TB-Profiler result

Run: ERR13266684
Summary

Run ID: ERR13266684

Sample name:

Date: 2025-02-11T12:16:33.567647

Number of reads: 4745870

Percentage reads mapped: 98.27

Median coverage: 130.0

Strain: lineage2.2.1

Spoligotype:

Drug-resistance: Pre-XDR-TB

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Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family RDs Frequency
lineage2 East-Asian RD105 0.99
lineage2.2.1 East-Asian (Beijing) RD105;RD207;RD181 0.99
lineage2.2 East-Asian (Beijing) RD105;RD207 0.99
Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations WHO confidence Comment
rifampicin rpoB p.Ser450Leu Assoc w R
isoniazid inhA c.-777C>T Assoc w R Alias fabG1_c.-15C>T. Low-level resistance (multiple, genetically linked low-level resistance mutations are additive and confer high-level resistance)
katG p.Ser315Thr Assoc w R High-level resistance
ethambutol embA c.-11C>A Uncertain significance Mutation from literature
embB p.Met306Val Assoc w R
pyrazinamide pncA p.Leu27Pro Assoc w R
streptomycin rpsL p.Lys43Arg Assoc w R
fluoroquinolones
moxifloxacin gyrA p.Ala90Val Assoc w R Low-level resistance (multiple, genetically linked low-level resistance mutations are additive and confer high-level resistance)
ofloxacin
levofloxacin gyrA p.Ala90Val Assoc w R
ciprofloxacin
aminoglycosides
amikacin
capreomycin
kanamycin
cycloserine
ethionamide inhA c.-777C>T Assoc w R Alias fabG1_c.-15C>T
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
gyrA 7570 p.Ala90Val missense_variant 0.97 levofloxacin Assoc w R
moxifloxacin Assoc w R Low-level resistance (multiple, genetically linked low-level resistance mutations are additive and confer high-level resistance)
rpoB 761155 p.Ser450Leu missense_variant 0.95 rifampicin Assoc w R
rpsL 781687 p.Lys43Arg missense_variant 0.91 streptomycin Assoc w R
inhA 1673425 c.-777C>T upstream_gene_variant 0.99 ethionamide Assoc w R Alias fabG1_c.-15C>T
isoniazid Assoc w R Alias fabG1_c.-15C>T. Low-level resistance (multiple, genetically linked low-level resistance mutations are additive and confer high-level resistance)
katG 2155168 p.Ser315Thr missense_variant 0.99 isoniazid Assoc w R High-level resistance
pncA 2289162 p.Leu27Pro missense_variant 0.98 pyrazinamide Assoc w R
embA 4243222 c.-11C>A upstream_gene_variant 0.98 ethambutol Uncertain significance Mutation from literature
embB 4247429 p.Met306Val missense_variant 0.99 ethambutol Assoc w R
Non-Associated Mutations: This table reports mutations found in candidate resistance genes which have not been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs Confidence
gyrB 6073 c.834T>C synonymous_variant 0.12 levofloxacin
moxifloxacin
gyrB 6086 p.Thr283Pro missense_variant 0.13 levofloxacin
moxifloxacin
gyrB 6091 c.852G>C synonymous_variant 0.14 levofloxacin
moxifloxacin
gyrB 6100 c.861G>C synonymous_variant 0.14 levofloxacin
moxifloxacin
gyrB 6109 c.870G>C synonymous_variant 0.15 levofloxacin
moxifloxacin
gyrB 6115 c.876A>G synonymous_variant 0.15 levofloxacin
moxifloxacin
gyrB 6127 c.888G>C synonymous_variant 0.18 levofloxacin
moxifloxacin
gyrB 6148 c.909C>G synonymous_variant 0.18 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 8693 c.1392T>C synonymous_variant 0.13 levofloxacin
moxifloxacin
gyrA 9304 p.Gly668Asp missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
fgd1 491217 c.435T>C synonymous_variant 0.12 pretomanid
delamanid
clofazimine
fgd1 491223 c.441C>G synonymous_variant 0.12 pretomanid
delamanid
clofazimine
fgd1 491232 c.450T>C synonymous_variant 0.13 pretomanid
delamanid
clofazimine
fgd1 491742 c.960T>C synonymous_variant 1.0 pretomanid
