TB-Profiler result

Run: SRR1140724
Summary

Run ID: SRR1140724

Sample name:

Date: 2024-04-14T00:38:36.217172

Number of reads: 753505

Percentage reads mapped: 26.35

Median coverage: 13.0

Strain: lineage2.2.1

Spoligotype:

Drug-resistance: Other

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Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family RDs Frequency
lineage2 East-Asian RD105 0.98
lineage2.2.1 East-Asian (Beijing) RD105;RD207;RD181 0.99
lineage2.2 East-Asian (Beijing) RD105;RD207 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 embB p.Met306Ile Assoc w R
pyrazinamide
streptomycin
fluoroquinolones
moxifloxacin
ofloxacin
levofloxacin
ciprofloxacin
aminoglycosides
amikacin rrs n.1401A>G Assoc w R
n.1402C>A Uncertain significance Mutation from literature
n.1484G>T Assoc w R
capreomycin rrs n.1401A>G Assoc w R
n.1402C>A Uncertain significance Mutation from literature
n.1484G>T Assoc w R
kanamycin rrs n.1401A>G Assoc w R
n.1402C>A Uncertain significance Mutation from literature
n.1484G>T Assoc w R
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
rrs 1473246 n.1401A>G non_coding_transcript_exon_variant 0.24 capreomycin Assoc w R
amikacin Assoc w R
kanamycin Assoc w R
rrs 1473247 n.1402C>A non_coding_transcript_exon_variant 0.75 capreomycin Uncertain significance Mutation from literature
amikacin Uncertain significance Mutation from literature
kanamycin Uncertain significance Mutation from literature
rrs 1473329 n.1484G>T non_coding_transcript_exon_variant 0.77 capreomycin Assoc w R
amikacin Assoc w R
kanamycin Assoc w R
embB 4247431 p.Met306Ile missense_variant 1.0 ethambutol Assoc w R
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
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 8270 c.969G>C synonymous_variant 0.35 levofloxacin
moxifloxacin
gyrA 8283 c.982_984delATCinsCG frameshift_variant&missense_variant 0.44 levofloxacin
moxifloxacin
gyrA 8288 c.987T>C synonymous_variant 0.46 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8294 c.993T>G synonymous_variant 0.48 levofloxacin
moxifloxacin
gyrA 8296 p.Tyr332Phe missense_variant 0.48 levofloxacin
moxifloxacin
gyrA 8320 p.Ser340Asn missense_variant 0.44 levofloxacin
moxifloxacin
gyrA 8324 c.1023T>C synonymous_variant 0.4 levofloxacin
moxifloxacin
gyrA 8339 c.1038A>G synonymous_variant 0.47 levofloxacin
moxifloxacin
gyrA 8342 c.1041G>C synonymous_variant 0.43 levofloxacin
moxifloxacin
gyrA 8366 c.1065G>C synonymous_variant 0.35 levofloxacin
moxifloxacin
gyrA 8897 c.1596T>C synonymous_variant 0.46 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8903 c.1602T>C synonymous_variant 0.45 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8906 c.1605C>G synonymous_variant 0.45 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8907 p.Ser536Ala missense_variant 0.45 levofloxacin
moxifloxacin
gyrA 8915 c.1614A>G synonymous_variant 0.54 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8939 c.1638T>C synonymous_variant 0.53 levofloxacin
moxifloxacin
gyrA 8942 c.1641G>C synonymous_variant 0.51 levofloxacin
moxifloxacin
gyrA 8945 c.1644G>C synonymous_variant 0.5 levofloxacin
moxifloxacin
gyrA 8946 c.1645_1647delTTGinsCT frameshift_variant&synonymous_variant 0.5 levofloxacin
moxifloxacin
gyrA 8981 c.1680G>C synonymous_variant 0.43 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8982 p.Cys561Ser missense_variant 0.39 levofloxacin
moxifloxacin
gyrA 8996 c.1695T>C synonymous_variant 0.42 levofloxacin
moxifloxacin
gyrA 8998 p.Leu566Trp missense_variant 0.4 levofloxacin Uncertain significance
moxifloxacin Uncertain significance
gyrA 9016 p.Thr572Asn missense_variant 0.32 levofloxacin Uncertain significance
moxifloxacin Uncertain significance
gyrA 9304 p.Gly668Asp missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
fgd1 491742 c.960T>C synonymous_variant 1.0 clofazimine Not assoc w R
pretomanid
delamanid Not assoc w R - Interim
Rv0565c 657142 p.Arg110His missense_variant 1.0 ethionamide Uncertain significance
rpoB 760917 c.1111_1113delCGCinsAG frameshift_variant&missense_variant 0.25 rifampicin
rpoB 760925 c.1119T>C synonymous_variant 0.25 rifampicin
rpoB 760928 c.1122G>C synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoB 760934 c.1128C>A synonymous_variant 0.31 rifampicin
rpoB 760946 c.1140A>G synonymous_variant 0.32 rifampicin Not assoc w R - Interim
rpoB 760953 p.Ile383Val missense_variant 0.36 rifampicin
rpoB 760956 c.1150C>A synonymous_variant 0.38 rifampicin
rpoB 760964 c.1158C>G synonymous_variant 0.42 rifampicin Not assoc w R - Interim
rpoB 760965 p.Met387Leu missense_variant 0.4 rifampicin Uncertain significance
rpoB 760970 c.1164G>C synonymous_variant 0.42 rifampicin Not assoc w R - Interim
rpoB 760973 c.1167G>C synonymous_variant 0.42 rifampicin
rpoB 760991 c.1185G>C synonymous_variant 0.45 rifampicin
rpoB 761003 c.1197C>G synonymous_variant 0.43 rifampicin
rpoB 761006 c.1200C>G synonymous_variant 0.43 rifampicin Not assoc w R - Interim
rpoB 761051 c.1245G>C synonymous_variant 0.33 rifampicin Not assoc w R - Interim
rpoB 761064 p.Ala420Ser missense_variant 0.32 rifampicin Uncertain significance
rpoB 761070 p.Lys422Arg missense_variant 0.32 rifampicin
rpoB 761951 c.2145G>C synonymous_variant 0.63 rifampicin
