TB-Profiler result

Run: ERR7821126
Summary

Run ID: ERR7821126

Sample name:

Date: 2024-10-05T12:50:35.523143

Number of reads: 1582829

Percentage reads mapped: 88.51

Median coverage: 40.0

Strain: lineage1.1.3.2

Spoligotype:

Drug-resistance: Sensitive

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Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family RDs Frequency
lineage1.1.3 Indo-Oceanic RD239 1.0
lineage1.1.3.2 Indo-Oceanic RD239 0.97
lineage1.1 Indo-Oceanic RD239 1.0
lineage1 Indo-Oceanic RD239 0.97
Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations WHO confidence Comment
rifampicin
isoniazid
ethambutol
pyrazinamide
streptomycin
fluoroquinolones
moxifloxacin
ofloxacin
levofloxacin
ciprofloxacin
aminoglycosides
amikacin
capreomycin
kanamycin
cycloserine
ethionamide
clofazimine
para-aminosalicylic_acid
delamanid
bedaquiline
linezolid
Drug resistance-Associated Mutations: This table reports mutations found in candidate resistance genes which have been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs Confidence Comment
Non-Associated Mutations: This table reports mutations found in candidate resistance genes which have not been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs Confidence
dnaA 403 p.Asp135Asn missense_variant 1.0 isoniazid Uncertain significance
gyrB 6112 p.Met291Ile missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
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 8188 p.Leu296Pro missense_variant 1.0 levofloxacin Uncertain significance
moxifloxacin Uncertain significance
gyrA 8452 p.Ala384Val missense_variant 0.95 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 8967 p.Ala556Arg missense_variant 0.17 levofloxacin
moxifloxacin
gyrA 8978 c.1677C>T synonymous_variant 0.19 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8987 c.1686C>G synonymous_variant 0.18 levofloxacin
moxifloxacin
gyrA 8990 c.1689C>G synonymous_variant 0.2 levofloxacin
moxifloxacin
gyrA 8996 c.1695T>C synonymous_variant 0.2 levofloxacin
moxifloxacin
gyrA 8998 p.Leu566Trp missense_variant 0.2 levofloxacin Uncertain significance
moxifloxacin Uncertain significance
gyrA 9017 c.1716C>G synonymous_variant 0.18 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 9023 c.1722A>C synonymous_variant 0.19 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 9029 c.1728T>C synonymous_variant 0.22 levofloxacin
moxifloxacin
gyrA 9143 c.1842T>C synonymous_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 9267 p.Asn656Gly missense_variant 0.16 levofloxacin
moxifloxacin
gyrA 9293 c.1992G>C synonymous_variant 0.17 levofloxacin
moxifloxacin
gyrA 9296 c.1995T>C synonymous_variant 0.18 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 9299 c.1998G>C synonymous_variant 0.16 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 9304 p.Gly668Asp missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
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 pretomanid
delamanid Not assoc w R - Interim
clofazimine Not assoc w R
ccsA 619695 c.-196G>A upstream_gene_variant 0.95 kanamycin
capreomycin
amikacin
Rv0565c 657578 c.-108T>C upstream_gene_variant 1.0 ethionamide
nusG 734116 c.-138T>C upstream_gene_variant 0.91 rifampicin Not assoc w R
rpoB 760547 c.741G>T synonymous_variant 0.16 rifampicin
rpoB 761021 c.1215G>C synonymous_variant 0.19 rifampicin
