TB-Profiler result

Run: SRR6785268
Summary

Run ID: SRR6785268

Sample name:

Date: 2024-10-04T02:40:56.609488

Number of reads: 2567898

Percentage reads mapped: 82.12

Median coverage: 61.0

Strain: lineage4.2.1

Spoligotype:

Drug-resistance: Sensitive

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Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family RDs Frequency
lineage4.2 Euro-American None 0.95
lineage4 Euro-American None 0.99
lineage4.2.1 Euro-American (TUR) None 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
gyrB 6238 c.999G>A synonymous_variant 0.2 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrB 6242 p.Arg335Asn missense_variant 0.2 levofloxacin
moxifloxacin
gyrB 6250 c.1011A>G synonymous_variant 0.19 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrB 6256 c.1017G>A synonymous_variant 0.2 levofloxacin
moxifloxacin
gyrB 6268 c.1029C>G synonymous_variant 0.18 levofloxacin
moxifloxacin
gyrB 6280 c.1041T>C synonymous_variant 0.18 levofloxacin
moxifloxacin
gyrB 6286 c.1047T>C synonymous_variant 0.17 levofloxacin
moxifloxacin
gyrB 6289 c.1050C>T synonymous_variant 0.17 levofloxacin
moxifloxacin
gyrB 6292 c.1053G>C synonymous_variant 0.17 levofloxacin
moxifloxacin
gyrB 6307 c.1068T>G synonymous_variant 0.18 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 6362 c.-940T>C upstream_gene_variant 0.18 levofloxacin
moxifloxacin
gyrA 6379 c.-923C>G upstream_gene_variant 0.13 levofloxacin
moxifloxacin
gyrA 6670 c.-632G>C upstream_gene_variant 0.15 levofloxacin
moxifloxacin
gyrA 6673 c.-629A>C upstream_gene_variant 0.15 levofloxacin
moxifloxacin
gyrA 6676 c.-626T>G upstream_gene_variant 0.15 levofloxacin
moxifloxacin
gyrA 6700 c.-602T>C upstream_gene_variant 0.16 levofloxacin
moxifloxacin
gyrA 6703 c.-599G>C upstream_gene_variant 0.17 levofloxacin
moxifloxacin
gyrA 6709 c.-593A>G upstream_gene_variant 0.17 levofloxacin
moxifloxacin
gyrA 6712 c.-590G>C upstream_gene_variant 0.17 levofloxacin
moxifloxacin
gyrA 7362 p.Glu21Gln missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 7394 c.93T>C synonymous_variant 0.13 levofloxacin Not assoc w R - Interim
moxifloxacin
gyrA 7585 p.Ser95Thr missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 9304 p.Gly668Asp missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
fgd1 490905 c.123T>C synonymous_variant 0.14 pretomanid
delamanid
clofazimine
fgd1 490911 c.129T>G synonymous_variant 0.13 pretomanid
delamanid
clofazimine
fgd1 490917 c.135C>G synonymous_variant 0.13 pretomanid
delamanid
clofazimine
fgd1 491001 c.219G>C synonymous_variant 0.15 pretomanid
delamanid
clofazimine
fgd1 491007 c.225G>C synonymous_variant 0.16 pretomanid
delamanid
clofazimine
fgd1 491013 c.231C>G synonymous_variant 0.17 pretomanid
delamanid
clofazimine
fgd1 491043 c.261T>G synonymous_variant 0.15 pretomanid
delamanid
clofazimine
fgd1 491049 c.267T>C synonymous_variant 0.14 pretomanid
delamanid
clofazimine
fgd1 491247 c.465C>T synonymous_variant 0.89 pretomanid
delamanid Not assoc w R - Interim
clofazimine Not assoc w R - Interim
fgd1 491535 c.753G>C synonymous_variant 0.16 pretomanid
delamanid
clofazimine
fgd1 491542 c.760T>C synonymous_variant 0.17 pretomanid
delamanid
clofazimine
fgd1 491547 c.765A>C synonymous_variant 0.16 pretomanid
delamanid
clofazimine
fgd1 491550 c.768T>C synonymous_variant 0.15 pretomanid
delamanid
clofazimine
fgd1 491553 c.771G>A synonymous_variant 0.17 pretomanid
delamanid
clofazimine
fgd1 491742 c.960T>C synonymous_variant 0.15 pretomanid
delamanid Not assoc w R - Interim
clofazimine Not assoc w R
mshA 575779 c.432A>G synonymous_variant 0.21 isoniazid
ethionamide
mshA 575782 c.435G>C synonymous_variant 0.2 isoniazid
ethionamide
mshA 575812 c.465C>T synonymous_variant 0.15 isoniazid
ethionamide
ccsA 620346 c.456C>G synonymous_variant 0.19 kanamycin
capreomycin
amikacin
ccsA 620362 p.Ala158Thr missense_variant 0.17 kanamycin
capreomycin
amikacin
ccsA 620367 c.477T>C synonymous_variant 0.19 kanamycin
capreomycin
amikacin
ccsA 620373 c.483C>G synonymous_variant 0.19 kanamycin
capreomycin
amikacin
