TB-Profiler result

Run: SRR6832178
Summary

Run ID: SRR6832178

Sample name:

Date: 2025-02-11T09:23:33.661376

Number of reads: 1584680

Percentage reads mapped: 76.13

Median coverage: 34.0

Strain: lineage4.2.1.1

Spoligotype:

Drug-resistance: HR-TB

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Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family RDs Frequency
lineage4.2 Euro-American None 0.94
lineage4 Euro-American None 0.97
lineage4.2.1.1 Euro-American (TUR) None 0.98
lineage4.2.1 Euro-American (TUR) None 0.99
Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations WHO confidence Comment
rifampicin
isoniazid katG p.Ser315Thr Assoc w R High-level resistance
ethambutol embB p.His312Arg Mutation from literature
pyrazinamide
streptomycin rpsL p.Lys88Arg Assoc w R
fluoroquinolones
moxifloxacin
ofloxacin
levofloxacin
ciprofloxacin
aminoglycosides
amikacin
capreomycin
kanamycin
cycloserine
ethionamide
clofazimine
para-aminosalicylic_acid folC p.Glu153Ala Mutation from literature
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
rpsL 781822 p.Lys88Arg missense_variant 0.88 streptomycin Assoc w R
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid Assoc w R High-level resistance
folC 2747141 p.Glu153Ala missense_variant 1.0 para-aminosalicylic_acid Mutation from literature
embB 4247448 p.His312Arg missense_variant 0.2 ethambutol 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 1404 c.1404T>C synonymous_variant 0.25 isoniazid
dnaA 1407 c.1407T>C synonymous_variant 0.24 isoniazid
dnaA 1413 c.1413A>C synonymous_variant 0.3 isoniazid
dnaA 1416 c.1416C>G synonymous_variant 0.3 isoniazid
dnaA 1441 c.1441C>T synonymous_variant 0.31 isoniazid
dnaA 1449 c.1449G>A synonymous_variant 0.26 isoniazid
dnaA 1458 c.1458G>A synonymous_variant 0.31 isoniazid
dnaA 1464 c.1464T>C synonymous_variant 0.31 isoniazid
dnaA 1467 c.1467G>A synonymous_variant 0.31 isoniazid Not assoc w R - Interim
dnaA 1473 c.1473T>C synonymous_variant 0.21 isoniazid Not assoc w R - Interim
gyrB 5284 c.45G>A synonymous_variant 0.24 levofloxacin
moxifloxacin
gyrB 5287 c.48T>C synonymous_variant 0.26 levofloxacin
moxifloxacin
gyrB 5293 c.54C>G synonymous_variant 0.3 levofloxacin
moxifloxacin
gyrB 5302 c.63A>G synonymous_variant 0.29 levofloxacin
moxifloxacin
gyrB 5305 c.66G>A synonymous_variant 0.3 levofloxacin
moxifloxacin
gyrB 5308 c.69G>A synonymous_variant 0.3 levofloxacin
moxifloxacin
gyrB 5341 c.102T>C synonymous_variant 0.28 levofloxacin
moxifloxacin
gyrB 5359 c.120C>T synonymous_variant 0.25 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrB 5363 c.124_126delTTAinsCTG synonymous_variant 0.21 levofloxacin
moxifloxacin
gyrB 5377 c.138T>C synonymous_variant 0.28 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrB 5851 c.612G>C synonymous_variant 0.22 levofloxacin
moxifloxacin
gyrB 6145 c.906C>T synonymous_variant 0.23 levofloxacin
moxifloxacin
gyrB 6214 c.975G>C synonymous_variant 0.22 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 0.29 levofloxacin
moxifloxacin
gyrA 7601 c.300C>G synonymous_variant 0.26 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 7619 c.318C>T synonymous_variant 0.23 levofloxacin
moxifloxacin
gyrA 7622 c.321C>T synonymous_variant 0.23 levofloxacin
moxifloxacin
gyrA 7631 c.330G>C synonymous_variant 0.21 levofloxacin
moxifloxacin
gyrA 8315 c.1014G>A synonymous_variant 0.17 levofloxacin
moxifloxacin
gyrA 8519 c.1218A>C synonymous_variant 0.15 levofloxacin
moxifloxacin
gyrA 8531 c.1230G>A synonymous_variant 0.19 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8810 c.1509A>C synonymous_variant 0.22 levofloxacin
moxifloxacin
gyrA 8813 c.1512C>T synonymous_variant 0.23 levofloxacin Not assoc w R - Interim
moxifloxacin
gyrA 8897 c.1596T>C synonymous_variant 0.16 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8903 c.1602T>C synonymous_variant 0.19 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8981 c.1680G>C synonymous_variant 0.2 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8987 c.1686C>G synonymous_variant 0.19 levofloxacin
moxifloxacin
gyrA 8998 p.Leu566Trp missense_variant 0.18 levofloxacin Uncertain significance
moxifloxacin Uncertain significance
gyrA 9003 c.1702C>T synonymous_variant 0.18 levofloxacin
moxifloxacin
gyrA 9017 c.1716C>T synonymous_variant 0.18 levofloxacin
moxifloxacin
gyrA 9023 c.1722A>C synonymous_variant 0.19 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 9029 c.1728T>G synonymous_variant 0.18 levofloxacin
moxifloxacin
gyrA 9050 p.Asp583Glu missense_variant 0.18 levofloxacin Uncertain significance
moxifloxacin Uncertain significance
gyrA 9065 c.1764C>G synonymous_variant 0.16 levofloxacin
moxifloxacin
gyrA 9068 c.1767G>C synonymous_variant 0.15 levofloxacin
moxifloxacin
gyrA 9242 c.1941A>C synonymous_variant 0.17 levofloxacin
moxifloxacin
gyrA 9252 p.Val651Ile missense_variant 0.18 levofloxacin Uncertain significance
moxifloxacin Uncertain significance
gyrA 9257 c.1956C>T synonymous_variant 0.18 levofloxacin
moxifloxacin
gyrA 9284 c.1983T>G synonymous_variant 0.2 levofloxacin
moxifloxacin
gyrA 9296 c.1995T>C synonymous_variant 0.18 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 9304 p.Gly668Asp missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 9626 c.2325T>C synonymous_variant 0.16 levofloxacin
moxifloxacin
gyrA 9629 c.2328C>A synonymous_variant 0.16 levofloxacin Not assoc w R - Interim
moxifloxacin
gyrA 9630 p.Val777Ile missense_variant 0.17 levofloxacin
moxifloxacin
gyrA 9635 c.2334T>C synonymous_variant 0.18 levofloxacin
moxifloxacin
gyrA 9644 c.2343T>C synonymous_variant 0.2 levofloxacin
moxifloxacin
gyrA 9650 c.2349G>C synonymous_variant 0.21 levofloxacin
moxifloxacin
gyrA 9656 c.2355C>G synonymous_variant 0.23 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 9659 c.2358C>G synonymous_variant 0.24 levofloxacin
moxifloxacin
gyrA 9668 c.2367C>A synonymous_variant 0.21 levofloxacin
moxifloxacin
fgd1 490851 c.69A>T synonymous_variant 0.3 pretomanid
delamanid
clofazimine
fgd1 490853 p.Ala24Gly missense_variant 0.3 pretomanid
delamanid
clofazimine
fgd1 491601 c.819T>C synonymous_variant 0.24 pretomanid
delamanid
clofazimine
fgd1 491604 c.822G>C synonymous_variant 0.24 pretomanid
delamanid
clofazimine
fgd1 491610 c.828A>G synonymous_variant 0.23 pretomanid