rpoB 761027 c.1221A>C synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoB 761036 c.1230G>C synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoB 761057 c.1251G>C synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoB 761133 c.1327T>C synonymous_variant 0.16 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>T synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 761180 c.1374A>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 761510 c.1704T>C synonymous_variant 0.14 rifampicin
rpoB 761531 c.1725C>G synonymous_variant 0.2 rifampicin
rpoB 761537 c.1731C>G synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoB 761561 c.1755C>G synonymous_variant 0.24 rifampicin
rpoB 761564 c.1758G>C synonymous_variant 0.27 rifampicin Not assoc w R - Interim
rpoB 761570 c.1764T>C synonymous_variant 0.28 rifampicin Not assoc w R - Interim
rpoB 761573 c.1767C>G synonymous_variant 0.26 rifampicin Not assoc w R - Interim
rpoB 761579 c.1773G>C synonymous_variant 0.27 rifampicin Not assoc w R - Interim
rpoB 761606 c.1800C>G synonymous_variant 0.22 rifampicin
rpoB 761612 c.1806G>T synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoB 761615 c.1809A>C synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoB 761636 c.1830G>T synonymous_variant 0.23 rifampicin Not assoc w R - Interim
rpoB 761645 c.1839C>G synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoB 761648 c.1842T>C synonymous_variant 0.19 rifampicin
rpoB 761657 c.1851C>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 761669 c.1863C>T synonymous_variant 0.16 rifampicin
rpoB 761675 c.1869G>T synonymous_variant 0.19 rifampicin
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 0.16 rifampicin Not assoc w R - Interim
rpoB 762086 c.2280G>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 762122 c.2316C>T synonymous_variant 0.2 rifampicin
rpoB 762129 c.2323_2325delCTCinsTTG synonymous_variant 0.17 rifampicin
rpoB 762143 c.2337T>C synonymous_variant 0.2 rifampicin
rpoB 762149 c.2343G>C synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoB 762185 c.2379G>C synonymous_variant 0.3 rifampicin Not assoc w R - Interim
rpoB 762221 c.2415G>A synonymous_variant 0.25 rifampicin
rpoB 762233 c.2427G>C synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoB 762254 c.2448T>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoB 762257 c.2451C>G synonymous_variant 0.17 rifampicin
rpoB 762284 c.2478G>T synonymous_variant 0.17 rifampicin
rpoB 762293 c.2487T>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 762296 c.2490G>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 762297 c.2491C>T synonymous_variant 0.14 rifampicin
rpoB 763028 c.3222T>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 763031 c.3225T>C synonymous_variant 1.0 rifampicin Not assoc w R
rpoB 763034 c.3228C>G synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 763040 c.3234C>G synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 763456 c.87A>G synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoC 763570 c.201G>T synonymous_variant 0.21 rifampicin
rpoC 763573 c.204G>C synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoC 763594 c.225C>T synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoC 763636 c.267T>C synonymous_variant 0.22 rifampicin
rpoC 763660 c.291T>G synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoC 763675 c.306C>G synonymous_variant 0.23 rifampicin Not assoc w R - Interim
rpoC 763696 c.327T>C synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoC 763702 c.333C>G synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoC 763723 c.354G>C synonymous_variant 0.19 rifampicin
