997 c.1191G>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 761027 c.1221A>G synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 761037 c.1231T>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 761147 c.1341C>T synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 761150 c.1344A>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoB 761180 c.1374A>C synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoB 761189 c.1383T>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 761195 c.1389G>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoB 763031 c.3225T>C synonymous_variant 1.0 rifampicin Not assoc w R
rpoC 763696 c.327T>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 763717 c.348T>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 763732 c.363C>G synonymous_variant 0.18 rifampicin
rpoC 763744 c.375G>C synonymous_variant 0.16 rifampicin
rpoC 763765 c.396T>C synonymous_variant 0.19 rifampicin
rpoC 763792 p.Glu141Asp missense_variant 0.21 rifampicin
rpoC 763801 c.432C>A synonymous_variant 0.21 rifampicin
rpoC 763807 c.438T>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 763813 c.444C>G synonymous_variant 0.17 rifampicin
rpoC 763816 c.447C>G synonymous_variant 0.17 rifampicin
rpoC 763884 p.Ala172Val missense_variant 0.88 rifampicin Not assoc w R
rpoC 763886 c.517C>A synonymous_variant 0.87 rifampicin Not assoc w R
rpoC 764026 p.Leu219Phe missense_variant 0.17 rifampicin
rpoC 764040 p.Ser224Asn missense_variant 0.18 rifampicin
rpoC 764044 c.675T>C synonymous_variant 0.18 rifampicin
rpoC 764497 c.1128A>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 764521 c.1152T>C synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoC 764539 c.1170C>G synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoC 764560 c.1191T>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 764566 c.1197C>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 764577 p.Ser403Cys missense_variant 0.17 rifampicin Uncertain significance
rpoC 764791 c.1422C>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 764809 c.1440C>T synonymous_variant 0.17 rifampicin Not assoc w R
rpoC 764812 c.1443C>G synonymous_variant 0.16 rifampicin
rpoC 764815 c.1446A>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 765171 p.Pro601Leu missense_variant 1.0 rifampicin Not assoc w R
rpoC 765694 c.2325G>C synonymous_variant 0.18 rifampicin
rpoC 765700 c.2331T>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 765734 c.2365T>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 765979 c.2610C>G synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoC 765994 c.2625A>T synonymous_variant 0.26 rifampicin Not assoc w R - Interim
rpoC 766009 c.2640G>C synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoC 766012 c.2643C>G synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoC 766043 p.Gln892Glu missense_variant 0.24 rifampicin
rpoC 766083 p.Ala905Gly missense_variant 0.17 rifampicin
rpoC 766280 p.Ser971Gly missense_variant 0.17 rifampicin
rpoC 766285 c.2916C>G synonymous_variant 0.19 rifampicin
rpoC 766312 c.2943T>G synonymous_variant 0.19 rifampicin
rpoC 766315 c.2946C>G synonymous_variant 0.2 rifampicin
rpoC 766345 c.2976T>C synonymous_variant 0.22 rifampicin
rpoC 766348 c.2979A>G synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoC 766351 c.2982C>G synonymous_variant 0.22 rifampicin
rpoC 766363 c.2994G>C synonymous_variant 0.23 rifampicin
rpoC 766366 c.2997C>G synonymous_variant 0.23 rifampicin
rpoC 766381 c.3012C>T synonymous_variant 0.23 rifampicin
rpoC 766384 c.3015A>G synonymous_variant 0.23 rifampicin
rpoC 766387 c.3018C>G synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoC 766393 c.3024C>G synonymous_variant 0.22 rifampicin
rpoC 766408 c.3039C>G synonymous_variant 0.18 rifampicin
rpoC 766573 c.3204T>C synonymous_variant 0.18 rifampicin
rpoC 766585 c.3216T>C synonymous_variant 0.18 rifampicin
rpoC 766591 c.3222A>G synonymous_variant 0.2 rifampicin
rpoC 766594 c.3225G>C synonymous_variant 0.21 rifampicin
rpoC 766597 c.3228C>G synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoC 766607 p.Ile1080Leu missense_variant 0.22 rifampicin
rpoC 766621 c.3252G>A synonymous_variant 0.22 rifampicin
rpoC 766627 c.3258G>T synonymous_variant 0.22 rifampicin
rpoC 766630 c.3261G>T synonymous_variant 0.23 rifampicin
rpoC 766645 c.3276A>G synonymous_variant 0.24 rifampicin
rpoC 766651 c.3282T>C synonymous_variant 0.22 rifampicin
rpoC 766658 c.3289_3291delCGGinsGC frameshift_variant&missense_variant 0.22 rifampicin
rpoC 766666 c.3297C>G synonymous_variant 0.24 rifampicin
rpoC 766672 c.3303T>C synonymous_variant 0.25 rifampicin
rpoC 766726 c.3357T>C synonymous_variant 0.23 rifampicin
rpoC 766738 c.3369G>C synonymous_variant 0.22 rifampicin
rpoC 766765 c.3396A>C synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoC 766774 c.3405T>C synonymous_variant 0.22 rifampicin
rpoC 766804 c.3435A>G synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 766843 c.3474T>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 766861 c.3492G>C synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoC 766864 c.3495G>C synonymous_variant 0.19 rifampicin