delamanid Not assoc w R - Interim
clofazimine Not assoc w R
ccsA 620625 p.Ile245Met missense_variant 0.99 kanamycin Uncertain significance
capreomycin Not assoc w R
amikacin Not assoc w R
Rv0565c 657081 c.390G>A synonymous_variant 1.0 ethionamide Not assoc w R - Interim
Rv0565c 657142 p.Arg110His missense_variant 0.99 ethionamide Uncertain significance
nusG 734472 c.219T>C synonymous_variant 0.12 rifampicin
nusG 734475 c.222T>C synonymous_variant 0.12 rifampicin Not assoc w R - Interim
nusG 734502 c.249G>A synonymous_variant 0.14 rifampicin
nusG 734526 c.273G>A synonymous_variant 0.12 rifampicin
nusG 734541 c.288A>G synonymous_variant 0.12 rifampicin Not assoc w R - Interim
nusG 734571 c.318C>G synonymous_variant 0.12 rifampicin
nusG 734580 c.327T>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoB 760916 c.1110C>G synonymous_variant 0.19 rifampicin
rpoB 760919 c.1113C>G synonymous_variant 0.19 rifampicin
rpoB 760925 c.1119T>C synonymous_variant 0.19 rifampicin
rpoB 760934 c.1128C>T synonymous_variant 0.18 rifampicin
rpoB 760946 c.1140A>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 760970 c.1164G>C synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoB 760991 c.1185G>C synonymous_variant 0.23 rifampicin
rpoB 761615 c.1809A>C synonymous_variant 0.12 rifampicin Not assoc w R - Interim
rpoB 761636 c.1830G>T synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 761645 c.1839C>G synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoB 761648 c.1842T>C synonymous_variant 0.13 rifampicin
rpoB 761657 c.1851C>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 761675 c.1869G>C synonymous_variant 0.15 rifampicin
rpoB 761690 c.1884G>C synonymous_variant 0.16 rifampicin
rpoB 761702 c.1896C>T synonymous_variant 0.15 rifampicin
rpoB 761723 p.Glu639Asp missense_variant 0.12 rifampicin Not assoc w R
rpoB 761735 c.1929C>G synonymous_variant 0.12 rifampicin
rpoB 762011 c.2205G>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 762017 c.2211A>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 762029 c.2223C>G synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoB 762053 c.2247T>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 762056 c.2250G>A synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoB 762062 c.2256T>C synonymous_variant 0.17 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 0.14 rifampicin Not assoc w R - Interim
rpoB 762086 c.2280G>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 762101 c.2295C>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 762114 p.Ile770Val missense_variant 0.16 rifampicin Uncertain significance
rpoB 762122 c.2316C>T synonymous_variant 0.14 rifampicin
rpoB 762488 c.2682G>C synonymous_variant 0.12 rifampicin Not assoc w R - Interim
rpoB 762491 c.2685T>C synonymous_variant 0.12 rifampicin Not assoc w R - Interim
rpoC 762521 c.-849C>G upstream_gene_variant 0.11 rifampicin
rpoB 762539 p.Leu911Phe missense_variant 0.12 rifampicin
rpoB 763031 c.3225T>C synonymous_variant 1.0 rifampicin Not assoc w R
rpoC 764011 c.642T>C synonymous_variant 0.12 rifampicin
rpoC 764032 p.Asp221Glu missense_variant 0.13 rifampicin
rpoC 764044 c.675T>C synonymous_variant 0.13 rifampicin
rpoC 764059 c.690G>C synonymous_variant 0.18 rifampicin
rpoC 764083 c.714A>G synonymous_variant 0.2 rifampicin
rpoC 764098 c.729A>G synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 764131 c.762T>C synonymous_variant 0.15 rifampicin
rpoC 764134 c.765C>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 764188 c.819A>G synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 764858 c.1489T>C synonymous_variant 0.12 rifampicin Not assoc w R - Interim
