TB-Profiler result

Run: ERR11465235
Summary

Run ID: ERR11465235

Sample name:

Date: 2024-10-05T05:21:26.981827

Number of reads: 1143416

Percentage reads mapped: 97.99

Median coverage: 27.0

Strain: lineage4.3.4.2.1

Spoligotype:

Drug-resistance: Sensitive

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Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family RDs Frequency
lineage4.3 Euro-American (LAM) None 1.0
lineage4 Euro-American None 1.0
lineage4.3.4.2.1 Euro-American (LAM) RD174 0.9
lineage4.3.4 Euro-American (LAM) RD174 1.0
lineage4.3.4.2 Euro-American (LAM) RD174 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
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 897 c.897A>G synonymous_variant 0.14 isoniazid
gyrB 6140 p.Val301Leu missense_variant 0.87 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 6577 c.-725T>A upstream_gene_variant 0.15 levofloxacin
moxifloxacin
gyrA 6580 c.-722C>G upstream_gene_variant 0.14 levofloxacin
moxifloxacin
gyrA 6583 c.-719G>C upstream_gene_variant 0.14 levofloxacin
moxifloxacin
gyrA 7362 p.Glu21Gln missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 7541 c.240C>G synonymous_variant 0.24 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 7571 c.270G>T synonymous_variant 0.24 levofloxacin
moxifloxacin
gyrA 7585 p.Ser95Thr missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 7592 c.291G>C synonymous_variant 0.36 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 7619 c.318C>G synonymous_variant 0.3 levofloxacin
moxifloxacin
gyrA 7626 c.325C>T synonymous_variant 0.24 levofloxacin
moxifloxacin
gyrA 7631 c.330G>C synonymous_variant 0.28 levofloxacin
moxifloxacin
gyrA 7637 c.336C>G synonymous_variant 0.28 levofloxacin
moxifloxacin
gyrA 7655 c.354G>A synonymous_variant 0.31 levofloxacin
moxifloxacin
gyrA 7658 c.357A>G synonymous_variant 0.31 levofloxacin
moxifloxacin
gyrA 7664 c.363T>C synonymous_variant 0.3 levofloxacin
moxifloxacin
gyrA 7670 c.369A>G synonymous_variant 0.27 levofloxacin
moxifloxacin
gyrA 7679 c.378G>C synonymous_variant 0.27 levofloxacin
moxifloxacin
gyrA 7683 c.382_384delAGGinsCGC synonymous_variant 0.24 levofloxacin
moxifloxacin
gyrA 7691 c.390C>A synonymous_variant 0.26 levofloxacin
moxifloxacin
gyrA 7694 c.393A>G synonymous_variant 0.26 levofloxacin
moxifloxacin
gyrA 7697 c.396C>G synonymous_variant 0.26 levofloxacin
moxifloxacin
gyrA 7706 c.405C>T synonymous_variant 0.29 levofloxacin
moxifloxacin
gyrA 7709 c.408G>A synonymous_variant 0.29 levofloxacin
moxifloxacin Not assoc w R - Interim
gyrA 7710 c.409_411delTTGinsCTC synonymous_variant 0.29 levofloxacin
moxifloxacin
gyrA 7728 c.427_429delAGGinsCGC synonymous_variant 0.26 levofloxacin
moxifloxacin
gyrA 7763 c.462T>G synonymous_variant 0.34 levofloxacin
moxifloxacin
gyrA 8873 c.1572A>C synonymous_variant 0.16 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8897 c.1596T>C synonymous_variant 0.17 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8903 c.1602T>C synonymous_variant 0.16 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8912 c.1611G>A synonymous_variant 0.19 levofloxacin
moxifloxacin
gyrA 8915 c.1614A>G synonymous_variant 0.18 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8918 c.1617C>G synonymous_variant 0.19 levofloxacin
moxifloxacin
gyrA 8930 c.1629C>A synonymous_variant 0.21 levofloxacin
moxifloxacin
gyrA 9304 p.Gly668Asp missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
ccsA 620173 p.Val95Ile missense_variant 0.14 kanamycin
capreomycin
amikacin
hadA 731789 c.-141A>G upstream_gene_variant 0.18 isoniazid
nusG 734451 c.198G>C synonymous_variant 0.23 rifampicin
