TB-Profiler result

Run: SRR1196571
Summary

Run ID: SRR1196571

Sample name:

Date: 2024-04-16T00:47:45.622716

Number of reads: 682673

Percentage reads mapped: 63.96

Median coverage: 15.0

Strain: lineage4.3.3

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
lineage4.3 Euro-American (LAM) None 0.98
lineage4 Euro-American None 0.99
lineage4.3.3 Euro-American (LAM) RD115 0.97
Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations WHO confidence Comment
rifampicin rpoB p.Asp435Gly Assoc w R - Interim Expert rule: Non-silent variants in RRDR of rpoB
p.Leu452Pro Assoc w R
isoniazid katG p.Ser315Thr Assoc w R High-level resistance
ethambutol embB p.Met306Val Assoc w R
pyrazinamide pncA c.456dupC Assoc w R
streptomycin rrs n.462C>T Uncertain significance Mutation from literature
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 rrs n.1401A>G Assoc w R
capreomycin rrs n.1401A>G Assoc w R
kanamycin rrs n.1401A>G Assoc w R
cycloserine
ethionamide ethA c.-11A>G Uncertain significance Mutation from literature
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 0.65 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 761110 p.Asp435Gly missense_variant 0.69 rifampicin Assoc w R - Interim Expert rule: Non-silent variants in RRDR of rpoB
rpoB 761161 p.Leu452Pro missense_variant 0.55 rifampicin Assoc w R
rrs 1472307 n.462C>T non_coding_transcript_exon_variant 0.44 streptomycin Uncertain significance Mutation from literature
rrs 1473246 n.1401A>G non_coding_transcript_exon_variant 0.64 amikacin Assoc w R
capreomycin Assoc w R
kanamycin Assoc w R
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid Assoc w R High-level resistance
pncA 2288785 c.456dupC frameshift_variant 1.0 pyrazinamide Assoc w R
embB 4247429 p.Met306Val missense_variant 0.82 ethambutol Assoc w R
ethA 4327484 c.-11A>G upstream_gene_variant 0.92 ethionamide 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 558 c.558G>C synonymous_variant 0.38 isoniazid
dnaA 561 c.561C>T synonymous_variant 0.38 isoniazid
dnaA 567 c.567C>G synonymous_variant 0.4 isoniazid
dnaA 571 c.571T>C synonymous_variant 0.44 isoniazid
dnaA 582 c.582A>C synonymous_variant 0.37 isoniazid Not assoc w R - Interim
dnaA 585 c.585A>G synonymous_variant 0.37 isoniazid
dnaA 588 c.588A>C synonymous_variant 0.37 isoniazid
dnaA 591 c.591C>G synonymous_variant 0.39 isoniazid
dnaA 600 c.600T>G synonymous_variant 0.41 isoniazid
gyrB 6268 c.1029C>G synonymous_variant 0.21 levofloxacin
moxifloxacin
gyrB 6280 c.1041T>C synonymous_variant 0.21 levofloxacin
moxifloxacin
gyrB 6307 c.1068T>G synonymous_variant 0.22 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrB 6346 c.1107C>T synonymous_variant 0.24 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 6362 c.-940T>C upstream_gene_variant 0.25 levofloxacin
moxifloxacin
gyrB 6518 p.Val427Met missense_variant 1.0 levofloxacin Uncertain significance
moxifloxacin Uncertain significance
gyrA 6700 c.-602T>C upstream_gene_variant 0.37 levofloxacin
moxifloxacin
gyrA 6973 c.-329G>C upstream_gene_variant 0.4 levofloxacin
moxifloxacin
gyrA 6982 c.-320A>C upstream_gene_variant 0.44 levofloxacin
moxifloxacin
gyrA 7006 c.-296T>C upstream_gene_variant 0.39 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 7595 c.294C>G synonymous_variant 0.35 levofloxacin
moxifloxacin
gyrA 7601 c.300C>G synonymous_variant 0.35 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 7607 c.306C>G synonymous_variant 0.37 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8040 p.Gly247Ser missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 8276 c.975G>A synonymous_variant 0.31 levofloxacin
moxifloxacin
gyrA 8283 c.982_984delATCinsCG frameshift_variant&missense_variant 0.27 levofloxacin
moxifloxacin
gyrA 8288 c.987T>C synonymous_variant 0.3 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8294 c.993T>C synonymous_variant 0.32 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8636 c.1335A>C synonymous_variant 0.38 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8642 c.1341A>G synonymous_variant 0.4 levofloxacin
moxifloxacin
gyrA 8672 c.1371A>G synonymous_variant 0.3 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 9119 c.1818A>G synonymous_variant 0.27 levofloxacin
moxifloxacin
gyrA 9122 c.1821C>G synonymous_variant 0.26 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 9143 c.1842T>C synonymous_variant 0.26 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 9233 c.1932C>G synonymous_variant 0.33 levofloxacin
moxifloxacin
gyrA 9239 c.1938C>T synonymous_variant 0.35 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 9252 p.Val651Ile missense_variant 0.36 levofloxacin Uncertain significance
moxifloxacin Uncertain significance
gyrA 9284 c.1983T>C synonymous_variant 0.37 levofloxacin
moxifloxacin
gyrA 9291 c.1990C>T synonymous_variant 0.33 levofloxacin
moxifloxacin
gyrA 9296 c.1995T>C synonymous_variant 0.3 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 9299 c.1998G>C synonymous_variant 0.32 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 9300 p.Ala667Ser missense_variant 0.32 levofloxacin
moxifloxacin
gyrA 9304 p.Gly668Asp missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 9308 p.Asp669Glu missense_variant 0.36 levofloxacin
moxifloxacin
gyrA 9665 c.2364A>C synonymous_variant 0.3 levofloxacin
moxifloxacin
gyrA 9666 p.Arg789Gly missense_variant 0.3 levofloxacin Uncertain significance
moxifloxacin Uncertain significance
gyrA 9674 c.2373T>C synonymous_variant 0.32 levofloxacin
moxifloxacin
Rv0010c 13909 c.-351G>C upstream_gene_variant 0.23 isoniazid
fgd1 491601 c.819T>C synonymous_variant 0.47 clofazimine
pretomanid
delamanid
fgd1 491610 c.828A>G synonymous_variant 0.5 clofazimine
pretomanid
delamanid
fgd1 491616 c.834A>G synonymous_variant 0.5 clofazimine
pretomanid
delamanid
fgd1 491620 p.Ile280Val missense_variant 0.5 clofazimine
pretomanid
delamanid
fgd1 491643 c.861G>A synonymous_variant 0.58 clofazimine
pretomanid
delamanid
fgd1 491646 c.864G>C synonymous_variant 0.58 clofazimine
pretomanid
delamanid
ccsA 619584 c.-307A>T upstream_gene_variant 0.42 capreomycin
amikacin
kanamycin
ccsA 619591 c.-300G>C upstream_gene_variant 0.4 capreomycin