rpoB 761955 p.Ile717Phe missense_variant 0.63 rifampicin
rpoB 761972 c.2166C>T synonymous_variant 0.68 rifampicin Not assoc w R - Interim
rpoB 761980 p.Tyr725Phe missense_variant 0.7 rifampicin
rpoB 761990 c.2184G>C synonymous_variant 0.62 rifampicin Not assoc w R - Interim
rpoB 762053 c.2247T>C synonymous_variant 0.58 rifampicin Not assoc w R - Interim
rpoB 762062 c.2256T>C synonymous_variant 0.53 rifampicin Not assoc w R - Interim
rpoB 762065 c.2259T>C synonymous_variant 0.5 rifampicin Not assoc w R - Interim
rpoB 762083 c.2277T>C synonymous_variant 0.56 rifampicin Not assoc w R - Interim
rpoB 762084 c.2278_2280delGCGinsCC frameshift_variant&missense_variant 0.56 rifampicin
rpoB 762122 p.Asp772Glu missense_variant 0.76 rifampicin
rpoB 762131 c.2325C>G synonymous_variant 0.76 rifampicin
rpoB 762134 c.2328C>G synonymous_variant 0.72 rifampicin Not assoc w R - Interim
rpoB 762143 c.2337T>C synonymous_variant 0.67 rifampicin
rpoB 762149 c.2343G>T synonymous_variant 0.59 rifampicin Not assoc w R - Interim
rpoB 762158 c.2352G>C synonymous_variant 0.67 rifampicin Not assoc w R - Interim
rpoB 762161 c.2355C>G synonymous_variant 0.69 rifampicin
rpoB 762176 c.2370T>G synonymous_variant 0.68 rifampicin
rpoB 762178 p.Arg791Gln missense_variant 0.68 rifampicin
rpoB 762185 c.2379G>C synonymous_variant 0.69 rifampicin Not assoc w R - Interim
rpoB 762218 c.2412T>C synonymous_variant 0.7 rifampicin
rpoB 762233 c.2427G>C synonymous_variant 0.68 rifampicin Not assoc w R - Interim
rpoB 762254 c.2448T>C synonymous_variant 0.7 rifampicin Not assoc w R - Interim
rpoB 762257 c.2451C>G synonymous_variant 0.68 rifampicin
rpoB 762266 c.2460T>C synonymous_variant 0.63 rifampicin
rpoB 762278 c.2472C>T synonymous_variant 0.6 rifampicin
rpoB 762293 c.2487T>C synonymous_variant 0.45 rifampicin Not assoc w R - Interim
rpoB 762296 c.2490G>C synonymous_variant 0.45 rifampicin Not assoc w R - Interim
rpoB 762299 c.2493G>C synonymous_variant 0.45 rifampicin
rpoB 762317 c.2511A>G synonymous_variant 0.31 rifampicin Not assoc w R - Interim
rpoB 762318 p.Ser838Thr missense_variant 0.31 rifampicin
rpoB 762329 c.2523G>C synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoC 762374 c.-996G>C upstream_gene_variant 0.3 rifampicin
rpoC 762380 c.-990T>C upstream_gene_variant 0.34 rifampicin
rpoC 762395 c.-975G>C upstream_gene_variant 0.44 rifampicin
rpoC 762398 c.-972T>G upstream_gene_variant 0.43 rifampicin
rpoB 762404 c.2598T>C synonymous_variant 0.55 rifampicin Not assoc w R - Interim
rpoC 762410 c.-960T>C upstream_gene_variant 0.61 rifampicin
rpoB 762416 c.2610A>G synonymous_variant 0.63 rifampicin Not assoc w R - Interim
rpoB 762426 p.Ser874Gln missense_variant 0.64 rifampicin
rpoC 762434 c.-936T>C upstream_gene_variant 0.72 rifampicin
rpoC 762443 c.-927G>C upstream_gene_variant 0.76 rifampicin
rpoB 762470 c.2664G>C synonymous_variant 0.71 rifampicin Not assoc w R - Interim
rpoC 762491 c.-879T>G upstream_gene_variant 0.68 rifampicin
rpoC 762503 c.-867G>C upstream_gene_variant 0.57 rifampicin
rpoC 762509 c.-861T>G upstream_gene_variant 0.5 rifampicin
rpoB 762510 c.2704_2706delGCCinsCG frameshift_variant&missense_variant 0.5 rifampicin
rpoC 762527 c.-843G>C upstream_gene_variant 0.48 rifampicin
rpoC 762533 c.-837T>C upstream_gene_variant 0.38 rifampicin
rpoB 762534 c.2728_2730delATTinsGG frameshift_variant&missense_variant 0.38 rifampicin
rpoC 762537 c.-833T>C upstream_gene_variant 0.36 rifampicin
rpoB 762543 c.2737_2739delACCinsCG frameshift_variant&missense_variant 0.36 rifampicin
rpoC 762581 c.-789T>C upstream_gene_variant 0.22 rifampicin
rpoC 762582 c.-788T>C upstream_gene_variant 0.23 rifampicin
rpoB 762858 c.3052_3054delACGinsGC frameshift_variant&missense_variant 0.54 rifampicin
rpoB 762863 c.3057T>C synonymous_variant 0.56 rifampicin Not assoc w R - Interim
rpoB 762878 p.Ile1024Met missense_variant 0.67 rifampicin
rpoB 762879 p.Met1025Leu missense_variant 0.69 rifampicin Uncertain significance
rpoB 762888 p.His1028Asn missense_variant 0.73 rifampicin
rpoB 762918 c.3112_3114delCGCinsAG frameshift_variant&missense_variant 0.6 rifampicin
rpoB 762929 c.3123G>C synonymous_variant 0.61 rifampicin Not assoc w R - Interim
rpoB 762995 c.3189G>C synonymous_variant 0.78 rifampicin Not assoc w R - Interim
rpoB 763028 c.3222T>C synonymous_variant 0.76 rifampicin Not assoc w R - Interim
rpoB 763031 c.3225T>C synonymous_variant 0.23 rifampicin Not assoc w R
rpoB 763031 c.3225T>G synonymous_variant 0.77 rifampicin Not assoc w R - Interim
rpoB 763040 c.3234C>G synonymous_variant 0.67 rifampicin Not assoc w R - Interim
rpoC 763052 c.-318G>C upstream_gene_variant 0.61 rifampicin
rpoC 763065 c.-305_-304delTCinsAG upstream_gene_variant 0.57 rifampicin
rpoB 763070 c.3264T>C synonymous_variant 0.57 rifampicin Not assoc w R - Interim
rpoB 763075 p.Thr1090Ile missense_variant 0.54 rifampicin
rpoB 763085 c.3279C>G synonymous_variant 0.65 rifampicin Not assoc w R - Interim
rpoB 763094 c.3288G>C synonymous_variant 0.58 rifampicin Not assoc w R - Interim
rpoC 763103 c.-267G>C upstream_gene_variant 0.58 rifampicin
rpoB 763104 c.3298_3300delATCinsGG frameshift_variant&missense_variant 0.61 rifampicin
rpoC 763109 c.-261C>G upstream_gene_variant 0.64 rifampicin
rpoB 763115 c.3309T>C synonymous_variant 0.64 rifampicin Not assoc w R - Interim
