TB-Profiler result

Run: SRR28119741
Summary

Run ID: SRR28119741

Sample name:

Date: 2024-10-05T13:24:41.184678

Number of reads: 23487894

Percentage reads mapped: 93.5

Median coverage: 523.0

Strain: lineage2.2.1

Spoligotype:

Drug-resistance: Pre-XDR-TB

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Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family RDs Frequency
lineage2 East-Asian RD105 1.0
lineage2.2.1 East-Asian (Beijing) RD105;RD207;RD181 1.0
lineage2.2 East-Asian (Beijing) RD105;RD207 1.0
Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations WHO confidence Comment
rifampicin rpoB p.His445Tyr Assoc w R
isoniazid inhA c.-777C>T Assoc w R Alias fabG1_c.-15C>T. Low-level resistance (multiple, genetically linked low-level resistance mutations are additive and confer high-level resistance)
katG p.Ala106Val Uncertain significance Mutation from literature
ethambutol
pyrazinamide
streptomycin rpsL p.Lys43Arg Assoc w R
rrs n.462C>T Uncertain significance Mutation from literature
fluoroquinolones
moxifloxacin gyrA p.Asp94Ala Assoc w R Low-level resistance (multiple, genetically linked low-level resistance mutations are additive and confer high-level resistance)
ofloxacin
levofloxacin gyrA p.Asp94Ala Assoc w R
ciprofloxacin
aminoglycosides
amikacin
capreomycin
kanamycin
cycloserine
ethionamide inhA c.-777C>T Assoc w R Alias fabG1_c.-15C>T
clofazimine
para-aminosalicylic_acid
delamanid
bedaquiline
linezolid
Drug resistance-Associated Mutations: This table reports mutations found in candidate resistance genes which have been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs Confidence Comment
gyrA 7582 p.Asp94Ala missense_variant 0.99 levofloxacin Assoc w R
moxifloxacin Assoc w R Low-level resistance (multiple, genetically linked low-level resistance mutations are additive and confer high-level resistance)
rpoB 761139 p.His445Tyr missense_variant 0.96 rifampicin Assoc w R
rpsL 781687 p.Lys43Arg missense_variant 0.94 streptomycin Assoc w R
rrs 1472307 n.462C>T non_coding_transcript_exon_variant 0.19 streptomycin Uncertain significance Mutation from literature
inhA 1673425 c.-777C>T upstream_gene_variant 1.0 ethionamide Assoc w R Alias fabG1_c.-15C>T
isoniazid Assoc w R Alias fabG1_c.-15C>T. Low-level resistance (multiple, genetically linked low-level resistance mutations are additive and confer high-level resistance)
katG 2155795 p.Ala106Val missense_variant 1.0 isoniazid Uncertain significance Mutation from literature
Non-Associated Mutations: This table reports mutations found in candidate resistance genes which have not been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs Confidence
gyrB 6250 c.1011A>G synonymous_variant 0.14 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrB 6256 c.1017G>A synonymous_variant 0.14 levofloxacin
moxifloxacin
gyrB 6268 c.1029C>G synonymous_variant 0.15 levofloxacin
moxifloxacin
gyrB 6280 c.1041T>C synonymous_variant 0.15 levofloxacin
moxifloxacin
gyrB 6286 c.1047T>C synonymous_variant 0.14 levofloxacin
moxifloxacin
gyrB 6289 c.1050C>T synonymous_variant 0.14 levofloxacin
moxifloxacin
gyrB 6292 c.1053G>C synonymous_variant 0.14 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 8207 c.906T>C synonymous_variant 0.14 levofloxacin
moxifloxacin
gyrA 8219 c.918T>C synonymous_variant 0.14 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8225 c.924T>C synonymous_variant 0.15 levofloxacin
moxifloxacin
gyrA 8234 c.933T>C synonymous_variant 0.14 levofloxacin
moxifloxacin
gyrA 8237 c.936A>G synonymous_variant 0.13 levofloxacin
moxifloxacin
gyrA 8324 c.1023T>C synonymous_variant 0.13 levofloxacin
moxifloxacin
gyrA 9304 p.Gly668Asp missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
Rv0010c 13640 c.-82T>C upstream_gene_variant 1.0 isoniazid Uncertain significance
fgd1 491742 c.960T>C synonymous_variant 1.0 pretomanid
delamanid Not assoc w R - Interim
clofazimine Not assoc w R
mshA 575907 p.Ala187Val missense_variant 1.0 isoniazid Not assoc w R