amikacin
kanamycin
ccsA 619594 c.-297G>T upstream_gene_variant 0.4 capreomycin
amikacin
kanamycin
ccsA 619609 c.-282G>C upstream_gene_variant 0.43 capreomycin
amikacin
kanamycin
ccsA 619634 c.-257T>A upstream_gene_variant 0.45 capreomycin
amikacin
kanamycin
ccsA 619645 c.-246G>C upstream_gene_variant 0.45 capreomycin
amikacin
kanamycin
ccsA 619654 c.-237A>G upstream_gene_variant 0.47 capreomycin
amikacin
kanamycin
ccsA 620340 c.450C>G synonymous_variant 0.5 capreomycin
amikacin
kanamycin
ccsA 620346 c.456C>G synonymous_variant 0.47 capreomycin
amikacin
kanamycin
ccsA 620362 p.Ala158Thr missense_variant 0.38 capreomycin
amikacin
kanamycin
hadA 731747 c.-183T>C upstream_gene_variant 0.3 isoniazid
hadA 731774 c.-156T>C upstream_gene_variant 0.5 isoniazid
hadA 731789 c.-141A>G upstream_gene_variant 0.52 isoniazid
hadA 731792 c.-138G>A upstream_gene_variant 0.55 isoniazid
hadA 731801 c.-129C>G upstream_gene_variant 0.58 isoniazid
hadA 731816 c.-114G>A upstream_gene_variant 0.53 isoniazid
hadA 732295 c.366G>C synonymous_variant 0.33 isoniazid
hadA 732305 p.Ile126Val missense_variant 0.33 isoniazid
hadA 732308 p.Val127Ile missense_variant 0.33 isoniazid
hadA 732321 p.Glu131Ala missense_variant 0.35 isoniazid
hadA 732329 p.Leu134Val missense_variant 0.35 isoniazid Uncertain significance
hadA 732337 c.408G>A synonymous_variant 0.39 isoniazid
nusG 734499 c.246G>C synonymous_variant 0.24 rifampicin
nusG 734532 c.279A>G synonymous_variant 0.22 rifampicin Not assoc w R - Interim
nusG 734541 c.288A>G synonymous_variant 0.2 rifampicin Not assoc w R - Interim
nusG 734580 c.327T>C synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoB 760130 p.Asp108Glu missense_variant 0.28 rifampicin Uncertain significance
rpoB 760139 c.333A>G synonymous_variant 0.28 rifampicin Not assoc w R - Interim
rpoB 760142 c.336C>G synonymous_variant 0.3 rifampicin
rpoB 760235 c.429T>C synonymous_variant 0.25 rifampicin Not assoc w R - Interim
rpoB 760430 c.624T>C synonymous_variant 0.3 rifampicin Not assoc w R - Interim
rpoB 760611 c.805T>C synonymous_variant 0.5 rifampicin Not assoc w R - Interim
rpoB 760646 c.840C>G synonymous_variant 0.43 rifampicin Not assoc w R - Interim
rpoB 760655 c.849A>G synonymous_variant 0.43 rifampicin Not assoc w R - Interim
rpoB 760661 c.855A>C synonymous_variant 0.45 rifampicin Not assoc w R - Interim
rpoB 760670 c.864G>C synonymous_variant 0.44 rifampicin
rpoB 760674 c.868T>C synonymous_variant 0.5 rifampicin Not assoc w R - Interim
rpoB 760679 c.873A>G synonymous_variant 0.47 rifampicin Not assoc w R - Interim
rpoB 760869 p.Val355Ile missense_variant 0.32 rifampicin Uncertain significance
rpoB 760925 c.1119T>C synonymous_variant 0.36 rifampicin
rpoB 760928 c.1122G>C synonymous_variant 0.39 rifampicin Not assoc w R - Interim
rpoB 760931 c.1125C>G synonymous_variant 0.38 rifampicin
rpoB 760934 c.1128C>T synonymous_variant 0.36 rifampicin
rpoB 760946 c.1140A>G synonymous_variant 0.4 rifampicin Not assoc w R - Interim
rpoB 760982 c.1176G>C synonymous_variant 0.56 rifampicin Not assoc w R - Interim
rpoB 760985 c.1179G>C synonymous_variant 0.54 rifampicin Not assoc w R - Interim
rpoB 760991 c.1185G>C synonymous_variant 0.52 rifampicin
rpoB 761006 c.1200C>G synonymous_variant 0.61 rifampicin Not assoc w R - Interim
rpoB 761015 c.1209G>C synonymous_variant 0.5 rifampicin Not assoc w R - Interim
rpoB 761021 c.1215G>C synonymous_variant 0.5 rifampicin
rpoB 761027 c.1221A>G synonymous_variant 0.5 rifampicin Not assoc w R - Interim
rpoB 761036 c.1230G>C synonymous_variant 0.55 rifampicin Not assoc w R - Interim
rpoB 761037 c.1231T>C synonymous_variant 0.53 rifampicin Not assoc w R - Interim
rpoB 761057 c.1251G>C synonymous_variant 0.6 rifampicin Not assoc w R - Interim
rpoB 761102 c.1296A>G synonymous_variant 0.38 rifampicin
rpoB 761213 c.1407G>C synonymous_variant 0.7 rifampicin
rpoB 761219 c.1413G>C synonymous_variant 0.73 rifampicin Not assoc w R - Interim
rpoB 761249 c.1443A>G synonymous_variant 0.8 rifampicin Not assoc w R - Interim
rpoB 761255 c.1449T>G synonymous_variant 0.75 rifampicin Not assoc w R - Interim
rpoB 761261 c.1455G>T synonymous_variant 0.62 rifampicin Not assoc w R - Interim
rpoB 761537 c.1731C>G synonymous_variant 0.4 rifampicin Not assoc w R - Interim
rpoB 762167 c.2361T>C synonymous_variant 0.44 rifampicin Not assoc w R - Interim
rpoB 762176 c.2370T>C synonymous_variant 0.53 rifampicin Not assoc w R - Interim
rpoB 762185 c.2379G>C synonymous_variant 0.59 rifampicin Not assoc w R - Interim
rpoB 762206 c.2400C>G synonymous_variant 0.62 rifampicin
rpoB 762233 c.2427G>C synonymous_variant 0.65 rifampicin Not assoc w R - Interim
rpoB 762246 c.2440C>T synonymous_variant 0.61 rifampicin
rpoB 762254 c.2448T>G synonymous_variant 0.58 rifampicin
rpoB 762257 c.2451C>G synonymous_variant 0.55 rifampicin
rpoB 762266 c.2460T>C synonymous_variant 0.53 rifampicin
rpoB 762284 c.2478G>C synonymous_variant 0.48 rifampicin Not assoc w R - Interim
rpoB 762293 c.2487T>C synonymous_variant 0.48 rifampicin Not assoc w R - Interim
rpoB 762857 c.3051C>G synonymous_variant 0.28 rifampicin Not assoc w R - Interim
rpoB 762860 c.3054G>C synonymous_variant 0.27 rifampicin Not assoc w R - Interim
rpoB 762863 c.3057T>C synonymous_variant 0.26 rifampicin Not assoc w R - Interim
rpoB 762929 c.3123G>C synonymous_variant 0.43 rifampicin Not assoc w R - Interim
rpoC 762989 c.-381G>C upstream_gene_variant 0.62 rifampicin
rpoB 762995 c.3189G>T synonymous_variant 0.62 rifampicin Not assoc w R - Interim
rpoC 763013 c.-357C>G upstream_gene_variant 0.58 rifampicin
rpoB 763028 c.3222T>C synonymous_variant 0.5 rifampicin Not assoc w R - Interim
rpoB 763031 c.3225T>G synonymous_variant 0.5 rifampicin Not assoc w R - Interim
rpoB 763034 c.3228C>G synonymous_variant 0.5 rifampicin Not assoc w R - Interim
rpoB 763040 c.3234C>G synonymous_variant 0.52 rifampicin Not assoc w R - Interim
rpoC 763067 c.-303C>G upstream_gene_variant 0.55 rifampicin
rpoB 763070 c.3264T>C synonymous_variant 0.55 rifampicin Not assoc w R - Interim
rpoB 763085 c.3279C>G synonymous_variant 0.55 rifampicin Not assoc w R - Interim
rpoB 763115 c.3309T>C synonymous_variant 0.6 rifampicin Not assoc w R - Interim
