TB-Profiler result

Run: ERR11465714
Summary

Run ID: ERR11465714

Sample name:

Date: 2024-10-04T19:53:52.278187

Number of reads: 3900024

Percentage reads mapped: 98.9

Median coverage: 90.0

Strain: lineage1.2.2.1;lineage4.4.1.1

Spoligotype:

Drug-resistance: Other

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Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family RDs Frequency
lineage1.2.2.1 Indo-Oceanic RD239 0.39
lineage1.2.2 Indo-Oceanic RD239 0.39
lineage4.4.1 Euro-American (S-type) None 0.6
lineage4 Euro-American None 0.62
lineage4.4.1.1 Euro-American None 0.59
lineage1 Indo-Oceanic RD239 0.35
lineage4.4 Euro-American None 0.63
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
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
rrs 1472307 n.462C>T non_coding_transcript_exon_variant 0.33 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 237 c.237G>A synonymous_variant 0.39 isoniazid Not assoc w R - Interim
gyrB 4971 c.-269A>G upstream_gene_variant 0.55 levofloxacin
moxifloxacin
gyrB 5075 c.-165C>T upstream_gene_variant 0.5 levofloxacin
moxifloxacin
gyrB 6112 p.Met291Ile missense_variant 0.41 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrB 6850 c.1611C>A 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 7585 p.Ser95Thr missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 7595 c.294C>G synonymous_variant 0.14 levofloxacin
moxifloxacin
gyrA 7601 c.300C>G synonymous_variant 0.14 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 7619 c.318C>T synonymous_variant 0.23 levofloxacin
moxifloxacin
gyrA 7631 c.330G>C synonymous_variant 0.15 levofloxacin
moxifloxacin
gyrA 7637 c.336C>A synonymous_variant 0.15 levofloxacin
moxifloxacin
gyrA 7643 c.342C>G synonymous_variant 0.13 levofloxacin
moxifloxacin
gyrA 7728 c.427_429delAGGinsCGC synonymous_variant 0.21 levofloxacin
moxifloxacin
gyrA 7796 c.495G>T synonymous_variant 0.23 levofloxacin
moxifloxacin
gyrA 7799 c.498A>G synonymous_variant 0.21 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8452 p.Ala384Val missense_variant 0.39 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 8618 c.1317G>A synonymous_variant 0.15 levofloxacin
moxifloxacin
gyrA 8619 c.1318T>C synonymous_variant 0.15 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8633 c.1332C>T synonymous_variant 0.15 levofloxacin
moxifloxacin
gyrA 8636 c.1335A>C synonymous_variant 0.15 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8642 c.1341A>G synonymous_variant 0.16 levofloxacin
moxifloxacin
gyrA 8645 c.1344C>T synonymous_variant 0.16 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8655 p.Ile452Val missense_variant 0.17 levofloxacin
moxifloxacin
gyrA 8816 c.1515C>G synonymous_variant 0.12 levofloxacin
moxifloxacin
gyrA 8829 c.1528T>C synonymous_variant 0.18 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8837 c.1536C>A synonymous_variant 0.21 levofloxacin
moxifloxacin
gyrA 8852 c.1551T>C synonymous_variant 0.14 levofloxacin
moxifloxacin
gyrA 8858 c.1557T>G synonymous_variant 0.15 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8864 c.1563C>T synonymous_variant 0.14 levofloxacin
moxifloxacin
gyrA 8867 c.1566A>G synonymous_variant 0.13 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8870 c.1569G>C synonymous_variant 0.13 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8873 c.1572A>C synonymous_variant 0.13 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8915 c.1614A>G synonymous_variant 0.14 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8924 c.1623C>T synonymous_variant 0.16 levofloxacin
moxifloxacin
gyrA 9138 p.Gln613Glu missense_variant 0.6 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 9143 c.1842T>C synonymous_variant 0.39 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
Rv0010c 13298 p.Ile87Met missense_variant 0.49 isoniazid Not assoc w R
Rv0010c 13460 c.99T>C synonymous_variant 0.31 isoniazid Not assoc w R
fgd1 491060 p.Met93Thr missense_variant 0.3 pretomanid
delamanid Uncertain significance
clofazimine Uncertain significance
fgd1 491388 c.606C>G synonymous_variant 0.15 pretomanid
delamanid
clofazimine
fgd1 491391 c.609C>T synonymous_variant 0.16 pretomanid
delamanid
clofazimine
fgd1 491742 c.960T>C synonymous_variant 0.4 pretomanid
delamanid Not assoc w R - Interim
clofazimine Not assoc w R
mshA 576511 c.1164C>G synonymous_variant 0.18 isoniazid
ethionamide
mshA 576517 c.1170G>C synonymous_variant 0.18 isoniazid
ethionamide
mshA 576634 c.1287G>C synonymous_variant 0.22 isoniazid
ethionamide
ccsA 620659 p.Arg257Cys missense_variant 0.33 kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
Rv0565c 657578 c.-108T>C upstream_gene_variant 0.27 ethionamide
hadA 731747 c.-183T>C upstream_gene_variant 0.17 isoniazid
hadA 731753 c.-177A>G upstream_gene_variant 0.16 isoniazid
hadA 731774 c.-156T>C upstream_gene_variant 0.27 isoniazid
hadA 731789 c.-141A>G upstream_gene_variant 0.21 isoniazid
hadA 731798 c.-132C>G upstream_gene_variant 0.14 isoniazid
nusG 734116 c.-138T>C upstream_gene_variant 0.32 rifampicin Not assoc w R
nusG 734439 c.186C>G synonymous_variant 0.16 rifampicin
nusG 734442 c.189G>A synonymous_variant 0.16 rifampicin
nusG 734451 c.198G>C synonymous_variant 0.13 rifampicin
nusG 734460 c.207G>C synonymous_variant 0.15 rifampicin
nusG 734475 c.222T>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
nusG 734502 c.249G>A synonymous_variant 0.15 rifampicin
nusG 734505 c.252G>C synonymous_variant 0.15 rifampicin
nusG 734580 c.327T>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
nusG 734589 c.336G>C synonymous_variant 0.17 rifampicin
nusG 734895 c.642A>G synonymous_variant 0.16 rifampicin
mmaA3 737358 c.792A>C synonymous_variant 0.17 isoniazid
rpoB 760091 c.285G>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 760101 c.295T>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoB 760112 c.306T>C synonymous_variant 0.25 rifampicin
