TB-Profiler result

Run: ERR4816100
Summary

Run ID: ERR4816100

Sample name:

Date: 2025-09-15T14:51:18.268679

Number of reads: 2349731

Percentage reads mapped: 75.28

Median coverage: 51.0

Strain: lineage1.1;lineage4.1.3

Spoligotype:

Drug-resistance: Sensitive

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Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family RDs Frequency
lineage1 Indo-Oceanic RD239 37.83
lineage1.1 Indo-Oceanic RD239 36.5
lineage4 Euro-American None 67.3
lineage4.1 Euro-American None 59.56
lineage4.1.3 Euro-American None 51.23
Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations WHO confidence Comment
rifampicin
isoniazid
ethambutol
pyrazinamide
streptomycin
fluoroquinolones
moxifloxacin
ofloxacin
levofloxacin
ciprofloxacin
aminoglycosides
amikacin
capreomycin
kanamycin
cycloserine
ethionamide
clofazimine
para-aminosalicylic_acid
delamanid
bedaquiline
linezolid
Drug resistance-Associated Mutations: This table reports mutations found in candidate resistance genes which have been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs Confidence Comment
Non-Associated Mutations: This table reports mutations found in candidate resistance genes which have not been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs Confidence
dnaA 840 c.840G>A synonymous_variant 0.15 isoniazid Uncertain significance
dnaA 846 c.846T>C synonymous_variant 0.17 isoniazid Uncertain significance
dnaA 849 c.849A>G synonymous_variant 0.16 isoniazid Uncertain significance
gyrB 6112 p.Met291Ile missense_variant 0.34 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrB 6124 c.885C>T synonymous_variant 0.35 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 6670 c.-632G>C upstream_gene_variant 0.13 levofloxacin Uncertain significance
moxifloxacin Uncertain significance
gyrA 6676 c.-626T>G upstream_gene_variant 0.13 levofloxacin Uncertain significance
moxifloxacin Uncertain significance
gyrA 6730 c.-572A>G upstream_gene_variant 0.13 levofloxacin Uncertain significance
moxifloxacin Uncertain significance
gyrA 7362 p.Glu21Gln missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 7484 c.183T>C synonymous_variant 0.14 levofloxacin Uncertain significance
moxifloxacin Uncertain significance
gyrA 7490 c.189C>G synonymous_variant 0.13 levofloxacin Uncertain significance
moxifloxacin Uncertain significance
gyrA 7496 c.195C>G synonymous_variant 0.16 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 7499 c.198G>C synonymous_variant 0.17 levofloxacin Uncertain significance
moxifloxacin Uncertain significance
gyrA 7523 c.222C>G synonymous_variant 0.16 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 7526 c.225G>C synonymous_variant 0.17 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 7532 c.231T>G synonymous_variant 0.18 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 7559 c.258G>A synonymous_variant 0.15 levofloxacin Uncertain significance
moxifloxacin Uncertain significance
gyrA 7571 c.270G>C synonymous_variant 0.22 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 7574 c.273G>C synonymous_variant 0.16 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 7585 p.Ser95Thr missense_variant 0.99 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 8435 c.1134C>G synonymous_variant 0.35 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8452 p.Ala384Val missense_variant 0.32 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 8897 c.1596T>C synonymous_variant 0.16 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8915 c.1614A>G synonymous_variant 0.15 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8924 c.1623C>T synonymous_variant 0.14 levofloxacin Uncertain significance
moxifloxacin Uncertain significance
gyrA 9122 c.1821C>A synonymous_variant 0.12 levofloxacin Uncertain significance
moxifloxacin Uncertain significance
gyrA 9143 c.1842T>C synonymous_variant 0.59 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 9182 c.1881T>C synonymous_variant 0.14 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 9191 c.1890G>C synonymous_variant 0.14 levofloxacin Uncertain significance