rpoB 763127 c.3321G>C synonymous_variant 0.54 rifampicin Not assoc w R - Interim
rpoB 763166 c.3360A>G synonymous_variant 0.5 rifampicin Not assoc w R - Interim
rpoC 763169 c.-201A>G upstream_gene_variant 0.5 rifampicin
rpoC 763480 c.111C>A synonymous_variant 0.5 rifampicin Not assoc w R - Interim
rpoC 763483 c.114G>C synonymous_variant 0.5 rifampicin
rpoC 763486 c.117T>G synonymous_variant 0.53 rifampicin
rpoC 763504 c.135C>G synonymous_variant 0.74 rifampicin
rpoC 763507 c.138G>C synonymous_variant 0.76 rifampicin
rpoC 763528 c.159G>C synonymous_variant 0.83 rifampicin
rpoC 763531 c.162G>C synonymous_variant 0.83 rifampicin Not assoc w R
rpoC 763534 c.165T>C synonymous_variant 0.83 rifampicin
rpoC 763537 c.168C>G synonymous_variant 0.81 rifampicin
rpoC 763546 c.177A>G synonymous_variant 0.73 rifampicin Not assoc w R - Interim
rpoC 763550 p.Tyr61Ala missense_variant 0.75 rifampicin
rpoC 763594 c.225C>T synonymous_variant 0.78 rifampicin Not assoc w R - Interim
rpoC 763621 c.252C>T synonymous_variant 0.61 rifampicin
rpoC 763630 c.261G>A synonymous_variant 0.6 rifampicin Not assoc w R - Interim
rpoC 763636 c.267T>C synonymous_variant 0.58 rifampicin
rpoC 763648 c.279C>T synonymous_variant 0.6 rifampicin
rpoC 763660 c.291T>G synonymous_variant 0.52 rifampicin Not assoc w R - Interim
rpoC 763666 c.297G>T synonymous_variant 0.57 rifampicin
rpoC 763669 c.300C>G synonymous_variant 0.57 rifampicin Not assoc w R - Interim
rpoC 763702 c.333C>G synonymous_variant 0.41 rifampicin Not assoc w R - Interim
rpoC 763703 c.334_336delTCGinsAGC synonymous_variant 0.41 rifampicin
rpoC 763711 c.342G>C synonymous_variant 0.44 rifampicin
rpoC 763714 c.345G>T synonymous_variant 0.44 rifampicin
rpoC 763717 c.348T>C synonymous_variant 0.46 rifampicin Not assoc w R - Interim
rpoC 763723 c.354G>C synonymous_variant 0.46 rifampicin
rpoC 763732 c.363C>G synonymous_variant 0.43 rifampicin
rpoC 763735 c.366G>C synonymous_variant 0.43 rifampicin
rpoC 763741 c.372C>T synonymous_variant 0.44 rifampicin
rpoC 763744 c.375G>C synonymous_variant 0.43 rifampicin
rpoC 763765 c.396T>C synonymous_variant 0.36 rifampicin
rpoC 763772 p.Val135Leu missense_variant 0.39 rifampicin
rpoC 764266 c.897T>G synonymous_variant 0.43 rifampicin Not assoc w R - Interim
rpoC 764269 c.900G>C synonymous_variant 0.43 rifampicin
rpoC 764278 c.909delAinsGGC frameshift_variant&synonymous_variant 0.38 rifampicin
rpoC 764284 c.915G>C synonymous_variant 0.35 rifampicin
rpoC 764297 p.Met310Leu missense_variant 0.42 rifampicin
rpoC 764311 c.942C>G synonymous_variant 0.5 rifampicin
rpoC 764315 p.Ala316Cys missense_variant 0.52 rifampicin
rpoC 764339 c.970_972delCTGinsAC frameshift_variant&missense_variant 0.59 rifampicin
rpoC 764359 c.990C>G synonymous_variant 0.53 rifampicin
rpoC 764452 c.1083T>C synonymous_variant 0.4 rifampicin
rpoC 764458 c.1089G>C synonymous_variant 0.47 rifampicin Not assoc w R - Interim
rpoC 764461 c.1092A>G synonymous_variant 0.47 rifampicin Not assoc w R - Interim
rpoC 764497 c.1128A>G synonymous_variant 0.64 rifampicin Not assoc w R - Interim
rpoC 764498 p.Ser377Ala missense_variant 0.64 rifampicin
rpoC 764503 c.1134G>C synonymous_variant 0.66 rifampicin
rpoC 764521 c.1152T>C synonymous_variant 0.65 rifampicin Not assoc w R - Interim
rpoC 764524 c.1155C>T synonymous_variant 0.66 rifampicin
rpoC 764536 c.1167G>C synonymous_variant 0.72 rifampicin
rpoC 764566 c.1197C>G synonymous_variant 0.79 rifampicin Not assoc w R - Interim
rpoC 764575 c.1206T>G synonymous_variant 0.83 rifampicin Not assoc w R - Interim
rpoC 764578 c.1209C>G synonymous_variant 0.83 rifampicin
rpoC 764611 c.1242G>T synonymous_variant 0.93 rifampicin Not assoc w R - Interim
rpoC 764644 c.1275G>C synonymous_variant 0.8 rifampicin Not assoc w R - Interim
rpoC 764650 c.1281G>C synonymous_variant 0.72 rifampicin
rpoC 764656 c.1287C>G synonymous_variant 0.68 rifampicin
rpoC 764662 c.1293G>C synonymous_variant 0.67 rifampicin Not assoc w R - Interim
rpoC 764677 c.1308C>G synonymous_variant 0.68 rifampicin Not assoc w R - Interim
rpoC 764690 p.Cys441Ala missense_variant 0.57 rifampicin
rpoC 764695 c.1326T>C synonymous_variant 0.58 rifampicin
rpoC 764701 c.1332C>G synonymous_variant 0.65 rifampicin Not assoc w R - Interim
rpoC 764746 c.1377G>A synonymous_variant 0.56 rifampicin
rpoC 764752 c.1383G>T synonymous_variant 0.54 rifampicin
rpoC 764758 c.1389C>G synonymous_variant 0.54 rifampicin Not assoc w R - Interim
rpoC 764759 p.Asn464Gly missense_variant 0.53 rifampicin
rpoC 764764 c.1395T>C synonymous_variant 0.49 rifampicin Not assoc w R - Interim
rpoC 764767 c.1398G>C synonymous_variant 0.5 rifampicin
rpoC 764780 c.1411_1412delAGinsTC synonymous_variant 0.61 rifampicin
rpoC 764791 c.1422C>G synonymous_variant 0.65 rifampicin Not assoc w R - Interim
rpoC 764812 c.1443C>G synonymous_variant 0.7 rifampicin
rpoC 764815 c.1446A>G synonymous_variant 0.67 rifampicin Not assoc w R - Interim
rpoC 764824 c.1455T>C synonymous_variant 0.7 rifampicin Not assoc w R - Interim
rpoC 764830 c.1461C>G synonymous_variant 0.64 rifampicin
rpoC 764833 c.1464A>G synonymous_variant 0.61 rifampicin
rpoC 764844 p.Ala492Gly missense_variant 0.49 rifampicin
rpoC 764847 p.Glu493Ala missense_variant 0.5 rifampicin