ethionamide Not assoc w R
ccsA 620625 p.Ile245Met missense_variant 1.0 kanamycin Uncertain significance
capreomycin Not assoc w R
amikacin Not assoc w R
Rv0565c 657081 c.390G>A synonymous_variant 1.0 ethionamide Not assoc w R - Interim
Rv0565c 657142 p.Arg110His missense_variant 0.99 ethionamide Uncertain significance
nusG 734472 c.219T>C synonymous_variant 0.14 rifampicin
rpoB 760298 c.492G>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 760307 c.501T>C synonymous_variant 0.14 rifampicin
rpoB 760310 c.504G>C synonymous_variant 0.14 rifampicin
rpoB 760328 c.522G>C synonymous_variant 0.13 rifampicin
rpoB 760331 c.525G>C synonymous_variant 0.13 rifampicin
rpoB 760340 c.534G>T synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 760361 c.555T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 760370 c.564C>G synonymous_variant 0.14 rifampicin
rpoB 763031 c.3225T>C synonymous_variant 1.0 rifampicin Not assoc w R
rpoC 764827 c.1458G>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 765700 c.2331T>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 765734 c.2365T>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 765739 c.2370G>T synonymous_variant 0.15 rifampicin
rpoC 766726 c.3357T>C synonymous_variant 0.14 rifampicin
rpoC 766738 c.3369G>C synonymous_variant 0.15 rifampicin
rpoC 766765 c.3396A>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 766774 c.3405T>C synonymous_variant 0.14 rifampicin
rpoC 766861 c.3492G>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 766864 c.3495G>C synonymous_variant 0.13 rifampicin
rpoC 766933 c.3564A>G synonymous_variant 0.14 rifampicin
rpoC 766945 c.3576A>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 766963 c.3594T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 767033 c.3664_3666delTCGinsAGC synonymous_variant 0.15 rifampicin
rpoC 767059 c.3690T>G synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 767062 c.3693C>A synonymous_variant 0.15 rifampicin
rpoC 767098 c.3729T>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 767119 c.3750A>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 767158 c.3789T>C synonymous_variant 0.13 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 1.0 bedaquiline Not assoc w R - Interim
clofazimine Not assoc w R
mmpL5 776182 p.Asp767Asn missense_variant 1.0 bedaquiline Not assoc w R
clofazimine Not assoc w R
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0 bedaquiline
clofazimine
rpsL 781395 c.-165T>C upstream_gene_variant 1.0 streptomycin Not assoc w R
rplC 800612 c.-197A>G upstream_gene_variant 0.16 linezolid
rplC 800618 c.-191T>C upstream_gene_variant 0.17 linezolid
rplC 800627 c.-182C>T upstream_gene_variant 0.17 linezolid
rplC 800648 c.-161A>T upstream_gene_variant 0.17 linezolid
rplC 800654 c.-155T>C upstream_gene_variant 0.17 linezolid
rplC 800693 c.-116A>G upstream_gene_variant 0.17 linezolid
rplC 800703 c.-106T>C upstream_gene_variant 0.17 linezolid
rplC 800715 c.-94A>C upstream_gene_variant 0.15 linezolid
rplC 800720 c.-89T>C upstream_gene_variant 0.14 linezolid
rplC 800723 c.-86C>G upstream_gene_variant 0.14 linezolid
rplC 800747 c.-62C>G upstream_gene_variant 0.13 linezolid
Rv1129c 1254562 c.-28T>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 1304634 c.1704C>G synonymous_variant 0.13 pretomanid
delamanid
clofazimine
fbiC 1304817 c.1887T>C synonymous_variant 0.14 pretomanid
delamanid
clofazimine
fbiC 1304829 c.1899T>C synonymous_variant 0.16 pretomanid
delamanid
clofazimine
fbiC 1304832 c.1902C>T synonymous_variant 0.15 pretomanid
delamanid Not assoc w R - Interim
clofazimine Not assoc w R - Interim
fbiC 1304853 c.1923C>T synonymous_variant 0.16 pretomanid
delamanid
clofazimine
fbiC 1304856 c.1926C>G synonymous_variant 0.16 pretomanid
delamanid
clofazimine
fbiC 1304869 c.1939C>T synonymous_variant 0.16 pretomanid
delamanid
clofazimine
fbiC 1304875 p.Ile649Val missense_variant 0.17 pretomanid
delamanid
clofazimine
fbiC 1304883 p.Glu651Asp missense_variant 0.17 pretomanid
delamanid
