TB-Profiler result

Run: ERR3275201
Summary

Run ID: ERR3275201

Sample name:

Date: 2024-10-04T05:14:08.020517

Number of reads: 4815932

Percentage reads mapped: 99.28

Median coverage: 71.0

Strain: lineage4.8

Spoligotype:

Drug-resistance: Sensitive

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Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family RDs Frequency
lineage4 Euro-American None 1.0
lineage4.8 Euro-American (mainly T) RD219 0.97
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
gyrB 6250 c.1011A>G synonymous_variant 0.13 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrB 6280 c.1041T>C synonymous_variant 0.14 levofloxacin
moxifloxacin
gyrB 6286 c.1047T>C synonymous_variant 0.13 levofloxacin
moxifloxacin
gyrB 6307 c.1068T>G synonymous_variant 0.15 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 7132 c.-170T>G upstream_gene_variant 0.15 levofloxacin
moxifloxacin
gyrA 7165 c.-137C>G 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 7484 c.183T>C synonymous_variant 0.14 levofloxacin
moxifloxacin
gyrA 7664 c.363T>C synonymous_variant 0.14 levofloxacin
moxifloxacin
gyrA 8619 c.1318T>C synonymous_variant 0.14 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8642 c.1341A>G synonymous_variant 0.18 levofloxacin
moxifloxacin
gyrA 8672 c.1371A>G synonymous_variant 0.18 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8693 c.1392T>C synonymous_variant 0.17 levofloxacin
moxifloxacin
gyrA 8711 c.1410A>C synonymous_variant 0.15 levofloxacin
moxifloxacin
gyrA 8714 c.1413A>G synonymous_variant 0.15 levofloxacin
moxifloxacin
mshA 575893 c.546C>G synonymous_variant 0.15 isoniazid
ethionamide
ccsA 620319 c.429C>G synonymous_variant 0.13 kanamycin
capreomycin
amikacin
ccsA 620340 c.450C>G synonymous_variant 0.13 kanamycin
capreomycin
amikacin
Rv0565c 656265 c.1204_1205delAC frameshift_variant 1.0 ethionamide Uncertain significance
hadA 732396 p.Gly156Ala missense_variant 0.21 isoniazid
hadA 732398 p.Ala157Thr missense_variant 0.2 isoniazid
nusG 734658 c.405A>G synonymous_variant 1.0 rifampicin Not assoc w R
rpoB 760223 c.417T>C synonymous_variant 0.13 rifampicin
rpoB 760235 c.429T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 760283 c.477G>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 760805 c.999G>C synonymous_variant 0.13 rifampicin
rpoB 760859 c.1053T>C synonymous_variant 0.13 rifampicin
rpoB 760862 c.1056G>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoB 760886 c.1080A>G synonymous_variant 0.16 rifampicin
rpoB 760925 c.1119T>C synonymous_variant 0.15 rifampicin
rpoB 761015 c.1209G>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoB 761027 c.1221A>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 761057 c.1251G>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 761102 c.1296A>G synonymous_variant 0.2 rifampicin
rpoB 761129 c.1323G>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 761132 c.1326G>T synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoB 761133 c.1327T>C synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoB 761150 c.1344A>C synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoB 761153 c.1347G>C synonymous_variant 0.14 rifampicin
rpoB 761165 c.1359G>C synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoB 761180 c.1374A>C synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoB 761189 c.1383T>C synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoB 761195 c.1389G>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoB 761249 c.1443A>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoB 761255 c.1449T>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 761261 c.1455G>T synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 761327 c.1521A>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 761510 c.1704T>C synonymous_variant 0.14 rifampicin
rpoB 761537 c.1731C>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 761570 c.1764T>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoB 761573 c.1767C>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoB 761579 c.1773G>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoB 761588 c.1782C>T synonymous_variant 0.14 rifampicin