rpoB 763123 p.Ile1106Thr missense_variant 0.43 rifampicin Uncertain significance
rpoB 763136 c.3330C>T synonymous_variant 0.58 rifampicin Not assoc w R - Interim
rpoC 763148 c.-222G>C upstream_gene_variant 0.53 rifampicin
rpoC 763158 c.-212C>T upstream_gene_variant 0.44 rifampicin
rpoB 763166 c.3360A>G synonymous_variant 0.43 rifampicin Not assoc w R - Interim
rpoC 763190 c.-180C>T upstream_gene_variant 0.42 rifampicin
rpoC 763402 c.33C>G synonymous_variant 0.37 rifampicin
rpoC 763411 c.42T>G synonymous_variant 0.37 rifampicin Not assoc w R - Interim
rpoC 763414 c.45T>C synonymous_variant 0.39 rifampicin
rpoC 763441 c.72C>T synonymous_variant 0.45 rifampicin
rpoC 763456 c.87A>G synonymous_variant 0.36 rifampicin Not assoc w R - Interim
rpoC 763486 c.117T>G synonymous_variant 0.43 rifampicin
rpoC 763492 c.123G>C synonymous_variant 0.43 rifampicin Not assoc w R - Interim
rpoC 763528 c.159G>A synonymous_variant 0.48 rifampicin Not assoc w R - Interim
rpoC 763546 c.177A>G synonymous_variant 0.55 rifampicin Not assoc w R - Interim
rpoC 763570 c.201G>C synonymous_variant 0.6 rifampicin Not assoc w R - Interim
rpoC 763573 c.204G>C synonymous_variant 0.6 rifampicin Not assoc w R - Interim
rpoC 763594 c.225C>T synonymous_variant 0.54 rifampicin Not assoc w R - Interim
rpoC 763603 c.234C>T synonymous_variant 0.5 rifampicin Not assoc w R - Interim
rpoC 763606 c.237C>T synonymous_variant 0.47 rifampicin
rpoC 763636 c.267T>C synonymous_variant 0.47 rifampicin
rpoC 763675 c.306C>G synonymous_variant 0.39 rifampicin Not assoc w R - Interim
rpoC 763696 c.327T>C synonymous_variant 0.41 rifampicin Not assoc w R - Interim
rpoC 763702 c.333C>G synonymous_variant 0.4 rifampicin Not assoc w R - Interim
rpoC 763717 c.348T>C synonymous_variant 0.32 rifampicin Not assoc w R - Interim
rpoC 763723 c.354G>C synonymous_variant 0.36 rifampicin
rpoC 763732 c.363C>G synonymous_variant 0.35 rifampicin
rpoC 763741 c.372C>T synonymous_variant 0.32 rifampicin
rpoC 763744 c.375G>C synonymous_variant 0.31 rifampicin
rpoC 763765 c.396T>C synonymous_variant 0.34 rifampicin
rpoC 763774 c.405G>C synonymous_variant 0.35 rifampicin
rpoC 763807 c.438T>C synonymous_variant 0.33 rifampicin Not assoc w R - Interim
rpoC 763816 c.447C>G synonymous_variant 0.35 rifampicin
rpoC 763835 p.Ala156Met missense_variant 0.33 rifampicin
rpoC 763853 p.Val162Ile missense_variant 0.38 rifampicin
rpoC 763858 c.489A>G synonymous_variant 0.33 rifampicin
rpoC 764131 c.762T>C synonymous_variant 0.35 rifampicin
rpoC 764188 c.819A>G synonymous_variant 0.38 rifampicin Not assoc w R - Interim
rpoC 764650 c.1281G>C synonymous_variant 0.36 rifampicin
rpoC 764651 c.1282_1284delTCGinsAGC synonymous_variant 0.35 rifampicin
rpoC 764752 c.1383G>C synonymous_variant 0.3 rifampicin Not assoc w R - Interim
rpoC 764764 c.1395T>C synonymous_variant 0.28 rifampicin Not assoc w R - Interim
rpoC 764809 c.1440C>T synonymous_variant 0.5 rifampicin Not assoc w R
rpoC 764815 c.1446A>G synonymous_variant 0.5 rifampicin Not assoc w R - Interim
rpoC 764827 c.1458G>C synonymous_variant 0.56 rifampicin Not assoc w R - Interim
rpoC 764858 c.1489T>C synonymous_variant 0.71 rifampicin Not assoc w R - Interim
rpoC 764872 c.1503A>G synonymous_variant 0.71 rifampicin Not assoc w R - Interim
rpoC 764888 c.1519T>C synonymous_variant 0.7 rifampicin Not assoc w R - Interim
rpoC 764911 c.1542A>G synonymous_variant 0.59 rifampicin
rpoC 764932 c.1563C>A synonymous_variant 0.48 rifampicin Not assoc w R - Interim
rpoC 764948 c.1579T>C synonymous_variant 0.44 rifampicin Not assoc w R - Interim
rpoC 764968 c.1599T>C synonymous_variant 0.41 rifampicin Not assoc w R - Interim
rpoC 764995 c.1626C>G synonymous_variant 1.0 rifampicin Not assoc w R
rpoC 765478 c.2109T>C synonymous_variant 0.55 rifampicin Not assoc w R - Interim
rpoC 765499 c.2130C>G synonymous_variant 0.52 rifampicin Not assoc w R - Interim
rpoC 765529 c.2160C>T synonymous_variant 0.52 rifampicin
rpoC 765541 c.2172C>G synonymous_variant 0.48 rifampicin
rpoC 765937 c.2568T>C synonymous_variant 0.65 rifampicin Not assoc w R - Interim
rpoC 765967 c.2598C>T synonymous_variant 0.58 rifampicin Not assoc w R - Interim
rpoC 765982 c.2613C>G synonymous_variant 0.6 rifampicin
rpoC 765994 c.2625A>T synonymous_variant 0.63 rifampicin Not assoc w R - Interim
rpoC 766010 c.2641_2642delTCinsAG synonymous_variant 0.62 rifampicin
rpoC 766021 c.2652G>C synonymous_variant 0.56 rifampicin
rpoC 766027 c.2658G>C synonymous_variant 0.56 rifampicin
rpoC 766043 p.Gln892Glu missense_variant 0.47 rifampicin
rpoC 766054 c.2685C>G synonymous_variant 0.39 rifampicin
rpoC 766096 c.2727G>C synonymous_variant 0.32 rifampicin
rpoC 766426 c.3057C>T synonymous_variant 0.45 rifampicin
rpoC 766447 c.3078T>C synonymous_variant 0.45 rifampicin
rpoC 766462 c.3093G>C synonymous_variant 0.48 rifampicin
rpoC 766483 c.3114G>C synonymous_variant 0.37 rifampicin
rpoC 766484 c.3115_3117delGTAinsAC frameshift_variant&missense_variant 0.37 rifampicin
rpoC 766492 c.3123T>C synonymous_variant 0.4 rifampicin
rpoC 767119 c.3750A>G synonymous_variant 0.37 rifampicin Not assoc w R - Interim
rpoC 767158 c.3789T>C synonymous_variant 0.43 rifampicin Not assoc w R - Interim
rpoC 767180 p.Ala1271Gln missense_variant 0.5 rifampicin
rpoC 767191 c.3822C>G synonymous_variant 0.5 rifampicin Not assoc w R - Interim
mmpL5 775639 p.Ile948Val missense_variant 1.0 clofazimine Not assoc w R
bedaquiline Not assoc w R - Interim
rpsL 781395 c.-165T>C upstream_gene_variant 1.0 streptomycin Not assoc w R
rpsL 781649 c.90T>C synonymous_variant 0.59 streptomycin
rpsL 781655 c.96T>C synonymous_variant 0.56 streptomycin
rpsL 781700 c.141G>C synonymous_variant 0.54 streptomycin
rpsL 781703 c.144G>T synonymous_variant 0.5 streptomycin
rpsL 781715 c.156T>C synonymous_variant 0.46 streptomycin
rpsL 781728 c.169T>C synonymous_variant 0.54 streptomycin
rpsL 781736 c.177T>C synonymous_variant 0.5 streptomycin
rpsL 781832 c.273T>C synonymous_variant 0.33 streptomycin
rpsL 781838 c.279G>C synonymous_variant 0.32 streptomycin
rpsL 781841 c.282C>G synonymous_variant 0.33 streptomycin
rpsL 781865 c.306G>C synonymous_variant 0.23 streptomycin
rpsL 781868 c.309T>C synonymous_variant 0.23 streptomycin