rpoC 764858 c.1489T>C synonymous_variant 0.51 rifampicin Not assoc w R - Interim
rpoC 764872 c.1503A>T synonymous_variant 0.62 rifampicin
rpoC 764893 c.1524T>C synonymous_variant 0.64 rifampicin
rpoC 764902 c.1533C>G synonymous_variant 0.62 rifampicin
rpoC 764911 c.1542A>G synonymous_variant 0.55 rifampicin
rpoC 764912 p.Met515Gln missense_variant 0.55 rifampicin Uncertain significance
rpoC 764920 c.1551G>C synonymous_variant 0.55 rifampicin
rpoC 764923 c.1554A>G synonymous_variant 0.55 rifampicin Not assoc w R - Interim
rpoC 764935 c.1566T>C synonymous_variant 0.57 rifampicin
rpoC 764939 c.1570C>T synonymous_variant 0.58 rifampicin
rpoC 764958 p.Glu530Ala missense_variant 0.54 rifampicin
rpoC 764968 c.1599T>C synonymous_variant 0.45 rifampicin Not assoc w R - Interim
rpoC 765932 p.Gly855Ser missense_variant 0.3 rifampicin Uncertain significance
rpoC 765937 c.2568T>G synonymous_variant 0.35 rifampicin
rpoC 765967 c.2598C>G synonymous_variant 0.39 rifampicin
rpoC 765976 p.Asp869Glu missense_variant 0.38 rifampicin Uncertain significance
rpoC 765979 c.2610C>G synonymous_variant 0.39 rifampicin Not assoc w R - Interim
rpoC 765982 c.2613C>T synonymous_variant 0.4 rifampicin Not assoc w R - Interim
rpoC 766843 c.3474T>C synonymous_variant 0.57 rifampicin Not assoc w R - Interim
rpoC 766846 c.3477C>G synonymous_variant 0.57 rifampicin Not assoc w R - Interim
rpoC 766868 p.Ile1167Val missense_variant 0.35 rifampicin
rpoC 767002 c.3633G>C synonymous_variant 0.57 rifampicin Not assoc w R - Interim
rpoC 767023 p.Asp1218Glu missense_variant 0.54 rifampicin
rpoC 767035 c.3666G>C synonymous_variant 0.57 rifampicin Not assoc w R - Interim
rpoC 767041 c.3672G>C synonymous_variant 0.54 rifampicin
rpoC 767044 c.3675G>C synonymous_variant 0.54 rifampicin Not assoc w R - Interim
rpoC 767059 c.3690T>C synonymous_variant 0.39 rifampicin Not assoc w R - Interim
rpoC 767060 p.Arg1231Lys missense_variant 0.39 rifampicin
rpoC 767068 c.3699G>C synonymous_variant 0.39 rifampicin
rpoC 767077 c.3708G>C synonymous_variant 0.43 rifampicin
rpoC 767087 p.Cys1240Gly missense_variant 0.36 rifampicin
rpoC 767098 c.3729T>C synonymous_variant 0.27 rifampicin Not assoc w R - Interim
mmpL5 776100 p.Thr794Ile missense_variant 1.0 clofazimine Not assoc w R
bedaquiline Not assoc w R - Interim
mmpL5 777597 p.Arg295Pro missense_variant 1.0 clofazimine
bedaquiline
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0 clofazimine
bedaquiline
rpsL 781395 c.-165T>C upstream_gene_variant 1.0 streptomycin Not assoc w R
rpsL 781772 c.213C>A synonymous_variant 0.47 streptomycin
rpsL 781793 c.234G>C synonymous_variant 0.52 streptomycin
rpsL 781796 p.Met79Ile missense_variant 0.55 streptomycin
rpsL 781805 c.246G>C synonymous_variant 0.54 streptomycin
rpsL 781817 c.258G>T synonymous_variant 0.63 streptomycin
rpsL 781832 c.273T>C synonymous_variant 0.67 streptomycin
rpsL 781835 c.276T>C synonymous_variant 0.71 streptomycin Not assoc w R - Interim
rpsL 781838 c.279G>T synonymous_variant 0.71 streptomycin
rpsL 781841 c.282C>T synonymous_variant 0.7 streptomycin
rpsL 781865 c.306G>C synonymous_variant 0.65 streptomycin
rpsL 781868 c.309T>C synonymous_variant 0.63 streptomycin
rpsL 781871 c.312G>C synonymous_variant 0.63 streptomycin
rpsL 781877 c.318T>C synonymous_variant 0.59 streptomycin
rpsL 781880 c.321C>G synonymous_variant 0.59 streptomycin
rpsL 781892 c.333A>G synonymous_variant 0.59 streptomycin
rpsL 781898 c.339A>T synonymous_variant 0.5 streptomycin
rpsL 781907 c.348T>G synonymous_variant 0.47 streptomycin
rplC 800648 c.-161A>G upstream_gene_variant 0.43 linezolid
rplC 800672 c.-137G>C upstream_gene_variant 0.6 linezolid
rplC 800693 c.-116A>G upstream_gene_variant 0.53 linezolid
rplC 800703 c.-106T>C upstream_gene_variant 0.53 linezolid
rplC 800715 c.-94A>C upstream_gene_variant 0.49 linezolid
rplC 800720 c.-89T>C upstream_gene_variant 0.45 linezolid
rplC 800723 c.-86C>G upstream_gene_variant 0.44 linezolid
rplC 800729 c.-80G>C upstream_gene_variant 0.43 linezolid
rplC 800735 c.-74C>G upstream_gene_variant 0.44 linezolid
Rv1129c 1254562 c.-28T>C upstream_gene_variant 1.0 moxifloxacin Not assoc w R
levofloxacin Not assoc w R
rifampicin Not assoc w R
isoniazid Not assoc w R
rrs 1471659 n.-187C>T upstream_gene_variant 1.0 streptomycin
kanamycin
capreomycin
amikacin
rrs 1471923 n.78T>C non_coding_transcript_exon_variant 0.41 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1471925 n.80T>C non_coding_transcript_exon_variant 0.42 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1471932 n.87A>G non_coding_transcript_exon_variant 0.44 streptomycin
kanamycin
capreomycin
amikacin
rrs 1471934 n.89A>G non_coding_transcript_exon_variant 0.45 streptomycin Uncertain significance
kanamycin
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472075 n.230A>G non_coding_transcript_exon_variant 0.54 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.71 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Not assoc w R
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.74 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472122 n.277G>A non_coding_transcript_exon_variant 0.84 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472148 n.303T>C non_coding_transcript_exon_variant 0.9 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.93 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Not assoc w R