moxifloxacin Uncertain significance
gyrA 9304 p.Gly668Asp missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
Rv0010c 13298 p.Ile87Met missense_variant 0.37 isoniazid Not assoc w R
Rv0010c 13460 c.99T>C synonymous_variant 0.29 isoniazid Not assoc w R
fgd1 491742 c.960T>C synonymous_variant 0.33 clofazimine Not assoc w R
delamanid Not assoc w R - Interim
pretomanid Uncertain significance
mshA 575376 p.Ser10Leu missense_variant 0.32 ethionamide Uncertain significance
isoniazid Uncertain significance
ccsA 619507 c.-384A>G upstream_gene_variant 0.16 amikacin Uncertain significance
capreomycin Uncertain significance
kanamycin Uncertain significance
ccsA 619528 c.-363C>G upstream_gene_variant 0.16 amikacin Uncertain significance
capreomycin Uncertain significance
kanamycin Uncertain significance
ccsA 619531 c.-360T>C upstream_gene_variant 0.16 amikacin Uncertain significance
capreomycin Uncertain significance
kanamycin Uncertain significance
ccsA 619535 c.-356_-354delCAAinsGCG upstream_gene_variant 0.17 amikacin Uncertain significance
capreomycin Uncertain significance
kanamycin Uncertain significance
ccsA 619543 c.-348C>G upstream_gene_variant 0.17 amikacin Uncertain significance
capreomycin Uncertain significance
kanamycin Uncertain significance
ccsA 619552 c.-339A>G upstream_gene_variant 0.16 amikacin Uncertain significance
capreomycin Uncertain significance
kanamycin Uncertain significance
ccsA 619555 c.-336C>G upstream_gene_variant 0.16 amikacin Uncertain significance
capreomycin Uncertain significance
kanamycin Uncertain significance
ccsA 619561 c.-330G>C upstream_gene_variant 0.17 amikacin Uncertain significance
capreomycin Uncertain significance
kanamycin Uncertain significance
ccsA 619591 c.-300G>C upstream_gene_variant 0.21 amikacin Uncertain significance
capreomycin Uncertain significance
kanamycin Uncertain significance
ccsA 620688 c.798G>C synonymous_variant 0.15 amikacin Uncertain significance
capreomycin Uncertain significance
kanamycin Uncertain significance
Rv0565c 657269 p.Ser68Pro missense_variant 0.65 ethionamide Uncertain significance
Rv0565c 657578 c.-108T>C upstream_gene_variant 0.42 ethionamide Uncertain significance
nusG 734116 c.-138T>C upstream_gene_variant 0.16 rifampicin Not assoc w R
nusG 734442 c.189G>A synonymous_variant 0.16 rifampicin Uncertain significance
rpoB 760112 c.306T>C synonymous_variant 0.14 rifampicin Uncertain significance
rpoB 760115 c.309C>T synonymous_variant 0.13 rifampicin Not assoc w R
rpoB 760118 c.312T>G synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 760121 c.315T>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 760130 p.Asp108Glu missense_variant 0.19 rifampicin Uncertain significance
rpoB 760184 c.378A>G synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 760196 c.390C>G synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoB 760223 c.417T>C synonymous_variant 0.18 rifampicin Uncertain significance
rpoB 760235 c.429T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 760283 c.477G>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 760484 c.678A>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 760522 p.Ser239Asn missense_variant 0.14 rifampicin Uncertain significance
rpoB 760634 c.828T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 760661 c.855A>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 760674 c.868T>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoB 760679 c.873A>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 760683 c.877T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 760887 p.Thr361Ala missense_variant 0.13 rifampicin Uncertain significance
rpoB 760910 c.1104C>T synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 761021 c.1215G>C synonymous_variant 0.16 rifampicin Uncertain significance
rpoB 761027 c.1221A>G synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 761036 c.1230G>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 761037 c.1231T>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoB 761057 c.1251G>C synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoB 761102 c.1296A>G synonymous_variant 0.29 rifampicin Uncertain significance