rpoC 766894 c.3525T>C synonymous_variant 0.2 rifampicin
rpoC 766895 c.3526T>C synonymous_variant 0.2 rifampicin
rpoC 766900 c.3531T>C synonymous_variant 0.19 rifampicin
rpoC 766933 c.3564A>G synonymous_variant 0.22 rifampicin
rpoC 766945 c.3576A>G synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoC 766963 c.3594T>C synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoC 766972 c.3603G>C synonymous_variant 0.29 rifampicin
rpoC 766996 c.3627C>T synonymous_variant 0.32 rifampicin Not assoc w R - Interim
rpoC 767059 c.3690T>G synonymous_variant 0.26 rifampicin Not assoc w R - Interim
rpoC 767062 c.3693C>A synonymous_variant 0.26 rifampicin
rpoC 767098 c.3729T>C synonymous_variant 0.27 rifampicin Not assoc w R - Interim
rpoC 767119 c.3750A>G synonymous_variant 0.25 rifampicin Not assoc w R - Interim
rpoC 767134 c.3765C>A synonymous_variant 0.23 rifampicin
rpoC 767158 c.3789T>C synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoC 767167 c.3798C>T synonymous_variant 0.21 rifampicin
rpoC 767180 p.Ala1271Gln missense_variant 0.22 rifampicin
rpoC 767206 c.3837C>G synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoC 767209 c.3840T>C synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoC 767221 c.3852C>G synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 767233 c.3864T>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
mmpL5 775639 p.Ile948Val missense_variant 1.0 clofazimine Not assoc w R
bedaquiline Not assoc w R - Interim
mmpL5 776100 p.Thr794Ile missense_variant 1.0 clofazimine Not assoc w R
bedaquiline Not assoc w R - Interim
mmpL5 776395 p.Phe696Leu missense_variant 1.0 clofazimine Not assoc w R
bedaquiline Uncertain significance
rpsL 781395 c.-165T>C upstream_gene_variant 1.0 streptomycin Not assoc w R
rplC 800357 c.-452C>A upstream_gene_variant 0.99 linezolid Not assoc w R
Rv1129c 1254562 c.-28T>C upstream_gene_variant 1.0 moxifloxacin Not assoc w R
levofloxacin Not assoc w R
rifampicin Not assoc w R
isoniazid Not assoc w R
fbiC 1303789 p.Ile287Val missense_variant 0.16 clofazimine
pretomanid
delamanid
fbiC 1303794 c.864A>G synonymous_variant 0.17 clofazimine
pretomanid
delamanid
fbiC 1303818 c.888C>G synonymous_variant 0.21 clofazimine
pretomanid
delamanid
fbiC 1303845 c.915C>G synonymous_variant 0.19 clofazimine
pretomanid
delamanid
fbiC 1303854 c.924T>C synonymous_variant 0.19 clofazimine
pretomanid
delamanid
fbiC 1303860 c.930A>G synonymous_variant 0.18 clofazimine
pretomanid
delamanid
fbiC 1303869 c.939T>C synonymous_variant 0.18 clofazimine Not assoc w R - Interim
pretomanid
delamanid Not assoc w R - Interim
fbiC 1303884 c.954T>G synonymous_variant 0.21 clofazimine
pretomanid
delamanid
fbiC 1303890 c.960G>C synonymous_variant 0.21 clofazimine
pretomanid
delamanid
fbiC 1303905 c.975G>C synonymous_variant 0.22 clofazimine
pretomanid
delamanid
fbiC 1303947 c.1017T>G synonymous_variant 0.16 clofazimine
pretomanid
delamanid
fbiC 1303948 p.Gly340Arg missense_variant 0.17 clofazimine
pretomanid
delamanid
fbiC 1303980 c.1050G>C synonymous_variant 0.19 clofazimine
pretomanid
delamanid
fbiC 1303998 c.1068T>C synonymous_variant 0.22 clofazimine
pretomanid
delamanid
fbiC 1304004 c.1074A>G synonymous_variant 0.21 clofazimine
pretomanid
delamanid
fbiC 1304022 c.1092T>C synonymous_variant 0.21 clofazimine
pretomanid
delamanid
fbiC 1304040 c.1110C>G synonymous_variant 0.18 clofazimine
pretomanid
delamanid
fbiC 1304049 c.1119T>G synonymous_variant 0.18 clofazimine
pretomanid
delamanid
fbiC 1304050 c.1120T>C synonymous_variant 0.18 clofazimine
pretomanid
delamanid
fbiC 1304104 c.1174C>T synonymous_variant 0.18 clofazimine Not assoc w R - Interim
pretomanid
delamanid Not assoc w R - Interim
fbiC 1304115 c.1185A>G synonymous_variant 0.18 clofazimine
pretomanid
delamanid
embR 1417019 p.Cys110Tyr missense_variant 1.0 ethambutol Not assoc w R
embR 1417554 c.-207C>G upstream_gene_variant 1.0 ethambutol
embR 1417793 c.-446C>T upstream_gene_variant 1.0 ethambutol
atpE 1461148 c.105_111delTATCTCC frameshift_variant 0.17 bedaquiline
rrs 1471659 n.-187C>T upstream_gene_variant 1.0 streptomycin
kanamycin
capreomycin
amikacin
rrs 1472028 n.183A>G non_coding_transcript_exon_variant 0.18 streptomycin
kanamycin
capreomycin
amikacin
rrs 1472031 n.186G>A non_coding_transcript_exon_variant 0.18 streptomycin
kanamycin
capreomycin
amikacin
rrs 1472033 n.188A>G non_coding_transcript_exon_variant 0.18 streptomycin
kanamycin
capreomycin
amikacin
rrs 1472034 n.189T>C non_coding_transcript_exon_variant 0.17 streptomycin
kanamycin
capreomycin
amikacin
rrs 1472040 n.195T>C non_coding_transcript_exon_variant 0.18 streptomycin
kanamycin
capreomycin
amikacin
rrs 1472053 n.211_212delGC non_coding_transcript_exon_variant 0.19 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472061 n.216A>T non_coding_transcript_exon_variant 0.22 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472075 n.230A>G non_coding_transcript_exon_variant 0.24 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472489 n.644A>G non_coding_transcript_exon_variant 0.39 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473105 n.1260G>A non_coding_transcript_exon_variant 0.25 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473123 n.1278delAinsTT non_coding_transcript_exon_variant 0.3 streptomycin