rpoB 760118 c.312T>G synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoB 760121 c.315T>C synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoB 760130 p.Asp108Glu missense_variant 0.21 rifampicin Uncertain significance
rpoB 760139 c.333A>C synonymous_variant 0.2 rifampicin
rpoB 760142 c.336C>G synonymous_variant 0.19 rifampicin
rpoB 760184 c.378A>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 760196 c.390C>G synonymous_variant 0.15 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 760358 c.552C>G synonymous_variant 0.16 rifampicin
rpoB 760361 c.555T>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 760611 c.805T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 760649 c.843G>C synonymous_variant 0.14 rifampicin
rpoB 760670 c.864G>C synonymous_variant 0.14 rifampicin
rpoB 760919 c.1113C>G synonymous_variant 0.18 rifampicin
rpoB 760928 c.1122G>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 760931 c.1125C>G synonymous_variant 0.19 rifampicin
rpoB 760946 c.1140A>G synonymous_variant 0.23 rifampicin Not assoc w R - Interim
rpoB 760970 c.1164G>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 760973 c.1167G>C synonymous_variant 0.16 rifampicin
rpoB 760982 c.1176G>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 760985 c.1179G>C synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoB 760991 c.1185G>C synonymous_variant 0.23 rifampicin
rpoB 761006 c.1200C>T synonymous_variant 0.16 rifampicin
rpoB 761015 c.1209G>C synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoB 761057 c.1251G>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 761207 c.1401C>T synonymous_variant 0.23 rifampicin
rpoB 761213 c.1407G>C synonymous_variant 0.23 rifampicin
rpoB 761510 c.1704T>C synonymous_variant 0.19 rifampicin
rpoB 761537 c.1731C>G synonymous_variant 0.26 rifampicin Not assoc w R - Interim
rpoB 761573 c.1767C>G synonymous_variant 0.31 rifampicin Not assoc w R - Interim
rpoB 761579 c.1773G>C synonymous_variant 0.25 rifampicin Not assoc w R - Interim
rpoB 761582 c.1776G>A synonymous_variant 0.26 rifampicin
rpoB 761606 c.1800C>G synonymous_variant 0.21 rifampicin
rpoB 761612 c.1806G>T synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 761615 c.1809A>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 761636 c.1830G>T synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 761675 c.1869G>C synonymous_variant 0.14 rifampicin
rpoB 761753 c.1947C>G synonymous_variant 0.13 rifampicin
rpoB 761930 c.2124G>C synonymous_variant 0.16 rifampicin
rpoB 761933 c.2127G>C synonymous_variant 0.16 rifampicin
rpoB 762029 c.2223C>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 762047 c.2241G>A synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 762053 c.2247T>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 762056 c.2250G>A synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 762062 c.2256T>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 762065 c.2259T>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 762083 c.2277T>C synonymous_variant 0.31 rifampicin Not assoc w R - Interim
rpoB 762086 c.2280G>C synonymous_variant 0.33 rifampicin Not assoc w R - Interim
rpoB 762101 c.2295C>G synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoB 762114 p.Ile770Val missense_variant 0.23 rifampicin Uncertain significance
rpoB 762131 c.2325C>G synonymous_variant 0.25 rifampicin
rpoB 762134 c.2328C>G synonymous_variant 0.25 rifampicin Not assoc w R - Interim
rpoB 762143 c.2337T>C synonymous_variant 0.19 rifampicin
rpoB 762149 c.2343G>C synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoB 762185 c.2379G>C synonymous_variant 0.23 rifampicin Not assoc w R - Interim
rpoB 762221 c.2415G>A synonymous_variant 0.18 rifampicin
rpoB 762266 c.2460T>C synonymous_variant 0.14 rifampicin
rpoC 762374 c.-996G>C upstream_gene_variant 0.12 rifampicin
rpoC 762380 c.-990T>C upstream_gene_variant 0.13 rifampicin
rpoB 762449 c.2643C>A synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 762470 c.2664G>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 762476 c.-894C>A upstream_gene_variant 0.16 rifampicin
rpoC 762491 c.-879T>G upstream_gene_variant 0.15 rifampicin
rpoC 762581 c.-789T>C upstream_gene_variant 0.16 rifampicin
rpoC 762582 c.-788T>C upstream_gene_variant 0.15 rifampicin
rpoB 763031 c.3225T>C synonymous_variant 0.47 rifampicin Not assoc w R
rpoB 763094 c.3288G>C synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoC 763100 c.-270G>A upstream_gene_variant 0.19 rifampicin
rpoB 763127 c.3321G>C synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoB 763166 c.3360A>G synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 763456 c.87A>G synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 763468 c.99G>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 763486 c.117T>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 763492 c.123G>C synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoC 763528 c.159G>A synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 763546 c.177A>G synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoC 763594 c.225C>T synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 763884 p.Ala172Val missense_variant 0.47 rifampicin Not assoc w R
rpoC 763886 c.517C>A synonymous_variant 0.52 rifampicin Not assoc w R
rpoC 764044 c.675T>C synonymous_variant 0.15 rifampicin
rpoC 764131 c.762T>A synonymous_variant 0.14 rifampicin
rpoC 764159 c.790C>T synonymous_variant 0.15 rifampicin
rpoC 764551 c.1182G>C synonymous_variant 0.18 rifampicin
rpoC 764566 c.1197C>G synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 764575 c.1206T>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 764581 c.1212T>C synonymous_variant 0.15 rifampicin
rpoC 764611 c.1242G>C synonymous_variant 0.14 rifampicin
rpoC 764746 c.1377G>A synonymous_variant 0.16 rifampicin
rpoC 764752 c.1383G>C synonymous_variant 0.26 rifampicin Not assoc w R - Interim