rpoB 761129 c.1323G>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoB 761133 c.1327T>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 761249 c.1443A>G synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoB 761255 c.1449T>G synonymous_variant 0.23 rifampicin Not assoc w R - Interim
rpoB 761261 c.1455G>T synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 761306 c.1500C>G synonymous_variant 0.16 rifampicin Uncertain significance
rpoB 761312 c.1506G>C synonymous_variant 0.19 rifampicin Uncertain significance
rpoB 761327 c.1521A>G synonymous_variant 0.27 rifampicin Not assoc w R - Interim
rpoB 761330 c.1524G>C synonymous_variant 0.16 rifampicin Uncertain significance
rpoB 761360 c.1554T>C synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoB 761362 p.Ser519Thr missense_variant 0.23 rifampicin Uncertain significance
rpoB 761373 p.Val523His missense_variant 0.19 rifampicin Uncertain significance
rpoB 761537 c.1731C>G synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoB 761570 c.1764T>C synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoB 761573 c.1767C>G synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoB 761579 c.1773G>C synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoB 761612 c.1806G>T synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 761615 c.1809A>C synonymous_variant 0.25 rifampicin Not assoc w R - Interim
rpoB 761636 c.1830G>T synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoB 761645 c.1839C>G synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoB 761648 c.1842T>C synonymous_variant 0.19 rifampicin Uncertain significance
rpoB 762008 c.2202C>T synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 762233 c.2427G>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoB 762920 c.3114C>T synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 762923 c.3117C>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 762959 c.3153G>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 762962 c.3156C>T synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 762989 c.3183G>A synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 762995 c.3189G>T synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoB 763031 c.3225T>C synonymous_variant 0.43 rifampicin Not assoc w R
rpoB 763040 c.3234C>G synonymous_variant 0.25 rifampicin Not assoc w R - Interim
rpoB 763070 c.3264T>C synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoB 763085 c.3279C>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 763088 c.3282C>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 763094 c.3288G>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoB 763115 c.3309T>C synonymous_variant 0.26 rifampicin Not assoc w R - Interim
rpoB 763127 c.3321G>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 763136 c.3330C>T synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoC 763142 c.-228C>G upstream_gene_variant 0.15 rifampicin Uncertain significance
rpoC 763402 c.33C>G synonymous_variant 0.18 rifampicin Uncertain significance
rpoC 763411 c.42T>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 763414 c.45T>C synonymous_variant 0.18 rifampicin Uncertain significance
rpoC 763441 c.72C>T synonymous_variant 0.19 rifampicin Uncertain significance
rpoC 763444 c.75T>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 763456 c.87A>G synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoC 763660 c.291T>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 763675 c.306C>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 763702 c.333C>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 763717 c.348T>C synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoC 763723 c.354G>C synonymous_variant 0.18 rifampicin Uncertain significance
rpoC 763732 c.363C>G synonymous_variant 0.19 rifampicin Uncertain significance