rpoC 764875 c.1506C>G synonymous_variant 0.13 rifampicin
rpoC 764911 c.1542A>G synonymous_variant 0.12 rifampicin
rpoC 764923 c.1554A>G synonymous_variant 0.12 rifampicin Not assoc w R - Interim
rpoC 765454 c.2085C>G synonymous_variant 0.12 rifampicin Not assoc w R - Interim
rpoC 765466 c.2097C>T synonymous_variant 0.13 rifampicin
rpoC 765478 c.2109T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 765493 c.2124G>C synonymous_variant 0.13 rifampicin
rpoC 765612 p.His748Pro missense_variant 0.13 rifampicin Uncertain significance
rpoC 765628 c.2259G>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 765700 c.2331T>C synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoC 765724 c.2355C>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 765734 c.2365T>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 765772 c.2403C>G synonymous_variant 0.17 rifampicin
rpoC 765787 c.2418C>T synonymous_variant 0.16 rifampicin
rpoC 765790 c.2421C>G synonymous_variant 0.16 rifampicin
rpoC 765793 c.2424C>G synonymous_variant 0.16 rifampicin
rpoC 765796 c.2427C>T synonymous_variant 0.16 rifampicin
rpoC 765811 c.2442T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 765814 c.2445A>G synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 765826 c.2457T>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 765835 c.2466C>T synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 766471 c.3102G>C synonymous_variant 0.14 rifampicin
rpoC 766486 c.3117A>G synonymous_variant 0.16 rifampicin
rpoC 766488 p.Pro1040Arg missense_variant 0.83 rifampicin Uncertain significance
rpoC 766492 c.3123T>C synonymous_variant 0.16 rifampicin
rpoC 766495 c.3126C>G synonymous_variant 0.16 rifampicin
rpoC 766522 c.3153C>A synonymous_variant 0.15 rifampicin
rpoC 766540 p.Asp1057Glu missense_variant 0.14 rifampicin
rpoC 766543 c.3174C>T synonymous_variant 0.15 rifampicin
rpoC 766549 c.3180G>C synonymous_variant 0.16 rifampicin
rpoC 766570 c.3201T>C synonymous_variant 0.18 rifampicin
rpoC 766573 c.3204T>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 766582 c.3213C>T synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 766585 c.3216T>C synonymous_variant 0.16 rifampicin
rpoC 766607 p.Ile1080Leu missense_variant 0.17 rifampicin
rpoC 766618 c.3249G>T synonymous_variant 0.16 rifampicin
rpoC 766645 c.3276A>G synonymous_variant 0.13 rifampicin
rpoC 766708 c.3339A>G synonymous_variant 0.13 rifampicin
rpoC 766714 c.3345G>C synonymous_variant 0.14 rifampicin
rpoC 766726 c.3357T>C synonymous_variant 0.14 rifampicin
rpoC 766738 c.3369G>C synonymous_variant 0.15 rifampicin
rpoC 766750 c.3381C>G synonymous_variant 0.14 rifampicin
rpoC 766756 c.3387G>A synonymous_variant 0.14 rifampicin
rpoC 766765 c.3396A>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 766798 c.3429C>G synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 766801 c.3432C>G synonymous_variant 0.13 rifampicin
rpoC 766804 c.3435A>G synonymous_variant 0.12 rifampicin Not assoc w R - Interim
rpoC 766843 c.3474T>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 766846 c.3477C>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 766895 c.3526T>C synonymous_variant 0.12 rifampicin
rpoC 766900 c.3531T>C synonymous_variant 0.13 rifampicin
rpoC 766918 c.3549C>T synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 766933 c.3564A>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 766942 c.3573C>T synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 766945 c.3576A>G synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoC 766963 c.3594T>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 766972 c.3603G>C synonymous_variant 0.2 rifampicin