clofazimine
fbiC 1304891 p.Ile654Thr missense_variant 0.17 pretomanid
delamanid
clofazimine
fbiC 1304893 p.Gly655Ser missense_variant 0.17 pretomanid
delamanid
clofazimine
fbiC 1304907 c.1977C>G synonymous_variant 0.17 pretomanid
delamanid
clofazimine
fbiC 1304910 c.1980G>C synonymous_variant 0.18 pretomanid
delamanid
clofazimine
fbiC 1304916 c.1986T>C synonymous_variant 0.18 pretomanid
delamanid
clofazimine
fbiC 1304928 c.1998T>C synonymous_variant 0.18 pretomanid
delamanid
clofazimine
fbiC 1304937 c.2007G>C synonymous_variant 0.18 pretomanid
delamanid
clofazimine
fbiC 1304958 c.2028T>G synonymous_variant 0.17 pretomanid
delamanid
clofazimine
fbiC 1304994 c.2064A>G synonymous_variant 0.14 pretomanid
delamanid
clofazimine
fbiC 1304995 p.Leu689Met missense_variant 0.14 pretomanid
delamanid
clofazimine
fbiC 1305006 c.2076A>G synonymous_variant 0.16 pretomanid
delamanid
clofazimine
fbiC 1305012 c.2082G>C synonymous_variant 0.15 pretomanid
delamanid
clofazimine
fbiC 1305015 c.2085G>C synonymous_variant 0.15 pretomanid
delamanid
clofazimine
fbiC 1305021 c.2091C>G synonymous_variant 0.15 pretomanid
delamanid
clofazimine
fbiC 1305030 c.2100G>C synonymous_variant 0.13 pretomanid
delamanid
clofazimine
fbiC 1305033 c.2103T>G synonymous_variant 0.14 pretomanid
delamanid
clofazimine
fbiC 1305042 c.2112A>G synonymous_variant 0.14 pretomanid
delamanid
clofazimine
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0 streptomycin Uncertain significance
pyrazinamide Uncertain significance
isoniazid Uncertain significance
rrs 1471659 n.-187C>T upstream_gene_variant 1.0 kanamycin
capreomycin
streptomycin
amikacin
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.15 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472969 n.1124A>G non_coding_transcript_exon_variant 0.2 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472970 n.1125C>G non_coding_transcript_exon_variant 0.2 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1472977 n.1132G>C non_coding_transcript_exon_variant 0.2 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1472978 n.1133T>C non_coding_transcript_exon_variant 0.2 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473105 n.1260G>A non_coding_transcript_exon_variant 0.23 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1473123 n.1278delAinsTT non_coding_transcript_exon_variant 0.21 kanamycin
capreomycin
streptomycin
amikacin
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.23 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.22 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473290 n.1445C>T non_coding_transcript_exon_variant 0.17 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrl 1473756 n.99G>A non_coding_transcript_exon_variant 0.16 capreomycin
linezolid
rrl 1473758 n.101G>T non_coding_transcript_exon_variant 0.17 capreomycin Uncertain significance
linezolid
rrl 1473806 n.149C>T non_coding_transcript_exon_variant 0.17 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473877 n.220G>A non_coding_transcript_exon_variant 0.16 capreomycin
linezolid
rrl 1473898 n.241C>T non_coding_transcript_exon_variant 0.16 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473943 n.286G>T non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid
rrl 1473945 n.288T>A non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid
rrl 1473946 n.289A>T non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid
rrl 1473986 n.329T>C non_coding_transcript_exon_variant 0.17 capreomycin
linezolid
rrl 1473987 n.330G>A non_coding_transcript_exon_variant 0.17 capreomycin
linezolid
rrl 1473995 n.338G>T non_coding_transcript_exon_variant 0.19 capreomycin
linezolid
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 0.19 capreomycin Not assoc w R
linezolid Not assoc w R
rrl 1474009 n.352A>G non_coding_transcript_exon_variant 0.19 capreomycin
linezolid
rrl 1474012 n.355C>T non_coding_transcript_exon_variant 0.19 capreomycin
linezolid
rrl 1474093 n.436G>T non_coding_transcript_exon_variant 0.21 capreomycin