nusG 734454 c.201A>G synonymous_variant 0.23 rifampicin
nusG 734460 c.207G>T synonymous_variant 0.22 rifampicin Not assoc w R - Interim
nusG 734508 c.255C>G synonymous_variant 0.27 rifampicin
nusG 734511 c.258C>A synonymous_variant 0.26 rifampicin
nusG 734895 c.642A>G synonymous_variant 0.16 rifampicin
nusG 734910 c.657C>G synonymous_variant 0.2 rifampicin
rpoB 760310 c.504G>C synonymous_variant 0.23 rifampicin
rpoB 760316 c.510C>G synonymous_variant 0.24 rifampicin
rpoB 760400 c.594G>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoB 760407 p.Ser201Gly missense_variant 0.18 rifampicin Uncertain significance
rpoB 762101 c.2295C>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoB 762104 c.2298C>T synonymous_variant 0.17 rifampicin
rpoB 762114 p.Ile770Val missense_variant 0.17 rifampicin Uncertain significance
rpoC 762374 c.-996G>T upstream_gene_variant 0.14 rifampicin
rpoC 762380 c.-990T>C upstream_gene_variant 0.14 rifampicin
rpoB 762470 c.2664G>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 762488 c.2682G>C synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoB 762491 c.2685T>C synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoC 762509 c.-861T>G upstream_gene_variant 0.14 rifampicin
rpoB 762510 p.Ala902Pro missense_variant 0.14 rifampicin Uncertain significance
rpoB 763115 c.3309T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 763486 c.117T>G synonymous_variant 0.16 rifampicin
rpoC 763546 c.177A>G synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 763570 c.201G>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 763573 c.204G>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 763594 c.225C>T synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoC 763600 c.231C>G synonymous_variant 0.18 rifampicin
rpoC 763723 c.354G>C synonymous_variant 0.15 rifampicin
rpoC 763732 c.363C>G synonymous_variant 0.21 rifampicin
rpoC 763741 c.372C>T synonymous_variant 0.22 rifampicin
rpoC 763744 c.375G>C synonymous_variant 0.2 rifampicin
rpoC 763765 c.396T>C synonymous_variant 0.15 rifampicin
rpoC 763807 c.438T>C synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoC 763813 c.444C>G synonymous_variant 0.2 rifampicin
rpoC 763819 c.450G>T synonymous_variant 0.13 rifampicin
rpoC 763825 c.456G>A synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 764002 c.633C>G synonymous_variant 0.15 rifampicin
rpoC 764005 c.636G>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 764024 c.655_657delTTGinsCTC synonymous_variant 0.19 rifampicin
rpoC 764032 p.Asp221Glu missense_variant 0.2 rifampicin
rpoC 764040 p.Ser224Asn missense_variant 0.23 rifampicin
rpoC 764044 c.675T>C synonymous_variant 0.27 rifampicin
rpoC 764056 c.687G>C synonymous_variant 0.26 rifampicin Not assoc w R - Interim
rpoC 764059 c.690G>C synonymous_variant 0.29 rifampicin
rpoC 764071 c.702G>C synonymous_variant 0.31 rifampicin
rpoC 764083 c.714A>G synonymous_variant 0.27 rifampicin
rpoC 764084 p.Asn239Val missense_variant 0.27 rifampicin
rpoC 764101 c.732C>G synonymous_variant 0.33 rifampicin Not assoc w R - Interim
rpoC 764102 p.Val245Gln missense_variant 0.34 rifampicin
rpoC 764134 c.765C>G synonymous_variant 0.4 rifampicin Not assoc w R - Interim
rpoC 764140 c.771C>T synonymous_variant 0.32 rifampicin Not assoc w R - Interim
rpoC 764143 c.774G>C synonymous_variant 0.32 rifampicin Not assoc w R - Interim
rpoC 764147 p.Ser260Ala missense_variant 0.3 rifampicin Uncertain significance
rpoC 764153 p.Gln262Lys missense_variant 0.23 rifampicin
rpoC 764161 c.792G>C synonymous_variant 0.31 rifampicin
rpoC 764176 c.807C>T synonymous_variant 0.23 rifampicin
rpoC 764272 c.903G>C synonymous_variant 0.15 rifampicin