rpoC 764758 c.1389C>G synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoC 764764 c.1395T>C synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoC 764791 c.1422C>G synonymous_variant 0.34 rifampicin Not assoc w R - Interim
rpoC 764809 c.1440C>T synonymous_variant 0.25 rifampicin Not assoc w R
rpoC 764812 c.1443C>G synonymous_variant 0.23 rifampicin
rpoC 764815 c.1446A>G synonymous_variant 0.23 rifampicin Not assoc w R - Interim
rpoC 764824 c.1455T>C synonymous_variant 0.27 rifampicin Not assoc w R - Interim
rpoC 764858 c.1489T>C synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoC 764875 c.1506C>G synonymous_variant 0.28 rifampicin
rpoC 764878 c.1509C>T synonymous_variant 0.29 rifampicin
rpoC 764888 c.1519T>C synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoC 764893 c.1524T>C synonymous_variant 0.28 rifampicin
rpoC 764911 c.1542A>G synonymous_variant 0.28 rifampicin
rpoC 764953 c.1584G>C synonymous_variant 0.28 rifampicin
rpoC 764968 c.1599T>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
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 765040 c.1671T>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 765041 c.1672T>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 765052 c.1683C>G synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 765055 c.1686C>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 765089 c.1720T>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 765103 c.1734G>T synonymous_variant 0.14 rifampicin
rpoC 765499 c.2130C>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 766003 c.2634G>C synonymous_variant 0.15 rifampicin
rpoC 766345 c.2976T>C synonymous_variant 0.15 rifampicin
rpoC 766348 c.2979A>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 766354 c.2985C>G synonymous_variant 0.16 rifampicin
rpoC 766381 c.3012C>T synonymous_variant 0.19 rifampicin
rpoC 766384 c.3015A>G synonymous_variant 0.18 rifampicin
rpoC 766393 c.3024C>G synonymous_variant 0.17 rifampicin
rpoC 766408 c.3039C>T synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 766426 c.3057C>T synonymous_variant 0.24 rifampicin
rpoC 766429 c.3060C>G synonymous_variant 0.24 rifampicin
rpoC 766447 c.3078T>C synonymous_variant 0.13 rifampicin
rpoC 766456 c.3087C>G synonymous_variant 0.13 rifampicin
rpoC 766462 c.3093G>C synonymous_variant 0.15 rifampicin
rpoC 766726 c.3357T>C synonymous_variant 0.17 rifampicin
rpoC 766738 c.3369G>T synonymous_variant 0.16 rifampicin
rpoC 766744 c.3375G>A synonymous_variant 0.22 rifampicin
rpoC 766750 c.3381C>G synonymous_variant 0.15 rifampicin
rpoC 766753 c.3384C>T synonymous_variant 0.15 rifampicin
rpoC 766765 c.3396A>C synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoC 766774 c.3405T>C synonymous_variant 0.35 rifampicin
rpoC 766777 c.3408C>G synonymous_variant 0.35 rifampicin
rpoC 766798 c.3429C>G synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoC 766801 c.3432C>G synonymous_variant 0.29 rifampicin
rpoC 766804 c.3435A>G synonymous_variant 0.28 rifampicin Not assoc w R - Interim
rpoC 766861 c.3492G>C synonymous_variant 0.33 rifampicin Not assoc w R - Interim
rpoC 766864 c.3495G>C synonymous_variant 0.34 rifampicin
rpoC 766894 c.3525T>C synonymous_variant 0.23 rifampicin
rpoC 766895 c.3526T>C synonymous_variant 0.23 rifampicin
rpoC 766900 c.3531T>C synonymous_variant 0.22 rifampicin
rpoC 766918 c.3549C>T synonymous_variant 0.37 rifampicin Not assoc w R - Interim
rpoC 766933 c.3564A>G synonymous_variant 0.31 rifampicin
rpoC 766945 c.3576A>G synonymous_variant 0.35 rifampicin Not assoc w R - Interim
rpoC 766963 c.3594T>C synonymous_variant 0.35 rifampicin Not assoc w R - Interim
rpoC 766972 c.3603G>C synonymous_variant 0.4 rifampicin
rpoC 766996 c.3627C>T synonymous_variant 0.39 rifampicin Not assoc w R - Interim
rpoC 767033 c.3664_3666delTCGinsAGT synonymous_variant 0.39 rifampicin
rpoC 767059 c.3690T>G synonymous_variant 0.35 rifampicin Not assoc w R - Interim
rpoC 767062 c.3693C>A synonymous_variant 0.35 rifampicin
rpoC 767098 c.3729T>C synonymous_variant 0.38 rifampicin Not assoc w R - Interim
rpoC 767119 c.3750A>G synonymous_variant 0.42 rifampicin Not assoc w R - Interim
rpoC 767134 c.3765C>A synonymous_variant 0.31 rifampicin
rpoC 767221 c.3852C>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 767230 c.3861G>C synonymous_variant 0.12 rifampicin Not assoc w R - Interim
rpoC 767233 c.3864T>C synonymous_variant 0.12 rifampicin Not assoc w R - Interim
mmpL5 775639 p.Ile948Val missense_variant 1.0 bedaquiline Not assoc w R - Interim
clofazimine Not assoc w R
mmpL5 776100 p.Thr794Ile missense_variant 0.44 bedaquiline Not assoc w R - Interim
clofazimine Not assoc w R
mmpL5 777416 c.1065G>T synonymous_variant 0.48 bedaquiline Not assoc w R - Interim
clofazimine Not assoc w R - Interim
rpsL 781395 c.-165T>C upstream_gene_variant 1.0 streptomycin Not assoc w R
rpsL 781658 c.99A>G synonymous_variant 0.14 streptomycin
rpsL 781733 c.174G>C synonymous_variant 0.15 streptomycin
rpsL 781736 c.177T>C synonymous_variant 0.14 streptomycin
rplC 800357 c.-452C>A upstream_gene_variant 0.4 linezolid Not assoc w R
rplC 800498 c.-311G>A upstream_gene_variant 0.15 linezolid
rplC 800516 c.-293G>C upstream_gene_variant 0.19 linezolid
rplC 800745 c.-64_-62delCTCinsTTG upstream_gene_variant 0.16 linezolid
rplC 800759 c.-50C>T upstream_gene_variant 0.13 linezolid
rplC 800899 p.Ala31Thr missense_variant 0.47 linezolid Uncertain significance
Rv1129c 1254562 c.-28T>C upstream_gene_variant 0.32 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
isoniazid Not assoc w R
rifampicin Not assoc w R
fbiC 1304829 c.1899T>C synonymous_variant 0.15 pretomanid
delamanid
clofazimine
fbiC 1304853 c.1923C>T synonymous_variant 0.22 pretomanid
delamanid
clofazimine
fbiC 1304856 c.1926C>G synonymous_variant 0.21 pretomanid
delamanid
clofazimine
sigE 1365024 c.612T>C synonymous_variant 0.15 pyrazinamide
sigE 1365027 c.615C>T synonymous_variant 0.15 pyrazinamide
sigE 1365033 c.621G>A synonymous_variant 0.18 pyrazinamide
embR 1416628 c.720C>T synonymous_variant 0.38 ethambutol