linezolid
rrl 1474099 n.442G>A non_coding_transcript_exon_variant 0.2 capreomycin
linezolid
rrl 1474103 n.446A>T non_coding_transcript_exon_variant 0.21 capreomycin
linezolid
rrl 1474140 n.483C>T non_coding_transcript_exon_variant 0.21 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 1474181 n.524C>T non_coding_transcript_exon_variant 0.18 capreomycin Uncertain significance
linezolid
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.16 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474356 n.699T>C non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid
rrl 1474376 n.719T>C non_coding_transcript_exon_variant 0.14 capreomycin
linezolid
rrl 1474639 n.982G>A non_coding_transcript_exon_variant 0.21 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.22 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 0.21 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474823 n.1166C>T non_coding_transcript_exon_variant 0.21 capreomycin
linezolid
rrl 1474831 n.1174A>G non_coding_transcript_exon_variant 0.2 capreomycin Uncertain significance
linezolid
rrl 1474904 n.1247G>A non_coding_transcript_exon_variant 0.23 capreomycin
linezolid
rrl 1474956 n.1299C>T non_coding_transcript_exon_variant 0.22 capreomycin
linezolid
rrl 1474960 n.1303C>G non_coding_transcript_exon_variant 0.21 capreomycin
linezolid
rrl 1474963 n.1306G>T non_coding_transcript_exon_variant 0.21 capreomycin Uncertain significance
linezolid
rrl 1474964 n.1307T>A non_coding_transcript_exon_variant 0.22 capreomycin
linezolid
rrl 1474965 n.1308G>C non_coding_transcript_exon_variant 0.21 capreomycin
linezolid
rrl 1474970 n.1313G>A non_coding_transcript_exon_variant 0.22 capreomycin
linezolid
rrl 1475006 n.1349A>T non_coding_transcript_exon_variant 0.23 capreomycin
linezolid
rrl 1475061 n.1404C>T non_coding_transcript_exon_variant 0.17 capreomycin Uncertain significance
linezolid
rrl 1475088 n.1431A>T non_coding_transcript_exon_variant 0.18 capreomycin
linezolid
rrl 1475199 n.1542G>A non_coding_transcript_exon_variant 0.2 capreomycin
linezolid
rrl 1475206 n.1549C>T non_coding_transcript_exon_variant 0.2 capreomycin Uncertain significance
linezolid
rrl 1475209 n.1552G>C non_coding_transcript_exon_variant 0.2 capreomycin Uncertain significance
linezolid
rrl 1475213 n.1556C>T non_coding_transcript_exon_variant 0.2 capreomycin Uncertain significance
linezolid
rrl 1475249 n.1592T>C non_coding_transcript_exon_variant 0.18 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475252 n.1595C>T non_coding_transcript_exon_variant 0.18 capreomycin
linezolid
rrl 1475266 n.1609T>C non_coding_transcript_exon_variant 0.18 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475267 n.1610G>A non_coding_transcript_exon_variant 0.18 capreomycin
linezolid
rrl 1475275 n.1618C>T non_coding_transcript_exon_variant 0.18 capreomycin
linezolid
rrl 1475276 n.1619T>C non_coding_transcript_exon_variant 0.18 capreomycin
linezolid
rrl 1475291 n.1634A>C non_coding_transcript_exon_variant 0.2 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475315 n.1658A>T non_coding_transcript_exon_variant 0.21 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475355 n.1698C>T non_coding_transcript_exon_variant 0.18 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475369 n.1712G>T non_coding_transcript_exon_variant 0.18 capreomycin
linezolid
rrl 1475402 n.1745C>T non_coding_transcript_exon_variant 0.2 capreomycin
linezolid
rrl 1475419 n.1762C>T non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid
rrl 1475429 n.1772G>A non_coding_transcript_exon_variant 0.2 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475436 n.1779C>T non_coding_transcript_exon_variant 0.18 capreomycin
linezolid
rrl 1475483 n.1826C>T non_coding_transcript_exon_variant 0.19 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 0.21 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475599 n.1942A>G non_coding_transcript_exon_variant 0.16 capreomycin
linezolid Uncertain significance