ccsA 620376 c.486G>C synonymous_variant 0.18 kanamycin
capreomycin
amikacin
ccsA 620385 c.495G>C synonymous_variant 0.18 kanamycin
capreomycin
amikacin
ccsA 620388 c.498A>G synonymous_variant 0.17 kanamycin
capreomycin
amikacin
ccsA 620389 c.499C>T synonymous_variant 0.17 kanamycin
capreomycin
amikacin
ccsA 620412 c.522T>C synonymous_variant 0.17 kanamycin
capreomycin
amikacin
ccsA 620415 c.525T>C synonymous_variant 0.16 kanamycin Not assoc w R - Interim
capreomycin Not assoc w R - Interim
amikacin Not assoc w R - Interim
ccsA 620424 c.534G>C synonymous_variant 0.18 kanamycin
capreomycin
amikacin
ccsA 620433 c.543C>G synonymous_variant 0.17 kanamycin Not assoc w R - Interim
capreomycin Not assoc w R - Interim
amikacin Not assoc w R - Interim
hadA 731732 c.-198G>A upstream_gene_variant 0.15 isoniazid
hadA 731747 c.-183T>C upstream_gene_variant 0.14 isoniazid
rpoB 760235 c.429T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 760283 c.477G>C synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoB 760298 c.492G>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoB 760307 c.501T>C synonymous_variant 0.19 rifampicin
rpoB 760310 c.504G>C synonymous_variant 0.19 rifampicin
rpoB 760328 c.522G>C synonymous_variant 0.19 rifampicin
rpoB 760331 c.525G>C synonymous_variant 0.2 rifampicin
rpoB 760340 c.534G>T synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoB 760361 c.555T>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 760370 c.564C>G synonymous_variant 0.14 rifampicin
rpoB 760376 p.Asp190Glu missense_variant 0.15 rifampicin Uncertain significance
rpoB 760380 p.Thr192Leu missense_variant 0.15 rifampicin
rpoB 760406 c.600G>C synonymous_variant 0.13 rifampicin
rpoB 760475 c.669A>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoB 760481 c.675G>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 760484 c.678A>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 760522 p.Ser239Asn missense_variant 0.16 rifampicin Uncertain significance
rpoB 760541 c.735G>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 760547 c.741G>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 760563 p.Arg253Met missense_variant 0.15 rifampicin Uncertain significance
rpoB 760591 p.Val262Ala missense_variant 0.15 rifampicin
rpoB 760718 c.912C>T synonymous_variant 0.14 rifampicin
rpoB 760724 c.918T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 761006 c.1200C>G synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoB 761015 c.1209G>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 761021 c.1215G>C synonymous_variant 0.14 rifampicin
rpoB 761027 c.1221A>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 761102 c.1296A>G synonymous_variant 0.2 rifampicin
rpoB 761129 c.1323G>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 761132 c.1326G>T synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 761133 c.1327T>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 761150 c.1344A>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoB 761153 c.1347G>C synonymous_variant 0.16 rifampicin
rpoB 761165 c.1359G>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoB 761180 c.1374A>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 761189 c.1383T>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoB 761195 c.1389G>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 761207 c.1401C>T synonymous_variant 0.17 rifampicin
rpoB 761213 c.1407G>C synonymous_variant 0.15 rifampicin
rpoB 761219 c.1413G>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 761477 c.1671C>G synonymous_variant 0.14 rifampicin
rpoB 761510 c.1704T>C synonymous_variant 0.15 rifampicin
rpoB 761570 c.1764T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 761573 c.1767C>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 761579 c.1773G>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 761588 c.1782C>T synonymous_variant 0.14 rifampicin
rpoB 761765 c.1959T>C synonymous_variant 0.14 rifampicin
rpoB 761772 p.His656Ala missense_variant 0.15 rifampicin
rpoB 761778 p.Asn658Asp missense_variant 0.15 rifampicin