amikacin Not assoc w R
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.96 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Not assoc w R
amikacin Not assoc w R
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.79 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Not assoc w R
amikacin Uncertain significance
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.64 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Not assoc w R
amikacin Not assoc w R
rrs 1472382 n.537G>A non_coding_transcript_exon_variant 0.55 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Not assoc w R
rrs 1472400 n.555C>T non_coding_transcript_exon_variant 0.6 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Not assoc w R
amikacin Not assoc w R
rrs 1472506 n.661A>T non_coding_transcript_exon_variant 0.53 streptomycin
kanamycin
capreomycin
amikacin
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.71 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Not assoc w R
rrs 1472572 n.727T>A non_coding_transcript_exon_variant 0.88 streptomycin
kanamycin
capreomycin
amikacin
rrs 1472581 n.736A>C non_coding_transcript_exon_variant 0.86 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472583 n.738T>A non_coding_transcript_exon_variant 0.86 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472584 n.739A>T non_coding_transcript_exon_variant 0.86 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.69 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Not assoc w R
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.69 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.7 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472791 n.946G>T non_coding_transcript_exon_variant 0.7 streptomycin
kanamycin
capreomycin
amikacin
rrs 1472952 n.1107T>C non_coding_transcript_exon_variant 0.76 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.78 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.82 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.91 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 0.91 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.88 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Not assoc w R
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.75 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.75 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Not assoc w R
rrs 1473065 n.1220C>A non_coding_transcript_exon_variant 0.73 streptomycin
kanamycin
capreomycin
amikacin
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.73 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473097 n.1252G>A non_coding_transcript_exon_variant 0.54 streptomycin
kanamycin
capreomycin
amikacin
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.5 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.48 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473105 n.1260G>A non_coding_transcript_exon_variant 0.48 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.5 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.5 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.52 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Not assoc w R
amikacin Not assoc w R
rrs 1473122 n.1277T>A non_coding_transcript_exon_variant 0.52 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Not assoc w R
amikacin Not assoc w R
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.68 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473158 n.1313T>C non_coding_transcript_exon_variant 0.76 streptomycin
kanamycin
capreomycin
amikacin
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.72 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.76 streptomycin Uncertain significance
kanamycin Not assoc w R
capreomycin Not assoc w R
amikacin Not assoc w R
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.79 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473283 n.1438T>C non_coding_transcript_exon_variant 0.73 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473290 n.1445C>T non_coding_transcript_exon_variant 0.72 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473291 n.1446_1447insT non_coding_transcript_exon_variant 0.76 streptomycin
kanamycin
capreomycin
amikacin
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.77 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473316 n.1471C>T non_coding_transcript_exon_variant 0.79 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrl 1473821 n.164T>C non_coding_transcript_exon_variant 0.5 capreomycin
linezolid
rrl 1473823 n.166T>C non_coding_transcript_exon_variant 0.5 capreomycin
linezolid
rrl 1473833 n.176_177insT non_coding_transcript_exon_variant 0.63 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473844 n.187C>T non_coding_transcript_exon_variant 0.62 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473870 n.213G>A non_coding_transcript_exon_variant 0.59 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473871 n.214T>C non_coding_transcript_exon_variant 0.55 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473876 n.219G>A non_coding_transcript_exon_variant 0.57 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473883 n.226A>G non_coding_transcript_exon_variant 0.47 capreomycin