rpsL 781871 c.312G>C synonymous_variant 0.23 streptomycin
rpsL 781877 c.318T>C synonymous_variant 0.28 streptomycin
rpsL 781892 c.333A>G synonymous_variant 0.35 streptomycin
rpsL 781898 c.339A>T synonymous_variant 0.32 streptomycin
rpsL 781916 c.357T>C synonymous_variant 0.35 streptomycin
rplC 800567 c.-242A>G upstream_gene_variant 0.33 linezolid
rplC 800582 c.-227C>G upstream_gene_variant 0.33 linezolid
rplC 800693 c.-116A>G upstream_gene_variant 0.25 linezolid
rplC 800703 c.-106T>C upstream_gene_variant 0.26 linezolid
rplC 800715 c.-94A>C upstream_gene_variant 0.26 linezolid
rplC 800720 c.-89T>C upstream_gene_variant 0.27 linezolid
rplC 800723 c.-86C>G upstream_gene_variant 0.29 linezolid
rplC 800747 c.-62C>G upstream_gene_variant 0.24 linezolid
rplC 800814 c.6A>G synonymous_variant 0.22 linezolid
rplC 800817 c.9A>T synonymous_variant 0.24 linezolid
rplC 800844 c.36T>C synonymous_variant 0.29 linezolid
fbiC 1304778 c.1848T>C synonymous_variant 0.5 clofazimine
pretomanid
delamanid
fbiC 1304784 c.1854T>C synonymous_variant 0.55 clofazimine
pretomanid
delamanid
fbiC 1304787 c.1857T>G synonymous_variant 0.58 clofazimine
pretomanid
delamanid
fbiC 1304808 c.1878C>G synonymous_variant 0.58 clofazimine
pretomanid
delamanid
fbiC 1304811 c.1881C>G synonymous_variant 0.54 clofazimine
pretomanid
delamanid
fbiC 1304817 c.1887T>C synonymous_variant 0.54 clofazimine
pretomanid
delamanid
fbiC 1304910 c.1980G>C synonymous_variant 0.28 clofazimine
pretomanid
delamanid
fbiC 1304916 c.1986T>C synonymous_variant 0.27 clofazimine
pretomanid
delamanid
atpE 1460831 c.-214T>C upstream_gene_variant 0.28 bedaquiline
atpE 1460840 c.-205A>G upstream_gene_variant 0.41 bedaquiline
atpE 1460852 c.-193C>G upstream_gene_variant 0.44 bedaquiline
atpE 1460855 c.-190T>C upstream_gene_variant 0.44 bedaquiline
atpE 1460858 c.-187C>G upstream_gene_variant 0.47 bedaquiline
atpE 1460861 c.-184C>G upstream_gene_variant 0.47 bedaquiline
atpE 1460882 c.-163T>C upstream_gene_variant 0.42 bedaquiline
rrs 1471659 n.-187C>T upstream_gene_variant 1.0 streptomycin
kanamycin
capreomycin
amikacin
rrs 1471923 n.78T>C non_coding_transcript_exon_variant 0.36 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1471925 n.80T>C non_coding_transcript_exon_variant 0.34 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1471932 n.87A>G non_coding_transcript_exon_variant 0.36 streptomycin
kanamycin
capreomycin
amikacin
rrs 1471934 n.89A>G non_coding_transcript_exon_variant 0.36 streptomycin Uncertain significance
kanamycin
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1471969 n.124T>C non_coding_transcript_exon_variant 0.29 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1471970 n.125G>A non_coding_transcript_exon_variant 0.26 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.29 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472969 n.1124A>G non_coding_transcript_exon_variant 0.33 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472970 n.1125C>G non_coding_transcript_exon_variant 0.33 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472977 n.1132G>C non_coding_transcript_exon_variant 0.35 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472978 n.1133T>C non_coding_transcript_exon_variant 0.35 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473105 n.1260G>A non_coding_transcript_exon_variant 0.42 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473123 n.1278delAinsTT non_coding_transcript_exon_variant 0.33 streptomycin
kanamycin
capreomycin
amikacin
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.36 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.31 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473290 n.1445C>T non_coding_transcript_exon_variant 0.43 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrl 1473668 n.11C>T non_coding_transcript_exon_variant 0.38 capreomycin Uncertain significance
linezolid
rrl 1473677 n.20C>G non_coding_transcript_exon_variant 0.47 capreomycin
linezolid
rrl 1473756 n.99G>A non_coding_transcript_exon_variant 0.56 capreomycin
linezolid
rrl 1473758 n.101G>T non_coding_transcript_exon_variant 0.55 capreomycin Uncertain significance
linezolid
rrl 1473806 n.149C>T non_coding_transcript_exon_variant 0.35 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473877 n.220G>A non_coding_transcript_exon_variant 0.29 capreomycin
linezolid
rrl 1473986 n.329T>C non_coding_transcript_exon_variant 0.42 capreomycin
linezolid
rrl 1473987 n.330G>A non_coding_transcript_exon_variant 0.44 capreomycin
linezolid
rrl 1473995 n.338G>T non_coding_transcript_exon_variant 0.44 capreomycin
linezolid
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 0.48 capreomycin Not assoc w R
linezolid Not assoc w R
rrl 1474009 n.352A>G non_coding_transcript_exon_variant 0.43 capreomycin
linezolid
rrl 1474012 n.355C>T non_coding_transcript_exon_variant 0.43 capreomycin
linezolid
rrl 1474093 n.436G>T non_coding_transcript_exon_variant 0.48 capreomycin
linezolid
rrl 1474099 n.442G>A non_coding_transcript_exon_variant 0.44 capreomycin
linezolid
rrl 1474103 n.446A>T non_coding_transcript_exon_variant 0.42 capreomycin
linezolid
rrl 1474140 n.483C>T non_coding_transcript_exon_variant 0.32 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474151 n.494C>T non_coding_transcript_exon_variant 0.32 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.26 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474291 n.635_649delTTCCTCTCCGGAGGA non_coding_transcript_exon_variant 0.29 capreomycin
linezolid
rrl 1474308 n.651G>T non_coding_transcript_exon_variant 0.27 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474310 n.653T>G non_coding_transcript_exon_variant 0.27 capreomycin
linezolid
rrl 1474639 n.982G>A non_coding_transcript_exon_variant 0.5 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.68 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 0.68 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474823 n.1166C>T non_coding_transcript_exon_variant 0.67 capreomycin
linezolid
rrl 1474831 n.1174A>G non_coding_transcript_exon_variant 0.65 capreomycin Uncertain significance
linezolid