rpoC 763741 c.372C>T synonymous_variant 0.17 rifampicin Uncertain significance
rpoC 763765 c.396T>C synonymous_variant 0.15 rifampicin Uncertain significance
rpoC 763884 p.Ala172Val missense_variant 0.52 rifampicin Not assoc w R
rpoC 763886 c.517C>A synonymous_variant 0.55 rifampicin Not assoc w R
rpoC 764405 c.1036A>C synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoC 764428 c.1059G>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 764431 c.1062G>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 764434 c.1065A>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 764458 c.1089G>C synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoC 764461 c.1092A>G synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 764497 c.1128A>G synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoC 764506 c.1137C>T synonymous_variant 0.24 rifampicin Uncertain significance
rpoC 764527 c.1158C>T synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoC 764539 c.1170C>G synonymous_variant 0.23 rifampicin Not assoc w R - Interim
rpoC 764554 c.1185C>T synonymous_variant 0.24 rifampicin Uncertain significance
rpoC 764566 c.1197C>G synonymous_variant 0.28 rifampicin Not assoc w R - Interim
rpoC 764575 c.1206T>G synonymous_variant 0.27 rifampicin Not assoc w R - Interim
rpoC 764578 c.1209C>G synonymous_variant 0.2 rifampicin Uncertain significance
rpoC 764593 c.1224C>T synonymous_variant 0.22 rifampicin Uncertain significance
rpoC 764602 c.1233C>T synonymous_variant 0.13 rifampicin Uncertain significance
rpoC 764611 c.1242G>T synonymous_variant 0.23 rifampicin Not assoc w R - Interim
rpoC 764626 c.1257C>T synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoC 764632 c.1263T>C synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoC 764635 c.1266C>T synonymous_variant 0.18 rifampicin Uncertain significance
rpoC 764650 c.1281G>T synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoC 764752 c.1383G>C synonymous_variant 0.26 rifampicin Not assoc w R - Interim
rpoC 764764 c.1395T>C synonymous_variant 0.3 rifampicin Not assoc w R - Interim
rpoC 764809 c.1440C>T synonymous_variant 0.14 rifampicin Not assoc w R
rpoC 764815 c.1446A>G synonymous_variant 0.25 rifampicin Not assoc w R - Interim
rpoC 764827 c.1458G>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 764858 c.1489T>C synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoC 764875 c.1506C>A synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 764888 c.1519T>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 764911 c.1542A>G synonymous_variant 0.14 rifampicin Uncertain significance
rpoC 764932 c.1563C>A synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 764948 c.1579T>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 764968 c.1599T>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 765150 p.Gly594Glu missense_variant 0.61 rifampicin Not assoc w R
rpoC 765171 p.Pro601Leu missense_variant 0.31 rifampicin Not assoc w R
rpoC 765700 c.2331T>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 765937 c.2568T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 766607 p.Ile1080Leu missense_variant 0.14 rifampicin Uncertain significance
rpoC 766630 c.3261G>C synonymous_variant 0.15 rifampicin Uncertain significance
rpoC 767098 c.3729T>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 767119 c.3750A>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
mmpL5 775639 p.Ile948Val missense_variant 1.0 bedaquiline Not assoc w R - Interim
clofazimine Not assoc w R
mmpL5 776100 p.Thr794Ile missense_variant 0.62 bedaquiline Not assoc w R - Interim
clofazimine Not assoc w R
rpsL 781276 c.-284A>C upstream_gene_variant 0.14 streptomycin Uncertain significance
rpsL 781395 c.-165T>C upstream_gene_variant 1.0 streptomycin Not assoc w R
rpsL 781421 c.-139C>A upstream_gene_variant 0.55 streptomycin Uncertain significance
rpsL 781832 c.273T>C synonymous_variant 0.16 streptomycin Uncertain significance
rpsL 781868 c.309T>C synonymous_variant 0.18 streptomycin Uncertain significance
rpsL 781871 c.312G>C synonymous_variant 0.18 streptomycin Uncertain significance