rpoB 761791 p.Arg662His missense_variant 0.14 rifampicin
rpoB 762083 c.2277T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 762086 c.2280G>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoB 762317 c.2511A>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 762329 c.2523G>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 762929 c.3123G>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 762989 c.-381G>C upstream_gene_variant 0.17 rifampicin
rpoB 762995 c.3189G>T synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 763013 c.-357C>G upstream_gene_variant 0.2 rifampicin
rpoC 763025 c.-345C>T upstream_gene_variant 0.2 rifampicin
rpoB 763028 c.3222T>C synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoB 763031 c.3225T>G synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoB 763034 c.3228C>G synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoB 763040 c.3234C>G synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoB 763070 c.3264T>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoB 763085 c.3279C>G synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoB 763115 c.3309T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 763136 c.3330C>T synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 763148 c.-222G>C upstream_gene_variant 0.14 rifampicin
rpoC 763402 c.33C>G synonymous_variant 0.16 rifampicin
rpoC 763411 c.42T>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 763414 c.45T>C synonymous_variant 0.18 rifampicin
rpoC 763441 c.72C>T synonymous_variant 0.18 rifampicin
rpoC 763444 c.75T>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 763456 c.87A>G synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 763486 c.117T>G synonymous_variant 0.21 rifampicin
rpoC 763528 c.159G>A synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoC 763546 c.177A>G synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoC 763570 c.201G>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 763573 c.204G>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 763594 c.225C>T synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 763603 c.234C>T synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 763636 c.267T>C synonymous_variant 0.24 rifampicin
rpoC 763660 c.291T>G synonymous_variant 0.23 rifampicin Not assoc w R - Interim
rpoC 763675 c.306C>G synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoC 763696 c.327T>C synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoC 763702 c.333C>G synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoC 763717 c.348T>C synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoC 763723 c.354G>C synonymous_variant 0.2 rifampicin
rpoC 763732 c.363C>G synonymous_variant 0.18 rifampicin
rpoC 763741 c.372C>T synonymous_variant 0.17 rifampicin
rpoC 763744 c.375G>C synonymous_variant 0.17 rifampicin
rpoC 763765 c.396T>C synonymous_variant 0.2 rifampicin
rpoC 763774 c.405G>C synonymous_variant 0.19 rifampicin
rpoC 763807 c.438T>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 763816 c.447C>G synonymous_variant 0.14 rifampicin
rpoC 764257 c.888G>C synonymous_variant 0.14 rifampicin
rpoC 764266 c.897T>C synonymous_variant 0.13 rifampicin
rpoC 764338 c.969G>A synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 764353 c.984G>C synonymous_variant 0.15 rifampicin
rpoC 764365 c.996C>T synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 764405 c.1036A>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 764419 c.1050C>G synonymous_variant 0.19 rifampicin
rpoC 764428 c.1059G>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 764431 c.1062G>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 764434 c.1065A>G synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 764446 c.1077T>C synonymous_variant 0.16 rifampicin
rpoC 764449 c.1080G>C synonymous_variant 0.15 rifampicin
rpoC 764452 c.1083T>C synonymous_variant 0.15 rifampicin
rpoC 764458 c.1089G>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 764461 c.1092A>G synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 764489 c.1120C>T synonymous_variant 0.14 rifampicin