rrl 1474904 n.1247G>A non_coding_transcript_exon_variant 0.6 capreomycin
linezolid
rrl 1474956 n.1299C>T non_coding_transcript_exon_variant 0.47 capreomycin
linezolid
rrl 1474960 n.1303C>G non_coding_transcript_exon_variant 0.42 capreomycin
linezolid
rrl 1475061 n.1404C>T non_coding_transcript_exon_variant 0.33 capreomycin Uncertain significance
linezolid
rrl 1475199 n.1542G>A non_coding_transcript_exon_variant 0.42 capreomycin
linezolid
rrl 1475206 n.1549C>T non_coding_transcript_exon_variant 0.4 capreomycin Uncertain significance
linezolid
rrl 1475209 n.1552G>C non_coding_transcript_exon_variant 0.4 capreomycin Uncertain significance
linezolid
rrl 1475213 n.1556C>T non_coding_transcript_exon_variant 0.4 capreomycin Uncertain significance
linezolid
rrl 1475249 n.1592T>C non_coding_transcript_exon_variant 0.44 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475252 n.1595C>T non_coding_transcript_exon_variant 0.41 capreomycin
linezolid
rrl 1475266 n.1609T>C non_coding_transcript_exon_variant 0.34 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475267 n.1610G>A non_coding_transcript_exon_variant 0.33 capreomycin
linezolid
rrl 1475275 n.1618C>T non_coding_transcript_exon_variant 0.33 capreomycin
linezolid
rrl 1475276 n.1619T>C non_coding_transcript_exon_variant 0.34 capreomycin
linezolid
rrl 1475291 n.1634A>C non_coding_transcript_exon_variant 0.31 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475313 n.1656G>A non_coding_transcript_exon_variant 0.35 capreomycin
linezolid
rrl 1475315 n.1658A>T non_coding_transcript_exon_variant 0.35 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475526 n.1869C>A non_coding_transcript_exon_variant 0.45 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475599 n.1942A>G non_coding_transcript_exon_variant 0.36 capreomycin
linezolid Uncertain significance
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.44 capreomycin
linezolid
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.42 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476056 n.2399G>A non_coding_transcript_exon_variant 0.74 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476086 n.2429G>A non_coding_transcript_exon_variant 0.33 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476089 n.2432T>C non_coding_transcript_exon_variant 0.3 capreomycin
linezolid
rrl 1476095 n.2438C>G non_coding_transcript_exon_variant 0.29 capreomycin
linezolid
rrl 1476105 n.2448_2449delGAinsT non_coding_transcript_exon_variant 0.33 capreomycin
linezolid
rrl 1476115 n.2458T>C non_coding_transcript_exon_variant 0.43 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476117 n.2460G>C non_coding_transcript_exon_variant 0.42 capreomycin
linezolid
rrl 1476214 n.2557G>A non_coding_transcript_exon_variant 0.36 capreomycin
linezolid
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.37 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.31 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476583 n.2926G>A non_coding_transcript_exon_variant 0.48 capreomycin Uncertain significance
linezolid
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.5 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476594 n.2937C>T non_coding_transcript_exon_variant 0.45 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476597 n.2940G>A non_coding_transcript_exon_variant 0.45 capreomycin Uncertain significance
linezolid
rrl 1476603 n.2946G>A non_coding_transcript_exon_variant 0.47 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476608 n.2951C>G non_coding_transcript_exon_variant 0.43 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476628 n.2971T>A non_coding_transcript_exon_variant 0.47 capreomycin Uncertain significance
linezolid Uncertain significance
fabG1 1673710 p.Leu91Ile missense_variant 0.26 ethionamide
isoniazid
fabG1 1673716 p.Ala93Lys missense_variant 0.24 ethionamide
isoniazid
fabG1 1673733 p.Met98Ile missense_variant 0.22 ethionamide
isoniazid
inhA 1674537 c.336C>G synonymous_variant 0.33 ethionamide
isoniazid
inhA 1674542 p.Ala114Glu missense_variant 0.32 ethionamide
isoniazid
inhA 1674546 c.345T>C synonymous_variant 0.3 ethionamide
isoniazid
inhA 1674549 c.348G>C synonymous_variant 0.3 ethionamide
isoniazid
inhA 1674552 c.351C>G synonymous_variant 0.32 ethionamide
isoniazid
inhA 1674555 c.354G>A synonymous_variant 0.33 ethionamide Not assoc w R - Interim
isoniazid Not assoc w R - Interim
inhA 1674561 c.360C>T synonymous_variant 0.39 ethionamide
isoniazid
inhA 1674582 c.381T>C synonymous_variant 0.41 ethionamide
isoniazid
inhA 1674585 c.384T>C synonymous_variant 0.44 ethionamide
isoniazid
inhA 1674589 p.Met130Leu missense_variant 0.38 ethionamide
isoniazid
inhA 1674624 c.423A>C synonymous_variant 0.35 ethionamide
isoniazid
inhA 1674630 c.429C>G synonymous_variant 0.44 ethionamide
isoniazid
rpsA 1833595 c.54T>C synonymous_variant 0.42 pyrazinamide
rpsA 1833661 c.120A>G synonymous_variant 0.42 pyrazinamide
rpsA 1833667 c.126C>G synonymous_variant 0.44 pyrazinamide
rpsA 1833721 c.180A>G synonymous_variant 0.38 pyrazinamide
rpsA 1833724 c.183C>G synonymous_variant 0.36 pyrazinamide
rpsA 1833727 c.186G>C synonymous_variant 0.38 pyrazinamide
rpsA 1833742 c.201A>G synonymous_variant 0.43 pyrazinamide
rpsA 1833745 c.204G>C synonymous_variant 0.45 pyrazinamide
rpsA 1833748 c.207C>G synonymous_variant 0.42 pyrazinamide
rpsA 1833787 c.246C>G synonymous_variant 0.45 pyrazinamide
rpsA 1833790 c.249T>C synonymous_variant 0.48 pyrazinamide
rpsA 1833802 c.261A>G synonymous_variant 0.5 pyrazinamide
rpsA 1833811 c.270G>T synonymous_variant 0.48 pyrazinamide
rpsA 1833838 c.297G>C synonymous_variant 0.42 pyrazinamide
rpsA 1833841 c.300C>G synonymous_variant 0.42 pyrazinamide
rpsA 1833847 c.306C>G synonymous_variant 0.45 pyrazinamide
rpsA 1833856 c.315A>G synonymous_variant 0.52 pyrazinamide
rpsA 1833874 c.333T>C synonymous_variant 0.45 pyrazinamide
rpsA 1833940 c.399C>G synonymous_variant 0.39 pyrazinamide
rpsA 1833971 c.430C>T synonymous_variant 0.48 pyrazinamide
rpsA 1833979 c.438T>C synonymous_variant 0.5 pyrazinamide
rpsA 1834000 c.459G>C synonymous_variant 0.54 pyrazinamide
rpsA 1834021 c.480C>T synonymous_variant 0.54 pyrazinamide
rpsA 1834030 c.489C>G synonymous_variant 0.59 pyrazinamide