rpoB 761606 c.1800C>G synonymous_variant 0.13 rifampicin
rpoB 761612 c.1806G>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoB 761615 c.1809A>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoB 762131 c.2325C>G synonymous_variant 0.14 rifampicin
rpoB 762143 c.2337T>C synonymous_variant 0.13 rifampicin
rpoB 762167 c.2361T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 762176 c.2370T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 762185 c.2379G>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 762233 c.2427G>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 762284 c.2478G>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 762293 c.2487T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 762317 c.2511A>G synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 762329 c.2523G>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 762338 c.2532T>C synonymous_variant 0.14 rifampicin
rpoB 762347 c.2541T>C synonymous_variant 0.15 rifampicin
rpoB 762857 c.3051C>G synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoB 762860 c.3054G>C synonymous_variant 0.12 rifampicin Not assoc w R - Interim
rpoB 762995 c.3189G>T synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 763028 c.3222T>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 763034 c.3228C>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 763040 c.3234C>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 763070 c.3264T>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 763085 c.3279C>G synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoB 763115 c.3309T>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 763444 c.75T>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 763456 c.87A>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 763528 c.159G>A synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 763546 c.177A>G synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 763570 c.201G>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 763573 c.204G>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 763636 c.267T>C synonymous_variant 0.14 rifampicin
rpoC 763660 c.291T>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 763675 c.306C>G synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 763702 c.333C>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 763717 c.348T>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 763723 c.354G>C synonymous_variant 0.17 rifampicin
rpoC 763741 c.372C>T synonymous_variant 0.19 rifampicin
rpoC 763744 c.375G>C synonymous_variant 0.19 rifampicin
rpoC 763765 c.396T>C synonymous_variant 0.13 rifampicin
rpoC 763774 c.405G>C synonymous_variant 0.13 rifampicin
rpoC 763807 c.438T>C synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoC 763835 p.Ala156Met missense_variant 0.16 rifampicin
rpoC 763858 c.489A>G synonymous_variant 0.17 rifampicin
rpoC 763872 p.Gly168Ala missense_variant 0.15 rifampicin
rpoC 764446 c.1077T>C synonymous_variant 0.14 rifampicin
rpoC 764449 c.1080G>C synonymous_variant 0.13 rifampicin
rpoC 764452 c.1083T>C synonymous_variant 0.14 rifampicin
rpoC 764458 c.1089G>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 764461 c.1092A>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 764497 c.1128A>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 764521 c.1152T>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 764539 c.1170C>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 764566 c.1197C>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 764575 c.1206T>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 764752 c.1383G>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 764764 c.1395T>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 764809 c.1440C>T synonymous_variant 0.17 rifampicin Not assoc w R
rpoC 764815 c.1446A>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 764858 c.1489T>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 764888 c.1519T>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 764911 c.1542A>G synonymous_variant 0.21 rifampicin
rpoC 764932 c.1563C>A synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 764935 c.1566T>C synonymous_variant 0.17 rifampicin