rpoC 764593 c.1224C>T synonymous_variant 0.13 rifampicin
rpoC 764651 p.Ser428Thr missense_variant 0.13 rifampicin
rpoC 764932 c.1563C>A synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 764935 c.1566T>C synonymous_variant 0.15 rifampicin
rpoC 765319 c.1950A>G synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 765327 p.His653Pro missense_variant 0.13 rifampicin
rpoC 765329 p.Ser654Gly missense_variant 0.14 rifampicin
rpoC 765383 p.Met672Leu missense_variant 0.15 rifampicin Uncertain significance
rpoC 765404 p.Leu679Val missense_variant 0.15 rifampicin
rpoC 765937 c.2568T>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 765982 c.2613C>G synonymous_variant 0.16 rifampicin
rpoC 765994 c.2625A>T synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 766010 c.2641_2642delTCinsAG synonymous_variant 0.16 rifampicin
rpoC 766021 c.2652G>C synonymous_variant 0.19 rifampicin
rpoC 766027 c.2658G>C synonymous_variant 0.19 rifampicin
rpoC 766043 p.Gln892Glu missense_variant 0.17 rifampicin
rpoC 766054 c.2685C>G synonymous_variant 0.17 rifampicin
rpoC 766597 c.3228C>G synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 766607 p.Ile1080Leu missense_variant 0.15 rifampicin
rpoC 766630 c.3261G>C synonymous_variant 0.16 rifampicin
rpoC 766726 c.3357T>C synonymous_variant 0.14 rifampicin
rpoC 766738 c.3369G>C synonymous_variant 0.17 rifampicin
rpoC 766774 c.3405T>C synonymous_variant 0.21 rifampicin
rpoC 766801 c.3432C>G synonymous_variant 0.18 rifampicin
rpoC 766804 c.3435A>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 766861 c.3492G>C synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoC 766864 c.3495G>C synonymous_variant 0.21 rifampicin
rpoC 767059 c.3690T>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 767062 c.3693C>A synonymous_variant 0.15 rifampicin
rpoC 767098 c.3729T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 767119 c.3750A>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 767134 c.3765C>A synonymous_variant 0.15 rifampicin
rpoC 767158 c.3789T>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 767180 p.Ala1271Gln missense_variant 0.15 rifampicin
mmpL5 775639 p.Ile948Val missense_variant 1.0 bedaquiline Not assoc w R - Interim
clofazimine Not assoc w R
rpsL 781395 c.-165T>C upstream_gene_variant 1.0 streptomycin Not assoc w R
rpsL 781700 c.141G>C synonymous_variant 0.14 streptomycin
rpsL 781703 c.144G>T synonymous_variant 0.13 streptomycin
rpsL 781715 c.156T>C synonymous_variant 0.16 streptomycin
rpsL 781728 c.169T>C synonymous_variant 0.16 streptomycin
rpsL 781736 c.177T>C synonymous_variant 0.13 streptomycin
rpsL 781742 c.183C>T synonymous_variant 0.14 streptomycin
rpsL 781748 c.189C>G synonymous_variant 0.14 streptomycin
rpsL 781808 c.249C>T synonymous_variant 0.14 streptomycin
rpsL 781811 c.252C>T synonymous_variant 0.14 streptomycin
rpsL 781832 c.273T>C synonymous_variant 0.14 streptomycin
rpsL 781838 c.279G>C synonymous_variant 0.15 streptomycin
rpsL 781841 c.282C>G synonymous_variant 0.17 streptomycin
rpsL 781865 c.306G>C synonymous_variant 0.15 streptomycin
rpsL 781868 c.309T>C synonymous_variant 0.15 streptomycin
rpsL 781871 c.312G>C synonymous_variant 0.14 streptomycin
rpsL 781877 c.318T>C synonymous_variant 0.14 streptomycin
rpsL 781898 c.339A>T synonymous_variant 0.15 streptomycin
rpsL 781916 c.357T>C synonymous_variant 0.15 streptomycin
rpsL 781929 p.Gly124Ser missense_variant 0.17 streptomycin Uncertain significance
rplC 800204 c.-605T>C upstream_gene_variant 0.95 linezolid
rplC 800582 c.-227C>G upstream_gene_variant 0.14 linezolid
rplC 800612 c.-197A>G upstream_gene_variant 0.14 linezolid
rplC 800618 c.-191T>C upstream_gene_variant 0.14 linezolid
rplC 800648 c.-161A>T upstream_gene_variant 0.14 linezolid
rplC 800654 c.-155T>C upstream_gene_variant 0.15 linezolid
rplC 800693 c.-116A>G upstream_gene_variant 0.18 linezolid
rplC 800703 c.-106T>C upstream_gene_variant 0.16 linezolid
rplC 800715 c.-94A>C upstream_gene_variant 0.15 linezolid
rplC 800720 c.-89T>C upstream_gene_variant 0.16 linezolid
rplC 800723 c.-86C>G upstream_gene_variant 0.16 linezolid