rpsA 1834177 c.636A>C synonymous_variant 0.39 pyrazinamide Not assoc w R - Interim
rpsA 1834189 c.648G>C synonymous_variant 0.45 pyrazinamide
rpsA 1834195 c.654G>C synonymous_variant 0.48 pyrazinamide
rpsA 1834210 c.669C>T synonymous_variant 0.45 pyrazinamide
rpsA 1834222 c.681T>C synonymous_variant 0.33 pyrazinamide
rpsA 1834540 c.999G>C synonymous_variant 0.5 pyrazinamide
rpsA 1834546 c.1005T>C synonymous_variant 0.53 pyrazinamide
rpsA 1834609 c.1068T>C synonymous_variant 0.45 pyrazinamide
rpsA 1834633 c.1092A>G synonymous_variant 0.3 pyrazinamide
rpsA 1834639 c.1098T>C synonymous_variant 0.27 pyrazinamide
rpsA 1834654 p.Glu371Asp missense_variant 0.27 pyrazinamide
rpsA 1834684 c.1143C>T synonymous_variant 0.33 pyrazinamide
rpsA 1834690 c.1149T>C synonymous_variant 0.3 pyrazinamide
rpsA 1834753 c.1212T>C synonymous_variant 0.38 pyrazinamide
rpsA 1834765 p.Glu408Asp missense_variant 0.3 pyrazinamide
rpsA 1834775 p.Ala412Thr missense_variant 0.3 pyrazinamide
tsnR 1853361 c.-245T>C upstream_gene_variant 0.24 linezolid
tsnR 1853370 c.-236_-234delGCAinsTG upstream_gene_variant 0.22 linezolid
tlyA 1917972 c.33A>G synonymous_variant 1.0 capreomycin Not assoc w R
tlyA 1917981 c.42G>C synonymous_variant 0.38 capreomycin
tlyA 1917990 c.51G>C synonymous_variant 0.4 capreomycin
tlyA 1917993 c.54A>G synonymous_variant 0.4 capreomycin Not assoc w R - Interim
tlyA 1917996 c.57A>G synonymous_variant 0.4 capreomycin
tlyA 1918002 c.63A>G synonymous_variant 0.4 capreomycin
tlyA 1918036 p.Arg33Ser missense_variant 0.54 capreomycin
ndh 2101924 c.1119T>G synonymous_variant 0.2 ethionamide
delamanid
isoniazid
ndh 2101939 c.1104A>G synonymous_variant 0.25 ethionamide
delamanid
isoniazid
ndh 2101960 c.1083A>G synonymous_variant 0.33 ethionamide
delamanid
isoniazid
ndh 2101963 c.1080G>A synonymous_variant 0.33 ethionamide Not assoc w R - Interim
delamanid Not assoc w R - Interim
isoniazid Not assoc w R - Interim
ndh 2101966 c.1077T>G synonymous_variant 0.35 ethionamide
delamanid
isoniazid
ndh 2101972 c.1071G>C synonymous_variant 0.32 ethionamide
delamanid
isoniazid
ndh 2101988 p.Ala352Asp missense_variant 0.3 ethionamide
delamanid
isoniazid
katG 2155677 c.435C>G synonymous_variant 0.27 isoniazid
katG 2155680 c.432G>C synonymous_variant 0.32 isoniazid
katG 2155691 c.421T>C synonymous_variant 0.33 isoniazid
katG 2155695 c.417C>G synonymous_variant 0.33 isoniazid
katG 2155704 c.408C>G synonymous_variant 0.33 isoniazid
katG 2155716 c.396T>G synonymous_variant 0.33 isoniazid
katG 2155722 c.390G>C synonymous_variant 0.35 isoniazid
katG 2155728 c.384G>C synonymous_variant 0.35 isoniazid
Rv1979c 2223051 p.Glu38Asp missense_variant 1.0 clofazimine Uncertain significance
bedaquiline Uncertain significance
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0 clofazimine Not assoc w R
bedaquiline Not assoc w R - Interim
kasA 2517950 c.-165C>G upstream_gene_variant 0.48 isoniazid
kasA 2517989 c.-126T>C upstream_gene_variant 0.38 isoniazid
kasA 2518696 c.582C>G synonymous_variant 0.64 isoniazid
kasA 2518702 c.588C>T synonymous_variant 0.58 isoniazid
kasA 2518705 c.591T>C synonymous_variant 0.54 isoniazid
kasA 2518711 c.597A>G synonymous_variant 0.54 isoniazid
kasA 2518714 c.600A>C synonymous_variant 0.54 isoniazid
kasA 2518732 c.618C>G synonymous_variant 0.5 isoniazid
kasA 2518744 c.630C>T synonymous_variant 0.43 isoniazid
kasA 2518747 c.633C>G synonymous_variant 0.4 isoniazid
kasA 2518777 c.663C>T synonymous_variant 0.41 isoniazid
kasA 2518783 c.669T>C synonymous_variant 0.47 isoniazid
kasA 2518825 c.711T>C synonymous_variant 0.75 isoniazid
kasA 2518864 c.750G>C synonymous_variant 0.57 isoniazid
kasA 2518919 c.805_807delGGTinsAC frameshift_variant&missense_variant 0.77 isoniazid
ahpC 2726564 c.372C>G synonymous_variant 0.38 isoniazid Not assoc w R - Interim
Rv2477c 2782957 c.1086A>G synonymous_variant 0.4 ethambutol Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
streptomycin Not assoc w R - Interim
levofloxacin Not assoc w R - Interim
kanamycin Not assoc w R - Interim
rifampicin Not assoc w R - Interim
amikacin Not assoc w R - Interim
Rv2477c 2782966 c.1077C>A synonymous_variant 0.4 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2782969 c.1074A>C synonymous_variant 0.4 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2782972 c.1071G>C synonymous_variant 0.4 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2782981 c.1062G>C synonymous_variant 0.42 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783221 c.822G>C synonymous_variant 0.43 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783275 c.768C>G synonymous_variant 0.43 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783278 c.765A>G synonymous_variant 0.43 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783293 c.750G>A synonymous_variant 0.33 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783299 c.744A>G synonymous_variant 0.32 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783539 c.504G>C synonymous_variant 0.3 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783542 c.501G>C synonymous_variant 0.29 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783548 c.495T>C synonymous_variant 0.32 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783554 c.489C>T synonymous_variant 0.32 ethambutol Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
streptomycin
levofloxacin Not assoc w R - Interim
kanamycin Not assoc w R - Interim
rifampicin Not assoc w R - Interim
amikacin Not assoc w R - Interim
Rv2477c 2783563 c.480A>G synonymous_variant 0.33 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783572 c.471A>G synonymous_variant 0.35 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2752c 3065824 p.Pro123Leu missense_variant 1.0 ethambutol Not assoc w R
moxifloxacin Uncertain significance
levofloxacin Not assoc w R
rifampicin Not assoc w R
isoniazid Not assoc w R - Interim
thyX 3067391 c.555G>C synonymous_variant 0.44 para-aminosalicylic_acid
thyX 3067394 c.552G>C synonymous_variant 0.45 para-aminosalicylic_acid
thyX 3067530 p.Ala139Ser missense_variant 0.5 para-aminosalicylic_acid
thyX 3067556 p.His130Gln missense_variant 0.5 para-aminosalicylic_acid