delamanid
clofazimine
fgd1 491616 c.834A>G synonymous_variant 0.23 pretomanid
delamanid
clofazimine
fgd1 491628 c.846G>A synonymous_variant 0.18 pretomanid
delamanid
clofazimine
mshA 575767 c.420G>A synonymous_variant 0.19 isoniazid
ethionamide
mshA 575770 c.423G>C synonymous_variant 0.19 isoniazid
ethionamide
mshA 575772 p.Val142Ala missense_variant 0.18 isoniazid
ethionamide
mshA 575785 c.438T>C synonymous_variant 0.19 isoniazid
ethionamide
ccsA 620245 p.Leu119Met missense_variant 0.18 kanamycin
capreomycin
amikacin
ccsA 620256 c.366C>G synonymous_variant 0.14 kanamycin
capreomycin
amikacin
ccsA 620257 p.Ile123Val missense_variant 0.15 kanamycin
capreomycin
amikacin
ccsA 620271 c.381C>G synonymous_variant 0.14 kanamycin
capreomycin
amikacin
ccsA 620325 c.435G>T synonymous_variant 0.15 kanamycin
capreomycin
amikacin
ccsA 620622 c.732G>C synonymous_variant 0.15 kanamycin
capreomycin
amikacin
ccsA 620631 c.741T>G synonymous_variant 0.15 kanamycin
capreomycin
amikacin
Rv0565c 657686 c.-216C>A upstream_gene_variant 0.24 ethionamide
Rv0565c 657689 c.-220_-219delCAinsAG upstream_gene_variant 0.24 ethionamide
Rv0565c 657701 c.-231C>G upstream_gene_variant 0.26 ethionamide
Rv0565c 657734 c.-264T>C upstream_gene_variant 0.28 ethionamide
hadA 731738 c.-192G>T upstream_gene_variant 0.24 isoniazid
hadA 731753 c.-177A>G upstream_gene_variant 0.26 isoniazid
hadA 731774 c.-156T>C upstream_gene_variant 0.26 isoniazid
hadA 731795 c.-135C>T upstream_gene_variant 0.24 isoniazid
nusG 734421 c.168A>G synonymous_variant 0.16 rifampicin
nusG 734481 c.228C>T synonymous_variant 0.14 rifampicin
nusG 734580 c.327T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
nusG 734625 c.372T>C synonymous_variant 0.19 rifampicin
nusG 734631 c.378G>A synonymous_variant 0.19 rifampicin
nusG 734634 c.381G>C synonymous_variant 0.19 rifampicin
mmaA3 737277 c.873G>C synonymous_variant 0.15 isoniazid
mmaA3 737280 c.870G>A synonymous_variant 0.15 isoniazid
mmaA3 737307 p.Met281Ile missense_variant 0.2 isoniazid
mmaA3 737310 c.840A>G synonymous_variant 0.22 isoniazid
mmaA3 737316 c.834G>A synonymous_variant 0.22 isoniazid
mmaA3 737340 c.810A>G synonymous_variant 0.21 isoniazid
mmaA3 737349 c.801G>C synonymous_variant 0.2 isoniazid
mmaA3 737358 c.792A>C synonymous_variant 0.22 isoniazid
mmaA3 738100 p.Asp17Ala missense_variant 0.32 isoniazid
rpoB 759606 c.-201T>C upstream_gene_variant 0.24 rifampicin
rpoB 759635 c.-172C>T upstream_gene_variant 0.25 rifampicin
rpoB 759644 c.-163T>A upstream_gene_variant 0.26 rifampicin
rpoB 759647 c.-160T>C upstream_gene_variant 0.27 rifampicin Uncertain significance
rpoB 759661 c.-146G>C upstream_gene_variant 0.27 rifampicin
rpoB 760181 c.375T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 760184 c.378A>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 760193 c.387C>G synonymous_variant 0.17 rifampicin
rpoB 760196 c.390C>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 760202 c.396G>A synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 760223 c.417T>C synonymous_variant 0.21 rifampicin
rpoB 760235 c.429T>C synonymous_variant 0.25 rifampicin Not assoc w R - Interim
rpoB 760256 c.450C>T synonymous_variant 0.25 rifampicin Not assoc w R - Interim
rpoB 760298 c.492G>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoB 760328 c.522G>C synonymous_variant 0.16 rifampicin
rpoB 760343 c.537G>C synonymous_variant 0.15 rifampicin
rpoB 760361 c.555T>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoB 760919 c.1113C>G synonymous_variant 0.17 rifampicin
rpoB 760920 c.1114C>T synonymous_variant 0.16 rifampicin
rpoB 761015 c.1209G>C synonymous_variant 0.26 rifampicin Not assoc w R - Interim
rpoB 761027 c.1221A>G synonymous_variant 0.35 rifampicin Not assoc w R - Interim
rpoB 761036 c.1230G>A synonymous_variant 0.34 rifampicin
rpoB 761037 c.1231T>C synonymous_variant 0.34 rifampicin Not assoc w R - Interim
rpoB 761051 c.1245G>C synonymous_variant 0.4 rifampicin Not assoc w R - Interim
rpoB 761066 c.1260G>C synonymous_variant 0.4 rifampicin
rpoB 761201 c.1395G>A synonymous_variant 0.24 rifampicin
rpoB 761204 c.1398C>G synonymous_variant 0.25 rifampicin
rpoB 761207 c.1401C>T synonymous_variant 0.24 rifampicin
rpoB 761234 c.1428G>C synonymous_variant 0.25 rifampicin Not assoc w R - Interim
rpoB 761249 c.1443A>G synonymous_variant 0.27 rifampicin Not assoc w R - Interim
rpoB 761255 c.1449T>G synonymous_variant 0.26 rifampicin Not assoc w R - Interim
rpoB 761261 c.1455G>T synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoB 761273 c.1467T>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoB 761537 c.1731C>G synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 761561 c.1755C>G synonymous_variant 0.2 rifampicin
rpoB 761564 c.1758G>C synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoB 761573 c.1767C>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 761579 c.1773G>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 761600 c.1794T>G synonymous_variant 0.2 rifampicin
rpoB 761603 c.1797C>T synonymous_variant 0.21 rifampicin
rpoB 761606 c.1800C>G synonymous_variant 0.2 rifampicin
rpoB 761612 c.1806G>T synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoB 761615 c.1809A>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoB 762053 c.2247T>C synonymous_variant 0.26 rifampicin Not assoc w R - Interim
rpoB 762065 c.2259T>C synonymous_variant 0.27 rifampicin Not assoc w R - Interim
rpoB 762071 c.2265C>T synonymous_variant 0.27 rifampicin
rpoB 762083 c.2277T>C synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoB 762086 c.2280G>C synonymous_variant 0.23 rifampicin Not assoc w R - Interim
rpoB 762114 p.Ile770Val missense_variant 0.24 rifampicin Uncertain significance
rpoB 762119 c.2313C>T synonymous_variant 0.23 rifampicin
rpoB 762131 c.2325C>G synonymous_variant 0.22 rifampicin
rpoB 762134 c.2328C>G synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoC 762518 c.-852C>G upstream_gene_variant 0.27 rifampicin
rpoB 762857 c.3051C>G synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoC 762860 c.-510G>T upstream_gene_variant 0.23 rifampicin