rplC 800747 c.-62C>G upstream_gene_variant 0.14 linezolid
rplC 800814 c.6A>G synonymous_variant 0.14 linezolid
rplC 800817 c.9A>T synonymous_variant 0.14 linezolid
rplC 800907 c.99C>G synonymous_variant 0.14 linezolid
Rv1129c 1254624 c.-90G>A upstream_gene_variant 0.96 levofloxacin
moxifloxacin
isoniazid
rifampicin
fbiC 1303818 c.888C>G synonymous_variant 0.16 pretomanid
delamanid
clofazimine
fbiC 1303836 c.906G>C synonymous_variant 0.19 pretomanid
delamanid
clofazimine
fbiC 1303845 c.915C>G synonymous_variant 0.21 pretomanid
delamanid
clofazimine
fbiC 1303846 p.Phe306Val missense_variant 0.21 pretomanid
delamanid
clofazimine
fbiC 1303854 c.924T>C synonymous_variant 0.19 pretomanid
delamanid
clofazimine
fbiC 1303860 c.930A>C synonymous_variant 0.18 pretomanid
delamanid
clofazimine
fbiC 1303884 c.954T>G synonymous_variant 0.19 pretomanid
delamanid
clofazimine
fbiC 1303905 c.975G>C synonymous_variant 0.2 pretomanid
delamanid
clofazimine
fbiC 1303914 c.984C>G synonymous_variant 0.22 pretomanid
delamanid
clofazimine
fbiC 1303980 c.1050G>A synonymous_variant 0.2 pretomanid
delamanid
clofazimine
fbiC 1303998 c.1068T>G synonymous_variant 0.21 pretomanid
delamanid
clofazimine
fbiC 1304004 c.1074A>G synonymous_variant 0.21 pretomanid
delamanid
clofazimine
fbiC 1304008 c.1078T>C synonymous_variant 0.21 pretomanid
delamanid
clofazimine
fbiC 1304022 c.1092T>C synonymous_variant 0.16 pretomanid
delamanid
clofazimine
fbiC 1304031 c.1101C>G synonymous_variant 0.18 pretomanid
delamanid
clofazimine
fbiC 1304034 c.1104A>G synonymous_variant 0.18 pretomanid
delamanid
clofazimine
fbiC 1304040 c.1110C>G synonymous_variant 0.17 pretomanid
delamanid
clofazimine
fbiC 1304046 c.1116C>G synonymous_variant 0.17 pretomanid
delamanid
clofazimine
fbiC 1304049 c.1119T>C synonymous_variant 0.17 pretomanid
delamanid
clofazimine
fbiC 1304050 c.1120T>C synonymous_variant 0.17 pretomanid
delamanid
clofazimine
fbiC 1304097 c.1167G>C synonymous_variant 0.19 pretomanid
delamanid
clofazimine
fbiC 1304646 c.1716T>C synonymous_variant 0.14 pretomanid
delamanid
clofazimine
fbiC 1304661 c.1731C>T synonymous_variant 0.13 pretomanid
delamanid
clofazimine
fbiC 1304703 c.1773C>G synonymous_variant 0.13 pretomanid
delamanid
clofazimine
fbiC 1304893 p.Gly655Ser missense_variant 0.13 pretomanid
delamanid
clofazimine
rrs 1471659 n.-187C>T upstream_gene_variant 1.0 kanamycin
capreomycin
streptomycin
amikacin
rrl 1475006 n.1349A>T non_coding_transcript_exon_variant 0.13 capreomycin
linezolid
rrl 1475013 n.1356G>A non_coding_transcript_exon_variant 0.13 capreomycin
linezolid
rrl 1475061 n.1404C>T non_coding_transcript_exon_variant 0.14 capreomycin Uncertain significance
linezolid
rrl 1475483 n.1826C>T non_coding_transcript_exon_variant 0.14 capreomycin Uncertain significance
linezolid Uncertain significance
rpsA 1833661 c.120A>G synonymous_variant 0.14 pyrazinamide
rpsA 1833667 c.126C>G synonymous_variant 0.14 pyrazinamide
rpsA 1833721 c.180A>G synonymous_variant 0.18 pyrazinamide
rpsA 1833724 c.183C>G synonymous_variant 0.17 pyrazinamide
rpsA 1833727 c.186G>C synonymous_variant 0.17 pyrazinamide
rpsA 1833742 c.201A>G synonymous_variant 0.17 pyrazinamide
rpsA 1833745 c.204G>C synonymous_variant 0.16 pyrazinamide
rpsA 1833748 c.207C>G synonymous_variant 0.16 pyrazinamide
rpsA 1833847 c.306C>G synonymous_variant 0.13 pyrazinamide
rpsA 1833874 c.333T>C synonymous_variant 0.14 pyrazinamide
rpsA 1833886 c.345C>G synonymous_variant 0.14 pyrazinamide
rpsA 1833928 c.387G>C synonymous_variant 0.19 pyrazinamide
rpsA 1833940 c.399C>G synonymous_variant 0.19 pyrazinamide
rpsA 1833971 c.430C>T synonymous_variant 0.15 pyrazinamide
rpsA 1833979 c.438T>C synonymous_variant 0.17 pyrazinamide
rpsA 1834000 c.459G>C synonymous_variant 0.13 pyrazinamide
rpsA 1834081 c.540C>T synonymous_variant 0.17 pyrazinamide
rpsA 1834105 c.564C>G synonymous_variant 0.14 pyrazinamide
rpsA 1834108 c.567C>G synonymous_variant 0.14 pyrazinamide
rpsA 1834123 c.582C>G synonymous_variant 0.15 pyrazinamide
rpsA 1834451 c.910T>C synonymous_variant 0.15 pyrazinamide