rpoC 766978 c.3609C>T synonymous_variant 0.19 rifampicin
rpoC 766981 c.3612T>C synonymous_variant 0.19 rifampicin
rpoC 766988 c.3619_3621delCTGinsTTA synonymous_variant 0.19 rifampicin
rpoC 766996 c.3627C>T synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 767002 c.3633G>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 767023 c.3654C>T synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 767033 c.3664_3666delTCGinsAGT synonymous_variant 0.17 rifampicin
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
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0 bedaquiline
clofazimine
rpsL 781395 c.-165T>C upstream_gene_variant 1.0 streptomycin Not assoc w R
rpsL 781868 c.309T>C synonymous_variant 0.12 streptomycin
rpsL 781871 c.312G>C synonymous_variant 0.12 streptomycin
rpsL 781877 c.318T>C synonymous_variant 0.14 streptomycin
rpsL 781892 c.333A>G synonymous_variant 0.15 streptomycin
rpsL 781898 c.339A>T synonymous_variant 0.15 streptomycin
rpsL 781916 c.357T>C synonymous_variant 0.14 streptomycin
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
Rv1258c 1406760 c.580_581insC frameshift_variant 0.99 streptomycin Uncertain significance
pyrazinamide Uncertain significance
isoniazid Uncertain significance
rrs 1471659 n.-187C>T upstream_gene_variant 1.0 kanamycin
capreomycin
streptomycin
amikacin
rrs 1472489 n.644A>G non_coding_transcript_exon_variant 0.51 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
inhA 1674966 c.765T>C synonymous_variant 0.12 isoniazid
ethionamide
inhA 1674990 c.789C>A synonymous_variant 0.13 isoniazid
ethionamide
inhA 1674993 c.792G>C synonymous_variant 0.13 isoniazid
ethionamide
rpsA 1833568 c.27G>C synonymous_variant 0.13 pyrazinamide Not assoc w R - Interim
rpsA 1833589 c.48A>C synonymous_variant 0.15 pyrazinamide
rpsA 1833595 c.54T>G synonymous_variant 0.15 pyrazinamide
rpsA 1833607 c.66T>C synonymous_variant 0.16 pyrazinamide
rpsA 1833610 c.69C>A synonymous_variant 0.16 pyrazinamide
rpsA 1833616 c.75A>C synonymous_variant 0.16 pyrazinamide
rpsA 1833619 c.78A>C synonymous_variant 0.17 pyrazinamide
rpsA 1833628 c.87G>C synonymous_variant 0.17 pyrazinamide
rpsA 1833634 c.93G>A synonymous_variant 0.17 pyrazinamide
rpsA 1833664 c.123C>G synonymous_variant 0.17 pyrazinamide
rpsA 1833676 c.135A>G synonymous_variant 0.17 pyrazinamide
rpsA 1833679 c.138G>C synonymous_variant 0.17 pyrazinamide
rpsA 1833778 c.237C>G synonymous_variant 0.13 pyrazinamide
rpsA 1833781 c.240T>G synonymous_variant 0.13 pyrazinamide
rpsA 1833790 c.249T>C synonymous_variant 0.13 pyrazinamide
rpsA 1833802 c.261A>G synonymous_variant 0.12 pyrazinamide
rpsA 1833805 c.264C>T synonymous_variant 0.12 pyrazinamide
rpsA 1833811 c.270G>C synonymous_variant 0.12 pyrazinamide
rpsA 1834177 c.636A>C synonymous_variant 0.98 pyrazinamide Not assoc w R - Interim
rpsA 1834222 c.681T>C synonymous_variant 0.12 pyrazinamide
rpsA 1834231 c.690T>G synonymous_variant 0.12 pyrazinamide
rpsA 1834249 c.708T>C synonymous_variant 0.15 pyrazinamide
rpsA 1834261 c.720A>G synonymous_variant 0.15 pyrazinamide Not assoc w R - Interim
rpsA 1834262 c.721_723delTCGinsAGC synonymous_variant 0.14 pyrazinamide
rpsA 1834285 c.744G>C synonymous_variant 0.13 pyrazinamide
rpsA 1834294 c.753G>C synonymous_variant 0.13 pyrazinamide
rpsA 1834297 c.756C>G synonymous_variant 0.13 pyrazinamide
rpsA 1834303 c.762T>C synonymous_variant 0.12 pyrazinamide
rpsA 1834306 c.765T>C synonymous_variant 0.12 pyrazinamide
rpsA 1834609 c.1068T>C synonymous_variant 0.13 pyrazinamide
rpsA 1834612 c.1071G>T synonymous_variant 0.14 pyrazinamide
rpsA 1834639 c.1098T>C synonymous_variant 0.15 pyrazinamide