rpoC 763732 c.363C>G synonymous_variant 0.2 rifampicin
rpoC 763884 p.Ala172Val missense_variant 0.9 rifampicin Not assoc w R
rpoC 763886 c.517C>A synonymous_variant 0.89 rifampicin Not assoc w R
rpoC 764815 c.1446A>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 764827 c.1458G>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 765171 p.Pro601Leu missense_variant 1.0 rifampicin Not assoc w R
rpoC 765230 p.Ala621Thr missense_variant 0.98 rifampicin Not assoc w R
rpoC 765580 c.2211G>C synonymous_variant 0.15 rifampicin
rpoC 765583 c.2214G>C synonymous_variant 0.15 rifampicin
rpoC 765613 p.His748Gln missense_variant 0.16 rifampicin
rpoC 765700 c.2331T>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 765734 c.2365T>C synonymous_variant 0.26 rifampicin Not assoc w R - Interim
rpoC 765739 c.2370G>T synonymous_variant 0.24 rifampicin
rpoC 765751 c.2382C>G synonymous_variant 0.21 rifampicin
rpoC 765753 p.Asp795Ala missense_variant 0.21 rifampicin Uncertain significance
rpoC 765772 c.2403C>G synonymous_variant 0.18 rifampicin
rpoC 765778 c.2409C>G synonymous_variant 0.19 rifampicin
rpoC 765835 c.2466C>T synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 765883 c.2514C>G synonymous_variant 0.16 rifampicin
rpoC 765886 c.2517C>G synonymous_variant 0.16 rifampicin
rpoC 766765 c.3396A>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 766774 c.3405T>C synonymous_variant 0.22 rifampicin
rpoC 766804 c.3435A>G synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoC 766861 c.3492G>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 766864 c.3495G>C synonymous_variant 0.19 rifampicin
rpoC 767059 c.3690T>G synonymous_variant 0.28 rifampicin Not assoc w R - Interim
rpoC 767062 c.3693C>A synonymous_variant 0.28 rifampicin
rpoC 767098 c.3729T>C synonymous_variant 0.23 rifampicin Not assoc w R - Interim
rpoC 767119 c.3750A>G synonymous_variant 0.24 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 1.0 bedaquiline Not assoc w R - Interim
clofazimine Not assoc w R
mmpL5 776288 c.2193C>G synonymous_variant 1.0 bedaquiline
clofazimine
mmpS5 778701 p.Ile69Val missense_variant 1.0 bedaquiline Uncertain significance
clofazimine Uncertain significance
rpsL 781395 c.-165T>C upstream_gene_variant 1.0 streptomycin Not assoc w R
rpsL 781754 c.195G>C synonymous_variant 0.17 streptomycin
rpsL 781760 c.201T>C synonymous_variant 0.15 streptomycin
rpsL 781769 c.210G>A synonymous_variant 0.15 streptomycin
rpsL 781808 c.249C>T synonymous_variant 0.15 streptomycin
rpsL 781817 c.258G>T synonymous_variant 0.15 streptomycin
rplC 800357 c.-452C>A upstream_gene_variant 0.99 linezolid Not assoc w R
rplC 800690 c.-119C>T upstream_gene_variant 0.22 linezolid
rplC 800693 c.-116A>C upstream_gene_variant 0.21 linezolid
rplC 800703 c.-106T>C upstream_gene_variant 0.18 linezolid
rplC 800715 c.-94A>C upstream_gene_variant 0.18 linezolid
rplC 800720 c.-89T>C upstream_gene_variant 0.15 linezolid
rplC 800723 c.-86C>G upstream_gene_variant 0.16 linezolid
rplC 800738 c.-71T>C upstream_gene_variant 0.14 linezolid
rplC 800747 c.-62C>G upstream_gene_variant 0.15 linezolid
rplC 801166 p.Gly120Ser missense_variant 0.9 linezolid Uncertain significance
Rv1129c 1254562 c.-28T>C upstream_gene_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
isoniazid Not assoc w R
rifampicin Not assoc w R
fbiC 1303761 c.831T>C synonymous_variant 0.19 pretomanid
delamanid
clofazimine
fbiC 1303785 c.855G>C synonymous_variant 0.22 pretomanid
delamanid
clofazimine