rpsA 1834465 c.924T>C synonymous_variant 0.14 pyrazinamide
rpsA 1834468 c.927A>G synonymous_variant 0.14 pyrazinamide
rpsA 1834489 c.948T>C synonymous_variant 0.15 pyrazinamide
tsnR 1854300 p.Leu232Pro missense_variant 1.0 linezolid Not assoc w R
tlyA 1917972 c.33A>G synonymous_variant 1.0 capreomycin Not assoc w R
bacA 2063685 c.1044G>A synonymous_variant 0.91 kanamycin Not assoc w R - Interim
capreomycin Not assoc w R
streptomycin Not assoc w R - Interim
amikacin Not assoc w R
bacA 2063911 p.Ile273Thr missense_variant 0.93 kanamycin Uncertain significance
capreomycin Not assoc w R
streptomycin Uncertain significance
amikacin Not assoc w R
bacA 2064979 c.-251C>T upstream_gene_variant 0.13 kanamycin
capreomycin
streptomycin
amikacin
bacA 2064984 c.-256A>G upstream_gene_variant 0.14 kanamycin
capreomycin
streptomycin
amikacin
bacA 2064993 c.-265T>C upstream_gene_variant 0.16 kanamycin
capreomycin
streptomycin
amikacin
PPE35 2167033 c.346_*615del stop_lost&conservative_inframe_deletion&splice_region_variant 0.96 pyrazinamide
PPE35 2170308 p.Leu102Ala missense_variant 0.9 pyrazinamide Uncertain significance
PPE35 2170313 c.300G>C synonymous_variant 0.91 pyrazinamide Not assoc w R - Interim
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0 bedaquiline Not assoc w R - Interim
clofazimine Not assoc w R
kasA 2517989 c.-126T>C upstream_gene_variant 0.14 isoniazid
kasA 2517993 c.-122G>T upstream_gene_variant 0.14 isoniazid
kasA 2518789 c.675G>C synonymous_variant 0.14 isoniazid
kasA 2518792 c.678C>A synonymous_variant 0.14 isoniazid
kasA 2518795 c.681C>G synonymous_variant 0.14 isoniazid
kasA 2519137 c.1023T>G synonymous_variant 0.14 isoniazid
kasA 2519158 c.1044C>T synonymous_variant 0.14 isoniazid
kasA 2519173 c.1059C>G synonymous_variant 0.14 isoniazid
ahpC 2726591 c.399C>G synonymous_variant 0.13 isoniazid
ahpC 2726593 p.Val134Ala missense_variant 0.13 isoniazid
ahpC 2726638 p.Ala149Val missense_variant 0.13 isoniazid
folC 2746308 p.Arg431Ser missense_variant 0.13 para-aminosalicylic_acid
Rv2477c 2783140 c.903C>G synonymous_variant 0.17 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783146 c.897G>A synonymous_variant 0.17 kanamycin Not assoc w R - Interim
levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
streptomycin
rifampicin
ethambutol
amikacin Not assoc w R - Interim
Rv2477c 2783149 c.894G>C synonymous_variant 0.17 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 0.16 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 2783182 c.861C>G synonymous_variant 0.17 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783185 c.858G>A synonymous_variant 0.17 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783194 c.849A>G synonymous_variant 0.19 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783221 c.822G>C synonymous_variant 0.16 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783224 c.819C>G synonymous_variant 0.16 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783230 c.813T>G synonymous_variant 0.17 kanamycin
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
Rv2477c 2783235 c.808T>C synonymous_variant 0.18 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783254 c.789A>G synonymous_variant 0.17 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783263 c.780G>C synonymous_variant 0.16 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783485 c.558G>C synonymous_variant 0.17 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783497 c.544_546delTTGinsCTC synonymous_variant 0.17 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 2783520 c.523T>C synonymous_variant 0.14 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin Not assoc w R - Interim
ethambutol Not assoc w R - Interim
amikacin