rpoC 764948 c.1579T>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 764968 c.1599T>C synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoC 764995 c.1626C>G synonymous_variant 0.13 rifampicin Not assoc w R
rpoC 765019 c.1650A>G synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 765034 c.1665T>C synonymous_variant 0.18 rifampicin
rpoC 765040 c.1671T>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 765041 c.1672T>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 765499 c.2130C>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 765541 c.2172C>G synonymous_variant 0.14 rifampicin
rpoC 765700 c.2331T>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 765753 p.Asp795Ala missense_variant 0.12 rifampicin Uncertain significance
rpoC 765937 c.2568T>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 766027 c.2658G>C synonymous_variant 0.15 rifampicin
rpoC 766054 c.2685C>G synonymous_variant 0.14 rifampicin
rpoC 766082 p.Ala905Gln missense_variant 0.21 rifampicin
rpoC 766096 c.2727G>C synonymous_variant 0.18 rifampicin
rpoC 766129 c.2760C>G synonymous_variant 0.17 rifampicin
rpoC 766141 c.2772C>T synonymous_variant 0.14 rifampicin
rpoC 766142 c.2773C>T synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 766447 c.3078T>C synonymous_variant 0.13 rifampicin
rpoC 766462 c.3093G>C synonymous_variant 0.13 rifampicin
rpoC 766657 c.3288A>G synonymous_variant 0.19 rifampicin
rpoC 766672 c.3303T>C synonymous_variant 0.18 rifampicin
rpoC 766726 c.3357T>C synonymous_variant 0.17 rifampicin
rpoC 766738 c.3369G>C synonymous_variant 0.18 rifampicin
rpoC 766765 c.3396A>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 766774 c.3405T>C synonymous_variant 0.16 rifampicin
rpoC 766795 c.3426C>T synonymous_variant 0.15 rifampicin
rpoC 766804 c.3435A>G synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoC 766861 c.3492G>C synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoC 766864 c.3495G>C synonymous_variant 0.21 rifampicin
rpoC 766894 c.3525T>C synonymous_variant 0.19 rifampicin
rpoC 766895 c.3526T>C synonymous_variant 0.21 rifampicin
rpoC 766900 c.3531T>C synonymous_variant 0.21 rifampicin
rpoC 766933 c.3564A>G synonymous_variant 0.17 rifampicin
rpoC 766945 c.3576A>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 767014 c.3645G>C synonymous_variant 0.13 rifampicin
rpoC 767033 p.Ser1222Arg missense_variant 0.18 rifampicin
rpoC 767059 c.3690T>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 767062 c.3693C>A synonymous_variant 0.17 rifampicin
rpoC 767098 c.3729T>C synonymous_variant 0.14 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
rpsL 781395 c.-165T>C upstream_gene_variant 1.0 streptomycin Not assoc w R
rpsL 781649 c.90T>C synonymous_variant 0.15 streptomycin
rpsL 781655 c.96T>C synonymous_variant 0.15 streptomycin
rpsL 781728 c.169T>C synonymous_variant 0.13 streptomycin
rpsL 781736 c.177T>C synonymous_variant 0.13 streptomycin
rpsL 781865 c.306G>C synonymous_variant 0.13 streptomycin
rpsL 781868 c.309T>C synonymous_variant 0.13 streptomycin
rpsL 781871 c.312G>C synonymous_variant 0.13 streptomycin
rpsL 781898 c.339A>T synonymous_variant 0.13 streptomycin
rpsL 781929 p.Gly124Ser missense_variant 0.14 streptomycin Uncertain significance
rplC 800648 c.-161A>T upstream_gene_variant 0.14 linezolid
rplC 800654 c.-155T>C upstream_gene_variant 0.14 linezolid
rplC 800693 c.-116A>G upstream_gene_variant 0.14 linezolid
rplC 800703 c.-106T>C upstream_gene_variant 0.16 linezolid
rplC 800715 c.-94A>C upstream_gene_variant 0.15 linezolid
rplC 800720 c.-89T>C upstream_gene_variant 0.15 linezolid
rplC 800723 c.-86C>G upstream_gene_variant 0.15 linezolid
rplC 800747 c.-62C>G upstream_gene_variant 0.18 linezolid
Rv1129c 1253330 p.Gly402Glu missense_variant 1.0 levofloxacin Uncertain significance
moxifloxacin Uncertain significance
isoniazid Uncertain significance
rifampicin Uncertain significance
fbiC 1304546 p.Val539Ala missense_variant 0.13 pretomanid
delamanid
clofazimine
fbiC 1304553 c.1623C>T synonymous_variant 0.14 pretomanid
delamanid
clofazimine
fbiC 1304559 p.Glu543Asp missense_variant 0.14 pretomanid