embR 1417019 p.Cys110Tyr missense_variant 0.49 ethambutol Not assoc w R
embR 1417554 c.-207C>G upstream_gene_variant 0.31 ethambutol
embR 1417793 c.-446C>T upstream_gene_variant 0.18 ethambutol
rrs 1471659 n.-187C>T upstream_gene_variant 1.0 kanamycin
capreomycin
streptomycin
amikacin
rrs 1471842 n.-4T>G upstream_gene_variant 0.42 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.21 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472113 n.268T>C non_coding_transcript_exon_variant 0.16 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.4 kanamycin Uncertain significance
capreomycin Not assoc w R
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472300 n.455C>T non_coding_transcript_exon_variant 0.36 kanamycin
capreomycin
streptomycin
amikacin
rrs 1472489 n.644A>T non_coding_transcript_exon_variant 0.29 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472755 n.910G>A non_coding_transcript_exon_variant 0.2 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1472978 n.1133T>C non_coding_transcript_exon_variant 0.25 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473123 n.1278delAinsTT non_coding_transcript_exon_variant 0.26 kanamycin
capreomycin
streptomycin
amikacin
rrs 1473290 n.1445delCinsTT non_coding_transcript_exon_variant 0.2 kanamycin
capreomycin
streptomycin
amikacin
rrl 1473758 n.101G>T non_coding_transcript_exon_variant 0.14 capreomycin Uncertain significance
linezolid
rrl 1473806 n.149C>T non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473839 n.182G>T non_coding_transcript_exon_variant 0.27 capreomycin
linezolid
rrl 1473876 n.219G>A non_coding_transcript_exon_variant 0.26 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473899 n.242A>T non_coding_transcript_exon_variant 0.23 capreomycin
linezolid
rrl 1473923 n.266C>A non_coding_transcript_exon_variant 0.16 capreomycin
linezolid Uncertain significance
rrl 1474139 n.482C>T non_coding_transcript_exon_variant 0.16 capreomycin
linezolid
rrl 1474140 n.483C>T non_coding_transcript_exon_variant 0.16 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474151 n.494C>T non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474181 n.524C>T non_coding_transcript_exon_variant 0.27 capreomycin Uncertain significance
linezolid
rrl 1474266 n.609T>C non_coding_transcript_exon_variant 0.26 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474291 n.634_649delTTTCCTCTCCGGAGGAinsC non_coding_transcript_exon_variant 0.15 capreomycin
linezolid
rrl 1474308 n.651G>T non_coding_transcript_exon_variant 0.14 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474310 n.653T>G non_coding_transcript_exon_variant 0.14 capreomycin
linezolid
rrl 1474362 n.705A>G non_coding_transcript_exon_variant 0.27 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474412 n.756_768delACCCACACGCGCA non_coding_transcript_exon_variant 0.14 capreomycin
linezolid
rrl 1474428 n.771C>T non_coding_transcript_exon_variant 0.13 capreomycin
linezolid
rrl 1474429 n.772G>C non_coding_transcript_exon_variant 0.13 capreomycin
linezolid
rrl 1474431 n.774G>C non_coding_transcript_exon_variant 0.13 capreomycin
linezolid
rrl 1474447 n.790G>A non_coding_transcript_exon_variant 0.17 capreomycin
linezolid
rrl 1474639 n.982G>A non_coding_transcript_exon_variant 0.37 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474716 n.1059A>C non_coding_transcript_exon_variant 0.32 capreomycin
linezolid
rrl 1474794 n.1137C>A non_coding_transcript_exon_variant 0.31 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 0.33 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474831 n.1174A>G non_coding_transcript_exon_variant 0.36 capreomycin Uncertain significance
linezolid
rrl 1475355 n.1698C>T non_coding_transcript_exon_variant 0.26 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475369 n.1712G>C non_coding_transcript_exon_variant 0.33 capreomycin
linezolid
rrl 1475402 n.1745C>T non_coding_transcript_exon_variant 0.3 capreomycin
linezolid
rrl 1475429 n.1772G>A non_coding_transcript_exon_variant 0.27 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475479 n.1822C>T non_coding_transcript_exon_variant 0.31 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475480 n.1823A>T non_coding_transcript_exon_variant 0.3 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475505 n.1848G>A non_coding_transcript_exon_variant 0.38 capreomycin Uncertain significance
linezolid
rrl 1475526 n.1869C>A non_coding_transcript_exon_variant 0.29 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475573 n.1916G>A non_coding_transcript_exon_variant 0.17 capreomycin Uncertain significance
linezolid
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.28 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476215 n.2558C>T non_coding_transcript_exon_variant 0.29 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.37 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476299 n.2642C>T non_coding_transcript_exon_variant 0.37 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476580 n.2923G>A non_coding_transcript_exon_variant 0.33 capreomycin
linezolid
rrl 1476597 n.2940G>A non_coding_transcript_exon_variant 0.28 capreomycin Uncertain significance
linezolid
rrl 1476608 n.2951C>T non_coding_transcript_exon_variant 0.26 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476619 n.2962C>T non_coding_transcript_exon_variant 0.23 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476628 n.2971T>A non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid Uncertain significance
inhA 1674114 c.-88T>G upstream_gene_variant 0.21 isoniazid
ethionamide
inhA 1674117 c.-85C>G upstream_gene_variant 0.21 isoniazid
ethionamide
inhA 1674503 p.Thr101Ser missense_variant 0.14 isoniazid
ethionamide
inhA 1674546 c.345T>C synonymous_variant 0.14 isoniazid
ethionamide
inhA 1674669 c.468G>C synonymous_variant 0.14 isoniazid
ethionamide
inhA 1674718 c.517A>C synonymous_variant 0.15 isoniazid
ethionamide
rpsA 1833661 c.120A>G synonymous_variant 0.28 pyrazinamide