fbiC 1303788 c.858T>C synonymous_variant 0.22 pretomanid
delamanid
clofazimine
fbiC 1303789 p.Ile287Val missense_variant 0.22 pretomanid
delamanid
clofazimine
fbiC 1303794 c.864A>G synonymous_variant 0.19 pretomanid
delamanid
clofazimine
fbiC 1303800 c.870G>T synonymous_variant 0.22 pretomanid
delamanid
clofazimine
fbiC 1303818 c.888C>G synonymous_variant 0.24 pretomanid
delamanid
clofazimine
fbiC 1303869 c.939T>C synonymous_variant 0.19 pretomanid
delamanid Not assoc w R - Interim
clofazimine Not assoc w R - Interim
fbiC 1303881 c.951G>C synonymous_variant 0.21 pretomanid
delamanid
clofazimine
fbiC 1303884 c.954T>G synonymous_variant 0.22 pretomanid
delamanid
clofazimine
fbiC 1303890 c.960G>A synonymous_variant 0.2 pretomanid
delamanid
clofazimine
fbiC 1303897 c.967C>T synonymous_variant 0.23 pretomanid
delamanid Not assoc w R - Interim
clofazimine Not assoc w R - Interim
fbiC 1303947 c.1017T>G synonymous_variant 0.16 pretomanid
delamanid
clofazimine
fbiC 1303948 p.Gly340Arg missense_variant 0.16 pretomanid
delamanid
clofazimine
fbiC 1303956 c.1026A>G synonymous_variant 0.16 pretomanid
delamanid
clofazimine
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
rrs 1471659 n.-187C>T upstream_gene_variant 1.0 kanamycin
capreomycin
streptomycin
amikacin
rrl 1475599 n.1942A>G non_coding_transcript_exon_variant 0.29 capreomycin
linezolid Uncertain significance
rrl 1475608 n.1951T>C non_coding_transcript_exon_variant 0.29 capreomycin Uncertain significance
linezolid
inhA 1674690 c.489C>G synonymous_variant 0.17 isoniazid
ethionamide
inhA 1674703 c.502T>C synonymous_variant 0.17 isoniazid
ethionamide
inhA 1674708 c.507G>A synonymous_variant 0.18 isoniazid
ethionamide
inhA 1674883 p.Ile228Val missense_variant 0.91 isoniazid Uncertain significance
ethionamide Uncertain significance
rpsA 1833595 c.54T>G synonymous_variant 0.16 pyrazinamide
rpsA 1833703 c.162C>T synonymous_variant 0.17 pyrazinamide Not assoc w R - Interim
rpsA 1833928 c.387G>C synonymous_variant 0.16 pyrazinamide
rpsA 1833940 c.399C>G synonymous_variant 0.18 pyrazinamide
rpsA 1833971 c.430C>T synonymous_variant 0.17 pyrazinamide
rpsA 1833979 c.438T>C synonymous_variant 0.17 pyrazinamide
rpsA 1833997 c.456G>C synonymous_variant 0.18 pyrazinamide
rpsA 1834021 c.480C>T synonymous_variant 0.2 pyrazinamide
rpsA 1834030 c.489C>G synonymous_variant 0.18 pyrazinamide
rpsA 1834294 c.753G>T synonymous_variant 0.14 pyrazinamide
rpsA 1834297 c.756C>G synonymous_variant 0.14 pyrazinamide
rpsA 1834348 c.807T>C synonymous_variant 0.19 pyrazinamide Not assoc w R - Interim
rpsA 1834357 c.816T>C synonymous_variant 0.18 pyrazinamide
rpsA 1834366 c.825A>G synonymous_variant 0.19 pyrazinamide Not assoc w R - Interim
rpsA 1834369 c.828C>G synonymous_variant 0.19 pyrazinamide
rpsA 1834375 c.834G>A synonymous_variant 0.17 pyrazinamide
tsnR 1853974 c.369C>T synonymous_variant 1.0 linezolid Not assoc w R
tsnR 1854045 p.Tyr147Cys missense_variant 1.0 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 kanamycin Not assoc w R
capreomycin Not assoc w R
streptomycin Not assoc w R
amikacin Not assoc w R
bacA 2064420 c.309C>T synonymous_variant 1.0 kanamycin Not assoc w R - Interim
capreomycin Not assoc w R - Interim
streptomycin Not assoc w R - Interim
amikacin Not assoc w R - Interim
katG 2154724 p.Arg463Leu missense_variant 1.0 isoniazid Not assoc w R
katG 2154917 p.Glu399Lys missense_variant 1.0 isoniazid
PPE35 2167926 p.Leu896Ser missense_variant 1.0 pyrazinamide Not assoc w R