rpsA 1834654 c.1113G>A synonymous_variant 0.14 pyrazinamide
rpsA 1834669 c.1128G>C synonymous_variant 0.15 pyrazinamide
rpsA 1834690 c.1149T>C synonymous_variant 0.15 pyrazinamide
rpsA 1834733 p.Ala398Ser missense_variant 0.14 pyrazinamide
tsnR 1853360 c.-246G>A upstream_gene_variant 0.18 linezolid
tsnR 1853361 c.-245T>C upstream_gene_variant 0.17 linezolid
tsnR 1853372 c.-234A>G upstream_gene_variant 0.15 linezolid
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
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
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0 bedaquiline Not assoc w R - Interim
clofazimine Not assoc w R
kasA 2518587 p.Leu158Arg missense_variant 0.14 isoniazid
kasA 2518591 c.477G>T synonymous_variant 0.14 isoniazid
kasA 2518597 c.483C>G synonymous_variant 0.16 isoniazid
kasA 2518609 p.Met165Ile missense_variant 0.19 isoniazid
kasA 2518612 c.498C>T synonymous_variant 0.19 isoniazid
kasA 2518624 c.510C>G synonymous_variant 0.2 isoniazid
kasA 2518644 p.Ala177Gly missense_variant 0.17 isoniazid
kasA 2518663 c.549T>G synonymous_variant 0.16 isoniazid
kasA 2518672 c.558G>C synonymous_variant 0.17 isoniazid
kasA 2518678 c.564C>T synonymous_variant 0.17 isoniazid
kasA 2518688 p.Val192Phe missense_variant 0.15 isoniazid
kasA 2518693 c.579C>G synonymous_variant 0.15 isoniazid
kasA 2518694 p.Val194Ile missense_variant 0.14 isoniazid
kasA 2518714 c.600A>C synonymous_variant 0.16 isoniazid
kasA 2518717 c.603C>A synonymous_variant 0.16 isoniazid
kasA 2518720 c.606C>T synonymous_variant 0.15 isoniazid
kasA 2518732 c.618C>G synonymous_variant 0.15 isoniazid
kasA 2518738 c.624G>A synonymous_variant 0.15 isoniazid
kasA 2518747 c.633C>G synonymous_variant 0.14 isoniazid
kasA 2518765 c.651G>T synonymous_variant 0.15 isoniazid
kasA 2518780 p.Glu222Asp missense_variant 0.14 isoniazid
kasA 2518783 c.669T>G synonymous_variant 0.14 isoniazid
kasA 2518786 c.672G>A synonymous_variant 0.14 isoniazid
kasA 2518787 p.Arg225Gly missense_variant 0.14 isoniazid
kasA 2518792 c.678C>G synonymous_variant 0.14 isoniazid
kasA 2518795 c.681C>A synonymous_variant 0.14 isoniazid
kasA 2518822 c.708C>G synonymous_variant 0.16 isoniazid
Rv2477c 2783374 c.669G>C synonymous_variant 0.13 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783386 c.657G>C synonymous_variant 0.13 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783395 c.648T>C synonymous_variant 0.12 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783422 c.621T>G synonymous_variant 0.13 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783425 c.618C>G synonymous_variant 0.13 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783440 c.603T>C synonymous_variant 0.16 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783461 c.582T>C synonymous_variant 0.16 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783473 c.570A>C synonymous_variant 0.15 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783499 c.544T>C synonymous_variant 0.15 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783502 c.541T>C synonymous_variant 0.15 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 2783557 c.486T>C synonymous_variant 0.12 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783683 c.360A>G synonymous_variant 0.12 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783691 c.352C>T synonymous_variant 0.14 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 2783718 c.325T>C synonymous_variant 0.17 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783737 c.306C>G synonymous_variant 0.16 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783761 c.282G>C synonymous_variant 0.12 