rpsL 781892 c.333A>G synonymous_variant 0.18 streptomycin Uncertain significance
rpsL 781898 c.339A>T synonymous_variant 0.18 streptomycin Uncertain significance
rpsL 781916 c.357T>C synonymous_variant 0.17 streptomycin Uncertain significance
rplC 800357 c.-452C>A upstream_gene_variant 0.25 linezolid Not assoc w R
Rv1129c 1254562 c.-28T>C upstream_gene_variant 0.37 isoniazid Not assoc w R
levofloxacin Not assoc w R
moxifloxacin Not assoc w R
rifampicin Not assoc w R
fbiC 1303818 c.888C>G synonymous_variant 0.21 clofazimine Uncertain significance
delamanid Uncertain significance
pretomanid Uncertain significance
fbiC 1303836 c.906G>C synonymous_variant 0.22 clofazimine Uncertain significance
delamanid Uncertain significance
pretomanid Uncertain significance
fbiC 1303845 c.915C>G synonymous_variant 0.22 clofazimine Uncertain significance
delamanid Uncertain significance
pretomanid Uncertain significance
fbiC 1303846 p.Phe306Val missense_variant 0.22 clofazimine Uncertain significance
delamanid Uncertain significance
pretomanid Uncertain significance
fbiC 1303854 c.924T>C synonymous_variant 0.22 clofazimine Uncertain significance
delamanid Uncertain significance
pretomanid Uncertain significance
fbiC 1303860 c.930A>C synonymous_variant 0.22 clofazimine Uncertain significance
delamanid Uncertain significance
pretomanid Uncertain significance
fbiC 1304610 c.1680C>T synonymous_variant 0.54 clofazimine Not assoc w R - Interim
delamanid Not assoc w R - Interim
pretomanid Uncertain significance
fbiC 1304958 c.2028T>G synonymous_variant 0.18 clofazimine Uncertain significance
delamanid Uncertain significance
pretomanid Uncertain significance
embR 1417554 c.-207C>G upstream_gene_variant 0.19 ethambutol Uncertain significance
rrs 1471659 n.-187C>T upstream_gene_variant 1.0 amikacin Uncertain significance
capreomycin Uncertain significance
kanamycin Uncertain significance
streptomycin Uncertain significance
rrs 1471925 n.80T>C non_coding_transcript_exon_variant 0.17 amikacin Uncertain significance
capreomycin Uncertain significance
kanamycin Uncertain significance
streptomycin Uncertain significance
rrs 1471934 n.89A>G non_coding_transcript_exon_variant 0.19 amikacin Uncertain significance
capreomycin Uncertain significance
kanamycin Uncertain significance
streptomycin Uncertain significance
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.16 amikacin Not assoc w R
capreomycin Uncertain significance
kanamycin Uncertain significance
streptomycin Uncertain significance
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.19 amikacin Uncertain significance
capreomycin Uncertain significance
kanamycin Uncertain significance
streptomycin Uncertain significance
rrs 1472113 n.268T>C non_coding_transcript_exon_variant 0.18 amikacin Uncertain significance
capreomycin Uncertain significance
kanamycin Uncertain significance
streptomycin Uncertain significance
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.19 amikacin Not assoc w R
capreomycin Not assoc w R
kanamycin Uncertain significance
streptomycin Uncertain significance
rrl 1473660 n.3G>A non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473758 n.101G>T non_coding_transcript_exon_variant 0.18 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473806 n.149C>T non_coding_transcript_exon_variant 0.18 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.36 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474803 n.1146G>A non_coding_transcript_exon_variant 0.32 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 0.37 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475114 n.1457C>T non_coding_transcript_exon_variant 0.39 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475120 n.1463G>T non_coding_transcript_exon_variant 0.47 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475505 n.1848G>A non_coding_transcript_exon_variant 0.33 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475526 n.1869C>A non_coding_transcript_exon_variant 0.21 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.32 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476594 n.2937C>T non_coding_transcript_exon_variant 0.28 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476597 n.2940G>A non_coding_transcript_exon_variant 0.27 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476603 n.2946G>A non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476608 n.2951C>G non_coding_transcript_exon_variant 0.21 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476628 n.2971T>A non_coding_transcript_exon_variant 0.14 capreomycin Uncertain significance