rpoC 764431 c.1062G>C synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoC 764434 c.1065A>G synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoC 764449 c.1080G>C synonymous_variant 0.19 rifampicin
rpoC 764452 c.1083T>C synonymous_variant 0.2 rifampicin
rpoC 764455 c.1086G>A synonymous_variant 0.21 rifampicin
rpoC 764458 c.1089G>C synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoC 764461 c.1092A>G synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoC 764485 c.1116G>C synonymous_variant 0.2 rifampicin
rpoC 764491 c.1122G>T synonymous_variant 0.16 rifampicin
rpoC 764497 c.1128A>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 764500 c.1131C>G synonymous_variant 0.17 rifampicin
rpoC 764503 c.1134G>T synonymous_variant 0.18 rifampicin
rpoC 764510 c.1141C>T synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoC 764521 c.1152T>C synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoC 764686 c.1317C>T synonymous_variant 0.22 rifampicin
rpoC 764713 c.1344G>C synonymous_variant 0.23 rifampicin Not assoc w R - Interim
rpoC 764716 c.1347G>C synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoC 764746 c.1377G>T synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 764791 c.1422C>G synonymous_variant 0.26 rifampicin Not assoc w R - Interim
rpoC 764797 c.1428G>C synonymous_variant 0.2 rifampicin
rpoC 764803 c.1434C>G synonymous_variant 0.19 rifampicin
rpoC 764827 c.1458G>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 764848 c.1479G>A synonymous_variant 0.14 rifampicin
rpoC 764858 c.1489T>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 764861 c.1492C>T synonymous_variant 0.19 rifampicin
rpoC 764995 c.1626C>G synonymous_variant 0.91 rifampicin Not assoc w R
rpoC 765517 c.2148C>G synonymous_variant 0.28 rifampicin Not assoc w R - Interim
rpoC 765904 c.2535C>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 765908 c.2539C>T synonymous_variant 0.21 rifampicin
mmpL5 775639 p.Ile948Val missense_variant 1.0 bedaquiline Not assoc w R - Interim
clofazimine Not assoc w R
rpsL 781395 c.-165T>C upstream_gene_variant 1.0 streptomycin Not assoc w R
rplC 800645 c.-164C>G upstream_gene_variant 0.14 linezolid
rplC 800648 c.-161A>C upstream_gene_variant 0.14 linezolid
rplC 800654 c.-155T>C upstream_gene_variant 0.14 linezolid
fbiC 1303542 c.612C>G synonymous_variant 0.17 pretomanid
delamanid
clofazimine
fbiC 1303545 c.615A>G synonymous_variant 0.17 pretomanid
delamanid
clofazimine
fbiC 1303551 c.621G>C synonymous_variant 0.17 pretomanid
delamanid
clofazimine
fbiC 1304748 c.1818T>C synonymous_variant 0.19 pretomanid
delamanid
clofazimine
fbiC 1304757 c.1827A>T synonymous_variant 0.16 pretomanid
delamanid
clofazimine
fbiC 1304760 c.1830G>C synonymous_variant 0.16 pretomanid
delamanid
clofazimine
sigE 1364703 c.291G>C synonymous_variant 0.33 pyrazinamide
sigE 1364709 c.297T>C synonymous_variant 0.33 pyrazinamide
sigE 1364712 c.300T>C synonymous_variant 0.3 pyrazinamide
sigE 1364718 c.306C>G synonymous_variant 0.3 pyrazinamide
sigE 1364724 c.312C>T synonymous_variant 0.3 pyrazinamide
sigE 1364727 c.315C>T synonymous_variant 0.3 pyrazinamide
sigE 1364742 c.330A>G synonymous_variant 0.22 pyrazinamide
sigE 1364763 c.351T>C synonymous_variant 0.17 pyrazinamide
sigE 1364790 c.378T>C synonymous_variant 0.15 pyrazinamide
sigE 1364802 c.390C>A synonymous_variant 0.18 pyrazinamide
sigE 1364805 c.393C>A synonymous_variant 0.18 pyrazinamide
sigE 1364811 c.399A>G synonymous_variant 0.2 pyrazinamide
sigE 1364814 c.402C>T synonymous_variant 0.19 pyrazinamide
sigE 1364820 c.408A>G synonymous_variant 0.16 pyrazinamide
sigE 1364835 c.423C>G synonymous_variant 0.14 pyrazinamide