rpoB 762899 c.3093G>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoB 762929 c.3123G>C synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoB 763028 c.3222T>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 763031 c.3225T>G synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 763034 c.3228C>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 763040 c.3234C>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 763468 c.99G>C synonymous_variant 0.35 rifampicin Not assoc w R - Interim
rpoC 763486 c.117T>C synonymous_variant 0.38 rifampicin Not assoc w R - Interim
rpoC 763505 c.136C>T synonymous_variant 0.35 rifampicin
rpoC 763600 c.231C>T synonymous_variant 0.32 rifampicin Not assoc w R - Interim
rpoC 763606 c.237C>T synonymous_variant 0.32 rifampicin
rpoC 763618 c.249C>A synonymous_variant 0.28 rifampicin
rpoC 763633 c.264T>C synonymous_variant 0.3 rifampicin Not assoc w R - Interim
rpoC 763636 c.267T>G synonymous_variant 0.29 rifampicin
rpoC 763639 c.270G>A synonymous_variant 0.25 rifampicin
rpoC 763658 c.289_291delCTTinsTTG synonymous_variant 0.23 rifampicin
rpoC 763666 c.297G>A synonymous_variant 0.24 rifampicin
rpoC 764005 c.636G>C synonymous_variant 0.3 rifampicin Not assoc w R - Interim
rpoC 764011 c.642T>C synonymous_variant 0.27 rifampicin
rpoC 764024 c.655T>C synonymous_variant 0.25 rifampicin
rpoC 764040 p.Ser224Asn missense_variant 0.24 rifampicin
rpoC 764044 c.675T>C synonymous_variant 0.25 rifampicin
rpoC 764140 c.771C>T synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoC 764161 c.792G>C synonymous_variant 0.31 rifampicin
rpoC 764203 c.834G>C synonymous_variant 0.29 rifampicin
rpoC 764206 p.Asp279Glu missense_variant 0.27 rifampicin
rpoC 764217 p.Asn283Ser missense_variant 0.26 rifampicin
rpoC 764681 c.1312C>T synonymous_variant 0.2 rifampicin
rpoC 764746 c.1377G>T synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoC 764752 c.1383G>C synonymous_variant 0.26 rifampicin Not assoc w R - Interim
rpoC 764755 c.1386C>T synonymous_variant 0.24 rifampicin
rpoC 764764 c.1395T>C synonymous_variant 0.23 rifampicin Not assoc w R - Interim
rpoC 764767 c.1398G>C synonymous_variant 0.24 rifampicin
rpoC 764815 c.1446A>G synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 764830 c.1461C>G synonymous_variant 0.17 rifampicin
rpoC 764833 c.1464A>G synonymous_variant 0.15 rifampicin
rpoC 764872 c.1503A>G synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 764875 c.1506C>A synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 764888 c.1519_1521delTTGinsCTC synonymous_variant 0.2 rifampicin
rpoC 764902 c.1533C>G synonymous_variant 0.24 rifampicin
rpoC 764911 c.1542A>G synonymous_variant 0.24 rifampicin
rpoC 764918 p.Val517Ile missense_variant 0.2 rifampicin
rpoC 764923 c.1554A>G synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoC 764932 c.1563C>G synonymous_variant 0.2 rifampicin
rpoC 764948 c.1579T>C synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoC 765395 c.2026C>T synonymous_variant 0.31 rifampicin
rpoC 765405 p.Leu679Pro missense_variant 0.27 rifampicin Uncertain significance
rpoC 765409 c.2040T>C synonymous_variant 0.23 rifampicin
rpoC 765430 c.2061G>A synonymous_variant 0.29 rifampicin
rpoC 765445 c.2076G>T synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoC 765451 c.2082C>G synonymous_variant 0.23 rifampicin
rpoC 765452 p.Ala695Ser missense_variant 0.23 rifampicin
rpoC 765478 c.2109T>C synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoC 765496 c.2127C>G synonymous_variant 0.16 rifampicin
rpoC 765499 c.2130C>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 765526 c.2157C>G synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 765541 c.2172C>A synonymous_variant 0.17 rifampicin
rpoC 765547 c.2178C>A synonymous_variant 0.19 rifampicin
rpoC 765553 c.2184C>T synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 765556 c.2187G>C synonymous_variant 0.17 rifampicin
rpoC 765562 c.2193G>C synonymous_variant 0.18 rifampicin
rpoC 765826 c.2457T>A synonymous_variant 0.26 rifampicin
rpoC 765835 c.2466C>T synonymous_variant 0.26 rifampicin Not assoc w R - Interim
rpoC 765850 c.2481G>C synonymous_variant 0.31 rifampicin Not assoc w R - Interim
rpoC 765883 c.2514C>G synonymous_variant 0.36 rifampicin
rpoC 765886 c.2517C>G synonymous_variant 0.38 rifampicin
rpoC 765892 c.2523T>C synonymous_variant 0.35 rifampicin Not assoc w R - Interim
rpoC 765910 c.2541G>C synonymous_variant 0.33 rifampicin Not assoc w R - Interim
rpoC 765934 c.2565C>T synonymous_variant 0.38 rifampicin
rpoC 765952 c.2583G>C synonymous_variant 0.37 rifampicin
rpoC 765967 c.2598C>T synonymous_variant 0.33 rifampicin Not assoc w R - Interim
rpoC 765979 c.2610C>G synonymous_variant 0.31 rifampicin Not assoc w R - Interim
rpoC 765994 c.2625A>T synonymous_variant 0.33 rifampicin Not assoc w R - Interim
rpoC 765997 c.2628T>C synonymous_variant 0.35 rifampicin
rpoC 766300 c.2931C>G synonymous_variant 0.15 rifampicin
rpoC 766306 c.2937C>T synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 766312 c.2943T>C synonymous_variant 0.17 rifampicin
rpoC 766315 c.2946C>G synonymous_variant 0.16 rifampicin
rpoC 766426 c.3057C>T synonymous_variant 0.24 rifampicin
rpoC 766483 c.3114G>C synonymous_variant 0.24 rifampicin
rpoC 766486 c.3117A>G synonymous_variant 0.25 rifampicin
rpoC 766492 c.3123T>C synonymous_variant 0.26 rifampicin
rpoC 766495 c.3126C>T synonymous_variant 0.27 rifampicin Not assoc w R - Interim
rpoC 766519 c.3150C>A synonymous_variant 0.26 rifampicin
rpoC 766528 c.3159T>C synonymous_variant 0.19 rifampicin
rpoC 766534 c.3165C>G synonymous_variant 0.17 rifampicin
rpoC 766537 c.3168G>A synonymous_variant 0.17 rifampicin
rpoC 766543 c.3174C>T synonymous_variant 0.17 rifampicin
rpoC 766549 c.3180G>T synonymous_variant 0.15 rifampicin
rpoC 766672 c.3303T>C synonymous_variant 0.17 rifampicin
rpoC 766681 c.3312C>T synonymous_variant 0.18 rifampicin
rpoC 766684 c.3315C>G synonymous_variant 0.19 rifampicin
rpoC 766700 c.3331C>T synonymous_variant 0.24 rifampicin
rpoC 766714 c.3345G>C synonymous_variant 0.22 rifampicin
rpoC 766726 c.3357T>C synonymous_variant 0.21 rifampicin
rpoC 766747 c.3378C>T synonymous_variant 0.26 rifampicin
rpoC 766765 c.3396A>C synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoC 766774 c.3405T>C synonymous_variant 0.27 rifampicin
rpoC 766801 c.3432C>T synonymous_variant 0.22 rifampicin