linezolid Uncertain significance
inhA 1674589 p.Met130Leu missense_variant 0.13 ethionamide Uncertain significance
isoniazid Uncertain significance
inhA 1674660 c.459G>C synonymous_variant 0.15 ethionamide Uncertain significance
isoniazid Uncertain significance
inhA 1674703 c.502T>C synonymous_variant 0.15 ethionamide Uncertain significance
isoniazid Uncertain significance
inhA 1674708 c.507G>A synonymous_variant 0.16 ethionamide Uncertain significance
isoniazid Uncertain significance
inhA 1674718 c.517A>C synonymous_variant 0.17 ethionamide Uncertain significance
isoniazid Uncertain significance
rpsA 1833841 c.300C>G synonymous_variant 0.16 pyrazinamide Uncertain significance
rpsA 1833847 c.306C>G synonymous_variant 0.18 pyrazinamide Uncertain significance
rpsA 1833856 c.315A>G synonymous_variant 0.2 pyrazinamide Uncertain significance
rpsA 1833886 c.345C>G synonymous_variant 0.19 pyrazinamide Uncertain significance
rpsA 1833928 c.387G>C synonymous_variant 0.24 pyrazinamide Uncertain significance
rpsA 1833979 c.438T>C synonymous_variant 0.16 pyrazinamide Uncertain significance
rpsA 1834000 c.459G>C synonymous_variant 0.19 pyrazinamide Uncertain significance
rpsA 1834021 c.480C>T synonymous_variant 0.15 pyrazinamide Uncertain significance
rpsA 1834030 c.489C>G synonymous_variant 0.19 pyrazinamide Uncertain significance
rpsA 1834074 p.Lys178Arg missense_variant 0.13 pyrazinamide Uncertain significance
rpsA 1834451 c.910T>C synonymous_variant 0.14 pyrazinamide Uncertain significance
rpsA 1834498 c.957C>T synonymous_variant 0.14 pyrazinamide Uncertain significance
rpsA 1834528 c.987T>C synonymous_variant 0.18 pyrazinamide Uncertain significance
tsnR 1853974 c.369C>T synonymous_variant 0.52 linezolid Not assoc w R
tsnR 1854045 p.Tyr147Cys missense_variant 0.4 linezolid Not assoc w R
tsnR 1854300 p.Leu232Pro missense_variant 0.96 linezolid Not assoc w R
tlyA 1917972 c.33A>G synonymous_variant 1.0 capreomycin Not assoc w R
bacA 2062922 p.Ile603Val missense_variant 0.37 amikacin Not assoc w R
capreomycin Not assoc w R
kanamycin Not assoc w R
streptomycin Not assoc w R
PPE35 2167926 p.Leu896Ser missense_variant 0.3 pyrazinamide Not assoc w R
PPE35 2167983 p.Gly877Asp missense_variant 0.34 pyrazinamide Uncertain significance
Rv1979c 2222308 p.Asp286Gly missense_variant 0.41 bedaquiline Not assoc w R - Interim
clofazimine Not assoc w R
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0 bedaquiline Not assoc w R - Interim
clofazimine Not assoc w R
kasA 2518132 c.18C>T synonymous_variant 0.46 isoniazid Uncertain significance
kasA 2518777 c.663C>T synonymous_variant 0.14 isoniazid Uncertain significance
kasA 2518825 c.711T>C synonymous_variant 0.21 isoniazid Uncertain significance
ahpC 2726051 c.-142G>A upstream_gene_variant 0.29 isoniazid Uncertain significance
Rv2681 2996912 c.174C>T synonymous_variant 0.33 capreomycin Not assoc w R
Rv2752c 3064632 c.1560C>T synonymous_variant 0.47 ethambutol Not assoc w R
isoniazid Not assoc w R
levofloxacin Not assoc w R
moxifloxacin Not assoc w R
rifampicin Not assoc w R
thyA 3074175 c.297A>G synonymous_variant 0.13 para-aminosalicylic_acid Uncertain significance
ald 3086788 c.-32T>C upstream_gene_variant 0.98 cycloserine Uncertain significance
Rv3083 3448714 p.Asp71His missense_variant 0.47 ethionamide Uncertain significance
lpqB 3624236 c.675C>A synonymous_variant 0.34 bedaquiline Uncertain significance
rifampicin Not assoc w R - Interim
lpqB 3624486 p.Asp142Gly missense_variant 0.22 bedaquiline Uncertain significance