sigE 1364839 c.427T>C synonymous_variant 0.17 pyrazinamide
sigE 1364844 c.432C>T synonymous_variant 0.16 pyrazinamide
rrs 1471659 n.-187C>T upstream_gene_variant 1.0 kanamycin
capreomycin
streptomycin
amikacin
rrs 1471986 n.141C>T non_coding_transcript_exon_variant 0.22 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.23 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472489 n.644A>G non_coding_transcript_exon_variant 0.19 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472969 n.1124A>G non_coding_transcript_exon_variant 0.33 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.33 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1472978 n.1133T>C non_coding_transcript_exon_variant 0.44 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrl 1473770 n.113T>G non_coding_transcript_exon_variant 0.23 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473788 n.131A>G non_coding_transcript_exon_variant 0.21 capreomycin Uncertain significance
linezolid
rrl 1473806 n.149C>T non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473807 n.150T>C non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid
rrl 1473812 n.155G>A non_coding_transcript_exon_variant 0.14 capreomycin Uncertain significance
linezolid
rrl 1473813 n.156C>A non_coding_transcript_exon_variant 0.14 capreomycin
linezolid
rrl 1473814 n.157A>C non_coding_transcript_exon_variant 0.14 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473815 n.158T>G non_coding_transcript_exon_variant 0.14 capreomycin Uncertain significance
linezolid
rrl 1473822 n.165A>G non_coding_transcript_exon_variant 0.12 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473829 n.172G>C non_coding_transcript_exon_variant 0.12 capreomycin Uncertain significance
linezolid
rrl 1473830 n.173T>G non_coding_transcript_exon_variant 0.13 capreomycin
linezolid
rrl 1473836 n.179A>G non_coding_transcript_exon_variant 0.13 capreomycin
linezolid Uncertain significance
rrl 1473876 n.219G>A non_coding_transcript_exon_variant 0.16 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474140 n.483C>T non_coding_transcript_exon_variant 0.2 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474151 n.494C>T non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474174 n.517A>G non_coding_transcript_exon_variant 0.38 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474181 n.524C>T non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid
rrl 1474185 n.528G>A non_coding_transcript_exon_variant 0.18 capreomycin Uncertain significance
linezolid
rrl 1474186 n.529A>G non_coding_transcript_exon_variant 0.18 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474202 n.545T>C non_coding_transcript_exon_variant 0.34 capreomycin
linezolid
rrl 1474753 n.1096A>G non_coding_transcript_exon_variant 0.23 capreomycin Uncertain significance
linezolid
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.25 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.2 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 0.24 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 0.16 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475031 n.1374G>T non_coding_transcript_exon_variant 0.26 capreomycin Uncertain significance
linezolid
rrl 1475061 n.1404C>T non_coding_transcript_exon_variant 0.16 capreomycin Uncertain significance
linezolid
rrl 1475088 n.1431A>G non_coding_transcript_exon_variant 0.22 capreomycin
linezolid
rrl 1475355 n.1698C>T non_coding_transcript_exon_variant 0.36 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475366 n.1709G>A non_coding_transcript_exon_variant 0.23 capreomycin
linezolid
rrl 1475369 n.1712G>T non_coding_transcript_exon_variant 0.24 capreomycin