Rv2477c 2783521 c.522G>C synonymous_variant 0.14 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783527 c.516A>G synonymous_variant 0.17 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783563 c.480A>G synonymous_variant 0.2 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783656 c.387G>C synonymous_variant 0.17 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783665 c.378A>G synonymous_variant 0.17 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783674 c.369T>C synonymous_variant 0.19 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783683 c.360A>G synonymous_variant 0.21 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783700 p.Thr115Ser missense_variant 0.25 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783718 c.325T>C synonymous_variant 0.27 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783719 c.324A>G synonymous_variant 0.27 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783751 p.Ile98Val missense_variant 0.2 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783758 p.Asp95Glu missense_variant 0.19 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783761 c.282G>C synonymous_variant 0.18 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783766 p.Met93Leu missense_variant 0.18 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783797 p.Asp82Glu missense_variant 0.15 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783815 c.228A>G synonymous_variant 0.16 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783883 c.160T>C synonymous_variant 0.15 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783884 c.159T>C synonymous_variant 0.16 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783887 c.156C>G synonymous_variant 0.16 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 2783914 c.129T>C synonymous_variant 0.19 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783920 c.123G>C synonymous_variant 0.23 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783929 c.114C>G synonymous_variant 0.2 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
ribD 2986910 c.72C>A synonymous_variant 1.0 para-aminosalicylic_acid
thyX 3067439 c.507A>G synonymous_variant 0.32 para-aminosalicylic_acid
thyX 3067445 c.501C>G synonymous_variant 0.34 para-aminosalicylic_acid
thyX 3067457 c.489C>G synonymous_variant 0.38 para-aminosalicylic_acid
thyX 3067465 p.Ile161Val missense_variant 0.41 para-aminosalicylic_acid
thyX 3067475 c.471A>G synonymous_variant 0.38 para-aminosalicylic_acid
thyX 3067490 c.456C>G synonymous_variant 0.42 para-aminosalicylic_acid
thyX 3067493 c.453A>G synonymous_variant 0.44 para-aminosalicylic_acid
thyX 3067515 p.Ser144Thr missense_variant 0.33 para-aminosalicylic_acid
thyX 3067530 p.Ala139Ser missense_variant 0.29 para-aminosalicylic_acid
thyX 3067545 p.Glu134Ala missense_variant 0.3 para-aminosalicylic_acid
thyX 3067549 p.Thr133Ala missense_variant 0.27 para-aminosalicylic_acid
thyX 3067556 p.His130Gln missense_variant 0.27 para-aminosalicylic_acid
thyX 3067559 c.387C>G synonymous_variant 0.26 para-aminosalicylic_acid
thyX 3067565 p.Asp127Glu missense_variant 0.24 para-aminosalicylic_acid
thyX 3067577 c.369G>A synonymous_variant 0.21 para-aminosalicylic_acid
thyX 3067652 c.294T>C synonymous_variant 0.18 para-aminosalicylic_acid
thyX 3067661 c.285C>G synonymous_variant 0.17 para-aminosalicylic_acid
thyX 3067685 c.261A>C synonymous_variant 0.19 para-aminosalicylic_acid
thyX 3067691 p.Ile85Leu missense_variant 0.16 para-aminosalicylic_acid
thyX 3067772 c.174C>G synonymous_variant 0.14 para-aminosalicylic_acid
thyX 3067781 c.165C>A synonymous_variant 0.15 para-aminosalicylic_acid
thyX 3067793 c.153T>C synonymous_variant 0.13 para-aminosalicylic_acid
thyX 3067799 c.147G>A synonymous_variant 0.15 para-aminosalicylic_acid
thyX 3067802 c.144C>G synonymous_variant 0.18 para-aminosalicylic_acid
thyX 3067814 c.132T>C synonymous_variant 0.17 para-aminosalicylic_acid
thyX 3067850 c.96A>C synonymous_variant 0.17 para-aminosalicylic_acid
thyX 3067869 p.Thr26Ser missense_variant 0.17 para-aminosalicylic_acid
thyX 3067874 c.72C>G synonymous_variant 0.17 para-aminosalicylic_acid
thyX 3067883 c.63C>G synonymous_variant 0.16 para-aminosalicylic_acid
thyX 3067886 c.60A>C synonymous_variant 0.17 para-aminosalicylic_acid
thyX 3067889 c.57C>G synonymous_variant 0.15 para-aminosalicylic_acid
thyX 3067898 p.Asp16Glu missense_variant 0.15 para-aminosalicylic_acid
thyA 3073953 c.519T>C synonymous_variant 0.14 para-aminosalicylic_acid