rrl 1475608 n.1951T>C non_coding_transcript_exon_variant 0.17 capreomycin Uncertain significance
linezolid
rrl 1475642 n.1985T>C non_coding_transcript_exon_variant 0.17 capreomycin
linezolid
rrl 1475657 n.2000A>G non_coding_transcript_exon_variant 0.17 capreomycin
linezolid
rrl 1475659 n.2002G>T non_coding_transcript_exon_variant 0.17 capreomycin
linezolid
rrl 1475761 n.2104_2106delCGCinsGT non_coding_transcript_exon_variant 0.33 capreomycin
linezolid
rrl 1475765 n.2111delG non_coding_transcript_exon_variant 0.35 capreomycin
linezolid
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.32 capreomycin
linezolid
rrl 1476214 n.2557G>A non_coding_transcript_exon_variant 0.15 capreomycin
linezolid
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476583 n.2926G>A non_coding_transcript_exon_variant 0.16 capreomycin Uncertain significance
linezolid
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.16 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476594 n.2937C>T non_coding_transcript_exon_variant 0.16 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476597 n.2940G>A non_coding_transcript_exon_variant 0.16 capreomycin Uncertain significance
linezolid
rrl 1476603 n.2946G>A non_coding_transcript_exon_variant 0.16 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476608 n.2951C>G non_coding_transcript_exon_variant 0.16 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476628 n.2971T>A non_coding_transcript_exon_variant 0.16 capreomycin Uncertain significance
linezolid Uncertain significance
rpsA 1833727 c.186G>C synonymous_variant 0.13 pyrazinamide
rpsA 1833742 c.201A>G synonymous_variant 0.14 pyrazinamide
rpsA 1833748 c.207C>G synonymous_variant 0.14 pyrazinamide
rpsA 1833847 c.306C>G synonymous_variant 0.13 pyrazinamide
rpsA 1833856 c.315A>G synonymous_variant 0.14 pyrazinamide
rpsA 1833874 c.333T>C synonymous_variant 0.13 pyrazinamide
rpsA 1834177 c.636A>C synonymous_variant 1.0 pyrazinamide Not assoc w R - Interim
rpsA 1834639 c.1098T>C synonymous_variant 0.14 pyrazinamide
rpsA 1834654 p.Glu371Asp missense_variant 0.14 pyrazinamide
rpsA 1834684 c.1143C>T synonymous_variant 0.15 pyrazinamide
rpsA 1834690 c.1149T>C synonymous_variant 0.14 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
katG 2154724 p.Arg463Leu missense_variant 1.0 isoniazid Not assoc w R
PPE35 2167926 p.Leu896Ser missense_variant 1.0 pyrazinamide 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
Rv2477c 2783914 c.129T>C synonymous_variant 0.13 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
ald 3086788 c.-32T>C upstream_gene_variant 1.0 cycloserine
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0 pyrazinamide Not assoc w R - Interim
mtrB 3625065 p.Met517Leu missense_variant 1.0 rifampicin Not assoc w R
bedaquiline Uncertain significance
mtrB 3626562 p.Pro18Ser missense_variant 1.0 rifampicin Not assoc w R
bedaquiline Uncertain significance
rpoA 3877587 c.921A>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoA 3877613 p.Ile299Val missense_variant 0.16 rifampicin
rpoA 3877679 p.Ala277Ser missense_variant 0.14 rifampicin
rpoA 3877686 c.822A>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoA 3877692 c.816G>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoA 3877704 c.804G>C synonymous_variant 0.13 rifampicin
rpoA 3878619 c.-112A>C upstream_gene_variant 0.14 rifampicin
embC 4242643 c.2781C>T synonymous_variant 1.0 ethambutol Not assoc w R
embA 4243460 c.228C>T synonymous_variant 1.0 ethambutol Not assoc w R
embB 4247028 p.Leu172Arg missense_variant 0.24 ethambutol
embB 4247033 p.Ser174Arg missense_variant 0.17 ethambutol
embB 4248200 p.Ile563Val missense_variant 0.14 ethambutol
embB 4248208 c.1695C>T synonymous_variant 0.14 ethambutol
embB 4248220 c.1707A>C synonymous_variant 0.14 ethambutol
aftB 4267647 p.Asp397Gly missense_variant 0.99 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 4407588 c.615A>G synonymous_variant 1.0 streptomycin Not assoc w R
gid 4407927 p.Glu92Asp missense_variant 1.0 streptomycin Not assoc w R