kanamycin
capreomycin
amikacin
rrs 1473290 n.1445delCinsTT non_coding_transcript_exon_variant 0.46 streptomycin
kanamycin
capreomycin
amikacin
rrl 1474552 n.895C>T non_coding_transcript_exon_variant 0.5 capreomycin
linezolid
rrl 1474632 n.975G>T non_coding_transcript_exon_variant 0.61 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474639 n.982G>A non_coding_transcript_exon_variant 0.61 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474714 n.1058dupT non_coding_transcript_exon_variant 0.6 capreomycin
linezolid
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.58 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 0.55 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474823 n.1166C>T non_coding_transcript_exon_variant 0.58 capreomycin
linezolid
rrl 1474831 n.1174A>G non_coding_transcript_exon_variant 0.57 capreomycin Uncertain significance
linezolid
rrl 1475608 n.1951T>C non_coding_transcript_exon_variant 0.52 capreomycin Uncertain significance
linezolid
rrl 1475617 n.1960C>G non_coding_transcript_exon_variant 0.46 capreomycin
linezolid
rrl 1475625 n.1968G>C non_coding_transcript_exon_variant 0.42 capreomycin
linezolid
rrl 1475655 n.1998T>C non_coding_transcript_exon_variant 0.48 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475659 n.2002G>A non_coding_transcript_exon_variant 0.45 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.5 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476026 n.2369_2370insA non_coding_transcript_exon_variant 0.43 capreomycin
linezolid
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.42 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476215 n.2558C>T non_coding_transcript_exon_variant 0.45 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.51 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476256 n.2599A>C non_coding_transcript_exon_variant 0.53 capreomycin
linezolid
rrl 1476583 n.2926G>C non_coding_transcript_exon_variant 0.33 capreomycin
linezolid
rrl 1476597 n.2940G>A non_coding_transcript_exon_variant 0.33 capreomycin Uncertain significance
linezolid
rrl 1476628 n.2971T>A non_coding_transcript_exon_variant 0.27 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476689 n.3032A>T non_coding_transcript_exon_variant 0.18 capreomycin
linezolid
rrl 1476690 n.3033C>T non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid
rrl 1476693 n.3036G>A non_coding_transcript_exon_variant 0.18 capreomycin
linezolid
rrl 1476695 n.3038T>A non_coding_transcript_exon_variant 0.19 capreomycin
linezolid
rrl 1476726 n.3069A>G non_coding_transcript_exon_variant 0.17 capreomycin
linezolid
inhA 1674300 c.99C>G synonymous_variant 0.17 ethionamide
isoniazid
inhA 1674304 c.103_105delCAGinsGA frameshift_variant&missense_variant 0.18 ethionamide
isoniazid
inhA 1674312 c.111G>A synonymous_variant 0.22 ethionamide
isoniazid
inhA 1674315 c.114C>G synonymous_variant 0.22 ethionamide
isoniazid
inhA 1674321 c.120G>A synonymous_variant 0.26 ethionamide
isoniazid
inhA 1674342 c.141T>C synonymous_variant 0.3 ethionamide
isoniazid
inhA 1674352 p.Thr51Ala missense_variant 0.28 ethionamide Uncertain significance
isoniazid
inhA 1674367 p.Ala56Asn missense_variant 0.27 ethionamide
isoniazid
inhA 1674382 p.Leu61Ile missense_variant 0.3 ethionamide
isoniazid
inhA 1674387 c.186A>G synonymous_variant 0.29 ethionamide
isoniazid
inhA 1674400 p.Asn67Asp missense_variant 0.26 ethionamide
isoniazid
inhA 1674406 p.Glu69Lys missense_variant 0.26 ethionamide
isoniazid
inhA 1674417 c.216C>G synonymous_variant 0.2 ethionamide
isoniazid
inhA 1674419 p.Ser73Thr missense_variant 0.19 ethionamide
isoniazid
inhA 1674421 c.220T>C synonymous_variant 0.19 ethionamide
isoniazid
inhA 1674428 p.Gly76Asp missense_variant 0.2 ethionamide Uncertain significance
isoniazid Uncertain significance
inhA 1674444 c.243G>C synonymous_variant 0.2 ethionamide
isoniazid
inhA 1674450 c.249G>C synonymous_variant 0.2 ethionamide
isoniazid
inhA 1674452 p.Ala84Glu missense_variant 0.21 ethionamide
isoniazid
inhA 1674576 c.375T>C synonymous_variant 0.18 ethionamide
isoniazid
inhA 1674582 c.381T>C synonymous_variant 0.19 ethionamide
isoniazid
inhA 1674585 c.384T>G synonymous_variant 0.18 ethionamide Not assoc w R - Interim
isoniazid Not assoc w R - Interim
inhA 1674589 p.Met130Leu missense_variant 0.2 ethionamide
isoniazid
inhA 1674624 c.423A>C synonymous_variant 0.21 ethionamide
isoniazid
inhA 1674627 c.426T>C synonymous_variant 0.21 ethionamide
isoniazid
inhA 1674628 p.Ser143Gly missense_variant 0.22 ethionamide
isoniazid
inhA 1674655 c.454_456delAGCinsTCG synonymous_variant 0.2 ethionamide
isoniazid
inhA 1674660 c.459G>C synonymous_variant 0.19 ethionamide
isoniazid
inhA 1674663 c.462G>C synonymous_variant 0.19 ethionamide
isoniazid
inhA 1674702 c.501G>T synonymous_variant 0.23 ethionamide
isoniazid
inhA 1674703 c.502T>C synonymous_variant 0.23 ethionamide
isoniazid
inhA 1674714 c.513C>G synonymous_variant 0.22 ethionamide
isoniazid
inhA 1674718 c.517A>C synonymous_variant 0.21 ethionamide
isoniazid
inhA 1674729 c.528G>C synonymous_variant 0.24 ethionamide
isoniazid