linezolid
rrl 1473887 n.230T>A non_coding_transcript_exon_variant 0.47 capreomycin
linezolid
rrl 1473888 n.231T>C non_coding_transcript_exon_variant 0.47 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473890 n.233T>C non_coding_transcript_exon_variant 0.47 capreomycin
linezolid
rrl 1473898 n.241C>T non_coding_transcript_exon_variant 0.42 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473899 n.242A>T non_coding_transcript_exon_variant 0.42 capreomycin
linezolid
rrl 1473916 n.259C>A non_coding_transcript_exon_variant 0.37 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474153 n.496C>G non_coding_transcript_exon_variant 0.67 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474166 n.509G>C non_coding_transcript_exon_variant 0.75 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474181 n.524C>A non_coding_transcript_exon_variant 0.69 capreomycin
linezolid
rrl 1474184 n.527C>T non_coding_transcript_exon_variant 0.69 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474186 n.529A>G non_coding_transcript_exon_variant 0.69 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474201 n.544T>C non_coding_transcript_exon_variant 0.71 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474202 n.545T>A non_coding_transcript_exon_variant 0.71 capreomycin
linezolid
rrl 1474218 n.561T>A non_coding_transcript_exon_variant 0.74 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.68 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474263 n.606G>A non_coding_transcript_exon_variant 0.58 capreomycin Uncertain significance
linezolid
rrl 1474269 n.612C>T non_coding_transcript_exon_variant 0.47 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474359 n.702C>G non_coding_transcript_exon_variant 0.36 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474381 n.724T>A non_coding_transcript_exon_variant 0.43 capreomycin
linezolid
rrl 1474387 n.730C>T non_coding_transcript_exon_variant 0.42 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474402 n.745T>C non_coding_transcript_exon_variant 0.54 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474466 n.809G>A non_coding_transcript_exon_variant 0.57 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474488 n.831G>A non_coding_transcript_exon_variant 0.62 capreomycin
linezolid
rrl 1474496 n.839C>A non_coding_transcript_exon_variant 0.52 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474497 n.840G>C non_coding_transcript_exon_variant 0.52 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474506 n.849C>G non_coding_transcript_exon_variant 0.48 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474507 n.850G>T non_coding_transcript_exon_variant 0.48 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474516 n.859C>T non_coding_transcript_exon_variant 0.52 capreomycin
linezolid
rrl 1474529 n.872A>C non_coding_transcript_exon_variant 0.48 capreomycin
linezolid
rrl 1474530 n.873G>A non_coding_transcript_exon_variant 0.48 capreomycin
linezolid
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.43 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474539 n.882C>T non_coding_transcript_exon_variant 0.43 capreomycin
linezolid
rrl 1474540 n.883T>G non_coding_transcript_exon_variant 0.46 capreomycin
linezolid
rrl 1474583 n.926C>T non_coding_transcript_exon_variant 0.52 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474779 n.1122G>A non_coding_transcript_exon_variant 0.77 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474784 n.1127C>T non_coding_transcript_exon_variant 0.72 capreomycin
linezolid
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.71 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 0.76 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.75 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474831 n.1174A>C non_coding_transcript_exon_variant 0.77 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474837 n.1180A>G non_coding_transcript_exon_variant 0.83 capreomycin
linezolid
rrl 1474869 n.1212G>T non_coding_transcript_exon_variant 0.8 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474901 n.1244A>G non_coding_transcript_exon_variant 0.68 capreomycin
linezolid
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.68 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474905 n.1248T>C non_coding_transcript_exon_variant 0.64 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474913 n.1256T>C non_coding_transcript_exon_variant 0.65 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475090 n.1433A>T non_coding_transcript_exon_variant 0.69 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475113 n.1456C>T non_coding_transcript_exon_variant 0.75 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475114 n.1457C>T non_coding_transcript_exon_variant 0.75 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475116 n.1459G>A non_coding_transcript_exon_variant 0.71 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475499 n.1842C>T non_coding_transcript_exon_variant 0.67 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475526 n.1869C>A non_coding_transcript_exon_variant 0.68 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475536 n.1879C>T non_coding_transcript_exon_variant 0.61 capreomycin