rpsA 1833664 c.123C>A synonymous_variant 0.28 pyrazinamide
rpsA 1833724 c.183C>G synonymous_variant 0.28 pyrazinamide
rpsA 1833727 c.186G>C synonymous_variant 0.28 pyrazinamide
rpsA 1833742 c.201A>G synonymous_variant 0.28 pyrazinamide
rpsA 1833745 c.204G>C synonymous_variant 0.27 pyrazinamide
rpsA 1833802 c.261A>G synonymous_variant 0.32 pyrazinamide
rpsA 1833811 c.270G>T synonymous_variant 0.33 pyrazinamide
rpsA 1833820 c.279G>A synonymous_variant 0.37 pyrazinamide
rpsA 1833856 c.315A>G synonymous_variant 0.37 pyrazinamide
rpsA 1833859 c.318C>T synonymous_variant 0.38 pyrazinamide
rpsA 1833874 c.333T>C synonymous_variant 0.33 pyrazinamide
rpsA 1833894 p.Ala118Glu missense_variant 0.37 pyrazinamide
rpsA 1833928 c.387G>C synonymous_variant 0.34 pyrazinamide
rpsA 1833949 c.408T>C synonymous_variant 0.28 pyrazinamide
rpsA 1833976 c.435C>T synonymous_variant 0.24 pyrazinamide
rpsA 1833979 c.438T>C synonymous_variant 0.24 pyrazinamide
rpsA 1834000 c.459G>C synonymous_variant 0.29 pyrazinamide
rpsA 1834012 c.471G>C synonymous_variant 0.22 pyrazinamide
rpsA 1834015 c.474G>C synonymous_variant 0.21 pyrazinamide
rpsA 1834030 c.489C>G synonymous_variant 0.25 pyrazinamide
rpsA 1834051 c.510G>A synonymous_variant 0.25 pyrazinamide
rpsA 1834093 c.552G>C synonymous_variant 0.34 pyrazinamide
rpsA 1834102 c.561T>G synonymous_variant 0.29 pyrazinamide
rpsA 1834135 c.594G>A synonymous_variant 0.21 pyrazinamide
rpsA 1834144 c.603G>A synonymous_variant 0.19 pyrazinamide Not assoc w R - Interim
rpsA 1834150 c.609G>C synonymous_variant 0.15 pyrazinamide
rpsA 1834153 c.612T>C synonymous_variant 0.15 pyrazinamide
rpsA 1834154 p.Asn205Gln missense_variant 0.15 pyrazinamide
rpsA 1834157 c.616T>C synonymous_variant 0.15 pyrazinamide
rpsA 1834162 c.621A>G synonymous_variant 0.14 pyrazinamide Not assoc w R - Interim
rpsA 1834165 c.624A>G synonymous_variant 0.15 pyrazinamide
rpsA 1834177 c.636A>C synonymous_variant 0.19 pyrazinamide Not assoc w R - Interim
rpsA 1834186 c.645C>G synonymous_variant 0.25 pyrazinamide
rpsA 1834189 c.648G>C synonymous_variant 0.25 pyrazinamide
rpsA 1834213 c.672G>C synonymous_variant 0.14 pyrazinamide
rpsA 1834222 c.681T>C synonymous_variant 0.15 pyrazinamide
rpsA 1834231 c.690T>G synonymous_variant 0.14 pyrazinamide
rpsA 1834297 c.756C>G synonymous_variant 0.22 pyrazinamide
rpsA 1834303 c.762T>C synonymous_variant 0.24 pyrazinamide
rpsA 1834306 c.765T>C synonymous_variant 0.22 pyrazinamide
rpsA 1834451 c.910T>C synonymous_variant 0.21 pyrazinamide
rpsA 1834456 c.915T>G synonymous_variant 0.21 pyrazinamide
rpsA 1834459 c.918G>C synonymous_variant 0.22 pyrazinamide
rpsA 1834468 c.927A>G synonymous_variant 0.21 pyrazinamide
rpsA 1834477 c.936C>T synonymous_variant 0.18 pyrazinamide Not assoc w R - Interim
rpsA 1834489 c.948T>C synonymous_variant 0.26 pyrazinamide
rpsA 1834498 c.957C>T synonymous_variant 0.27 pyrazinamide
rpsA 1834528 c.987T>C synonymous_variant 0.35 pyrazinamide
rpsA 1834546 c.1005T>C synonymous_variant 0.37 pyrazinamide
rpsA 1834600 c.1059G>C synonymous_variant 0.25 pyrazinamide
rpsA 1834606 c.1065C>T synonymous_variant 0.27 pyrazinamide
rpsA 1834609 c.1068T>C synonymous_variant 0.26 pyrazinamide
rpsA 1834633 c.1092A>G synonymous_variant 0.26 pyrazinamide
rpsA 1834639 c.1098T>C synonymous_variant 0.26 pyrazinamide
rpsA 1834654 p.Glu371Asp missense_variant 0.26 pyrazinamide
rpsA 1834669 c.1128G>C synonymous_variant 0.28 pyrazinamide
rpsA 1834690 c.1149T>C synonymous_variant 0.19 pyrazinamide
tsnR 1853477 c.-129T>C upstream_gene_variant 0.16 linezolid
tsnR 1853974 c.369C>T synonymous_variant 0.36 linezolid Not assoc w R
tsnR 1854300 p.Leu232Pro missense_variant 1.0 linezolid Not assoc w R
tlyA 1917972 c.33A>G synonymous_variant 1.0 capreomycin Not assoc w R
bacA 2062922 p.Ile603Val missense_variant 0.44 kanamycin Not assoc w R
capreomycin Not assoc w R
streptomycin Not assoc w R
amikacin Not assoc w R
ndh 2102134 c.909C>G synonymous_variant 0.14 isoniazid
delamanid
ethionamide
ndh 2102990 p.Val18Ala missense_variant 0.61 isoniazid Not assoc w R
delamanid Uncertain significance
ethionamide Uncertain significance
katG 2154724 p.Arg463Leu missense_variant 0.24 isoniazid Not assoc w R
PPE35 2167926 p.Leu896Ser missense_variant 0.23 pyrazinamide Not assoc w R
PPE35 2168479 p.Thr712Pro missense_variant 0.62 pyrazinamide Not assoc w R
PPE35 2169840 p.Gly258Asp missense_variant 0.72 pyrazinamide Not assoc w R
Rv1979c 2222308 p.Asp286Gly missense_variant 0.37 bedaquiline Not assoc w R - Interim
clofazimine Not assoc w R
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0 bedaquiline Not assoc w R - Interim
clofazimine Not assoc w R
kasA 2517941 c.-174C>G upstream_gene_variant 0.15 isoniazid
kasA 2517950 c.-165C>G upstream_gene_variant 0.15 isoniazid
kasA 2518019 c.-96A>G upstream_gene_variant 0.15 isoniazid
kasA 2518132 c.18C>T synonymous_variant 0.39 isoniazid
kasA 2518519 c.405G>C synonymous_variant 0.15 isoniazid
kasA 2518528 c.414C>G synonymous_variant 0.14 isoniazid
kasA 2518534 c.420G>C synonymous_variant 0.13 isoniazid
kasA 2518561 c.447T>C synonymous_variant 0.12 isoniazid
kasA 2518843 c.729T>C synonymous_variant 0.17 isoniazid
kasA 2518847 p.Leu245Met missense_variant 0.14 isoniazid
kasA 2518853 p.Leu247Ile missense_variant 0.14 isoniazid
ahpC 2726051 c.-142G>A upstream_gene_variant 0.31 isoniazid
ahpC 2726405 c.213C>G synonymous_variant 0.17 isoniazid
ahpC 2726408 c.216T>C synonymous_variant 0.18 isoniazid
folC 2747506 c.93G>A synonymous_variant 0.16 para-aminosalicylic_acid
folC 2747509 c.90T>C synonymous_variant 0.16 para-aminosalicylic_acid
Rv2477c 2782483 c.1560G>C synonymous_variant 0.14 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783512 c.531A>G synonymous_variant 0.16 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783515 c.528C>G synonymous_variant 0.16 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783914 c.129T>C synonymous_variant 0.12 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783917 c.126C>G synonymous_variant 0.13 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783992 c.51T>C synonymous_variant 0.16 kanamycin Not assoc w R - Interim