inhA 1674742 p.Lys181Arg missense_variant 0.19 ethionamide
isoniazid
inhA 1674750 c.549T>C synonymous_variant 0.17 ethionamide
isoniazid
inhA 1674801 c.600T>C synonymous_variant 0.17 ethionamide
isoniazid
inhA 1674804 c.603G>C synonymous_variant 0.18 ethionamide Not assoc w R - Interim
isoniazid
rpsA 1833724 c.183C>G synonymous_variant 0.18 pyrazinamide
rpsA 1833727 c.186G>C synonymous_variant 0.17 pyrazinamide
rpsA 1833742 c.201A>G synonymous_variant 0.22 pyrazinamide
rpsA 1833745 c.204G>C synonymous_variant 0.22 pyrazinamide
rpsA 1833748 c.207C>A synonymous_variant 0.22 pyrazinamide
rpsA 1833769 c.228C>G synonymous_variant 0.21 pyrazinamide
rpsA 1833802 c.261A>G synonymous_variant 0.21 pyrazinamide
rpsA 1833811 c.270G>T synonymous_variant 0.23 pyrazinamide
rpsA 1833838 c.297G>C synonymous_variant 0.22 pyrazinamide
rpsA 1833841 c.300C>G synonymous_variant 0.23 pyrazinamide
rpsA 1833847 c.306C>G synonymous_variant 0.25 pyrazinamide
rpsA 1833856 c.315A>G synonymous_variant 0.25 pyrazinamide
rpsA 1833874 c.333T>C synonymous_variant 0.21 pyrazinamide
rpsA 1833928 c.387G>C synonymous_variant 0.22 pyrazinamide
rpsA 1833940 c.399C>G synonymous_variant 0.22 pyrazinamide
rpsA 1833979 c.438T>C synonymous_variant 0.19 pyrazinamide
rpsA 1833997 c.456G>C synonymous_variant 0.16 pyrazinamide
rpsA 1834000 c.459G>C synonymous_variant 0.17 pyrazinamide
rpsA 1834170 p.Thr210Ser missense_variant 0.17 pyrazinamide
rpsA 1834177 c.636A>C synonymous_variant 0.16 pyrazinamide Not assoc w R - Interim
rpsA 1834186 c.645C>G synonymous_variant 0.19 pyrazinamide
rpsA 1834189 c.648G>C synonymous_variant 0.19 pyrazinamide
rpsA 1834222 c.681T>C synonymous_variant 0.21 pyrazinamide
rpsA 1834231 c.690T>G synonymous_variant 0.21 pyrazinamide
rpsA 1834240 c.699T>C synonymous_variant 0.21 pyrazinamide
rpsA 1834249 c.708T>C synonymous_variant 0.2 pyrazinamide
rpsA 1834261 c.720A>G synonymous_variant 0.19 pyrazinamide Not assoc w R - Interim
rpsA 1834264 c.723G>C synonymous_variant 0.18 pyrazinamide
rpsA 1834294 c.753G>C synonymous_variant 0.2 pyrazinamide
rpsA 1834303 c.762T>G synonymous_variant 0.2 pyrazinamide
rpsA 1834306 c.765T>C synonymous_variant 0.2 pyrazinamide
rpsA 1834366 c.825A>G synonymous_variant 0.17 pyrazinamide Not assoc w R - Interim
rpsA 1834423 c.882G>C synonymous_variant 0.17 pyrazinamide
rpsA 1834451 c.910T>C synonymous_variant 0.21 pyrazinamide
rpsA 1834456 c.915T>G synonymous_variant 0.21 pyrazinamide
rpsA 1834465 c.924T>C synonymous_variant 0.22 pyrazinamide
rpsA 1834468 c.927A>G synonymous_variant 0.22 pyrazinamide
rpsA 1834489 c.948T>C synonymous_variant 0.24 pyrazinamide
rpsA 1834519 c.978G>C synonymous_variant 0.28 pyrazinamide
rpsA 1834528 c.987T>C synonymous_variant 0.27 pyrazinamide
rpsA 1834546 c.1005T>C synonymous_variant 0.3 pyrazinamide
rpsA 1834555 c.1014T>C synonymous_variant 0.32 pyrazinamide
rpsA 1834561 c.1020C>G synonymous_variant 0.32 pyrazinamide
rpsA 1834609 c.1068T>C synonymous_variant 0.27 pyrazinamide
rpsA 1834633 c.1092A>G synonymous_variant 0.25 pyrazinamide
rpsA 1834639 c.1098T>C synonymous_variant 0.24 pyrazinamide
rpsA 1834690 c.1149T>C synonymous_variant 0.17 pyrazinamide
tsnR 1853974 c.369C>T synonymous_variant 0.99 linezolid Not assoc w R
tsnR 1854045 p.Tyr147Cys missense_variant 0.99 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 1.0 streptomycin Not assoc w R
kanamycin Not assoc w R
capreomycin Not assoc w R
amikacin Not assoc w R
katG 2154724 p.Arg463Leu missense_variant 1.0 isoniazid Not assoc w R
PPE35 2167926 p.Leu896Ser missense_variant 1.0 pyrazinamide Not assoc w R
PPE35 2167983 p.Gly877Asp missense_variant 1.0 pyrazinamide Uncertain significance
PPE35 2168092 p.Ile841Val missense_variant 1.0 pyrazinamide Uncertain significance
PPE35 2168137 p.Ile826Val missense_variant 1.0 pyrazinamide
Rv1979c 2222308 p.Asp286Gly missense_variant 1.0 clofazimine Not assoc w R
bedaquiline Not assoc w R - Interim
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0 clofazimine Not assoc w R
bedaquiline Not assoc w R - Interim
kasA 2518132 c.18C>T synonymous_variant 1.0 isoniazid
ahpC 2726051 c.-142G>A upstream_gene_variant 1.0 isoniazid
folC 2747302 c.297A>G synonymous_variant 0.17 para-aminosalicylic_acid
folC 2747313 p.Thr96Ala missense_variant 0.18 para-aminosalicylic_acid
folC 2747314 c.285A>C synonymous_variant 0.18 para-aminosalicylic_acid
folC 2747341 c.258C>G synonymous_variant 0.23 para-aminosalicylic_acid
folC 2747359 c.240C>G synonymous_variant 0.23 para-aminosalicylic_acid
folC 2747395 c.204T>C synonymous_variant 0.21 para-aminosalicylic_acid
folC 2747401 c.198G>C synonymous_variant 0.21 para-aminosalicylic_acid
folC 2747407 c.192T>C synonymous_variant 0.2 para-aminosalicylic_acid
folC 2747412 p.Ser63Gly missense_variant 0.2 para-aminosalicylic_acid
folC 2747414 p.Arg62Leu missense_variant 0.19 para-aminosalicylic_acid
folC 2747416 c.183A>G synonymous_variant 0.19 para-aminosalicylic_acid
folC 2747419 c.180C>G synonymous_variant 0.19 para-aminosalicylic_acid
folC 2747425 c.174C>G synonymous_variant 0.2 para-aminosalicylic_acid
folC 2747442 c.157T>C synonymous_variant 0.17 para-aminosalicylic_acid