PPE35 2167983 p.Gly877Asp missense_variant 1.0 pyrazinamide Uncertain significance
Rv1979c 2222308 p.Asp286Gly missense_variant 1.0 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 2518132 c.18C>T synonymous_variant 1.0 isoniazid
ahpC 2726051 c.-142G>A upstream_gene_variant 1.0 isoniazid
Rv2477c 2783149 c.894G>C synonymous_variant 0.24 kanamycin Not assoc w R - Interim
levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
streptomycin
rifampicin Not assoc w R - Interim
ethambutol
amikacin Not assoc w R - Interim
Rv2477c 2783158 c.885A>C synonymous_variant 0.23 kanamycin Not assoc w R - Interim
levofloxacin Not assoc w R - Interim
moxifloxacin
streptomycin
rifampicin Not assoc w R - Interim
ethambutol Not assoc w R - Interim
amikacin Not assoc w R - Interim
Rv2477c 2783674 c.369T>C synonymous_variant 0.17 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783683 c.360A>G synonymous_variant 0.16 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783691 c.352C>T synonymous_variant 0.18 kanamycin Not assoc w R - Interim
levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
streptomycin Not assoc w R - Interim
rifampicin Not assoc w R - Interim
ethambutol Not assoc w R - Interim
amikacin Not assoc w R - Interim
Rv2477c 2783695 c.348C>T synonymous_variant 0.17 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783700 p.Thr115Ser missense_variant 0.18 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783719 c.324A>G synonymous_variant 0.17 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783751 p.Ile98Val missense_variant 0.16 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2752c 3064632 c.1560C>T synonymous_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
isoniazid Not assoc w R
rifampicin Not assoc w R
ethambutol Not assoc w R
thyX 3067817 c.129C>T synonymous_variant 0.96 para-aminosalicylic_acid
ald 3086788 c.-32T>C upstream_gene_variant 1.0 cycloserine
Rv3083 3432818 c.-15685_*836del transcript_ablation 1.0 ethionamide Uncertain significance
lpqB 3624486 p.Asp142Gly missense_variant 1.0 rifampicin Not assoc w R
bedaquiline Uncertain significance
mtrB 3625065 p.Met517Leu missense_variant 1.0 rifampicin Not assoc w R
bedaquiline Uncertain significance
mtrB 3625755 p.Ala287Thr missense_variant 0.15 rifampicin Uncertain significance
bedaquiline
mtrB 3625806 c.808A>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
bedaquiline
mtrB 3627149 c.-536G>A upstream_gene_variant 0.13 rifampicin
bedaquiline
mtrB 3627254 c.-641C>T upstream_gene_variant 0.21 rifampicin
bedaquiline
mtrB 3627263 c.-650C>T upstream_gene_variant 0.19 rifampicin
bedaquiline
mtrB 3627266 c.-653A>G upstream_gene_variant 0.18 rifampicin
bedaquiline
mtrB 3627272 c.-659G>T upstream_gene_variant 0.2 rifampicin
bedaquiline
mtrB 3627275 c.-662G>T upstream_gene_variant 0.19 rifampicin
bedaquiline
mtrB 3627296 c.-683T>C upstream_gene_variant 0.15 rifampicin
bedaquiline
mtrB 3627299 c.-688_-686delTTGinsCTA upstream_gene_variant 0.14 rifampicin
bedaquiline
mtrB 3627317 c.-704T>C upstream_gene_variant 0.15 rifampicin
bedaquiline
fbiB 3642173 c.639G>A synonymous_variant 1.0 pretomanid
delamanid Not assoc w R - Interim
clofazimine Not assoc w R - Interim
rpoA 3877542 c.966C>T synonymous_variant 0.17 rifampicin
rpoA 3877553 p.Glu319Gln missense_variant 0.19 rifampicin
rpoA 3877587 c.921A>G synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoA 3877599 c.909G>A synonymous_variant 0.18 rifampicin