levofloxacin Not assoc w R - Interim
moxifloxacin
streptomycin Not assoc w R - Interim
rifampicin Not assoc w R - Interim
ethambutol Not assoc w R - Interim
amikacin
Rv2752c 3064852 p.Met447Thr missense_variant 0.53 levofloxacin Uncertain significance
moxifloxacin Uncertain significance
isoniazid Uncertain significance
rifampicin Uncertain significance
ethambutol Uncertain significance
Rv2752c 3066855 c.-664T>C upstream_gene_variant 0.17 levofloxacin
moxifloxacin
isoniazid
rifampicin
ethambutol
thyX 3067355 c.591A>C synonymous_variant 0.16 para-aminosalicylic_acid
thyX 3067385 c.561C>G synonymous_variant 0.21 para-aminosalicylic_acid
thyX 3067394 c.552G>C synonymous_variant 0.17 para-aminosalicylic_acid
thyX 3067631 c.315C>G synonymous_variant 0.17 para-aminosalicylic_acid
thyX 3067640 c.306G>C synonymous_variant 0.13 para-aminosalicylic_acid
ald 3086788 c.-32T>C upstream_gene_variant 1.0 cycloserine
Rv3083 3448608 c.105G>A synonymous_variant 0.63 ethionamide Not assoc w R - Interim
Rv3083 3448714 p.Asp71His missense_variant 0.4 ethionamide Uncertain significance
whiB7 3568779 c.-100T>C upstream_gene_variant 0.54 kanamycin Not assoc w R
amikacin Not assoc w R
streptomycin Not assoc w R
Rv3236c 3612665 p.Val151Ala missense_variant 0.5 pyrazinamide Not assoc w R
lpqB 3623366 c.1545T>C synonymous_variant 0.2 rifampicin
bedaquiline
lpqB 3623375 c.1536T>C synonymous_variant 0.18 rifampicin
bedaquiline
lpqB 3623380 p.Ala511Thr missense_variant 0.18 rifampicin
bedaquiline
lpqB 3623388 p.Thr508Asn missense_variant 0.14 rifampicin
bedaquiline
lpqB 3623393 c.1518A>C synonymous_variant 0.14 rifampicin
bedaquiline
lpqB 3623699 c.1212C>G synonymous_variant 0.21 rifampicin
bedaquiline
lpqB 3623708 c.1203C>T synonymous_variant 0.25 rifampicin
bedaquiline
lpqB 3623736 p.Ser392Asn missense_variant 0.15 rifampicin
bedaquiline
lpqB 3624374 c.537G>C synonymous_variant 0.13 rifampicin
bedaquiline
lpqB 3624380 c.531G>A synonymous_variant 0.16 rifampicin
bedaquiline
lpqB 3624486 p.Asp142Gly missense_variant 0.42 rifampicin Not assoc w R
bedaquiline Uncertain significance
lpqB 3624728 c.183C>T synonymous_variant 0.14 rifampicin
bedaquiline
lpqB 3624734 c.177A>C synonymous_variant 0.13 rifampicin
bedaquiline
lpqB 3624749 c.162G>A synonymous_variant 0.13 rifampicin Not assoc w R - Interim
bedaquiline
lpqB 3624755 c.156A>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
bedaquiline
lpqB 3624776 c.135T>C synonymous_variant 0.14 rifampicin
bedaquiline
mtrB 3625065 p.Met517Leu missense_variant 1.0 rifampicin Not assoc w R
bedaquiline Uncertain significance
mtrB 3625222 c.1392T>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
bedaquiline
lpqB 3625240 c.-330T>C upstream_gene_variant 0.12 rifampicin
bedaquiline
lpqB 3625243 c.-333T>C upstream_gene_variant 0.13 rifampicin
bedaquiline
lpqB 3625246 c.-336G>A upstream_gene_variant 0.13 rifampicin
bedaquiline
lpqB 3625255 c.-345T>C upstream_gene_variant 0.13 rifampicin
bedaquiline
mtrB 3625267 c.1347T>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
bedaquiline
lpqB 3625270 c.-360G>C upstream_gene_variant 0.15 rifampicin
bedaquiline
lpqB 3625282 c.-372C>G upstream_gene_variant 0.2 rifampicin
bedaquiline
lpqB 3625285 c.-375G>C upstream_gene_variant 0.21 rifampicin
bedaquiline
lpqB 3625291 c.-381A>G upstream_gene_variant 0.23 rifampicin
bedaquiline
mtrB 3625321 c.1293A>G synonymous_variant 0.2 rifampicin Not assoc w R - Interim
bedaquiline Not assoc w R - Interim
lpqB 3625327 c.-417A>G upstream_gene_variant 0.21 rifampicin
bedaquiline
lpqB 3625345 c.-435T>C upstream_gene_variant 0.17 rifampicin
bedaquiline
lpqB 3625357 c.-447T>C upstream_gene_variant 0.13 rifampicin
bedaquiline
lpqB 3625366 c.-456C>T upstream_gene_variant 0.2 rifampicin
bedaquiline
lpqB 3625369 c.-459G>C upstream_gene_variant 0.2 rifampicin
bedaquiline
lpqB 3625510 c.-600T>C upstream_gene_variant 0.18 rifampicin
bedaquiline
lpqB 3625513 c.-603G>C upstream_gene_variant 0.18 rifampicin
bedaquiline
lpqB 3625518 c.-608T>C upstream_gene_variant 0.13 rifampicin
bedaquiline
lpqB 3625528 c.-618G>T upstream_gene_variant 0.15 rifampicin
bedaquiline
lpqB 3625537 c.-627T>C upstream_gene_variant 0.17 rifampicin
bedaquiline
lpqB 3625543 c.-633G>C upstream_gene_variant 0.2 rifampicin
bedaquiline
lpqB 3625555 c.-645G>C upstream_gene_variant 0.17 rifampicin
bedaquiline
mtrB 3625569 c.1045T>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
bedaquiline
lpqB 3625579 c.-669A>C upstream_gene_variant 0.14 rifampicin
bedaquiline
mtrB 3625656 c.958T>C synonymous_variant 0.25 rifampicin Not assoc w R - Interim
bedaquiline Not assoc w R - Interim
lpqB 3625663 c.-753G>C upstream_gene_variant 0.21 rifampicin
bedaquiline
lpqB 3625687 c.-777G>C upstream_gene_variant 0.21 rifampicin
bedaquiline
lpqB 3625690 c.-780T>G upstream_gene_variant 0.2 rifampicin
bedaquiline
lpqB 3625726 c.-816G>A upstream_gene_variant 0.2 rifampicin
bedaquiline
mtrB 3625729 c.885A>G synonymous_variant 0.2 rifampicin Not assoc w R - Interim
bedaquiline
mtrB 3625747 c.867G>C synonymous_variant 0.23 rifampicin Not assoc w R - Interim
bedaquiline
mtrB 3625755 p.Ala287Thr missense_variant 0.16 rifampicin Uncertain significance
bedaquiline
mtrB 3625762 c.852A>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
bedaquiline
lpqB 3625786 c.-876C>T upstream_gene_variant 0.17 rifampicin
bedaquiline
mtrB 3625806 c.808A>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
bedaquiline
mtrB 3625807 c.807C>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
bedaquiline
mtrB 3625927 c.687T>C synonymous_variant 0.15 rifampicin
bedaquiline
mtrB 3625933 c.681C>G synonymous_variant 0.14 rifampicin
bedaquiline
mtrB 3625936 c.678C>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
bedaquiline
mtrB 3625993 c.621G>C synonymous_variant 0.16 rifampicin