linezolid
rrl 1475376 n.1719A>C non_coding_transcript_exon_variant 0.31 capreomycin
linezolid Uncertain significance
rrl 1475380 n.1723C>T non_coding_transcript_exon_variant 0.31 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475397 n.1740G>A non_coding_transcript_exon_variant 0.27 capreomycin
linezolid
rrl 1475402 n.1745C>T non_coding_transcript_exon_variant 0.25 capreomycin
linezolid
rrl 1475403 n.1746T>G non_coding_transcript_exon_variant 0.25 capreomycin
linezolid
rrl 1475405 n.1748A>T non_coding_transcript_exon_variant 0.25 capreomycin
linezolid
rrl 1475406 n.1749T>G non_coding_transcript_exon_variant 0.24 capreomycin
linezolid
rrl 1475419 n.1762C>T non_coding_transcript_exon_variant 0.25 capreomycin Uncertain significance
linezolid
rrl 1475430 n.1773T>G non_coding_transcript_exon_variant 0.14 capreomycin
linezolid
rrl 1475452 n.1795C>A non_coding_transcript_exon_variant 0.17 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475458 n.1801C>T non_coding_transcript_exon_variant 0.17 capreomycin
linezolid
rrl 1475460 n.1803A>G non_coding_transcript_exon_variant 0.16 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475505 n.1848G>A non_coding_transcript_exon_variant 0.2 capreomycin Uncertain significance
linezolid
rrl 1475526 n.1869C>A non_coding_transcript_exon_variant 0.24 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475532 n.1875A>G non_coding_transcript_exon_variant 0.22 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475544 n.1887A>T non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475545 n.1888T>G non_coding_transcript_exon_variant 0.18 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475884 n.2227A>G non_coding_transcript_exon_variant 0.22 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475916 n.2259C>T non_coding_transcript_exon_variant 0.22 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476088 n.2431A>C non_coding_transcript_exon_variant 0.2 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476165 n.2508T>A non_coding_transcript_exon_variant 0.25 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.18 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476215 n.2558C>T non_coding_transcript_exon_variant 0.18 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.16 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.21 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476256 n.2599A>C non_coding_transcript_exon_variant 0.2 capreomycin
linezolid
rrl 1476529 n.2872A>G non_coding_transcript_exon_variant 0.14 capreomycin Uncertain significance
linezolid
rrl 1476583 n.2926G>A non_coding_transcript_exon_variant 0.26 capreomycin Uncertain significance
linezolid
rrl 1476597 n.2940G>A non_coding_transcript_exon_variant 0.21 capreomycin Uncertain significance
linezolid
rpsA 1833589 c.48A>C synonymous_variant 0.28 pyrazinamide
rpsA 1833595 c.54T>G synonymous_variant 0.21 pyrazinamide
rpsA 1833598 c.57C>T synonymous_variant 0.2 pyrazinamide
rpsA 1833778 c.237C>T synonymous_variant 0.3 pyrazinamide
rpsA 1833781 c.240T>G synonymous_variant 0.3 pyrazinamide
rpsA 1833892 c.351G>A synonymous_variant 0.26 pyrazinamide
rpsA 1833894 p.Ala118Glu missense_variant 0.25 pyrazinamide
rpsA 1834090 c.549G>C synonymous_variant 0.24 pyrazinamide
rpsA 1834387 c.846C>T synonymous_variant 0.23 pyrazinamide
rpsA 1834396 c.855G>C synonymous_variant 0.22 pyrazinamide
rpsA 1834417 c.876G>C synonymous_variant 0.26 pyrazinamide
rpsA 1834423 c.882G>C synonymous_variant 0.3 pyrazinamide
rpsA 1834456 c.915T>G synonymous_variant 0.17 pyrazinamide
rpsA 1834468 c.927A>G synonymous_variant 0.2 pyrazinamide