rifampicin Not assoc w R
lpqB 3624660 p.Ala84Gly missense_variant 0.58 bedaquiline Uncertain significance
rifampicin Uncertain significance
mtrB 3625065 p.Met517Leu missense_variant 1.0 bedaquiline Uncertain significance
rifampicin Not assoc w R
mtrB 3625569 c.1045T>C synonymous_variant 0.14 bedaquiline Uncertain significance
rifampicin Not assoc w R - Interim
mtrB 3625572 p.Thr348Ser missense_variant 0.13 bedaquiline Uncertain significance
rifampicin Uncertain significance
lpqB 3625579 c.-669A>G upstream_gene_variant 0.14 bedaquiline Uncertain significance
rifampicin Uncertain significance
mtrB 3626704 c.-91C>T upstream_gene_variant 0.15 bedaquiline Uncertain significance
rifampicin Uncertain significance
mtrB 3626732 c.-119A>G upstream_gene_variant 0.14 bedaquiline Uncertain significance
rifampicin Uncertain significance
mtrA 3627068 c.282T>C synonymous_variant 0.15 bedaquiline Uncertain significance
rifampicin Not assoc w R - Interim
mtrA 3627098 c.252A>C synonymous_variant 0.18 bedaquiline Uncertain significance
rifampicin Not assoc w R - Interim
mtrB 3627104 c.-491C>G upstream_gene_variant 0.19 bedaquiline Uncertain significance
rifampicin Uncertain significance
mtrA 3627119 c.231T>G synonymous_variant 0.22 bedaquiline Uncertain significance
rifampicin Not assoc w R - Interim
mtrB 3627167 c.-554T>C upstream_gene_variant 0.14 bedaquiline Uncertain significance
rifampicin Uncertain significance
rpoA 3877743 c.765T>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoA 3877764 c.744C>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoA 3877770 c.738A>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoA 3877776 c.732T>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoA 3877782 c.726T>C synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoA 3877785 c.723C>A synonymous_variant 0.14 rifampicin Uncertain significance
rpoA 3877818 c.690A>G synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoA 3878193 c.315T>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoA 3878217 c.291A>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoA 3878271 c.237T>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoA 3878725 c.-218A>G upstream_gene_variant 0.18 rifampicin Uncertain significance
rpoA 3878736 c.-229A>G upstream_gene_variant 0.19 rifampicin Uncertain significance
rpoA 3878737 c.-230G>C upstream_gene_variant 0.19 rifampicin Uncertain significance
rpoA 3878742 c.-235G>A upstream_gene_variant 0.19 rifampicin Uncertain significance
rpoA 3878746 c.-239A>G upstream_gene_variant 0.19 rifampicin Uncertain significance
rpoA 3878749 c.-242G>T upstream_gene_variant 0.18 rifampicin Uncertain significance
rpoA 3878761 c.-254G>C upstream_gene_variant 0.2 rifampicin Uncertain significance
rpoA 3878764 c.-257A>G upstream_gene_variant 0.2 rifampicin Uncertain significance
rpoA 3878785 c.-278T>G upstream_gene_variant 0.15 rifampicin Uncertain significance
rpoA 3878806 c.-299C>G upstream_gene_variant 0.13 rifampicin Uncertain significance
rpoA 3879079 c.-572A>G upstream_gene_variant 0.16 rifampicin Uncertain significance
rpoA 3879088 c.-581A>C upstream_gene_variant 0.16 rifampicin Uncertain significance
clpC1 4038388 c.2317T>C synonymous_variant 0.13 pyrazinamide Uncertain significance
clpC1 4038596 c.2109A>G synonymous_variant 0.2 pyrazinamide Uncertain significance
clpC1 4038953 c.1752A>G synonymous_variant 0.15 pyrazinamide Uncertain significance
clpC1 4038956 c.1749T>C synonymous_variant 0.16 pyrazinamide Uncertain significance
clpC1 4038965 c.1740T>C synonymous_variant 0.16 pyrazinamide Uncertain significance
clpC1 4038971 c.1734T>C synonymous_variant 0.14 pyrazinamide Uncertain significance
clpC1 4038974 c.1731T>C synonymous_variant 0.14 pyrazinamide Not assoc w R - Interim
clpC1 4038989 c.1716T>C synonymous_variant 0.16 pyrazinamide Uncertain significance
clpC1 4039064 c.1641C>T synonymous_variant 0.15 pyrazinamide Uncertain significance
clpC1 4039274 c.1431G>C synonymous_variant 0.14 pyrazinamide Not assoc w R - Interim