ald 3086742 c.-78A>C upstream_gene_variant 0.91 cycloserine
ald 3086788 c.-32T>C upstream_gene_variant 1.0 cycloserine
lpqB 3623721 p.Ser397Thr missense_variant 0.14 rifampicin
bedaquiline
mtrB 3625065 p.Met517Leu missense_variant 1.0 rifampicin Not assoc w R
bedaquiline Uncertain significance
mtrB 3625569 c.1045T>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
bedaquiline
mtrB 3625572 p.Thr348Ser missense_variant 0.17 rifampicin
bedaquiline
lpqB 3625579 c.-669A>G upstream_gene_variant 0.18 rifampicin
bedaquiline
lpqB 3625594 c.-684T>C upstream_gene_variant 0.2 rifampicin
bedaquiline
lpqB 3625602 c.-692T>C upstream_gene_variant 0.2 rifampicin
bedaquiline
lpqB 3625612 c.-702G>C upstream_gene_variant 0.2 rifampicin
bedaquiline
mtrB 3625616 p.Arg333Ala missense_variant 0.2 rifampicin
bedaquiline
lpqB 3625624 c.-714C>G upstream_gene_variant 0.21 rifampicin
bedaquiline
mtrB 3625636 c.978C>G synonymous_variant 0.23 rifampicin Not assoc w R - Interim
bedaquiline
mtrB 3625656 c.958T>C synonymous_variant 0.23 rifampicin Not assoc w R - Interim
bedaquiline Not assoc w R - Interim
lpqB 3625663 c.-753G>C upstream_gene_variant 0.2 rifampicin
bedaquiline
lpqB 3625669 c.-759G>C upstream_gene_variant 0.19 rifampicin
bedaquiline
lpqB 3625687 c.-777G>C upstream_gene_variant 0.14 rifampicin
bedaquiline
lpqB 3625690 c.-780T>C upstream_gene_variant 0.14 rifampicin
bedaquiline
lpqB 3625696 c.-786A>G upstream_gene_variant 0.14 rifampicin
bedaquiline
mtrB 3625705 c.909C>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
bedaquiline
lpqB 3625714 c.-804C>T upstream_gene_variant 0.14 rifampicin
bedaquiline
mtrB 3625720 c.894G>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
bedaquiline
mtrB 3625729 c.885A>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
bedaquiline
lpqB 3625735 c.-825C>T upstream_gene_variant 0.14 rifampicin
bedaquiline
mtrB 3625765 c.849C>G synonymous_variant 0.13 rifampicin Not assoc w R - Interim
bedaquiline
rpoA 3877743 c.765T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoA 3877782 c.726T>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoA 3877791 c.717C>G synonymous_variant 0.14 rifampicin
rpoA 3878001 c.507A>G synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoA 3878022 c.486T>C synonymous_variant 0.15 rifampicin
rpoA 3878028 c.480G>C synonymous_variant 0.15 rifampicin
rpoA 3878031 c.477T>C synonymous_variant 0.15 rifampicin
rpoA 3878040 c.468T>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoA 3878043 c.465G>A synonymous_variant 0.13 rifampicin
clpC1 4039103 c.1602T>C synonymous_variant 0.13 pyrazinamide
clpC1 4039112 c.1593C>G synonymous_variant 0.14 pyrazinamide
clpC1 4039121 c.1584T>C synonymous_variant 0.15 pyrazinamide
clpC1 4039142 c.1563A>G synonymous_variant 0.16 pyrazinamide
clpC1 4039145 c.1560G>C synonymous_variant 0.16 pyrazinamide
panD 4044788 c.-507G>C upstream_gene_variant 0.15 pyrazinamide
panD 4044791 c.-510G>C upstream_gene_variant 0.15 pyrazinamide
panD 4044800 c.-519C>G upstream_gene_variant 0.15 pyrazinamide
panD 4044812 c.-531A>C upstream_gene_variant 0.15 pyrazinamide
panD 4044818 c.-538_-537delCGinsAC upstream_gene_variant 0.16 pyrazinamide
panD 4044823 c.-542G>C upstream_gene_variant 0.15 pyrazinamide
panD 4044844 c.-563T>C upstream_gene_variant 0.16 pyrazinamide
embC 4242643 c.2781C>T synonymous_variant 1.0 ethambutol Not assoc w R
embA 4245189 c.1957C>T synonymous_variant 0.13 ethambutol
embB 4247464 c.951C>G synonymous_variant 0.14 ethambutol
embB 4247470 c.957T>C synonymous_variant 0.15 ethambutol
embB 4247491 c.978G>C synonymous_variant 0.17 ethambutol
embB 4247497 c.984T>C synonymous_variant 0.17 ethambutol
embB 4247512 c.999T>C synonymous_variant 0.15 ethambutol
embB 4249594 c.3081G>A synonymous_variant 0.97 ethambutol Not assoc w R - Interim
ethA 4328376 c.-903G>C upstream_gene_variant 0.96 ethionamide
whiB6 4338595 c.-75delG upstream_gene_variant 1.0 kanamycin Not assoc w R
capreomycin Not assoc w R
amikacin Not assoc w R
whiB6 4338732 c.-211C>T upstream_gene_variant 1.0 kanamycin
capreomycin
amikacin