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783776 c.267G>C synonymous_variant 0.14 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783797 p.Asp82Glu missense_variant 0.16 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783800 c.243G>A synonymous_variant 0.18 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783815 c.228A>G synonymous_variant 0.21 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783833 c.210G>C synonymous_variant 0.17 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783857 c.186C>T synonymous_variant 0.13 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783860 c.183T>C synonymous_variant 0.13 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783872 c.171G>C synonymous_variant 0.12 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783914 c.129T>C synonymous_variant 0.14 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
ald 3086788 c.-32T>C upstream_gene_variant 1.0 cycloserine
whiB7 3568579 c.100dupG frameshift_variant 1.0 kanamycin Uncertain significance
amikacin Uncertain significance
streptomycin Uncertain significance
whiB7 3568854 c.-176delG upstream_gene_variant 0.99 kanamycin Uncertain significance
amikacin Uncertain significance
streptomycin Uncertain significance
whiB7 3569220 c.-541C>T upstream_gene_variant 0.98 kanamycin
amikacin
streptomycin
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0 pyrazinamide Not assoc w R - Interim
mtrB 3625065 p.Met517Leu missense_variant 1.0 rifampicin Not assoc w R
bedaquiline Uncertain significance
mtrB 3625729 c.885A>G synonymous_variant 0.13 rifampicin Not assoc w R - Interim
bedaquiline
mtrB 3625747 c.867G>C synonymous_variant 0.12 rifampicin Not assoc w R - Interim
bedaquiline
mtrB 3625762 c.852A>G synonymous_variant 0.13 rifampicin Not assoc w R - Interim
bedaquiline
mtrB 3626562 p.Pro18Ser missense_variant 1.0 rifampicin Not assoc w R
bedaquiline Uncertain significance
rpoA 3877886 c.622C>T synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoA 3877900 p.Ser203Thr missense_variant 0.13 rifampicin
rpoA 3877905 c.603A>G synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoA 3877908 c.600T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoA 3877956 c.552G>A synonymous_variant 0.13 rifampicin
rpoA 3877962 c.546G>T synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoA 3878124 c.384G>C synonymous_variant 0.12 rifampicin
rpoA 3878130 c.378C>G synonymous_variant 0.12 rifampicin
rpoA 3878145 c.363C>G synonymous_variant 0.12 rifampicin
rpoA 3878193 c.315T>C synonymous_variant 0.12 rifampicin Not assoc w R - Interim
rpoA 3878205 c.303T>G synonymous_variant 0.11 rifampicin Not assoc w R - Interim
rpoA 3878776 c.-269G>C upstream_gene_variant 0.11 rifampicin
rpoA 3878788 c.-281G>C upstream_gene_variant 0.11 rifampicin Uncertain significance
rpoA 3878794 c.-287G>C upstream_gene_variant 0.12 rifampicin Uncertain significance
rpoA 3878797 c.-290G>C upstream_gene_variant 0.11 rifampicin
clpC1 4038623 c.2082A>G synonymous_variant 0.12 pyrazinamide
embC 4242643 c.2781C>T synonymous_variant 1.0 ethambutol Not assoc w R
embA 4243460 c.228C>T synonymous_variant 1.0 ethambutol Not assoc w R
aftB 4267647 p.Asp397Gly missense_variant 0.95 ethambutol Not assoc w R
ethA 4326513 p.Thr321Pro missense_variant 0.96 ethionamide Uncertain significance
ethA 4326676 p.Ser266Arg missense_variant 0.99 ethionamide 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 4338732 c.-211C>T upstream_gene_variant 0.99 kanamycin
capreomycin
amikacin
gid 4407588 c.615A>G synonymous_variant 1.0 streptomycin Not assoc w R
gid 4407927 p.Glu92Asp missense_variant 1.0 streptomycin Not assoc w R