linezolid
rrl 1475538 n.1881T>A non_coding_transcript_exon_variant 0.64 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475539 n.1882A>T non_coding_transcript_exon_variant 0.64 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475544 n.1887A>C non_coding_transcript_exon_variant 0.64 capreomycin
linezolid
rrl 1475545 n.1888T>G non_coding_transcript_exon_variant 0.64 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475573 n.1916G>A non_coding_transcript_exon_variant 0.62 capreomycin Uncertain significance
linezolid
rrl 1475649 n.1992A>G non_coding_transcript_exon_variant 0.55 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475655 n.1998T>C non_coding_transcript_exon_variant 0.58 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475659 n.2002G>A non_coding_transcript_exon_variant 0.71 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475688 n.2031G>A non_coding_transcript_exon_variant 0.8 capreomycin
linezolid
rrl 1475692 n.2035G>T non_coding_transcript_exon_variant 0.79 capreomycin
linezolid
rrl 1475707 n.2050T>C non_coding_transcript_exon_variant 0.62 capreomycin Uncertain significance
linezolid
rrl 1475713 n.2056C>T non_coding_transcript_exon_variant 0.65 capreomycin
linezolid
rrl 1475753 n.2096C>G non_coding_transcript_exon_variant 0.46 capreomycin Uncertain significance
linezolid
rrl 1475775 n.2118G>T non_coding_transcript_exon_variant 0.42 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475883 n.2226A>G non_coding_transcript_exon_variant 0.84 capreomycin Uncertain significance
linezolid
rrl 1475900 n.2243A>G non_coding_transcript_exon_variant 0.8 capreomycin Uncertain significance
linezolid
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.72 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475970 n.2313C>T non_coding_transcript_exon_variant 0.71 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.7 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.67 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.64 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1475997 n.2340A>T non_coding_transcript_exon_variant 0.53 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476000 n.2343G>A non_coding_transcript_exon_variant 0.53 capreomycin
linezolid
rrl 1476001 n.2344T>C non_coding_transcript_exon_variant 0.53 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476164 n.2507A>G non_coding_transcript_exon_variant 0.72 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476165 n.2508T>A non_coding_transcript_exon_variant 0.75 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476179 n.2522C>T non_coding_transcript_exon_variant 0.69 capreomycin
linezolid
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.6 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.61 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 0.64 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476213 n.2556G>T non_coding_transcript_exon_variant 0.62 capreomycin
linezolid
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.57 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.57 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476229 n.2572C>A non_coding_transcript_exon_variant 0.57 capreomycin
linezolid
rrl 1476279 n.2622G>A non_coding_transcript_exon_variant 0.62 capreomycin Uncertain significance
linezolid
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.62 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476297 n.2640C>A non_coding_transcript_exon_variant 0.74 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476300 n.2643G>T non_coding_transcript_exon_variant 0.78 capreomycin
linezolid
rrl 1476301 n.2644A>T non_coding_transcript_exon_variant 0.78 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.84 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.86 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476423 n.2766T>C non_coding_transcript_exon_variant 0.9 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.89 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.77 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476523 n.2866T>C non_coding_transcript_exon_variant 0.6 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.6 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.6 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476528 n.2871A>G non_coding_transcript_exon_variant 0.6 capreomycin Uncertain significance
linezolid
rrl 1476529 n.2872A>T non_coding_transcript_exon_variant 0.6 capreomycin Uncertain significance
linezolid
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.6 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476539 n.2882A>G non_coding_transcript_exon_variant 0.6 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.6 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.68 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476585 n.2928A>G non_coding_transcript_exon_variant 0.68 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476594 n.2937C>T non_coding_transcript_exon_variant 0.56 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476597 n.2940G>A non_coding_transcript_exon_variant 0.54 capreomycin Uncertain significance
linezolid