thyX 3067559 c.387C>G synonymous_variant 0.5 para-aminosalicylic_acid
thyX 3067565 p.Asp127Glu missense_variant 0.45 para-aminosalicylic_acid
thyX 3067570 p.Ala126Pro missense_variant 0.41 para-aminosalicylic_acid
thyX 3067577 c.369G>A synonymous_variant 0.41 para-aminosalicylic_acid
thyX 3067611 p.Lys112Thr missense_variant 0.39 para-aminosalicylic_acid
thyX 3067761 p.Arg62Lys missense_variant 0.5 para-aminosalicylic_acid
thyX 3067765 p.Leu61Ile missense_variant 0.5 para-aminosalicylic_acid
thyX 3067772 c.174C>G synonymous_variant 0.52 para-aminosalicylic_acid
thyX 3067775 c.171C>T synonymous_variant 0.52 para-aminosalicylic_acid
thyX 3067781 c.165C>G synonymous_variant 0.52 para-aminosalicylic_acid
thyX 3067793 c.153T>C synonymous_variant 0.52 para-aminosalicylic_acid
thyX 3067799 c.147G>A synonymous_variant 0.48 para-aminosalicylic_acid
thyX 3067802 c.144C>G synonymous_variant 0.48 para-aminosalicylic_acid
thyX 3067814 c.132T>C synonymous_variant 0.5 para-aminosalicylic_acid
thyA 3074181 c.291A>G synonymous_variant 0.46 para-aminosalicylic_acid
thyA 3074187 c.285T>C synonymous_variant 0.47 para-aminosalicylic_acid
thyA 3074205 p.Glu89Asp missense_variant 0.53 para-aminosalicylic_acid
thyA 3074214 c.258T>C synonymous_variant 0.5 para-aminosalicylic_acid
thyA 3074244 c.228A>G synonymous_variant 0.33 para-aminosalicylic_acid
thyA 3074262 p.Gly70Ala missense_variant 0.32 para-aminosalicylic_acid
thyA 3074267 p.Ile69Val missense_variant 0.3 para-aminosalicylic_acid
thyA 3074268 c.204T>C synonymous_variant 0.3 para-aminosalicylic_acid
ald 3086788 c.-32T>C upstream_gene_variant 1.0 cycloserine
mtrB 3625065 p.Met517Leu missense_variant 1.0 bedaquiline Uncertain significance
rifampicin Not assoc w R
mtrB 3626858 c.-245A>G upstream_gene_variant 0.4 bedaquiline
rifampicin
mtrB 3626903 c.-290T>C upstream_gene_variant 0.37 bedaquiline
rifampicin
mtrB 3626912 c.-299T>G upstream_gene_variant 0.35 bedaquiline
rifampicin
mtrB 3626927 c.-314G>C upstream_gene_variant 0.33 bedaquiline
rifampicin
mtrB 3626930 c.-317A>G upstream_gene_variant 0.33 bedaquiline
rifampicin
mtrA 3626939 c.411A>G synonymous_variant 0.29 bedaquiline
rifampicin Not assoc w R - Interim
mtrB 3626942 c.-329A>C upstream_gene_variant 0.29 bedaquiline
rifampicin
mtrB 3626945 c.-332C>T upstream_gene_variant 0.27 bedaquiline
rifampicin
mtrB 3626957 c.-344G>C upstream_gene_variant 0.26 bedaquiline
rifampicin
mtrB 3627065 c.-452G>C upstream_gene_variant 0.7 bedaquiline
rifampicin
mtrA 3627068 c.282T>C synonymous_variant 0.67 bedaquiline
rifampicin Not assoc w R - Interim
mtrA 3627071 c.279G>T synonymous_variant 0.71 bedaquiline
rifampicin Not assoc w R - Interim
mtrB 3627074 c.-461G>C upstream_gene_variant 0.68 bedaquiline
rifampicin
mtrA 3627080 c.270T>C synonymous_variant 0.73 bedaquiline
rifampicin Not assoc w R - Interim
mtrB 3627083 c.-470G>C upstream_gene_variant 0.76 bedaquiline
rifampicin
mtrA 3627098 c.252A>C synonymous_variant 0.65 bedaquiline
rifampicin Not assoc w R - Interim
mtrB 3627104 c.-491C>G upstream_gene_variant 0.58 bedaquiline
rifampicin
mtrA 3627119 c.231T>G synonymous_variant 0.59 bedaquiline
rifampicin Not assoc w R - Interim
mtrB 3627122 c.-509T>C upstream_gene_variant 0.57 bedaquiline
rifampicin
mtrA 3627146 c.204C>T synonymous_variant 0.5 bedaquiline
rifampicin Not assoc w R - Interim
mtrB 3627167 c.-554T>C upstream_gene_variant 0.42 bedaquiline
rifampicin
mtrB 3627181 c.-568T>C upstream_gene_variant 0.41 bedaquiline
rifampicin
mtrB 3627182 c.-569T>C upstream_gene_variant 0.41 bedaquiline
rifampicin
mtrA 3627188 c.162A>G synonymous_variant 0.5 bedaquiline
rifampicin Not assoc w R - Interim
mtrB 3627209 c.-596G>A upstream_gene_variant 0.47 bedaquiline
rifampicin
mtrA 3627221 c.129C>T synonymous_variant 0.44 bedaquiline
rifampicin Not assoc w R - Interim
mtrA 3627227 c.123T>C synonymous_variant 0.5 bedaquiline
rifampicin Not assoc w R - Interim
mtrB 3627233 c.-620T>C upstream_gene_variant 0.44 bedaquiline
rifampicin
rpoA 3877613 p.Ile299Val missense_variant 0.47 rifampicin
rpoA 3877656 c.852T>G synonymous_variant 0.39 rifampicin Not assoc w R - Interim
rpoA 3877668 c.840A>G synonymous_variant 0.35 rifampicin
rpoA 3877679 p.Ala277Ser missense_variant 0.37 rifampicin
rpoA 3877686 c.822A>G synonymous_variant 0.33 rifampicin Not assoc w R - Interim
rpoA 3877782 c.726T>C synonymous_variant 0.33 rifampicin Not assoc w R - Interim
rpoA 3877962 c.546G>T synonymous_variant 0.33 rifampicin Not assoc w R - Interim
rpoA 3877986 c.522G>C synonymous_variant 0.41 rifampicin
rpoA 3877989 c.519A>G synonymous_variant 0.44 rifampicin Not assoc w R - Interim
rpoA 3878001 c.507A>G synonymous_variant 0.44 rifampicin Not assoc w R - Interim
rpoA 3878022 c.486T>C synonymous_variant 0.38 rifampicin
rpoA 3878028 c.480G>C synonymous_variant 0.43 rifampicin
rpoA 3878094 c.414C>G synonymous_variant 0.47 rifampicin
rpoA 3878103 c.405A>G synonymous_variant 0.43 rifampicin
rpoA 3878284 p.Glu75Ala missense_variant 0.53 rifampicin
rpoA 3878292 c.216T>C synonymous_variant 0.5 rifampicin Not assoc w R - Interim
rpoA 3878298 c.210A>G synonymous_variant 0.5 rifampicin Not assoc w R - Interim
rpoA 3878304 c.204G>C synonymous_variant 0.54 rifampicin
rpoA 3878313 c.195G>C synonymous_variant 0.53 rifampicin Not assoc w R - Interim
rpoA 3878322 c.186A>G synonymous_variant 0.5 rifampicin Not assoc w R - Interim
rpoA 3878331 c.177A>G synonymous_variant 0.47 rifampicin Not assoc w R - Interim
rpoA 3878785 c.-278T>G upstream_gene_variant 0.4 rifampicin
rpoA 3878998 c.-491C>G upstream_gene_variant 0.77 rifampicin Uncertain significance
rpoA 3879005 c.-499_-498delAAinsCG upstream_gene_variant 0.71 rifampicin
rpoA 3879013 c.-506A>G upstream_gene_variant 0.69 rifampicin
rpoA 3879079 c.-572A>G upstream_gene_variant 0.47 rifampicin
clpC1 4038287 c.2418C>T synonymous_variant 0.73 pyrazinamide Not assoc w R
clpC1 4038317 c.2388G>C synonymous_variant 0.38 pyrazinamide
clpC1 4038320 c.2385G>T synonymous_variant 0.45 pyrazinamide
clpC1 4038356 c.2349T>C synonymous_variant 0.52 pyrazinamide
clpC1 4038359 c.2346A>G synonymous_variant 0.55 pyrazinamide
clpC1 4038368 c.2337T>C synonymous_variant 0.52 pyrazinamide