rpoC 766804 c.3435A>G synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoC 766843 c.3474T>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 766864 c.3495G>C synonymous_variant 0.18 rifampicin
rpoC 767062 c.3693C>A synonymous_variant 0.23 rifampicin
rpoC 767119 c.3750A>G synonymous_variant 0.28 rifampicin Not assoc w R - Interim
rpoC 767167 c.3798C>T synonymous_variant 0.26 rifampicin
rpoC 767180 p.Ala1271Gln missense_variant 0.26 rifampicin
rpoC 767185 c.3816G>T synonymous_variant 0.26 rifampicin
rpoC 767191 c.3822C>G synonymous_variant 0.25 rifampicin Not assoc w R - Interim
rpoC 767200 c.3831G>A synonymous_variant 0.24 rifampicin
rpoC 767206 c.3837C>A synonymous_variant 0.22 rifampicin
mmpL5 775639 p.Ile948Val missense_variant 1.0 bedaquiline Not assoc w R - Interim
clofazimine Not assoc w R
mmpL5 776802 p.Met560Thr missense_variant 1.0 bedaquiline Uncertain significance
clofazimine Uncertain significance
mmpL5 777451 p.Val344Leu missense_variant 1.0 bedaquiline Uncertain significance
clofazimine Uncertain significance
rpsL 781395 c.-165T>C upstream_gene_variant 1.0 streptomycin Not assoc w R
rpsL 781658 c.99A>G synonymous_variant 0.17 streptomycin
rpsL 781664 c.105C>T synonymous_variant 0.16 streptomycin
rpsL 781667 c.108C>G synonymous_variant 0.16 streptomycin
rpsL 781709 c.150G>C synonymous_variant 0.2 streptomycin Not assoc w R - Interim
rpsL 781715 c.156T>C synonymous_variant 0.2 streptomycin
rpsL 781718 c.159C>G synonymous_variant 0.2 streptomycin
rpsL 781721 c.162C>G synonymous_variant 0.21 streptomycin
rpsL 781728 c.169T>C synonymous_variant 0.22 streptomycin
rpsL 781742 c.183C>T synonymous_variant 0.19 streptomycin
rpsL 781760 c.201T>C synonymous_variant 0.18 streptomycin
rpsL 781916 c.357T>C synonymous_variant 0.16 streptomycin
rpsL 781929 p.Gly124Ser missense_variant 0.18 streptomycin Uncertain significance
rplC 800204 c.-605T>C upstream_gene_variant 0.91 linezolid
rplC 800537 c.-272C>T upstream_gene_variant 0.23 linezolid
rplC 800540 c.-269T>C upstream_gene_variant 0.24 linezolid
rplC 800567 c.-242A>G upstream_gene_variant 0.26 linezolid
rplC 800579 c.-230C>T upstream_gene_variant 0.21 linezolid
rplC 800582 c.-227C>G upstream_gene_variant 0.22 linezolid
rplC 800600 c.-209G>T upstream_gene_variant 0.24 linezolid
rplC 800693 c.-116A>C upstream_gene_variant 0.23 linezolid
rplC 800714 c.-95C>T upstream_gene_variant 0.16 linezolid
rplC 800715 c.-94A>C upstream_gene_variant 0.16 linezolid
rplC 800720 c.-89T>C upstream_gene_variant 0.17 linezolid
rplC 800723 c.-86C>G upstream_gene_variant 0.17 linezolid
rplC 800735 c.-74C>G upstream_gene_variant 0.2 linezolid
rplC 800738 c.-71T>C upstream_gene_variant 0.2 linezolid
rplC 800744 c.-65G>C upstream_gene_variant 0.21 linezolid
rplC 800817 c.9A>C synonymous_variant 0.19 linezolid
Rv1129c 1254582 c.-48A>C upstream_gene_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
isoniazid Not assoc w R
rifampicin Not assoc w R
fbiC 1303578 c.648G>A synonymous_variant 0.2 pretomanid
delamanid
clofazimine
fbiC 1303584 c.654C>A synonymous_variant 0.2 pretomanid
delamanid
clofazimine
fbiC 1303731 c.801A>G synonymous_variant 0.15 pretomanid
delamanid
clofazimine
fbiC 1303732 p.Ser268Thr missense_variant 0.15 pretomanid
delamanid
clofazimine
fbiC 1303737 c.807G>A synonymous_variant 0.16 pretomanid
delamanid
clofazimine
fbiC 1303752 c.822A>G synonymous_variant 0.16 pretomanid
delamanid Not assoc w R - Interim
clofazimine Not assoc w R - Interim
fbiC 1303768 p.Ser280Ala missense_variant 0.19 pretomanid
delamanid
clofazimine
fbiC 1304049 c.1119T>G synonymous_variant 0.21 pretomanid
delamanid
clofazimine
fbiC 1304055 p.Asp375Glu missense_variant 0.22 pretomanid
delamanid
clofazimine
fbiC 1304058 p.Glu376Asp missense_variant 0.21 pretomanid
delamanid Uncertain significance
clofazimine
fbiC 1304059 c.1129C>T synonymous_variant 0.21 pretomanid
delamanid
clofazimine
fbiC 1304064 c.1134G>C synonymous_variant 0.21 pretomanid
delamanid
clofazimine
fbiC 1304067 c.1137G>C synonymous_variant 0.21 pretomanid
delamanid
clofazimine
fbiC 1304074 p.Ala382Ser missense_variant 0.2 pretomanid
delamanid
clofazimine
fbiC 1304079 c.1149A>G synonymous_variant 0.21 pretomanid
delamanid
clofazimine
fbiC 1304091 c.1161C>T synonymous_variant 0.21 pretomanid
delamanid
clofazimine
fbiC 1304092 p.Met388Leu missense_variant 0.21 pretomanid
delamanid
clofazimine
fbiC 1304625 c.1695C>T synonymous_variant 0.2 pretomanid
delamanid
clofazimine
fbiC 1304628 c.1698G>C synonymous_variant 0.24 pretomanid
delamanid
clofazimine
fbiC 1304649 c.1719C>T synonymous_variant 0.22 pretomanid
delamanid
clofazimine
fbiC 1304784 c.1854T>G synonymous_variant 0.18 pretomanid
delamanid
clofazimine
fbiC 1304787 c.1857T>C synonymous_variant 0.18 pretomanid
delamanid
clofazimine
fbiC 1304790 c.1860C>A synonymous_variant 0.18 pretomanid
delamanid
clofazimine
fbiC 1304799 c.1869G>C synonymous_variant 0.19 pretomanid
delamanid
clofazimine
fbiC 1305126 c.2196T>C synonymous_variant 0.16 pretomanid
delamanid Not assoc w R - Interim
clofazimine Not assoc w R - Interim
sigE 1364839 c.427T>C synonymous_variant 0.15 pyrazinamide
sigE 1364844 c.432C>T synonymous_variant 0.15 pyrazinamide
sigE 1364866 p.Ala152Thr missense_variant 0.16 pyrazinamide
atpE 1461101 c.57T>C synonymous_variant 0.21 bedaquiline
atpE 1461107 c.63C>G synonymous_variant 0.2 bedaquiline
rrs 1471659 n.-187C>T upstream_gene_variant 1.0 kanamycin
capreomycin
streptomycin
amikacin
rrs 1471984 n.139T>A non_coding_transcript_exon_variant 0.17 kanamycin
capreomycin
streptomycin
amikacin
rrs 1471985 n.140T>C non_coding_transcript_exon_variant 0.17 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrl 1473877 n.220G>A non_coding_transcript_exon_variant 0.29 capreomycin
linezolid
rrl 1473887 n.230T>A non_coding_transcript_exon_variant 0.31 capreomycin
linezolid
rrl 1473888 n.231T>A non_coding_transcript_exon_variant 0.31 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473898 n.241C>T non_coding_transcript_exon_variant 0.3 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474009 n.352A>G non_coding_transcript_exon_variant 0.32 capreomycin
linezolid
rrl 1474034 n.377G>A non_coding_transcript_exon_variant 0.32 capreomycin
linezolid
rrl 1474083 n.426C>T non_coding_transcript_exon_variant 0.35 capreomycin Uncertain significance
linezolid
rrl 1474103 n.446A>T non_coding_transcript_exon_variant 0.29 capreomycin