bedaquiline
mtrB 3625996 c.618C>A synonymous_variant 0.15 rifampicin
bedaquiline
mtrB 3625999 c.615A>G synonymous_variant 0.14 rifampicin
bedaquiline
mtrB 3626006 p.Ser203Asn missense_variant 0.13 rifampicin
bedaquiline
mtrB 3626017 c.597T>C synonymous_variant 0.22 rifampicin
bedaquiline
mtrB 3626025 c.589C>T synonymous_variant 0.36 rifampicin Not assoc w R - Interim
bedaquiline Not assoc w R - Interim
mtrB 3626029 c.585A>G synonymous_variant 0.2 rifampicin
bedaquiline
mtrB 3626041 c.573C>G synonymous_variant 0.25 rifampicin
bedaquiline
mtrB 3626054 p.Leu187Ser missense_variant 0.22 rifampicin
bedaquiline
mtrB 3626062 c.552T>G synonymous_variant 0.21 rifampicin
bedaquiline
mtrB 3626070 p.Ile182Val missense_variant 0.2 rifampicin
bedaquiline
mtrB 3626077 c.537C>G synonymous_variant 0.26 rifampicin
bedaquiline
mtrB 3626083 c.531G>C synonymous_variant 0.3 rifampicin
bedaquiline
mtrB 3626092 c.522T>C synonymous_variant 0.29 rifampicin
bedaquiline
mtrB 3626095 p.Glu173Asp missense_variant 0.32 rifampicin
bedaquiline
mtrB 3626101 p.Gln171His missense_variant 0.31 rifampicin
bedaquiline
mtrB 3626110 c.504C>G synonymous_variant 0.26 rifampicin
bedaquiline
mtrB 3626125 c.489C>T synonymous_variant 0.2 rifampicin
bedaquiline
mtrB 3626131 c.483G>C synonymous_variant 0.2 rifampicin
bedaquiline
mtrB 3626137 c.477G>A synonymous_variant 0.19 rifampicin
bedaquiline
mtrB 3626158 c.456C>T synonymous_variant 0.12 rifampicin
bedaquiline
mtrB 3626221 c.393G>C synonymous_variant 0.16 rifampicin
bedaquiline
mtrB 3626284 c.330T>G synonymous_variant 0.16 rifampicin Not assoc w R - Interim
bedaquiline Not assoc w R - Interim
mtrB 3626293 c.321G>A synonymous_variant 0.17 rifampicin
bedaquiline
mtrB 3626296 c.318T>G synonymous_variant 0.17 rifampicin
bedaquiline
mtrB 3626299 c.315G>A synonymous_variant 0.16 rifampicin
bedaquiline
mtrB 3626357 p.Thr86Asn missense_variant 0.15 rifampicin
bedaquiline
mtrB 3626362 c.252A>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
bedaquiline
mtrB 3626437 c.177T>C synonymous_variant 0.14 rifampicin
bedaquiline
mtrB 3626440 c.174C>T synonymous_variant 0.13 rifampicin Not assoc w R - Interim
bedaquiline Not assoc w R - Interim
mtrB 3626705 c.-92G>T upstream_gene_variant 0.13 rifampicin
bedaquiline
mtrB 3626711 c.-98T>C upstream_gene_variant 0.15 rifampicin
bedaquiline
mtrA 3626723 c.627C>T synonymous_variant 0.32 rifampicin Not assoc w R - Interim
bedaquiline
mtrB 3626744 c.-131G>C upstream_gene_variant 0.26 rifampicin
bedaquiline
mtrB 3626750 c.-137T>C upstream_gene_variant 0.27 rifampicin
bedaquiline
mtrA 3626759 c.591T>C synonymous_variant 0.29 rifampicin Not assoc w R - Interim
bedaquiline
mtrB 3626774 c.-163_-161delAGGinsCGT upstream_gene_variant 0.22 rifampicin
bedaquiline
mtrB 3626780 c.-167T>C upstream_gene_variant 0.22 rifampicin
bedaquiline
mtrB 3626783 c.-170C>G upstream_gene_variant 0.22 rifampicin
bedaquiline
mtrA 3626786 c.564A>G synonymous_variant 0.23 rifampicin Not assoc w R - Interim
bedaquiline
mtrB 3626798 c.-185T>C upstream_gene_variant 0.26 rifampicin
bedaquiline
mtrB 3626804 c.-191A>C upstream_gene_variant 0.26 rifampicin
bedaquiline
mtrB 3626843 c.-230G>C upstream_gene_variant 0.27 rifampicin
bedaquiline
mtrA 3626846 c.504G>A synonymous_variant 0.27 rifampicin Not assoc w R - Interim
bedaquiline
mtrB 3626849 c.-236C>T upstream_gene_variant 0.28 rifampicin
bedaquiline
mtrB 3626858 c.-245A>G upstream_gene_variant 0.29 rifampicin
bedaquiline
mtrB 3626866 c.-253T>C upstream_gene_variant 0.31 rifampicin
bedaquiline
mtrB 3626885 c.-272A>G upstream_gene_variant 0.3 rifampicin
bedaquiline
mtrB 3626890 c.-277T>C upstream_gene_variant 0.31 rifampicin
bedaquiline
mtrA 3626912 c.438T>C synonymous_variant 0.31 rifampicin Not assoc w R - Interim
bedaquiline
mtrB 3626930 c.-317A>G upstream_gene_variant 0.33 rifampicin
bedaquiline
mtrA 3626939 p.Glu137Asp missense_variant 0.34 rifampicin
bedaquiline
mtrB 3626942 c.-329A>C upstream_gene_variant 0.35 rifampicin
bedaquiline
mtrB 3626969 c.-356C>G upstream_gene_variant 0.38 rifampicin
bedaquiline
mtrB 3626972 c.-359A>G upstream_gene_variant 0.38 rifampicin
bedaquiline
mtrB 3626993 c.-380G>C upstream_gene_variant 0.3 rifampicin
bedaquiline
mtrB 3627011 c.-398T>C upstream_gene_variant 0.25 rifampicin
bedaquiline
mtrB 3627059 c.-446G>C upstream_gene_variant 0.26 rifampicin
bedaquiline
mtrA 3627068 c.282T>C synonymous_variant 0.2 rifampicin Not assoc w R - Interim
bedaquiline
mtrB 3627071 c.-458G>C upstream_gene_variant 0.2 rifampicin
bedaquiline
mtrA 3627080 c.270T>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
bedaquiline
mtrA 3627098 c.252A>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
bedaquiline
fbiA 3640365 c.-178C>G upstream_gene_variant 0.16 pretomanid
delamanid
clofazimine
fbiB 3641274 c.-261G>C upstream_gene_variant 0.16 pretomanid
delamanid
clofazimine
fbiB 3641277 c.-258G>C upstream_gene_variant 0.16 pretomanid
delamanid
clofazimine
rpoA 3877839 c.669G>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoA 3877842 c.666A>G synonymous_variant 0.16 rifampicin
rpoA 3877848 c.660C>T synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoA 3877857 c.651G>A synonymous_variant 0.14 rifampicin
rpoA 3877962 c.546G>T synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoA 3878271 c.237T>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoA 3878283 p.Glu75Asp missense_variant 0.16 rifampicin Uncertain significance
rpoA 3878298 c.210A>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoA 3878301 c.207C>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoA 3878304 c.204G>C synonymous_variant 0.14 rifampicin
rpoA 3878313 c.195G>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoA 3878322 c.186A>G synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoA 3878364 c.144A>C synonymous_variant 0.14 rifampicin
rpoA 3878370 c.138T>C synonymous_variant 0.12 rifampicin
clpC1 4038596 c.2109A>G synonymous_variant 0.14 pyrazinamide