Rv2477c 2783520 c.523T>C synonymous_variant 0.17 ethambutol Not assoc w R - Interim
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin Not assoc w R - Interim
amikacin
Rv2477c 2783527 c.516A>G synonymous_variant 0.19 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783542 c.501G>C synonymous_variant 0.22 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783548 c.495T>C synonymous_variant 0.24 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783557 c.486T>C synonymous_variant 0.25 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783563 c.480A>G synonymous_variant 0.23 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783569 c.474C>G synonymous_variant 0.25 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783572 c.471A>G synonymous_variant 0.26 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783586 p.Ala153Pro missense_variant 0.27 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783593 c.450T>C synonymous_variant 0.31 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783605 c.438T>C synonymous_variant 0.29 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783611 c.432C>G synonymous_variant 0.29 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783620 c.423C>G synonymous_variant 0.29 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783628 p.Ala139Ser missense_variant 0.27 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783659 c.384A>G synonymous_variant 0.28 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783665 c.378A>G synonymous_variant 0.28 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783674 c.369T>C synonymous_variant 0.27 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783683 c.360A>G synonymous_variant 0.24 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783700 p.Thr115Ser missense_variant 0.21 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783710 c.333C>G synonymous_variant 0.21 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783718 c.325T>C synonymous_variant 0.2 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783719 c.324A>G synonymous_variant 0.2 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783751 p.Ile98Val missense_variant 0.21 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783761 c.282G>C synonymous_variant 0.21 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783766 p.Met93Leu missense_variant 0.2 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783767 c.276C>G synonymous_variant 0.2 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783773 c.270A>G synonymous_variant 0.21 ethambutol Not assoc w R - Interim
moxifloxacin
streptomycin Not assoc w R - Interim
levofloxacin Not assoc w R - Interim
kanamycin Not assoc w R - Interim
rifampicin Not assoc w R - Interim
amikacin
Rv2477c 2783776 c.267G>C synonymous_variant 0.21 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783779 c.264T>C synonymous_variant 0.21 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783797 p.Asp82Glu missense_variant 0.24 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783833 c.210G>C synonymous_variant 0.27 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783837 p.Thr69Ser missense_variant 0.25 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783843 p.Gly67Asp missense_variant 0.26 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783860 c.183T>C synonymous_variant 0.29 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783872 c.171G>C synonymous_variant 0.31 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783883 c.160T>C synonymous_variant 0.26 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783884 c.159T>C synonymous_variant 0.26 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783914 c.129T>C synonymous_variant 0.35 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783920 c.123G>C synonymous_variant 0.35 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783932 c.111C>G synonymous_variant 0.35 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783938 c.105T>C synonymous_variant 0.34 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783956 p.Tyr29Phe missense_variant 0.28 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783962 c.81T>C synonymous_variant 0.26 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 0.25 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2681 2996912 c.174C>T synonymous_variant 1.0 capreomycin Not assoc w R
Rv2752c 3064632 c.1560C>T synonymous_variant 1.0 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
Rv2752c 3065979 c.213T>C synonymous_variant 0.19 ethambutol
moxifloxacin
levofloxacin
rifampicin
isoniazid
Rv2752c 3065988 c.204A>G synonymous_variant 0.17 ethambutol
moxifloxacin
levofloxacin
rifampicin
isoniazid
Rv2752c 3065993 p.Val67Ile missense_variant 0.18 ethambutol Uncertain significance
moxifloxacin
levofloxacin
rifampicin Uncertain significance
isoniazid Uncertain significance
Rv2752c 3065994 c.198T>C synonymous_variant 0.18 ethambutol
moxifloxacin
levofloxacin
rifampicin
isoniazid
Rv2752c 3066002 p.Met64Leu missense_variant 0.22 ethambutol
moxifloxacin
levofloxacin
rifampicin
isoniazid
Rv2752c 3066018 c.174T>C synonymous_variant 0.2 ethambutol
moxifloxacin
levofloxacin
rifampicin
isoniazid