delamanid
clofazimine
fbiC 1304565 c.1635C>G synonymous_variant 0.14 pretomanid
delamanid
clofazimine
fbiC 1304568 c.1638T>C synonymous_variant 0.14 pretomanid
delamanid
clofazimine
fbiC 1304580 c.1650T>C synonymous_variant 0.17 pretomanid
delamanid
clofazimine
fbiC 1304613 c.1683T>C synonymous_variant 0.19 pretomanid
delamanid
clofazimine
fbiC 1304634 c.1704C>G synonymous_variant 0.15 pretomanid
delamanid
clofazimine
fbiC 1304640 c.1710A>C synonymous_variant 0.15 pretomanid
delamanid
clofazimine
fbiC 1304869 c.1939C>T synonymous_variant 0.14 pretomanid
delamanid
clofazimine
fbiC 1304907 c.1977C>G synonymous_variant 0.16 pretomanid
delamanid
clofazimine
fbiC 1304910 c.1980G>C synonymous_variant 0.14 pretomanid
delamanid
clofazimine
fbiC 1304916 c.1986T>C synonymous_variant 0.16 pretomanid
delamanid
clofazimine
fbiC 1304928 c.1998T>C synonymous_variant 0.19 pretomanid
delamanid
clofazimine
fbiC 1304937 c.2007G>C synonymous_variant 0.2 pretomanid
delamanid
clofazimine
fbiC 1304958 c.2028T>G synonymous_variant 0.16 pretomanid
delamanid
clofazimine
fbiC 1304994 c.2064A>G synonymous_variant 0.13 pretomanid
delamanid
clofazimine
fbiC 1304995 p.Leu689Met missense_variant 0.13 pretomanid
delamanid
clofazimine
fbiC 1305006 c.2076A>G synonymous_variant 0.13 pretomanid
delamanid
clofazimine
atpE 1460816 c.-229T>C upstream_gene_variant 0.16 bedaquiline
atpE 1460831 c.-214T>C upstream_gene_variant 0.14 bedaquiline
rrs 1471659 n.-187C>T upstream_gene_variant 1.0 kanamycin
capreomycin
streptomycin
amikacin
rrs 1473105 n.1260G>A non_coding_transcript_exon_variant 0.21 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1473123 n.1278delAinsTT non_coding_transcript_exon_variant 0.17 kanamycin
capreomycin
streptomycin
amikacin
rrl 1473898 n.241C>T non_coding_transcript_exon_variant 0.21 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473899 n.242A>C non_coding_transcript_exon_variant 0.22 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473943 n.286G>T non_coding_transcript_exon_variant 0.26 capreomycin Uncertain significance
linezolid
rrl 1473986 n.329T>C non_coding_transcript_exon_variant 0.18 capreomycin
linezolid
rrl 1473987 n.330G>A non_coding_transcript_exon_variant 0.14 capreomycin
linezolid
rrl 1473995 n.338G>T non_coding_transcript_exon_variant 0.2 capreomycin
linezolid
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0 capreomycin Not assoc w R
linezolid Not assoc w R
rrl 1474009 n.352A>G non_coding_transcript_exon_variant 0.17 capreomycin
linezolid
rrl 1474012 n.355C>T non_coding_transcript_exon_variant 0.17 capreomycin
linezolid
rrl 1474103 n.446A>T non_coding_transcript_exon_variant 0.14 capreomycin
linezolid
rrl 1474140 n.483C>T non_coding_transcript_exon_variant 0.16 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474151 n.494C>T non_coding_transcript_exon_variant 0.16 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474181 n.524C>T non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid
rrl 1474639 n.982G>A non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474831 n.1174A>G 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 0.15 capreomycin
linezolid
rrl 1475206 n.1549C>T non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid
rrl 1475209 n.1552G>C non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid
rrl 1475213 n.1556C>T non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid
rrl 1475249 n.1592T>C non_coding_transcript_exon_variant 0.21 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475252 n.1595C>T non_coding_transcript_exon_variant 0.21 capreomycin
linezolid
rrl 1475266 n.1609T>C non_coding_transcript_exon_variant 0.23 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475275 n.1618C>T non_coding_transcript_exon_variant 0.23 capreomycin
linezolid
rrl 1475276 n.1619T>C non_coding_transcript_exon_variant 0.23 capreomycin
linezolid
rrl 1475291 n.1634A>C non_coding_transcript_exon_variant 0.26 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475315 n.1658A>T non_coding_transcript_exon_variant 0.24 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475355 n.1698C>T non_coding_transcript_exon_variant 0.25 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475369 n.1712G>T non_coding_transcript_exon_variant 0.25 capreomycin