linezolid
rrl 1474140 n.483C>T non_coding_transcript_exon_variant 0.25 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474151 n.494C>T non_coding_transcript_exon_variant 0.23 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474376 n.719T>C non_coding_transcript_exon_variant 0.24 capreomycin
linezolid
rrl 1474632 n.975G>T non_coding_transcript_exon_variant 0.26 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474639 n.982G>A non_coding_transcript_exon_variant 0.23 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474717 n.1060A>T non_coding_transcript_exon_variant 0.36 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474794 n.1137C>A non_coding_transcript_exon_variant 0.24 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475061 n.1404C>T non_coding_transcript_exon_variant 0.31 capreomycin Uncertain significance
linezolid
rrl 1475266 n.1609T>C non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475273 n.1616T>G non_coding_transcript_exon_variant 0.14 capreomycin
linezolid
rrl 1475289 n.1632G>A non_coding_transcript_exon_variant 0.15 capreomycin
linezolid
rrl 1475290 n.1633A>G non_coding_transcript_exon_variant 0.15 capreomycin
linezolid
rrl 1475291 n.1634A>C non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475429 n.1772G>A non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.31 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476619 n.2962C>T non_coding_transcript_exon_variant 0.19 capreomycin Not assoc w R
linezolid Uncertain significance
rpsA 1833256 c.-286C>G upstream_gene_variant 0.28 pyrazinamide
rpsA 1833262 c.-280T>A upstream_gene_variant 0.24 pyrazinamide
rpsA 1833271 c.-271G>A upstream_gene_variant 0.23 pyrazinamide
rpsA 1833589 c.48A>T synonymous_variant 0.31 pyrazinamide
rpsA 1833593 p.Ser18Thr missense_variant 0.31 pyrazinamide
rpsA 1833604 c.63C>T synonymous_variant 0.32 pyrazinamide
rpsA 1833610 c.69C>A synonymous_variant 0.35 pyrazinamide
rpsA 1833661 c.120A>G synonymous_variant 0.21 pyrazinamide
rpsA 1833664 c.123C>A synonymous_variant 0.21 pyrazinamide
rpsA 1833694 c.153G>T synonymous_variant 0.25 pyrazinamide
rpsA 1833718 c.177C>T synonymous_variant 0.3 pyrazinamide
rpsA 1833724 c.183C>G synonymous_variant 0.34 pyrazinamide
rpsA 1833727 c.186G>C synonymous_variant 0.36 pyrazinamide
rpsA 1833742 c.201A>G synonymous_variant 0.25 pyrazinamide
rpsA 1833745 c.204G>C synonymous_variant 0.23 pyrazinamide
rpsA 1833754 c.213G>A synonymous_variant 0.23 pyrazinamide
rpsA 1833802 c.261A>G synonymous_variant 0.18 pyrazinamide
rpsA 1833856 c.315A>G synonymous_variant 0.18 pyrazinamide
rpsA 1833874 c.333T>C synonymous_variant 0.2 pyrazinamide
rpsA 1833928 c.387G>C synonymous_variant 0.19 pyrazinamide
rpsA 1833949 c.408T>C synonymous_variant 0.2 pyrazinamide
rpsA 1833979 c.438T>C synonymous_variant 0.15 pyrazinamide
rpsA 1834000 c.459G>C synonymous_variant 0.18 pyrazinamide
rpsA 1834015 c.474G>C synonymous_variant 0.17 pyrazinamide
rpsA 1834024 c.483G>A synonymous_variant 0.17 pyrazinamide
rpsA 1834051 c.510G>A synonymous_variant 0.16 pyrazinamide
rpsA 1834249 c.708T>C synonymous_variant 0.2 pyrazinamide
rpsA 1834261 c.720A>G synonymous_variant 0.22 pyrazinamide Not assoc w R - Interim
rpsA 1834264 c.723G>C synonymous_variant 0.21 pyrazinamide
rpsA 1834297 c.756C>T synonymous_variant 0.27 pyrazinamide
rpsA 1834303 c.762T>G synonymous_variant 0.23 pyrazinamide
rpsA 1834306 c.765T>C synonymous_variant 0.22 pyrazinamide
rpsA 1834336 c.795C>G synonymous_variant 0.17 pyrazinamide
rpsA 1834339 c.798C>T synonymous_variant 0.2 pyrazinamide
rpsA 1834366 c.825A>G synonymous_variant 0.15 pyrazinamide Not assoc w R - Interim
rpsA 1834369 c.828C>G synonymous_variant 0.15 pyrazinamide
rpsA 1834375 c.834G>A synonymous_variant 0.17 pyrazinamide
rpsA 1834411 c.870T>C synonymous_variant 0.26 pyrazinamide
rpsA 1834417 c.876G>C synonymous_variant 0.27 pyrazinamide
rpsA 1834423 c.882G>C synonymous_variant 0.33 pyrazinamide
rpsA 1834451 c.910T>C synonymous_variant 0.25 pyrazinamide
rpsA 1834456 c.915T>G synonymous_variant 0.24 pyrazinamide
rpsA 1834468 c.927A>G synonymous_variant 0.24 pyrazinamide
rpsA 1834489 c.948T>C synonymous_variant 0.2 pyrazinamide
rpsA 1834495 c.954G>A synonymous_variant 0.22 pyrazinamide
rpsA 1834546 c.1005T>C synonymous_variant 0.18 pyrazinamide
rpsA 1834609 c.1068T>C synonymous_variant 0.23 pyrazinamide
rpsA 1834615 c.1074C>T synonymous_variant 0.22 pyrazinamide
rpsA 1834618 c.1077G>C synonymous_variant 0.23 pyrazinamide
rpsA 1834633 c.1092A>G synonymous_variant 0.23 pyrazinamide
rpsA 1834639 c.1098T>C synonymous_variant 0.22 pyrazinamide
rpsA 1834690 c.1149T>C synonymous_variant 0.24 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 1.0 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 1.0 kanamycin Uncertain significance
capreomycin Not assoc w R
streptomycin Uncertain significance
amikacin Not assoc w R
bacA 2064222 c.507G>A synonymous_variant 0.16 kanamycin Not assoc w R - Interim
capreomycin
streptomycin Not assoc w R - Interim
amikacin Not assoc w R - Interim
bacA 2064254 p.His159Asp missense_variant 0.14 kanamycin
capreomycin
streptomycin
amikacin
bacA 2064258 c.471A>G synonymous_variant 0.14 kanamycin
capreomycin
streptomycin
amikacin
bacA 2064264 c.465C>G synonymous_variant 0.18 kanamycin
capreomycin
streptomycin
amikacin
PPE35 2169879 p.Phe245Cys missense_variant 1.0 pyrazinamide Uncertain significance
Rv1979c 2223293 c.-129A>G upstream_gene_variant 0.93 bedaquiline Not assoc w R - Interim
clofazimine Not assoc w R
kasA 2517941 c.-174C>G upstream_gene_variant 0.25 isoniazid
kasA 2517956 c.-159G>A upstream_gene_variant 0.24 isoniazid
kasA 2517989 c.-126T>C upstream_gene_variant 0.23 isoniazid
kasA 2518019 c.-96A>G upstream_gene_variant 0.21 isoniazid
kasA 2518025 c.-90G>C upstream_gene_variant 0.21 isoniazid
kasA 2518588 c.474T>C synonymous_variant 0.4 isoniazid
kasA 2518591 c.477G>C synonymous_variant 0.39 isoniazid
kasA 2518618 c.504G>C synonymous_variant 0.5 isoniazid
kasA 2518633 c.519G>C synonymous_variant 0.5 isoniazid
kasA 2518642 c.528A>G synonymous_variant 0.53 isoniazid
kasA 2518645 c.531G>C synonymous_variant 0.62 isoniazid
kasA 2518648 c.534C>T synonymous_variant 0.57 isoniazid
kasA 2518672 c.558G>C synonymous_variant 0.55 isoniazid
kasA 2518681 c.567C>T synonymous_variant 0.53 isoniazid