clpC1 4038623 c.2082A>G synonymous_variant 0.21 pyrazinamide
clpC1 4038645 p.Glu687Ala missense_variant 0.15 pyrazinamide
clpC1 4038713 c.1992T>C synonymous_variant 0.14 pyrazinamide
clpC1 4038838 c.1867C>T synonymous_variant 0.15 pyrazinamide
clpC1 4038878 c.1827A>G synonymous_variant 0.15 pyrazinamide Not assoc w R - Interim
clpC1 4038881 c.1824C>T synonymous_variant 0.16 pyrazinamide
clpC1 4038890 c.1815G>A synonymous_variant 0.17 pyrazinamide
clpC1 4038923 c.1782A>G synonymous_variant 0.14 pyrazinamide
clpC1 4038941 c.1764G>C synonymous_variant 0.16 pyrazinamide
clpC1 4038953 c.1752A>G synonymous_variant 0.14 pyrazinamide
clpC1 4038956 c.1749T>C synonymous_variant 0.16 pyrazinamide
clpC1 4039022 c.1683A>G synonymous_variant 0.17 pyrazinamide
clpC1 4039079 c.1626C>G synonymous_variant 0.15 pyrazinamide Not assoc w R - Interim
clpC1 4039338 p.Thr456Gln missense_variant 0.15 pyrazinamide
clpC1 4039352 c.1353C>G synonymous_variant 0.21 pyrazinamide
clpC1 4039355 c.1350G>C synonymous_variant 0.21 pyrazinamide
clpC1 4039634 c.1071G>A synonymous_variant 0.18 pyrazinamide
clpC1 4039898 c.807C>G synonymous_variant 0.24 pyrazinamide
clpC1 4040177 c.528C>T synonymous_variant 0.18 pyrazinamide
clpC1 4040517 p.Val63Ala missense_variant 0.32 pyrazinamide Not assoc w R - Interim
clpC1 4040654 c.51G>A synonymous_variant 0.21 pyrazinamide
clpC1 4040657 c.48T>G synonymous_variant 0.21 pyrazinamide Not assoc w R - Interim
panD 4044162 c.120A>G synonymous_variant 0.15 pyrazinamide
panD 4044165 c.117G>C synonymous_variant 0.15 pyrazinamide
panD 4044188 c.94T>C synonymous_variant 0.19 pyrazinamide
panD 4044195 c.87T>C synonymous_variant 0.2 pyrazinamide
panD 4044210 c.72C>A synonymous_variant 0.14 pyrazinamide
panD 4044266 c.16C>T synonymous_variant 0.14 pyrazinamide
panD 4044755 c.-474G>A upstream_gene_variant 0.31 pyrazinamide
glpK 4138377 p.Val460Ala missense_variant 0.45 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
isoniazid Not assoc w R
streptomycin Not assoc w R
rifampicin Not assoc w R
ethambutol Not assoc w R
glpK 4138696 p.Pro354Ala missense_variant 0.15 levofloxacin
moxifloxacin
isoniazid
streptomycin
rifampicin
ethambutol
glpK 4139165 c.591A>G synonymous_variant 0.13 levofloxacin
moxifloxacin
isoniazid
streptomycin
rifampicin
ethambutol
glpK 4139168 c.588T>C synonymous_variant 0.13 levofloxacin
moxifloxacin
isoniazid
streptomycin
rifampicin
ethambutol
glpK 4139987 c.-232G>A upstream_gene_variant 0.41 levofloxacin
moxifloxacin
isoniazid
streptomycin
rifampicin
ethambutol
embC 4238963 c.-900C>T upstream_gene_variant 0.49 ethambutol Not assoc w R
embC 4239723 c.-140C>G upstream_gene_variant 0.2 ethambutol
embC 4240671 p.Thr270Ile missense_variant 0.32 ethambutol Not assoc w R
embC 4240693 c.831T>G synonymous_variant 0.13 ethambutol
embC 4240717 c.855T>C synonymous_variant 0.16 ethambutol
embC 4240726 c.864G>C synonymous_variant 0.13 ethambutol Not assoc w R - Interim
embC 4240750 c.888C>T synonymous_variant 0.39 ethambutol Not assoc w R
embC 4241042 p.Asn394Asp missense_variant 0.42 ethambutol Not assoc w R
embC 4241380 c.1518A>C synonymous_variant 0.15 ethambutol
embC 4241383 c.1521G>C synonymous_variant 0.15 ethambutol Not assoc w R - Interim
embC 4242133 c.2271G>C synonymous_variant 0.14 ethambutol
embC 4242136 c.2274G>A synonymous_variant 0.14 ethambutol
embC 4242643 c.2781C>T synonymous_variant 1.0 ethambutol Not assoc w R
embA 4244666 c.1434G>C synonymous_variant 0.2 ethambutol
embA 4244668 p.Val479Ala missense_variant 0.19 ethambutol
embA 4244675 c.1443A>G synonymous_variant 0.19 ethambutol
embA 4244681 c.1449A>G synonymous_variant 0.15 ethambutol Not assoc w R - Interim
embA 4244684 c.1452C>T synonymous_variant 0.15 ethambutol
embA 4244695 p.Lys488Thr missense_variant 0.29 ethambutol
embA 4244702 c.1470C>G synonymous_variant 0.28 ethambutol
embA 4244708 c.1476C>A synonymous_variant 0.2 ethambutol
embA 4245321 p.Met697Val missense_variant 0.4 ethambutol Uncertain significance
embA 4245969 p.Pro913Ser missense_variant 0.33 ethambutol Not assoc w R
embB 4247611 c.1098G>C synonymous_variant 0.16 ethambutol
embB 4247614 c.1101T>C synonymous_variant 0.16 ethambutol Not assoc w R - Interim
embB 4247646 p.Glu378Ala missense_variant 0.51 ethambutol Not assoc w R
embB 4248784 c.2271T>G synonymous_variant 0.17 ethambutol
embB 4248787 c.2274T>C synonymous_variant 0.17 ethambutol
embB 4249381 c.2868A>G synonymous_variant 0.15 ethambutol
embB 4249447 c.2934G>C synonymous_variant 0.19 ethambutol
aftB 4267517 c.1320A>G synonymous_variant 0.31 ethambutol Not assoc w R - Interim
aftB 4268429 c.408C>G synonymous_variant 0.15 ethambutol
aftB 4268432 c.405C>G synonymous_variant 0.15 ethambutol
aftB 4269186 c.-350C>G upstream_gene_variant 0.16 ethambutol
aftB 4269201 c.-365A>G upstream_gene_variant 0.16 ethambutol
ubiA 4269387 p.Glu149Asp missense_variant 0.35 ethambutol Not assoc w R
ubiA 4269606 c.228T>C synonymous_variant 0.36 ethambutol Not assoc w R
ethA 4326439 p.Asn345Lys missense_variant 0.48 ethionamide Uncertain significance
ethA 4327450 c.24C>T synonymous_variant 0.4 ethionamide Not assoc w R - Interim
whiB6 4338545 c.-24G>A upstream_gene_variant 0.41 kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
whiB6 4338595 c.-75delG upstream_gene_variant 1.0 kanamycin Not assoc w R
capreomycin Not assoc w R
amikacin Not assoc w R
whiB6 4338600 c.-79T>C upstream_gene_variant 0.29 kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
whiB6 4338603 c.-82C>T upstream_gene_variant 0.29 kanamycin Not assoc w R
capreomycin Not assoc w R
amikacin Not assoc w R
whiB6 4338621 c.-100G>T upstream_gene_variant 0.31 kanamycin
capreomycin
amikacin
whiB6 4338732 c.-211C>T upstream_gene_variant 1.0 kanamycin
capreomycin
amikacin
gid 4407588 c.615A>G synonymous_variant 0.19 streptomycin Not assoc w R
gid 4407873 c.330G>T synonymous_variant 0.42 streptomycin Not assoc w R
gid 4408082 p.Val41Leu missense_variant 0.31 streptomycin Uncertain significance