linezolid
rrl 1475401 n.1745C>T non_coding_transcript_exon_variant 0.16 capreomycin
linezolid
rrl 1475419 n.1762C>T non_coding_transcript_exon_variant 0.26 capreomycin Uncertain significance
linezolid
rrl 1475599 n.1942A>G non_coding_transcript_exon_variant 0.17 capreomycin
linezolid Uncertain significance
rrl 1475608 n.1951T>C non_coding_transcript_exon_variant 0.18 capreomycin Uncertain significance
linezolid
rrl 1475761 n.2104_2106delCGCinsGT non_coding_transcript_exon_variant 0.16 capreomycin
linezolid
rrl 1475765 n.2111delG non_coding_transcript_exon_variant 0.16 capreomycin
linezolid
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.18 capreomycin
linezolid
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.14 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476033 n.2376T>C non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid
rrl 1476086 n.2429G>A non_coding_transcript_exon_variant 0.18 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476089 n.2432T>C non_coding_transcript_exon_variant 0.17 capreomycin
linezolid
rrl 1476095 n.2438C>G non_coding_transcript_exon_variant 0.16 capreomycin
linezolid
rrl 1476115 n.2458T>C non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476117 n.2460G>C non_coding_transcript_exon_variant 0.15 capreomycin
linezolid
rrl 1476628 n.2971T>A non_coding_transcript_exon_variant 0.14 capreomycin Uncertain significance
linezolid Uncertain significance
rpsA 1834513 c.972C>G synonymous_variant 0.16 pyrazinamide
rpsA 1834528 c.987T>C synonymous_variant 0.16 pyrazinamide
rpsA 1834540 c.999G>C synonymous_variant 0.14 pyrazinamide
rpsA 1834546 c.1005T>C synonymous_variant 0.16 pyrazinamide
rpsA 1834555 c.1014T>G synonymous_variant 0.15 pyrazinamide
rpsA 1834609 c.1068T>C synonymous_variant 0.14 pyrazinamide
tlyA 1917972 c.33A>G synonymous_variant 1.0 capreomycin Not assoc w R
katG 2155691 c.421T>C synonymous_variant 0.13 isoniazid
katG 2155695 c.417C>G synonymous_variant 0.13 isoniazid
katG 2155704 c.408C>G synonymous_variant 0.14 isoniazid
katG 2155716 c.396T>G synonymous_variant 0.13 isoniazid
katG 2155722 c.390G>C synonymous_variant 0.13 isoniazid
PPE35 2168149 p.Pro822Ser 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
pncA 2289680 c.-439T>C upstream_gene_variant 1.0 pyrazinamide
Rv2477c 2782913 p.Ser377Thr missense_variant 0.15 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2782929 p.Thr372Ala missense_variant 0.13 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2782936 c.1107G>T synonymous_variant 0.14 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2782957 c.1086A>G synonymous_variant 0.18 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 2782966 c.1077C>A synonymous_variant 0.14 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2782981 c.1062G>C synonymous_variant 0.14 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783059 c.984T>C synonymous_variant 0.16 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783077 c.966T>C synonymous_variant 0.18 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783092 c.951A>G synonymous_variant 0.17 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin Not assoc w R - Interim
ethambutol Not assoc w R - Interim
amikacin
Rv2477c 2783095 c.948C>G synonymous_variant 0.17 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
ethambutol Not assoc w R - Interim
amikacin Not assoc w R - Interim
Rv2477c 2783098 c.945C>G synonymous_variant 0.18 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783101 c.942G>T synonymous_variant 0.13 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783116 c.927T>C synonymous_variant 0.18 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783140 c.903C>G synonymous_variant 0.18 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783146 c.897G>A synonymous_variant 0.17 kanamycin Not assoc w R - Interim
levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
streptomycin
rifampicin
ethambutol
amikacin Not assoc w R - Interim