clpC1 4038388 c.2317T>C synonymous_variant 0.55 pyrazinamide
clpC1 4038392 c.2313C>T synonymous_variant 0.53 pyrazinamide
clpC1 4038398 c.2307G>T synonymous_variant 0.47 pyrazinamide
clpC1 4038403 c.2302T>C synonymous_variant 0.45 pyrazinamide Not assoc w R - Interim
clpC1 4038407 c.2298G>C synonymous_variant 0.45 pyrazinamide
clpC1 4038509 c.2196C>T synonymous_variant 0.36 pyrazinamide
clpC1 4038530 p.Glu725Asp missense_variant 0.44 pyrazinamide
clpC1 4038541 c.2164C>T synonymous_variant 0.5 pyrazinamide
clpC1 4038596 c.2109A>G synonymous_variant 0.43 pyrazinamide
clpC1 4038623 c.2082A>G synonymous_variant 0.3 pyrazinamide
clpC1 4038640 p.Asp689Asn missense_variant 0.23 pyrazinamide
clpC1 4038653 c.2052C>T synonymous_variant 0.2 pyrazinamide
clpC1 4038658 p.Lys683Gln missense_variant 0.18 pyrazinamide
clpC1 4038661 p.Ser682Thr missense_variant 0.18 pyrazinamide
clpC1 4038662 c.2043T>C synonymous_variant 0.17 pyrazinamide
clpC1 4038671 c.2034T>C synonymous_variant 0.18 pyrazinamide
clpC1 4038953 c.1752A>G synonymous_variant 0.27 pyrazinamide
clpC1 4038956 c.1749T>C synonymous_variant 0.24 pyrazinamide
clpC1 4038965 c.1740T>C synonymous_variant 0.24 pyrazinamide
clpC1 4038971 c.1734T>C synonymous_variant 0.32 pyrazinamide
clpC1 4038974 c.1731T>C synonymous_variant 0.33 pyrazinamide Not assoc w R - Interim
clpC1 4038989 c.1716T>C synonymous_variant 0.35 pyrazinamide
clpC1 4038997 c.1708T>C synonymous_variant 0.4 pyrazinamide Not assoc w R - Interim
clpC1 4039004 c.1701C>G synonymous_variant 0.4 pyrazinamide
clpC1 4039022 c.1683A>G synonymous_variant 0.44 pyrazinamide
clpC1 4039064 c.1641C>T synonymous_variant 0.43 pyrazinamide
clpC1 4039178 c.1527G>C synonymous_variant 0.38 pyrazinamide
clpC1 4039183 c.1522T>C synonymous_variant 0.33 pyrazinamide
clpC1 4039186 c.1519C>T synonymous_variant 0.28 pyrazinamide
clpC1 4039226 c.1479T>C synonymous_variant 0.38 pyrazinamide Not assoc w R - Interim
clpC1 4039229 c.1476C>G synonymous_variant 0.39 pyrazinamide
clpC1 4039274 c.1431G>C synonymous_variant 0.3 pyrazinamide Not assoc w R - Interim
clpC1 4039286 c.1419T>C synonymous_variant 0.23 pyrazinamide
clpC1 4039454 c.1251A>G synonymous_variant 0.6 pyrazinamide Not assoc w R - Interim
clpC1 4039463 c.1242C>G synonymous_variant 0.62 pyrazinamide
clpC1 4039466 c.1239T>C synonymous_variant 0.57 pyrazinamide
clpC1 4039469 c.1236T>C synonymous_variant 0.57 pyrazinamide
clpC1 4039481 c.1224T>C synonymous_variant 0.5 pyrazinamide
clpC1 4039484 c.1221T>C synonymous_variant 0.53 pyrazinamide
clpC1 4039517 c.1188C>G synonymous_variant 0.44 pyrazinamide
clpC1 4039661 c.1044T>G synonymous_variant 0.41 pyrazinamide
clpC1 4039664 c.1041G>C synonymous_variant 0.45 pyrazinamide
clpC1 4039817 c.888A>C synonymous_variant 0.43 pyrazinamide Not assoc w R - Interim
clpC1 4039820 c.885T>G synonymous_variant 0.43 pyrazinamide
clpC1 4039826 c.879C>G synonymous_variant 0.46 pyrazinamide
clpC1 4039831 c.874T>C synonymous_variant 0.43 pyrazinamide
clpC1 4039850 c.855T>C synonymous_variant 0.46 pyrazinamide
clpC1 4039865 c.840T>C synonymous_variant 0.47 pyrazinamide
clpC1 4040459 c.246C>G synonymous_variant 0.29 pyrazinamide
clpC1 4040465 c.240T>C synonymous_variant 0.36 pyrazinamide
clpC1 4040471 c.234T>C synonymous_variant 0.33 pyrazinamide Not assoc w R - Interim
clpC1 4040477 c.228G>C synonymous_variant 0.33 pyrazinamide
clpC1 4040480 c.225T>G synonymous_variant 0.36 pyrazinamide
clpC1 4040522 c.183T>C synonymous_variant 0.42 pyrazinamide Not assoc w R - Interim
clpC1 4040528 c.177G>C synonymous_variant 0.37 pyrazinamide
clpC1 4040531 c.174T>C synonymous_variant 0.39 pyrazinamide
clpC1 4040534 c.171A>G synonymous_variant 0.44 pyrazinamide Not assoc w R - Interim
clpC1 4040537 c.168G>C synonymous_variant 0.44 pyrazinamide
clpC1 4040546 c.159G>C synonymous_variant 0.47 pyrazinamide
clpC1 4040551 c.154T>C synonymous_variant 0.46 pyrazinamide Not assoc w R - Interim
panD 4045022 c.-741C>G upstream_gene_variant 0.33 pyrazinamide
embC 4241038 c.1176G>C synonymous_variant 0.3 ethambutol
embC 4241047 c.1185C>G synonymous_variant 0.38 ethambutol
embC 4241050 c.1188T>G synonymous_variant 0.38 ethambutol
embC 4241053 c.1191G>C synonymous_variant 0.42 ethambutol
embC 4241089 c.1227C>G synonymous_variant 0.42 ethambutol
embC 4241095 c.1233C>T synonymous_variant 0.4 ethambutol
embC 4241107 c.1245G>C synonymous_variant 0.36 ethambutol
embC 4242643 c.2781C>T synonymous_variant 0.92 ethambutol Not assoc w R
embA 4245215 c.1983A>C synonymous_variant 0.33 ethambutol
embA 4245222 c.1990_1992delTATinsCG frameshift_variant&missense_variant 0.35 ethambutol Uncertain significance
embB 4246196 c.-318C>G upstream_gene_variant 0.46 ethambutol
embB 4246205 c.-309A>G upstream_gene_variant 0.38 ethambutol
embB 4246211 c.-303T>C upstream_gene_variant 0.35 ethambutol
embB 4246217 c.-297G>A upstream_gene_variant 0.33 ethambutol
embA 4246220 c.2988T>C synonymous_variant 0.33 ethambutol Not assoc w R - Interim
embB 4246223 c.-291C>T upstream_gene_variant 0.33 ethambutol
embA 4246227 p.Ile999Val missense_variant 0.35 ethambutol
embA 4246235 c.3003G>A synonymous_variant 0.32 ethambutol Not assoc w R - Interim
embA 4246242 p.Gln1004Gly missense_variant 0.27 ethambutol
embB 4246250 c.-264G>C upstream_gene_variant 0.29 ethambutol
embB 4247887 c.1374C>T synonymous_variant 0.33 ethambutol Not assoc w R - Interim
embB 4248130 c.1617G>C synonymous_variant 0.42 ethambutol
embB 4248142 c.1629T>C synonymous_variant 0.5 ethambutol
embB 4248143 c.1630T>C synonymous_variant 0.47 ethambutol
embB 4248157 c.1644A>G synonymous_variant 0.37 ethambutol Not assoc w R - Interim
embB 4248172 c.1659G>C synonymous_variant 0.3 ethambutol
embB 4248316 c.1803C>G synonymous_variant 0.38 ethambutol
embB 4248319 c.1806A>G synonymous_variant 0.35 ethambutol
embB 4248382 c.1869C>G synonymous_variant 0.39 ethambutol
embB 4248386 c.1873C>A synonymous_variant 0.36 ethambutol
ubiA 4269271 p.Val188Ala missense_variant 0.92 ethambutol Uncertain significance
whiB6 4338595 c.-75delG upstream_gene_variant 1.0 capreomycin Not assoc w R
amikacin Not assoc w R
kanamycin Not assoc w R
whiB6 4338732 c.-211C>T upstream_gene_variant 1.0 capreomycin
amikacin
kanamycin