Rv2752c 3066024 c.168T>C synonymous_variant 0.19 ethambutol
moxifloxacin
levofloxacin
rifampicin
isoniazid
Rv2752c 3066040 p.Gly51Thr missense_variant 0.2 ethambutol
moxifloxacin
levofloxacin
rifampicin
isoniazid
Rv2752c 3066042 c.150T>C synonymous_variant 0.21 ethambutol
moxifloxacin
levofloxacin
rifampicin
isoniazid
Rv2752c 3066045 c.147T>C synonymous_variant 0.19 ethambutol
moxifloxacin
levofloxacin
rifampicin
isoniazid
Rv2752c 3066050 p.Leu48Met missense_variant 0.19 ethambutol
moxifloxacin
levofloxacin
rifampicin
isoniazid
Rv2752c 3066054 c.138T>C synonymous_variant 0.2 ethambutol
moxifloxacin
levofloxacin
rifampicin
isoniazid
Rv2752c 3066066 c.126T>C synonymous_variant 0.19 ethambutol
moxifloxacin
levofloxacin
rifampicin
isoniazid
Rv2752c 3066071 c.121T>C synonymous_variant 0.19 ethambutol
moxifloxacin
levofloxacin
rifampicin
isoniazid
Rv2752c 3066075 c.117A>G synonymous_variant 0.18 ethambutol
moxifloxacin
levofloxacin
rifampicin
isoniazid
ald 3086788 c.-32T>C upstream_gene_variant 1.0 cycloserine
Rv3083 3448466 c.-38G>A upstream_gene_variant 1.0 ethionamide Uncertain significance
Rv3083 3448714 p.Asp71His missense_variant 1.0 ethionamide Uncertain significance
lpqB 3623731 p.Ser394Thr missense_variant 0.16 bedaquiline
rifampicin
lpqB 3624094 c.817A>C synonymous_variant 0.18 bedaquiline
rifampicin
lpqB 3624100 c.811T>C synonymous_variant 0.18 bedaquiline
rifampicin
lpqB 3624101 c.810C>G synonymous_variant 0.2 bedaquiline
rifampicin
lpqB 3624107 c.804C>T synonymous_variant 0.19 bedaquiline
rifampicin Not assoc w R - Interim
lpqB 3624116 c.795A>G synonymous_variant 0.22 bedaquiline
rifampicin
lpqB 3624125 c.784_786delTTAinsCG frameshift_variant&missense_variant 0.19 bedaquiline
rifampicin Uncertain significance
lpqB 3624133 c.778A>C synonymous_variant 0.2 bedaquiline
rifampicin
lpqB 3624140 c.771G>C synonymous_variant 0.19 bedaquiline
rifampicin
lpqB 3624486 p.Asp142Gly missense_variant 1.0 bedaquiline Uncertain significance
rifampicin Not assoc w R
mtrB 3625065 p.Met517Leu missense_variant 1.0 bedaquiline Uncertain significance
rifampicin Not assoc w R
lpqB 3625117 c.-207T>G upstream_gene_variant 0.17 bedaquiline
rifampicin
lpqB 3625123 c.-213T>C upstream_gene_variant 0.18 bedaquiline
rifampicin
lpqB 3625134 c.-224T>C upstream_gene_variant 0.18 bedaquiline
rifampicin
mtrB 3625135 c.1479A>G synonymous_variant 0.18 bedaquiline Not assoc w R - Interim
rifampicin Not assoc w R - Interim
lpqB 3625138 c.-228C>G upstream_gene_variant 0.18 bedaquiline
rifampicin
lpqB 3625141 c.-231T>C upstream_gene_variant 0.19 bedaquiline
rifampicin
mtrB 3625149 p.Val489Ile missense_variant 0.2 bedaquiline
rifampicin
lpqB 3625161 c.-251T>C upstream_gene_variant 0.2 bedaquiline
rifampicin
mtrB 3625162 c.1452T>C synonymous_variant 0.19 bedaquiline Not assoc w R - Interim
rifampicin Not assoc w R - Interim
lpqB 3625183 c.-273G>C upstream_gene_variant 0.19 bedaquiline
rifampicin
lpqB 3625537 c.-627T>C upstream_gene_variant 0.16 bedaquiline
rifampicin
mtrB 3625569 c.1045T>C synonymous_variant 0.17 bedaquiline
rifampicin Not assoc w R - Interim
lpqB 3625579 c.-669A>G upstream_gene_variant 0.19 bedaquiline
rifampicin
lpqB 3625594 c.-684T>C upstream_gene_variant 0.21 bedaquiline
rifampicin
lpqB 3625602 c.-692T>C upstream_gene_variant 0.21 bedaquiline
rifampicin
lpqB 3625612 c.-702G>C upstream_gene_variant 0.23 bedaquiline
rifampicin
mtrB 3625615 p.Arg333Ala missense_variant 0.23 bedaquiline
rifampicin
lpqB 3625627 c.-717C>T upstream_gene_variant 0.23 bedaquiline
rifampicin
lpqB 3625630 c.-720C>G upstream_gene_variant 0.23 bedaquiline
rifampicin
lpqB 3625648 c.-738T>C upstream_gene_variant 0.22 bedaquiline
rifampicin
mtrB 3625656 c.958T>C synonymous_variant 0.2 bedaquiline Not assoc w R - Interim
rifampicin Not assoc w R - Interim
lpqB 3625663 c.-753G>C upstream_gene_variant 0.21 bedaquiline
rifampicin
lpqB 3625669 c.-759G>C upstream_gene_variant 0.22 bedaquiline
rifampicin
lpqB 3625687 c.-777G>C upstream_gene_variant 0.24 bedaquiline
rifampicin
lpqB 3625690 c.-780T>C upstream_gene_variant 0.23 bedaquiline
rifampicin
lpqB 3625696 c.-786A>G upstream_gene_variant 0.21 bedaquiline
rifampicin
mtrB 3625720 c.894G>C synonymous_variant 0.2 bedaquiline
rifampicin Not assoc w R - Interim
mtrB 3625729 c.885A>G synonymous_variant 0.18 bedaquiline
rifampicin Not assoc w R - Interim
mtrB 3625755 p.Ala287Thr missense_variant 0.17 bedaquiline
rifampicin Uncertain significance
mtrB 3625762 c.852A>G synonymous_variant 0.18 bedaquiline
rifampicin Not assoc w R - Interim
mtrB 3625765 c.849C>G synonymous_variant 0.18 bedaquiline
rifampicin Not assoc w R - Interim
mtrB 3625806 c.808A>C synonymous_variant 0.18 bedaquiline
rifampicin Not assoc w R - Interim
mtrB 3625807 c.807C>G synonymous_variant 0.17 bedaquiline
rifampicin Not assoc w R - Interim
mtrB 3626467 c.147G>A synonymous_variant 0.93 bedaquiline Not assoc w R - Interim
rifampicin Not assoc w R
mtrA 3626759 c.591T>C synonymous_variant 0.17 bedaquiline
rifampicin Not assoc w R - Interim
mtrA 3626774 c.574_576delAGGinsCC frameshift_variant&missense_variant 0.18 bedaquiline
rifampicin
mtrB 3626780 c.-167T>C upstream_gene_variant 0.18 bedaquiline
rifampicin