Rv2477c 2783149 c.894G>C synonymous_variant 0.18 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 2783158 c.885A>C synonymous_variant 0.19 kanamycin Not assoc w R - Interim
levofloxacin Not assoc w R - Interim
moxifloxacin
streptomycin
rifampicin Not assoc w R - Interim
ethambutol Not assoc w R - Interim
amikacin Not assoc w R - Interim
Rv2477c 2783179 c.864G>C synonymous_variant 0.13 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783914 c.129T>C synonymous_variant 0.18 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783920 c.123G>C synonymous_variant 0.17 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783929 c.114C>G synonymous_variant 0.15 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783932 c.111C>T synonymous_variant 0.15 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783938 c.105T>C synonymous_variant 0.16 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783953 c.90G>A synonymous_variant 0.17 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 Not assoc w R - Interim
amikacin Not assoc w R - Interim
Rv2477c 2783962 c.81T>C synonymous_variant 0.17 kanamycin Not assoc w R - Interim
levofloxacin
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 2783971 c.72G>C synonymous_variant 0.17 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783980 c.63C>G synonymous_variant 0.15 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
Rv2477c 2783992 c.51T>C synonymous_variant 0.13 kanamycin Not assoc w R - Interim
levofloxacin Not assoc w R - Interim
moxifloxacin
streptomycin Not assoc w R - Interim
rifampicin Not assoc w R - Interim
ethambutol Not assoc w R - Interim
amikacin
Rv2680 2995848 c.-257G>A upstream_gene_variant 1.0 capreomycin
Rv2752c 3065210 c.982T>C synonymous_variant 0.15 levofloxacin
moxifloxacin
isoniazid
rifampicin
ethambutol
Rv2752c 3065262 c.930G>A synonymous_variant 0.14 levofloxacin
moxifloxacin
isoniazid
rifampicin
ethambutol
thyX 3067457 c.489C>G synonymous_variant 0.14 para-aminosalicylic_acid
thyX 3067475 c.471A>G synonymous_variant 0.16 para-aminosalicylic_acid
thyX 3067490 c.456C>G synonymous_variant 0.15 para-aminosalicylic_acid
thyX 3067493 c.453A>G synonymous_variant 0.15 para-aminosalicylic_acid
thyX 3067515 p.Ser144Thr missense_variant 0.15 para-aminosalicylic_acid
thyX 3067530 p.Ala139Ser missense_variant 0.16 para-aminosalicylic_acid
thyX 3067545 p.Glu134Ala missense_variant 0.17 para-aminosalicylic_acid
thyX 3067549 p.Thr133Ala missense_variant 0.16 para-aminosalicylic_acid
thyX 3067556 p.His130Gln missense_variant 0.16 para-aminosalicylic_acid
thyX 3067850 c.96A>C synonymous_variant 0.15 para-aminosalicylic_acid
thyX 3067869 p.Thr26Ser missense_variant 0.13 para-aminosalicylic_acid
Rv3236c 3613636 c.-520A>G upstream_gene_variant 1.0 pyrazinamide Not assoc w R
mtrB 3625569 c.1045T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
bedaquiline
lpqB 3625579 c.-669A>G upstream_gene_variant 0.14 rifampicin
bedaquiline
lpqB 3625594 c.-684T>C upstream_gene_variant 0.13 rifampicin
bedaquiline
lpqB 3625602 c.-692T>C upstream_gene_variant 0.15 rifampicin
bedaquiline
lpqB 3625612 c.-702G>C upstream_gene_variant 0.15 rifampicin
bedaquiline
mtrB 3625616 p.Arg333Ala missense_variant 0.14 rifampicin
bedaquiline
lpqB 3625624 c.-714C>G upstream_gene_variant 0.13 rifampicin
bedaquiline
mtrB 3625636 c.978C>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
bedaquiline
mtrB 3625656 c.958T>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
bedaquiline Not assoc w R - Interim
lpqB 3625663 c.-753G>C upstream_gene_variant 0.14 rifampicin
bedaquiline
lpqB 3625696 c.-786A>G upstream_gene_variant 0.13 rifampicin
bedaquiline
mtrB 3625729 c.885A>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
bedaquiline
mtrB 3625755 p.Ala287Thr missense_variant 0.16 rifampicin Uncertain significance
bedaquiline
mtrB 3625774 c.840G>A synonymous_variant 0.16 rifampicin Not assoc w R - Interim
bedaquiline
mtrB 3625797 p.Val273Met missense_variant 0.17 rifampicin Uncertain significance
bedaquiline Uncertain significance
mtrB 3625806 c.808A>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
bedaquiline
mtrB 3625807 c.807C>G synonymous_variant 0.16 rifampicin Not assoc w R - Interim