kasA 2518684 c.570C>A synonymous_variant 0.53 isoniazid
kasA 2518711 c.597A>G synonymous_variant 0.5 isoniazid
kasA 2518714 c.600A>T synonymous_variant 0.54 isoniazid
kasA 2518735 c.621C>A synonymous_variant 0.48 isoniazid
kasA 2518744 c.630C>T synonymous_variant 0.41 isoniazid
kasA 2518747 c.633C>G synonymous_variant 0.37 isoniazid
kasA 2518756 c.642G>C synonymous_variant 0.32 isoniazid
kasA 2518783 c.669T>C synonymous_variant 0.25 isoniazid
kasA 2518789 c.675G>T synonymous_variant 0.26 isoniazid
kasA 2518795 c.681C>G synonymous_variant 0.25 isoniazid
kasA 2518798 c.684G>C synonymous_variant 0.24 isoniazid
kasA 2518855 c.741C>G synonymous_variant 0.24 isoniazid
kasA 2518856 p.Ile248Leu missense_variant 0.25 isoniazid
kasA 2518864 c.750G>C synonymous_variant 0.31 isoniazid
kasA 2518885 c.771T>C synonymous_variant 0.43 isoniazid
kasA 2518894 c.780G>A synonymous_variant 0.5 isoniazid
kasA 2518903 c.789C>T synonymous_variant 0.47 isoniazid
kasA 2518906 c.792A>G synonymous_variant 0.5 isoniazid
kasA 2518910 c.796C>T synonymous_variant 0.5 isoniazid
kasA 2518939 c.825T>C synonymous_variant 0.32 isoniazid
kasA 2518942 c.828T>C synonymous_variant 0.33 isoniazid
ahpC 2726142 c.-51G>A upstream_gene_variant 1.0 isoniazid Uncertain significance
Rv2477c 2782462 c.1581C>G synonymous_variant 0.14 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin Not assoc w R - Interim
ethambutol Not assoc w R - Interim
amikacin
Rv2477c 2782483 c.1560G>C synonymous_variant 0.19 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2782496 p.Asp516Ala missense_variant 0.25 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2782498 c.1545C>T synonymous_variant 0.25 kanamycin Not assoc w R
levofloxacin Not assoc w R
moxifloxacin Not assoc w R
streptomycin Not assoc w R - Interim
rifampicin Not assoc w R
ethambutol Not assoc w R
amikacin Not assoc w R
Rv2477c 2782504 c.1539G>A synonymous_variant 0.24 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783308 c.735G>C synonymous_variant 0.23 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783314 c.729C>G synonymous_variant 0.24 kanamycin
levofloxacin
moxifloxacin
streptomycin Not assoc w R - Interim
rifampicin Not assoc w R - Interim
ethambutol Not assoc w R - Interim
amikacin
Rv2477c 2783329 c.714G>A synonymous_variant 0.22 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783332 c.711T>C synonymous_variant 0.21 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783335 c.708C>T synonymous_variant 0.2 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 2783356 c.687C>G synonymous_variant 0.21 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783359 c.684G>A synonymous_variant 0.18 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783395 c.648T>C synonymous_variant 0.17 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783410 c.633G>C synonymous_variant 0.15 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783419 c.624G>T synonymous_variant 0.15 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783422 c.621T>C synonymous_variant 0.15 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783428 c.615C>T synonymous_variant 0.16 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 2783432 p.Ser204Ala missense_variant 0.17 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783437 c.606G>C synonymous_variant 0.2 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783737 c.306C>G synonymous_variant 0.17 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2752c 3065556 c.636G>A synonymous_variant 0.24 levofloxacin
moxifloxacin
isoniazid
rifampicin
ethambutol
Rv2752c 3065580 c.612G>C synonymous_variant 0.24 levofloxacin
moxifloxacin
isoniazid
rifampicin
ethambutol
Rv2752c 3065583 c.609G>C synonymous_variant 0.22 levofloxacin
moxifloxacin
isoniazid
rifampicin
ethambutol
Rv2752c 3065594 c.598C>T synonymous_variant 0.23 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
isoniazid Not assoc w R - Interim
rifampicin Not assoc w R - Interim
ethambutol Not assoc w R - Interim
Rv2752c 3065595 p.Leu199Phe missense_variant 0.23 levofloxacin
moxifloxacin
isoniazid
rifampicin
ethambutol
Rv2752c 3065612 p.Thr194Ala missense_variant 0.26 levofloxacin
moxifloxacin
isoniazid
rifampicin
ethambutol
Rv2752c 3065625 c.567G>C synonymous_variant 0.22 levofloxacin
moxifloxacin
isoniazid
rifampicin
ethambutol
Rv2752c 3065634 c.558G>C synonymous_variant 0.17 levofloxacin
moxifloxacin
isoniazid
rifampicin
ethambutol
Rv2752c 3065901 c.291A>T synonymous_variant 0.17 levofloxacin
moxifloxacin
isoniazid
rifampicin
ethambutol
Rv2752c 3065916 c.276T>C synonymous_variant 0.18 levofloxacin
moxifloxacin
isoniazid
rifampicin
ethambutol
Rv2752c 3065919 c.273G>C synonymous_variant 0.19 levofloxacin
moxifloxacin
isoniazid
rifampicin
ethambutol
Rv2752c 3065925 c.267G>C synonymous_variant 0.21 levofloxacin
moxifloxacin
isoniazid
rifampicin
ethambutol
Rv2752c 3065947 p.Gly82Ala missense_variant 0.25 levofloxacin
moxifloxacin
isoniazid
rifampicin
ethambutol
Rv2752c 3065958 c.234G>A synonymous_variant 0.81 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
isoniazid Not assoc w R - Interim
rifampicin Not assoc w R - Interim
ethambutol Not assoc w R - Interim
thyX 3067391 c.555G>C synonymous_variant 0.27 para-aminosalicylic_acid
thyX 3067394 c.552G>T synonymous_variant 0.27 para-aminosalicylic_acid
thyX 3067406 c.540A>G synonymous_variant 0.32 para-aminosalicylic_acid
ald 3086742 c.-78A>C upstream_gene_variant 1.0 cycloserine
ald 3086788 c.-32T>C upstream_gene_variant 1.0 cycloserine
Rv3083 3448753 p.Tyr84His missense_variant 1.0 ethionamide Uncertain significance
mtrB 3625065 p.Met517Leu missense_variant 1.0 rifampicin Not assoc w R
bedaquiline Uncertain significance
lpqB 3625510 c.-600T>G upstream_gene_variant 0.22 rifampicin
bedaquiline
lpqB 3625518 c.-608T>C upstream_gene_variant 0.24 rifampicin
bedaquiline
lpqB 3625522 c.-612C>G upstream_gene_variant 0.24 rifampicin
bedaquiline
lpqB 3625537 c.-627T>C upstream_gene_variant 0.21 rifampicin
bedaquiline
lpqB 3625543 c.-633G>C upstream_gene_variant 0.19 rifampicin
bedaquiline
mtrB 3625569 c.1045T>C synonymous_variant 0.23 rifampicin Not assoc w R - Interim
bedaquiline
mtrB 3625572 p.Thr348Ser missense_variant 0.23 rifampicin
bedaquiline
lpqB 3625579 c.-669A>G upstream_gene_variant 0.25 rifampicin