clpC1 4039694 c.1011G>C synonymous_variant 0.17 pyrazinamide Uncertain significance
clpC1 4039931 c.774T>C synonymous_variant 0.18 pyrazinamide Uncertain significance
clpC1 4039934 c.771G>C synonymous_variant 0.14 pyrazinamide Uncertain significance
clpC1 4039943 c.762G>C synonymous_variant 0.15 pyrazinamide Uncertain significance
clpC1 4039946 c.759A>G synonymous_variant 0.16 pyrazinamide Uncertain significance
clpC1 4039949 c.756G>C synonymous_variant 0.15 pyrazinamide Uncertain significance
clpC1 4039952 c.753T>C synonymous_variant 0.22 pyrazinamide Uncertain significance
clpC1 4039958 c.747G>C synonymous_variant 0.2 pyrazinamide Uncertain significance
clpC1 4039964 c.741C>G synonymous_variant 0.18 pyrazinamide Uncertain significance
clpC1 4039979 c.726C>G synonymous_variant 0.25 pyrazinamide Uncertain significance
clpC1 4040033 c.672G>C synonymous_variant 0.16 pyrazinamide Uncertain significance
clpC1 4040093 c.612C>G synonymous_variant 0.15 pyrazinamide Not assoc w R - Interim
clpC1 4040105 c.600C>G synonymous_variant 0.15 pyrazinamide Uncertain significance
clpC1 4040517 p.Val63Ala missense_variant 0.27 pyrazinamide Not assoc w R - Interim
glpK 4138377 p.Val460Ala missense_variant 0.4 ethambutol Not assoc w R
isoniazid Not assoc w R
levofloxacin Not assoc w R
moxifloxacin Not assoc w R
rifampicin Not assoc w R
streptomycin Not assoc w R
embC 4239298 c.-565C>T upstream_gene_variant 0.14 ethambutol Not assoc w R
embC 4240671 p.Thr270Ile missense_variant 0.44 ethambutol Not assoc w R
embC 4241042 p.Asn394Asp missense_variant 0.39 ethambutol Not assoc w R
embC 4242643 c.2781C>T synonymous_variant 1.0 ethambutol Not assoc w R
embC 4242803 p.Val981Leu missense_variant 0.69 ethambutol Not assoc w R
embA 4243848 p.Val206Met missense_variant 0.43 ethambutol Not assoc w R
embA 4245137 c.1905T>C synonymous_variant 0.13 ethambutol Uncertain significance
embA 4245149 c.1917C>G synonymous_variant 0.15 ethambutol Uncertain significance
embA 4245182 c.1950T>C synonymous_variant 0.14 ethambutol Uncertain significance
embA 4245969 p.Pro913Ser missense_variant 0.45 ethambutol Not assoc w R
embB 4247356 c.843C>T synonymous_variant 0.53 ethambutol Not assoc w R - Interim
embB 4247470 c.957T>C synonymous_variant 0.14 ethambutol Uncertain significance
embB 4247491 c.978G>C synonymous_variant 0.14 ethambutol Uncertain significance
embB 4247646 p.Glu378Ala missense_variant 0.38 ethambutol Not assoc w R
embB 4247893 c.1380C>T synonymous_variant 0.16 ethambutol Uncertain significance
embB 4247899 p.Met462Ile missense_variant 0.17 ethambutol Uncertain significance
embB 4247905 c.1392G>C synonymous_variant 0.16 ethambutol Not assoc w R - Interim
embB 4247940 p.Leu476Trp missense_variant 0.14 ethambutol Uncertain significance
embB 4247945 c.1432T>C synonymous_variant 0.15 ethambutol Uncertain significance
embB 4247951 p.Ser480Ala missense_variant 0.14 ethambutol Uncertain significance
embB 4247956 c.1443G>C synonymous_variant 0.15 ethambutol Not assoc w R - Interim
aftB 4268683 p.Gly52Ser missense_variant 0.53 ethambutol Uncertain significance
ubiA 4269387 p.Glu149Asp missense_variant 0.4 ethambutol Not assoc w R
ubiA 4269606 c.228T>C synonymous_variant 0.31 ethambutol Not assoc w R
whiB6 4338441 p.Tyr27* stop_gained 0.37 amikacin Uncertain significance
capreomycin Uncertain significance
kanamycin Uncertain significance
whiB6 4338449 p.Ala25Pro missense_variant 0.39 amikacin Uncertain significance
capreomycin Uncertain significance
kanamycin Uncertain significance
whiB6 4338595 c.-75delG upstream_gene_variant 1.0 amikacin Not assoc w R
capreomycin Not assoc w R
kanamycin Not assoc w R
whiB6 4338603 c.-82C>T upstream_gene_variant 0.24 amikacin Not assoc w R
capreomycin Not assoc w R
kanamycin Not assoc w R
whiB6 4338732 c.-211C>T upstream_gene_variant 0.98 amikacin Uncertain significance
capreomycin Uncertain significance
kanamycin Uncertain significance
gid 4407588 c.615A>G synonymous_variant 0.28 streptomycin Not assoc w R
gid 4407873 c.330G>T synonymous_variant 0.26 streptomycin Not assoc w R