mtrB 3626783 c.-170C>G upstream_gene_variant 0.19 bedaquiline
rifampicin
mtrA 3626786 c.564A>G synonymous_variant 0.19 bedaquiline
rifampicin Not assoc w R - Interim
mtrB 3626798 c.-185T>A upstream_gene_variant 0.21 bedaquiline
rifampicin
mtrA 3626804 c.546A>G synonymous_variant 0.2 bedaquiline
rifampicin Not assoc w R - Interim
mtrA 3626846 c.504G>A synonymous_variant 0.18 bedaquiline
rifampicin Not assoc w R - Interim
mtrB 3626852 c.-239G>A upstream_gene_variant 0.19 bedaquiline
rifampicin
mtrB 3626857 c.-244T>C upstream_gene_variant 0.19 bedaquiline
rifampicin
mtrB 3626858 c.-245A>G upstream_gene_variant 0.2 bedaquiline
rifampicin
mtrB 3626876 c.-263A>G upstream_gene_variant 0.22 bedaquiline
rifampicin
mtrA 3626888 c.460_462delTTGinsCC frameshift_variant&missense_variant 0.21 bedaquiline
rifampicin
mtrB 3626891 c.-278G>C upstream_gene_variant 0.21 bedaquiline
rifampicin
mtrB 3626903 c.-290T>C upstream_gene_variant 0.22 bedaquiline
rifampicin
mtrA 3626912 c.438T>C synonymous_variant 0.2 bedaquiline
rifampicin Not assoc w R - Interim
mtrB 3626927 c.-314G>C upstream_gene_variant 0.22 bedaquiline
rifampicin
mtrB 3626930 c.-317A>G upstream_gene_variant 0.21 bedaquiline
rifampicin
mtrA 3626939 p.Glu137Asp missense_variant 0.22 bedaquiline
rifampicin
mtrB 3626942 c.-329A>C upstream_gene_variant 0.21 bedaquiline
rifampicin
mtrB 3626957 c.-344G>T upstream_gene_variant 0.21 bedaquiline
rifampicin
mtrB 3626972 c.-359A>G upstream_gene_variant 0.23 bedaquiline
rifampicin
mtrB 3626999 c.-386G>C upstream_gene_variant 0.18 bedaquiline
rifampicin
mtrB 3627008 c.-395G>C upstream_gene_variant 0.18 bedaquiline
rifampicin
mtrB 3627011 c.-398T>C upstream_gene_variant 0.18 bedaquiline
rifampicin
mtrA 3627080 c.270T>C synonymous_variant 0.16 bedaquiline
rifampicin Not assoc w R - Interim
mtrB 3627083 c.-470G>C upstream_gene_variant 0.16 bedaquiline
rifampicin
mtrB 3627110 c.-497G>C upstream_gene_variant 0.17 bedaquiline
rifampicin
mtrB 3627119 c.-506T>C upstream_gene_variant 0.16 bedaquiline
rifampicin
mtrB 3627122 c.-509T>C upstream_gene_variant 0.16 bedaquiline
rifampicin
mtrB 3627128 c.-515T>C upstream_gene_variant 0.17 bedaquiline
rifampicin
mtrB 3627131 c.-518C>G upstream_gene_variant 0.17 bedaquiline
rifampicin
mtrB 3627139 c.-526T>C upstream_gene_variant 0.18 bedaquiline
rifampicin
mtrB 3627167 c.-554T>C upstream_gene_variant 0.18 bedaquiline
rifampicin
mtrA 3627187 c.163T>C synonymous_variant 0.17 bedaquiline
rifampicin Not assoc w R - Interim
mtrA 3627188 c.160_162delTTAinsCG frameshift_variant&missense_variant 0.17 bedaquiline
rifampicin
mtrB 3627196 c.-583C>T upstream_gene_variant 0.19 bedaquiline
rifampicin
mtrA 3627227 c.123T>C synonymous_variant 0.22 bedaquiline
rifampicin Not assoc w R - Interim
mtrB 3627236 c.-623T>C upstream_gene_variant 0.23 bedaquiline
rifampicin
mtrB 3627266 c.-653A>G upstream_gene_variant 0.24 bedaquiline
rifampicin
mtrB 3627272 c.-659G>T upstream_gene_variant 0.23 bedaquiline
rifampicin
mtrB 3627296 c.-683T>C upstream_gene_variant 0.18 bedaquiline
rifampicin
mtrB 3627301 c.-688T>C upstream_gene_variant 0.18 bedaquiline
rifampicin
mtrB 3627317 c.-704T>C upstream_gene_variant 0.18 bedaquiline
rifampicin
mtrB 3627325 c.-712T>C upstream_gene_variant 0.17 bedaquiline
rifampicin
rpoA 3878022 c.486T>C synonymous_variant 0.17 rifampicin
rpoA 3878028 c.480G>C synonymous_variant 0.17 rifampicin
rpoA 3878031 c.477T>C synonymous_variant 0.17 rifampicin
rpoA 3878040 c.468T>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoA 3878046 c.462T>C synonymous_variant 0.18 rifampicin
rpoA 3878051 c.457C>A synonymous_variant 0.19 rifampicin
rpoA 3878055 c.453A>G synonymous_variant 0.21 rifampicin
rpoA 3878067 c.441C>T synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoA 3878070 c.438T>C synonymous_variant 0.19 rifampicin
rpoA 3878082 c.426T>C synonymous_variant 0.2 rifampicin
rpoA 3878103 c.405A>G synonymous_variant 0.19 rifampicin
rpoA 3878106 c.402G>C synonymous_variant 0.19 rifampicin
rpoA 3878118 c.390T>C synonymous_variant 0.17 rifampicin
rpoA 3878130 c.378C>G synonymous_variant 0.16 rifampicin
rpoA 3878271 c.237T>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoA 3878283 p.Glu75Asp missense_variant 0.21 rifampicin Uncertain significance
rpoA 3878298 c.210A>G synonymous_variant 0.23 rifampicin Not assoc w R - Interim
rpoA 3878301 c.207C>G synonymous_variant 0.23 rifampicin Not assoc w R - Interim
rpoA 3878304 c.204G>C synonymous_variant 0.24 rifampicin
rpoA 3878307 c.201C>G synonymous_variant 0.27 rifampicin
rpoA 3878313 c.195G>C synonymous_variant 0.27 rifampicin Not assoc w R - Interim
rpoA 3878322 c.186A>G synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoA 3878331 c.177A>G synonymous_variant 0.26 rifampicin Not assoc w R - Interim
rpoA 3878334 c.174T>C synonymous_variant 0.26 rifampicin Not assoc w R - Interim
rpoA 3878337 c.171T>C synonymous_variant 0.26 rifampicin Not assoc w R - Interim
rpoA 3878346 c.162T>C synonymous_variant 0.3 rifampicin
rpoA 3878364 c.144A>C synonymous_variant 0.29 rifampicin
rpoA 3878385 c.123C>G synonymous_variant 0.26 rifampicin
rpoA 3878391 c.117T>C synonymous_variant 0.27 rifampicin
rpoA 3878394 c.114G>C synonymous_variant 0.27 rifampicin