bedaquiline
mtrB 3626704 c.-91C>T upstream_gene_variant 0.22 rifampicin
bedaquiline
mtrB 3626711 c.-98T>A upstream_gene_variant 0.2 rifampicin
bedaquiline
mtrB 3626723 c.-110C>G upstream_gene_variant 0.2 rifampicin
bedaquiline
mtrB 3626726 c.-113T>C upstream_gene_variant 0.2 rifampicin
bedaquiline
mtrB 3626729 c.-116G>A upstream_gene_variant 0.2 rifampicin
bedaquiline
mtrB 3626732 c.-119A>G upstream_gene_variant 0.2 rifampicin
bedaquiline
mtrB 3626776 c.-163A>C upstream_gene_variant 0.15 rifampicin
bedaquiline
mtrA 3626912 c.438T>C synonymous_variant 0.21 rifampicin Not assoc w R - Interim
bedaquiline
mtrB 3627032 c.-419G>C upstream_gene_variant 0.19 rifampicin
bedaquiline
mtrA 3627080 c.270T>C synonymous_variant 0.24 rifampicin Not assoc w R - Interim
bedaquiline
mtrB 3627083 c.-470G>C upstream_gene_variant 0.24 rifampicin
bedaquiline
mtrA 3627098 c.252A>C synonymous_variant 0.22 rifampicin Not assoc w R - Interim
bedaquiline
mtrB 3627104 c.-491C>G upstream_gene_variant 0.24 rifampicin
bedaquiline
mtrB 3627140 c.-527G>C upstream_gene_variant 0.25 rifampicin
bedaquiline
mtrB 3627155 c.-542C>T upstream_gene_variant 0.26 rifampicin
bedaquiline
mtrB 3627167 c.-554T>C upstream_gene_variant 0.26 rifampicin
bedaquiline
mtrB 3627182 c.-569T>C upstream_gene_variant 0.26 rifampicin
bedaquiline
mtrA 3627187 c.163T>C synonymous_variant 0.26 rifampicin Not assoc w R - Interim
bedaquiline
mtrB 3627188 c.-577_-575delTTAinsCTG upstream_gene_variant 0.24 rifampicin
bedaquiline
mtrB 3627203 c.-590C>G upstream_gene_variant 0.24 rifampicin
bedaquiline
alr 3840473 c.948C>T synonymous_variant 0.14 cycloserine
rpoA 3877557 c.951C>G synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoA 3877567 p.Ser314Thr missense_variant 0.26 rifampicin
rpoA 3877569 c.939G>C synonymous_variant 0.28 rifampicin
rpoA 3877575 c.933C>T synonymous_variant 0.26 rifampicin
rpoA 3877587 c.921A>G synonymous_variant 0.28 rifampicin Not assoc w R - Interim
rpoA 3877593 c.915C>T synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoA 3877602 c.906C>T synonymous_variant 0.29 rifampicin
rpoA 3877613 p.Ile299Val missense_variant 0.22 rifampicin
rpoA 3877620 c.888G>A synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoA 3877647 c.861C>A synonymous_variant 0.19 rifampicin
rpoA 3877848 c.660C>T synonymous_variant 0.28 rifampicin Not assoc w R - Interim
rpoA 3877875 c.633T>G synonymous_variant 0.29 rifampicin
rpoA 3877886 c.622C>T synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoA 3877896 c.612G>C synonymous_variant 0.26 rifampicin
rpoA 3877899 p.Ser203Thr missense_variant 0.26 rifampicin
rpoA 3877905 c.603A>G synonymous_variant 0.27 rifampicin Not assoc w R - Interim
rpoA 3877909 p.Asn200Ser missense_variant 0.29 rifampicin
rpoA 3877926 c.582G>C synonymous_variant 0.25 rifampicin
rpoA 3877929 c.579C>T synonymous_variant 0.26 rifampicin
rpoA 3878058 c.450G>C synonymous_variant 0.26 rifampicin Not assoc w R - Interim
rpoA 3878061 c.447G>C synonymous_variant 0.24 rifampicin
rpoA 3878070 c.438T>C synonymous_variant 0.26 rifampicin
rpoA 3878085 c.423G>A synonymous_variant 0.25 rifampicin
rpoA 3878097 c.411G>A synonymous_variant 0.26 rifampicin
rpoA 3878100 c.408C>G synonymous_variant 0.27 rifampicin
rpoA 3878106 c.402G>C synonymous_variant 0.27 rifampicin
rpoA 3878118 c.390T>C synonymous_variant 0.28 rifampicin
rpoA 3878126 c.382C>T synonymous_variant 0.28 rifampicin Not assoc w R - Interim
rpoA 3878127 c.381G>C synonymous_variant 0.3 rifampicin
rpoA 3878157 c.351C>G synonymous_variant 0.33 rifampicin
rpoA 3878163 c.345C>T synonymous_variant 0.34 rifampicin Not assoc w R - Interim
rpoA 3878172 c.336G>C synonymous_variant 0.34 rifampicin
rpoA 3878193 c.315T>C synonymous_variant 0.31 rifampicin Not assoc w R - Interim
rpoA 3878202 c.306G>C synonymous_variant 0.27 rifampicin
rpoA 3878211 c.297G>A synonymous_variant 0.27 rifampicin
rpoA 3878217 c.291A>G synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoA 3878247 c.261G>C synonymous_variant 0.24 rifampicin
rpoA 3878256 c.252G>C synonymous_variant 0.21 rifampicin
rpoA 3878298 c.210A>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoA 3878322 c.186A>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoA 3878376 c.132G>A synonymous_variant 0.15 rifampicin
rpoA 3878424 c.84G>C synonymous_variant 0.14 rifampicin
rpoA 3878472 p.Asp12Glu missense_variant 0.17 rifampicin
rpoA 3878478 c.30C>G synonymous_variant 0.18 rifampicin
rpoA 3878483 c.25C>T synonymous_variant 0.18 rifampicin
rpoA 3878490 c.18C>T synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoA 3878496 c.12A>T synonymous_variant 0.24 rifampicin
rpoA 3878742 c.-235G>A upstream_gene_variant 0.33 rifampicin
rpoA 3878785 c.-278T>G upstream_gene_variant 0.25 rifampicin
rpoA 3878788 c.-281G>C upstream_gene_variant 0.27 rifampicin Uncertain significance
rpoA 3878791 c.-284C>T upstream_gene_variant 0.28 rifampicin Uncertain significance
rpoA 3878797 c.-290G>C upstream_gene_variant 0.29 rifampicin
rpoA 3878809 c.-302T>C upstream_gene_variant 0.29 rifampicin
rpoA 3878824 c.-317G>C upstream_gene_variant 0.27 rifampicin
rpoA 3878833 c.-326C>T upstream_gene_variant 0.3 rifampicin
rpoA 3878853 c.-346G>A upstream_gene_variant 0.33 rifampicin
rpoA 3878878 c.-371T>C upstream_gene_variant 0.34 rifampicin Uncertain significance
rpoA 3878909 c.-402A>G upstream_gene_variant 0.37 rifampicin
rpoA 3878914 c.-407T>C upstream_gene_variant 0.37 rifampicin Uncertain significance
rpoA 3878920 c.-413C>T upstream_gene_variant 0.33 rifampicin
rpoA 3878938 c.-431T>C upstream_gene_variant 0.27 rifampicin
rpoA 3878947 c.-440G>C upstream_gene_variant 0.28 rifampicin Uncertain significance
rpoA 3878962 c.-455G>C upstream_gene_variant 0.26 rifampicin
rpoA 3878968 c.-461T>C upstream_gene_variant 0.28 rifampicin Uncertain significance
rpoA 3879148 c.-641G>C upstream_gene_variant 0.24 rifampicin
rpoA 3879154 c.-647T>C upstream_gene_variant 0.23 rifampicin
rpoA 3879160 c.-653A>G upstream_gene_variant 0.22 rifampicin
rpoA 3879172 c.-665C>T upstream_gene_variant 0.18 rifampicin
ddn 3987092 p.Glu83Asp missense_variant 1.0 pretomanid
delamanid Uncertain significance
clpC1 4038302 c.2403C>G synonymous_variant 0.32 pyrazinamide
clpC1 4038308 c.2397G>C synonymous_variant 0.31 pyrazinamide