rpoA 3877656 c.852T>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoA 3877770 c.738A>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoA 3877776 c.732T>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoA 3877782 c.726T>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoA 3877818 c.690A>G synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoA 3877839 c.669G>C synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoA 3877857 c.651G>A synonymous_variant 0.26 rifampicin
rpoA 3877866 c.642G>C synonymous_variant 0.25 rifampicin
rpoA 3877872 c.636C>T synonymous_variant 0.27 rifampicin Not assoc w R - Interim
rpoA 3877875 c.633T>C synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoA 3877896 c.612G>C synonymous_variant 0.23 rifampicin
rpoA 3877900 p.Ser203Asn missense_variant 0.2 rifampicin
rpoA 3877905 c.603A>G synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoA 3877909 p.Asn200Ser missense_variant 0.17 rifampicin
rpoA 3877920 c.588G>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoA 3877962 c.546G>T synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoA 3877965 c.543C>T synonymous_variant 0.14 rifampicin
rpoA 3878082 c.426T>C synonymous_variant 0.15 rifampicin
rpoA 3878094 c.414C>G synonymous_variant 0.18 rifampicin
rpoA 3878103 c.405A>G synonymous_variant 0.17 rifampicin
rpoA 3878106 c.402G>C synonymous_variant 0.14 rifampicin
rpoA 3878118 c.390T>C synonymous_variant 0.16 rifampicin
rpoA 3878687 c.-180A>C upstream_gene_variant 1.0 rifampicin Uncertain significance
clpC1 4039022 c.1683A>G synonymous_variant 0.17 pyrazinamide
clpC1 4039034 c.1671C>G synonymous_variant 0.18 pyrazinamide
clpC1 4039037 c.1668T>C synonymous_variant 0.17 pyrazinamide
clpC1 4039064 c.1641C>T synonymous_variant 0.17 pyrazinamide
clpC1 4039094 c.1611C>G synonymous_variant 0.17 pyrazinamide
clpC1 4039103 c.1602T>C synonymous_variant 0.15 pyrazinamide
clpC1 4039106 c.1599G>C synonymous_variant 0.15 pyrazinamide
clpC1 4039112 c.1593C>G synonymous_variant 0.15 pyrazinamide
clpC1 4040033 c.672G>C synonymous_variant 0.17 pyrazinamide
clpC1 4040042 c.663C>T synonymous_variant 0.17 pyrazinamide Not assoc w R - Interim
clpC1 4040048 c.657C>T synonymous_variant 0.18 pyrazinamide Not assoc w R - Interim
clpC1 4040517 p.Val63Ala missense_variant 0.97 pyrazinamide Not assoc w R - Interim
glpK 4138377 p.Val460Ala missense_variant 1.0 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
embC 4238874 c.-989A>C upstream_gene_variant 1.0 ethambutol Uncertain significance
embC 4240671 p.Thr270Ile missense_variant 1.0 ethambutol Not assoc w R
embC 4241042 p.Asn394Asp missense_variant 0.86 ethambutol Not assoc w R
embC 4241047 c.1185C>A synonymous_variant 0.14 ethambutol
embC 4241050 c.1188T>G synonymous_variant 0.14 ethambutol
embC 4241053 c.1191G>C synonymous_variant 0.14 ethambutol
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 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
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 kanamycin Not assoc w R
capreomycin Not assoc w R
amikacin Not assoc w R
whiB6 4338603 c.-82C>T upstream_gene_variant 1.0 kanamycin Not assoc w R
capreomycin Not assoc w R
amikacin Not assoc w R
whiB6 4338613 c.-92G>A upstream_gene_variant 1.0 kanamycin
capreomycin
amikacin
whiB6 4338732 c.-211C>T upstream_gene_variant 1.0 kanamycin
capreomycin
amikacin
gid 4407588 c.615A>G synonymous_variant 1.0 streptomycin Not assoc w R
gid 4407780 c.423G>A synonymous_variant 1.0 streptomycin Not assoc w R - Interim
gid 4407873 c.330G>T synonymous_variant 0.96 streptomycin Not assoc w R