rpsA 1834489 c.948T>C synonymous_variant 0.19 pyrazinamide
rpsA 1834639 c.1098T>C synonymous_variant 0.21 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
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0 bedaquiline Not assoc w R - Interim
clofazimine Not assoc w R
thyX 3067248 p.Thr233Ile missense_variant 1.0 para-aminosalicylic_acid
thyA 3073868 p.Thr202Ala missense_variant 1.0 para-aminosalicylic_acid
ald 3086788 c.-32T>C upstream_gene_variant 1.0 cycloserine
Rv3236c 3612009 p.Ala370Thr missense_variant 1.0 pyrazinamide Not assoc w R
mtrB 3625065 p.Met517Leu missense_variant 1.0 rifampicin Not assoc w R
bedaquiline Uncertain significance
alr 3840719 c.702A>G synonymous_variant 1.0 cycloserine
rpoA 3877728 c.780C>G synonymous_variant 0.24 rifampicin
rpoA 3877797 c.711G>C synonymous_variant 0.41 rifampicin
rpoA 3877848 c.660C>T synonymous_variant 0.4 rifampicin Not assoc w R - Interim
rpoA 3877857 c.651G>A synonymous_variant 0.36 rifampicin
rpoA 3877875 c.633T>G synonymous_variant 0.17 rifampicin
rpoA 3877878 c.630G>A synonymous_variant 0.18 rifampicin
rpoA 3877884 c.624G>T synonymous_variant 0.19 rifampicin
rpoA 3877887 c.621G>T synonymous_variant 0.19 rifampicin
clpC1 4038287 c.2418C>T synonymous_variant 1.0 pyrazinamide Not assoc w R
clpC1 4038596 c.2109A>G synonymous_variant 0.17 pyrazinamide
clpC1 4038602 c.2103G>C synonymous_variant 0.19 pyrazinamide
clpC1 4038713 c.1992T>C synonymous_variant 0.17 pyrazinamide
clpC1 4038740 c.1965G>C synonymous_variant 0.17 pyrazinamide
clpC1 4038755 c.1950G>T synonymous_variant 0.16 pyrazinamide
clpC1 4038761 c.1944C>T synonymous_variant 0.17 pyrazinamide
clpC1 4038767 c.1938G>C synonymous_variant 0.18 pyrazinamide
clpC1 4038773 c.1932T>C synonymous_variant 0.21 pyrazinamide
clpC1 4038779 c.1926C>T synonymous_variant 0.21 pyrazinamide Not assoc w R - Interim
clpC1 4038782 c.1923G>C synonymous_variant 0.23 pyrazinamide
clpC1 4038790 c.1915C>T synonymous_variant 0.21 pyrazinamide Not assoc w R - Interim
clpC1 4038812 c.1893T>C synonymous_variant 0.24 pyrazinamide
clpC1 4038878 c.1827A>G synonymous_variant 0.34 pyrazinamide Not assoc w R - Interim
clpC1 4038905 c.1800A>C synonymous_variant 0.26 pyrazinamide
clpC1 4038908 c.1797C>G synonymous_variant 0.24 pyrazinamide
clpC1 4038911 c.1794G>T synonymous_variant 0.25 pyrazinamide
clpC1 4038914 c.1791G>C synonymous_variant 0.23 pyrazinamide
clpC1 4038917 c.1788C>T synonymous_variant 0.24 pyrazinamide
clpC1 4038923 c.1782A>G synonymous_variant 0.25 pyrazinamide
clpC1 4038932 c.1773G>C synonymous_variant 0.27 pyrazinamide
clpC1 4038986 c.1719C>T synonymous_variant 0.19 pyrazinamide
clpC1 4039199 p.Ala502Glu missense_variant 0.17 pyrazinamide
clpC1 4039208 c.1497C>G synonymous_variant 0.23 pyrazinamide
clpC1 4039220 c.1485G>C synonymous_variant 0.2 pyrazinamide
clpC1 4039628 c.1077C>G synonymous_variant 0.17 pyrazinamide
clpC1 4040105 c.600C>G synonymous_variant 0.17 pyrazinamide
clpC1 4040144 c.561G>C synonymous_variant 0.21 pyrazinamide
clpC1 4040147 c.558A>G synonymous_variant 0.15 pyrazinamide Not assoc w R - Interim
clpC1 4040153 c.552A>G synonymous_variant 0.15 pyrazinamide
clpC1 4040522 c.183T>C synonymous_variant 0.2 pyrazinamide Not assoc w R - Interim
panD 4044159 c.123C>T synonymous_variant 0.19 pyrazinamide
panD 4044162 c.120A>G synonymous_variant 0.21 pyrazinamide
panD 4044165 c.117G>C synonymous_variant 0.24 pyrazinamide
panD 4044186 c.94_96delTTGinsCTC synonymous_variant 0.23 pyrazinamide
embC 4242643 c.2781C>T synonymous_variant 1.0 ethambutol Not assoc w R
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 4408156 p.Leu16Arg missense_variant 1.0 streptomycin Not assoc w R