rpoA 3878415 c.93C>T synonymous_variant 0.25 rifampicin
rpoA 3878742 c.-235G>A upstream_gene_variant 0.18 rifampicin
rpoA 3878746 c.-239A>G upstream_gene_variant 0.19 rifampicin Uncertain significance
rpoA 3878749 c.-242G>C upstream_gene_variant 0.2 rifampicin
rpoA 3878758 c.-251G>C upstream_gene_variant 0.19 rifampicin
rpoA 3878764 c.-257A>G upstream_gene_variant 0.19 rifampicin
rpoA 3878785 c.-278T>C upstream_gene_variant 0.18 rifampicin
rpoA 3878788 c.-281G>C upstream_gene_variant 0.18 rifampicin Uncertain significance
rpoA 3878797 c.-290G>C upstream_gene_variant 0.19 rifampicin
rpoA 3878806 c.-299C>G upstream_gene_variant 0.17 rifampicin
rpoA 3878809 c.-302T>C upstream_gene_variant 0.16 rifampicin
rpoA 3879079 c.-572A>G upstream_gene_variant 0.17 rifampicin
rpoA 3879088 c.-581A>C upstream_gene_variant 0.18 rifampicin
rpoA 3879094 c.-587T>C upstream_gene_variant 0.16 rifampicin
clpC1 4038444 p.Ala754Lys missense_variant 0.17 pyrazinamide
clpC1 4038446 c.2259T>C synonymous_variant 0.17 pyrazinamide
clpC1 4038456 p.Val750Glu missense_variant 0.16 pyrazinamide
clpC1 4038458 c.2247G>C synonymous_variant 0.17 pyrazinamide
clpC1 4038488 c.2217C>G synonymous_variant 0.19 pyrazinamide
clpC1 4038499 p.Ser736Gly missense_variant 0.19 pyrazinamide
clpC1 4038530 p.Glu725Asp missense_variant 0.18 pyrazinamide
clpC1 4038536 c.2169C>T synonymous_variant 0.17 pyrazinamide Not assoc w R - Interim
clpC1 4038812 c.1893T>C synonymous_variant 0.21 pyrazinamide
clpC1 4038845 c.1860G>T synonymous_variant 0.22 pyrazinamide
clpC1 4038848 c.1857C>T synonymous_variant 0.23 pyrazinamide Not assoc w R - Interim
clpC1 4038878 c.1827A>G synonymous_variant 0.26 pyrazinamide Not assoc w R - Interim
clpC1 4038908 c.1797C>G synonymous_variant 0.27 pyrazinamide
clpC1 4038914 c.1791G>C synonymous_variant 0.26 pyrazinamide
clpC1 4038923 c.1782A>G synonymous_variant 0.26 pyrazinamide
clpC1 4038932 c.1773G>T synonymous_variant 0.26 pyrazinamide
clpC1 4038953 c.1752A>G synonymous_variant 0.22 pyrazinamide
clpC1 4038956 c.1749T>C synonymous_variant 0.2 pyrazinamide
clpC1 4038965 c.1740T>C synonymous_variant 0.2 pyrazinamide
clpC1 4038971 c.1734T>C synonymous_variant 0.16 pyrazinamide
clpC1 4038974 c.1731T>C synonymous_variant 0.16 pyrazinamide Not assoc w R - Interim
clpC1 4039226 c.1479T>C synonymous_variant 0.17 pyrazinamide Not assoc w R - Interim
clpC1 4039979 c.726C>G synonymous_variant 0.16 pyrazinamide
clpC1 4039991 c.714G>C synonymous_variant 0.17 pyrazinamide
clpC1 4039996 p.Glu237Gln missense_variant 0.18 pyrazinamide
clpC1 4040015 c.690G>A synonymous_variant 0.18 pyrazinamide Not assoc w R - Interim
clpC1 4040021 c.684A>C synonymous_variant 0.18 pyrazinamide Not assoc w R - Interim
clpC1 4040030 c.675C>G synonymous_variant 0.18 pyrazinamide
clpC1 4040033 c.672G>C synonymous_variant 0.18 pyrazinamide
clpC1 4040517 p.Val63Ala missense_variant 0.9 pyrazinamide Not assoc w R - Interim
panD 4044740 c.-459C>T upstream_gene_variant 0.99 pyrazinamide
glpK 4138361 c.1395C>T synonymous_variant 0.17 ethambutol Not assoc w R - Interim
moxifloxacin
streptomycin
levofloxacin
rifampicin Not assoc w R - Interim
isoniazid Not assoc w R - Interim
glpK 4138377 p.Val460Ala missense_variant 1.0 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 4138379 c.1377T>C synonymous_variant 0.16 ethambutol
moxifloxacin
streptomycin
levofloxacin
rifampicin
isoniazid
glpK 4138670 c.1086G>C synonymous_variant 0.18 ethambutol
moxifloxacin
streptomycin
levofloxacin
rifampicin
isoniazid
glpK 4138681 p.Met359Val missense_variant 0.17 ethambutol
moxifloxacin
streptomycin
levofloxacin
rifampicin
isoniazid
embC 4240671 p.Thr270Ile missense_variant 1.0 ethambutol Not assoc w R
embC 4241042 p.Asn394Asp missense_variant 0.95 ethambutol Not assoc w R
embC 4242643 c.2781C>T synonymous_variant 1.0 ethambutol Not assoc w R
embA 4243848 p.Val206Met missense_variant 1.0 ethambutol Not assoc w R
embA 4244702 c.1470C>G synonymous_variant 0.19 ethambutol
embA 4244708 c.1476C>G synonymous_variant 0.2 ethambutol
embA 4244726 p.Asp498Glu missense_variant 0.2 ethambutol
embA 4244728 p.Phe499Trp missense_variant 0.2 ethambutol
embA 4244747 c.1515T>C synonymous_variant 0.2 ethambutol Not assoc w R - Interim
embA 4244753 c.1521G>C synonymous_variant 0.22 ethambutol
embA 4244764 p.Val511Ala missense_variant 0.18 ethambutol
embA 4244771 c.1539G>C synonymous_variant 0.18 ethambutol
embA 4244780 c.1548C>G synonymous_variant 0.17 ethambutol
embA 4244786 c.1554G>C synonymous_variant 0.17 ethambutol
embA 4244802 p.Leu524Met missense_variant 0.17 ethambutol
embA 4245969 p.Pro913Ser missense_variant 1.0 ethambutol Not assoc w R
embB 4247646 p.Glu378Ala missense_variant 1.0 ethambutol Not assoc w R
embB 4249731 p.Ala1073Val missense_variant 0.94 ethambutol Uncertain significance
ubiA 4269387 p.Glu149Asp missense_variant 1.0 ethambutol Not assoc w R
ubiA 4269606 c.228T>C 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 4338603 c.-82C>T 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
gid 4407588 c.615A>G synonymous_variant 1.0 streptomycin Not assoc w R
gid 4407873 c.330G>T synonymous_variant 1.0 streptomycin Not assoc w R