clpC1 4038314 c.2391T>G synonymous_variant 0.33 pyrazinamide
clpC1 4038335 c.2370C>T synonymous_variant 0.31 pyrazinamide Not assoc w R - Interim
clpC1 4038344 c.2361G>A synonymous_variant 0.26 pyrazinamide Not assoc w R - Interim
clpC1 4038383 c.2322G>A synonymous_variant 0.31 pyrazinamide
clpC1 4038388 c.2317T>C synonymous_variant 0.34 pyrazinamide
clpC1 4038392 c.2313C>T synonymous_variant 0.34 pyrazinamide
clpC1 4038398 c.2307G>T synonymous_variant 0.31 pyrazinamide
clpC1 4038403 c.2302T>C synonymous_variant 0.27 pyrazinamide Not assoc w R - Interim
clpC1 4038407 c.2298G>C synonymous_variant 0.28 pyrazinamide
clpC1 4038419 c.2286T>C synonymous_variant 0.26 pyrazinamide
clpC1 4038436 p.Ala757Ser missense_variant 0.3 pyrazinamide
clpC1 4038444 p.Ala754Lys missense_variant 0.32 pyrazinamide
clpC1 4038446 c.2259T>C synonymous_variant 0.33 pyrazinamide
clpC1 4038456 p.Val750Glu missense_variant 0.28 pyrazinamide
clpC1 4038755 c.1950G>T synonymous_variant 0.18 pyrazinamide
clpC1 4038773 c.1932T>C synonymous_variant 0.23 pyrazinamide
clpC1 4038790 c.1915C>T synonymous_variant 0.25 pyrazinamide Not assoc w R - Interim
clpC1 4038800 c.1905C>T synonymous_variant 0.29 pyrazinamide
clpC1 4038812 c.1893T>C synonymous_variant 0.31 pyrazinamide
clpC1 4038838 c.1867C>T synonymous_variant 0.2 pyrazinamide
clpC1 4038839 c.1866G>C synonymous_variant 0.2 pyrazinamide
clpC1 4038878 c.1827A>G synonymous_variant 0.19 pyrazinamide Not assoc w R - Interim
clpC1 4039022 c.1683A>G synonymous_variant 0.22 pyrazinamide
clpC1 4039037 c.1668T>C synonymous_variant 0.33 pyrazinamide
clpC1 4039085 c.1620A>G synonymous_variant 0.35 pyrazinamide
clpC1 4039090 c.1615C>T synonymous_variant 0.35 pyrazinamide
clpC1 4039097 c.1608G>C synonymous_variant 0.38 pyrazinamide
clpC1 4039103 c.1602T>C synonymous_variant 0.39 pyrazinamide
clpC1 4039106 c.1599G>C synonymous_variant 0.38 pyrazinamide
clpC1 4039112 c.1593C>G synonymous_variant 0.41 pyrazinamide
clpC1 4039121 c.1584T>C synonymous_variant 0.36 pyrazinamide
clpC1 4039133 c.1572C>G synonymous_variant 0.3 pyrazinamide
clpC1 4039142 c.1563A>G synonymous_variant 0.29 pyrazinamide
clpC1 4039145 c.1560G>C synonymous_variant 0.28 pyrazinamide
clpC1 4039169 p.Glu512Asp missense_variant 0.27 pyrazinamide
clpC1 4039172 c.1533A>G synonymous_variant 0.28 pyrazinamide
clpC1 4039183 c.1522T>C synonymous_variant 0.3 pyrazinamide
clpC1 4039187 c.1518G>C synonymous_variant 0.27 pyrazinamide
clpC1 4039226 c.1479T>C synonymous_variant 0.25 pyrazinamide Not assoc w R - Interim
clpC1 4039274 c.1431G>C synonymous_variant 0.18 pyrazinamide Not assoc w R - Interim
clpC1 4039286 c.1419T>C synonymous_variant 0.18 pyrazinamide
clpC1 4039322 c.1383T>C synonymous_variant 0.17 pyrazinamide
clpC1 4039337 c.1368A>C synonymous_variant 0.23 pyrazinamide
clpC1 4039826 c.879C>G synonymous_variant 0.18 pyrazinamide
clpC1 4039831 c.874T>C synonymous_variant 0.2 pyrazinamide
clpC1 4039850 c.855T>C synonymous_variant 0.2 pyrazinamide
clpC1 4039865 c.840T>C synonymous_variant 0.19 pyrazinamide
clpC1 4039868 c.837C>T synonymous_variant 0.2 pyrazinamide Not assoc w R - Interim
clpC1 4040021 c.684A>C synonymous_variant 0.15 pyrazinamide Not assoc w R - Interim
embC 4239044 c.-819G>C upstream_gene_variant 0.16 ethambutol
embC 4240741 c.879C>T synonymous_variant 0.19 ethambutol
embC 4240777 c.915G>A synonymous_variant 0.22 ethambutol Not assoc w R - Interim
embC 4240780 c.918T>C synonymous_variant 0.2 ethambutol
embC 4240783 c.921G>C synonymous_variant 0.19 ethambutol
embC 4241056 c.1194C>G synonymous_variant 0.19 ethambutol
embC 4241095 c.1233C>T synonymous_variant 0.28 ethambutol
embC 4241107 c.1245G>C synonymous_variant 0.28 ethambutol
embC 4241140 c.1278A>G synonymous_variant 0.19 ethambutol Not assoc w R - Interim
embC 4241153 p.Ile431Leu missense_variant 0.25 ethambutol
embC 4241161 c.1299C>G synonymous_variant 0.22 ethambutol Not assoc w R - Interim
embC 4241162 c.1300T>C synonymous_variant 0.22 ethambutol
embC 4241167 c.1305C>G synonymous_variant 0.23 ethambutol
embC 4241185 c.1323G>C synonymous_variant 0.22 ethambutol
embC 4241197 c.1335G>C synonymous_variant 0.16 ethambutol
embC 4242643 c.2781C>T synonymous_variant 1.0 ethambutol Not assoc w R
embA 4245182 c.1950T>C synonymous_variant 0.17 ethambutol
embA 4245186 p.Thr652Ala missense_variant 0.17 ethambutol
embB 4247440 c.927C>G synonymous_variant 0.21 ethambutol
embB 4247470 c.957T>C synonymous_variant 0.23 ethambutol
embB 4247497 c.984T>C synonymous_variant 0.26 ethambutol
embB 4247500 c.987C>G synonymous_variant 0.28 ethambutol
embB 4247512 c.999T>C synonymous_variant 0.27 ethambutol
embB 4247684 c.1171T>C synonymous_variant 0.15 ethambutol
embB 4247785 c.1272G>C synonymous_variant 0.17 ethambutol
embB 4248070 c.1557T>C synonymous_variant 0.17 ethambutol
embB 4248448 c.1935C>T synonymous_variant 0.2 ethambutol
embB 4248457 c.1944T>C synonymous_variant 0.2 ethambutol
embB 4248472 c.1959T>C synonymous_variant 0.19 ethambutol
aftB 4269180 c.-344G>T upstream_gene_variant 0.38 ethambutol
aftB 4269195 c.-359C>T upstream_gene_variant 0.42 ethambutol
aftB 4269216 c.-380C>T upstream_gene_variant 0.39 ethambutol
ubiA 4269222 c.612T>G synonymous_variant 0.38 ethambutol Not assoc w R - Interim
ubiA 4269225 c.609C>T synonymous_variant 0.35 ethambutol Not assoc w R - Interim
aftB 4269231 c.-395C>T upstream_gene_variant 0.37 ethambutol
aftB 4269234 c.-398A>G upstream_gene_variant 0.39 ethambutol
ubiA 4269243 p.His197Gln missense_variant 0.45 ethambutol
aftB 4269248 c.-412C>T upstream_gene_variant 0.38 ethambutol
ethA 4327065 p.Cys137Arg missense_variant 0.97 ethionamide Uncertain significance
ethR 4327318 c.-231T>G upstream_gene_variant 0.21 ethionamide
ethR 4327327 c.-222A>G upstream_gene_variant 0.21 ethionamide
ethR 4327330 c.-219G>A upstream_gene_variant 0.21 ethionamide
ethR 4327335 c.-214A>G upstream_gene_variant 0.21 ethionamide
ethR 4327336 c.-213A>G upstream_gene_variant 0.21 ethionamide
ethA 4327356 p.Ser40Ala missense_variant 0.2 ethionamide
ethA 4327357 p.Glu39Ser missense_variant 0.21 ethionamide
ethR 4327390 c.-159C>G upstream_gene_variant 0.27 ethionamide
ethR 4327396 c.-153A>G upstream_gene_variant 0.22 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
gid 4408213 c.-11C>T upstream_gene_variant 1.0 streptomycin Uncertain significance