bedaquiline
rpoA 3877587 c.921A>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoA 3877613 p.Ile299Val missense_variant 0.15 rifampicin
rpoA 3877638 c.870T>C synonymous_variant 0.12 rifampicin Not assoc w R - Interim
rpoA 3877782 c.726T>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoA 3878271 c.237T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoA 3878292 c.216T>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoA 3878385 c.123C>G synonymous_variant 0.14 rifampicin
rpoA 3878415 c.93C>T synonymous_variant 0.16 rifampicin
rpoA 3878833 c.-326C>G upstream_gene_variant 0.14 rifampicin
rpoA 3878836 c.-329G>C upstream_gene_variant 0.14 rifampicin Uncertain significance
rpoA 3878853 c.-346G>A upstream_gene_variant 0.18 rifampicin
rpoA 3878878 c.-371T>C upstream_gene_variant 0.16 rifampicin Uncertain significance
rpoA 3878909 c.-402A>G upstream_gene_variant 0.18 rifampicin
rpoA 3878914 c.-407T>C upstream_gene_variant 0.18 rifampicin Uncertain significance
rpoA 3878938 c.-431T>A upstream_gene_variant 0.14 rifampicin
rpoA 3878947 c.-440G>C upstream_gene_variant 0.13 rifampicin Uncertain significance
rpoA 3878962 c.-455G>A upstream_gene_variant 0.15 rifampicin Uncertain significance
rpoA 3878968 c.-461T>C upstream_gene_variant 0.18 rifampicin Uncertain significance
rpoA 3878976 c.-469A>G upstream_gene_variant 0.16 rifampicin Uncertain significance
clpC1 4038623 c.2082A>G synonymous_variant 0.17 pyrazinamide
clpC1 4038640 p.Asp689Asn missense_variant 0.16 pyrazinamide
clpC1 4038653 c.2052C>T synonymous_variant 0.19 pyrazinamide
clpC1 4038658 p.Lys683Gln missense_variant 0.19 pyrazinamide
clpC1 4038661 p.Ser682Thr missense_variant 0.19 pyrazinamide
clpC1 4038662 c.2043T>C synonymous_variant 0.19 pyrazinamide
clpC1 4038671 c.2034T>C synonymous_variant 0.19 pyrazinamide
clpC1 4038683 c.2022T>C synonymous_variant 0.2 pyrazinamide Not assoc w R - Interim
clpC1 4038695 c.2010C>G synonymous_variant 0.15 pyrazinamide
clpC1 4038704 c.2001T>C synonymous_variant 0.2 pyrazinamide
clpC1 4038707 c.1998C>G synonymous_variant 0.19 pyrazinamide
clpC1 4038710 c.1995G>C synonymous_variant 0.15 pyrazinamide
clpC1 4038713 c.1992T>C synonymous_variant 0.21 pyrazinamide
clpC1 4038773 c.1932T>C synonymous_variant 0.18 pyrazinamide
clpC1 4038782 c.1923G>C synonymous_variant 0.17 pyrazinamide
clpC1 4038812 c.1893T>C synonymous_variant 0.15 pyrazinamide
clpC1 4038908 c.1797C>G synonymous_variant 0.13 pyrazinamide
clpC1 4038914 c.1791G>C synonymous_variant 0.16 pyrazinamide
clpC1 4038923 c.1782A>G synonymous_variant 0.16 pyrazinamide
clpC1 4038953 c.1752A>G synonymous_variant 0.16 pyrazinamide
clpC1 4038956 c.1749T>C synonymous_variant 0.15 pyrazinamide
clpC1 4038965 c.1740T>C synonymous_variant 0.15 pyrazinamide
clpC1 4038971 c.1734T>C synonymous_variant 0.15 pyrazinamide
clpC1 4038974 c.1731T>C synonymous_variant 0.16 pyrazinamide Not assoc w R - Interim
clpC1 4038989 c.1716T>C synonymous_variant 0.15 pyrazinamide
clpC1 4038997 c.1708T>C synonymous_variant 0.13 pyrazinamide Not assoc w R - Interim
clpC1 4039004 c.1701C>G synonymous_variant 0.15 pyrazinamide
clpC1 4039022 c.1683A>G synonymous_variant 0.16 pyrazinamide
clpC1 4039103 c.1602T>C synonymous_variant 0.12 pyrazinamide
clpC1 4039274 c.1431G>C synonymous_variant 0.14 pyrazinamide Not assoc w R - Interim
clpC1 4039339 p.Thr456Pro missense_variant 0.14 pyrazinamide
clpC1 4039364 c.1341C>G synonymous_variant 0.19 pyrazinamide
clpC1 4039610 c.1095G>C synonymous_variant 0.16 pyrazinamide
clpC1 4039616 c.1089G>C synonymous_variant 0.17 pyrazinamide
clpC1 4039622 c.1083C>T synonymous_variant 0.13 pyrazinamide
clpC1 4039694 c.1011G>C synonymous_variant 0.15 pyrazinamide
clpC1 4039724 c.981A>G synonymous_variant 0.15 pyrazinamide
clpC1 4039729 p.Asp326Asn missense_variant 0.87 pyrazinamide Not assoc w R
clpC1 4039790 c.915C>G synonymous_variant 0.13 pyrazinamide
embC 4242643 c.2781C>T synonymous_variant 1.0 ethambutol Not assoc w R
embB 4248130 c.1617G>C synonymous_variant 0.15 ethambutol
whiB6 4338595 c.-75delG upstream_gene_variant 1.0 kanamycin Not assoc w R
capreomycin Not assoc w R
amikacin Not assoc w R