rrl 1476603 n.2946G>A non_coding_transcript_exon_variant 0.54 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476608 n.2951C>G non_coding_transcript_exon_variant 0.54 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476614 n.2957A>T non_coding_transcript_exon_variant 0.52 capreomycin
linezolid
rrl 1476619 n.2962C>T non_coding_transcript_exon_variant 0.52 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476628 n.2971T>A non_coding_transcript_exon_variant 0.5 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476629 n.2972C>A non_coding_transcript_exon_variant 0.5 capreomycin Uncertain significance
linezolid
rrl 1476630 n.2973A>G non_coding_transcript_exon_variant 0.5 capreomycin Uncertain significance
linezolid Uncertain significance
rpsA 1833646 c.105T>C synonymous_variant 0.61 pyrazinamide Not assoc w R - Interim
rpsA 1833666 p.Thr42Ser missense_variant 0.7 pyrazinamide
rpsA 1833676 c.135A>G synonymous_variant 0.68 pyrazinamide
rpsA 1833677 c.136_138delGTGinsAC frameshift_variant&missense_variant 0.68 pyrazinamide Uncertain significance
rpsA 1833685 c.144G>C synonymous_variant 0.72 pyrazinamide
rpsA 1833697 c.156C>G synonymous_variant 0.66 pyrazinamide
rpsA 1833709 c.168C>T synonymous_variant 0.57 pyrazinamide
rpsA 1833727 c.186G>C synonymous_variant 0.59 pyrazinamide
rpsA 1833734 p.Ala65Ser missense_variant 0.55 pyrazinamide
rpsA 1833949 c.408T>C synonymous_variant 0.53 pyrazinamide
rpsA 1833970 c.429G>T synonymous_variant 0.6 pyrazinamide
rpsA 1833979 c.438T>C synonymous_variant 0.55 pyrazinamide
rpsA 1833991 c.450C>G synonymous_variant 0.62 pyrazinamide
rpsA 1834000 c.459G>C synonymous_variant 0.65 pyrazinamide
rpsA 1834012 c.471G>T synonymous_variant 0.63 pyrazinamide
rpsA 1834015 c.474G>C synonymous_variant 0.66 pyrazinamide
rpsA 1834030 c.489C>G synonymous_variant 0.56 pyrazinamide
rpsA 1834034 p.Ile165Val missense_variant 0.52 pyrazinamide
rpsA 1834040 p.Lys167Arg missense_variant 0.5 pyrazinamide
rpsA 1834043 p.Glu168Gln missense_variant 0.48 pyrazinamide
rpsA 1834046 c.505_507delATCinsCG frameshift_variant&missense_variant 0.48 pyrazinamide Uncertain significance
rpsA 1834051 p.Glu170Asp missense_variant 0.56 pyrazinamide
rpsA 1834069 c.528G>C synonymous_variant 0.67 pyrazinamide
rpsA 1834177 c.636A>C synonymous_variant 1.0 pyrazinamide Not assoc w R - Interim
rpsA 1834213 c.672G>C synonymous_variant 0.48 pyrazinamide
rpsA 1834231 c.690T>G synonymous_variant 0.52 pyrazinamide
rpsA 1834240 c.699T>C synonymous_variant 0.6 pyrazinamide
rpsA 1834249 c.708T>C synonymous_variant 0.62 pyrazinamide
rpsA 1834261 c.720A>G synonymous_variant 0.68 pyrazinamide Not assoc w R - Interim
rpsA 1834264 c.723G>C synonymous_variant 0.7 pyrazinamide
rpsA 1834298 p.Gln253Glu missense_variant 0.75 pyrazinamide
rpsA 1834303 c.762T>C synonymous_variant 0.67 pyrazinamide
rpsA 1834306 c.765T>C synonymous_variant 0.62 pyrazinamide
rpsA 1834307 c.766_768delGACinsCG frameshift_variant&missense_variant 0.62 pyrazinamide Uncertain significance
rpsA 1834312 c.771G>A synonymous_variant 0.66 pyrazinamide
rpsA 1834330 c.789C>T synonymous_variant 0.62 pyrazinamide
rpsA 1834333 c.792C>T synonymous_variant 0.63 pyrazinamide
rpsA 1834348 c.807T>C synonymous_variant 0.66 pyrazinamide Not assoc w R - Interim
rpsA 1834357 c.816T>C synonymous_variant 0.64 pyrazinamide
rpsA 1834361 c.820T>C synonymous_variant 0.66 pyrazinamide
rpsA 1834366 c.825A>G synonymous_variant 0.6 pyrazinamide Not assoc w R - Interim
rpsA 1834375 c.834G>C synonymous_variant 0.62 pyrazinamide
rpsA 1834378 c.837T>C synonymous_variant 0.59 pyrazinamide Not assoc w R - Interim
rpsA 1834387 c.846C>T synonymous_variant 0.67 pyrazinamide
rpsA 1834390 c.849G>C synonymous_variant 0.68 pyrazinamide
rpsA 1834411 c.870T>C synonymous_variant 0.71 pyrazinamide
rpsA 1834423 c.882G>C synonymous_variant 0.73 pyrazinamide
rpsA 1834438 c.897C>T synonymous_variant 0.63 pyrazinamide Not assoc w R - Interim
rpsA 1834439 p.Lys300Arg missense_variant 0.63 pyrazinamide
rpsA 1834451 c.910T>C synonymous_variant 0.67 pyrazinamide
rpsA 1834456 c.915T>G synonymous_variant 0.7 pyrazinamide
rpsA 1834468 c.927A>G synonymous_variant 0.6 pyrazinamide
rpsA 1834477 c.936C>G synonymous_variant 0.47 pyrazinamide
rpsA 1834480 c.939C>G synonymous_variant 0.47 pyrazinamide
rpsA 1834481 c.940_942delGAGinsTC frameshift_variant&missense_variant 0.47 pyrazinamide Uncertain significance
rpsA 1834486 p.Glu315Asp missense_variant 0.5 pyrazinamide
rpsA 1834489 c.948T>C synonymous_variant 0.5 pyrazinamide
rpsA 1834498 c.957C>T synonymous_variant 0.47 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
kasA 2517917 c.-198G>A upstream_gene_variant 0.3 isoniazid
kasA 2517921 c.-194A>G upstream_gene_variant 0.3 isoniazid
Rv2477c 2782903 c.1140C>G synonymous_variant 0.47 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2782913 p.Ser377Asn missense_variant 0.64 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2782927 p.Thr372Gln missense_variant 0.63 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2782936 c.1107G>C synonymous_variant 0.7 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2782957 c.1086A>G synonymous_variant 0.7 ethambutol Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
streptomycin Not assoc w R - Interim
levofloxacin Not assoc w R - Interim
kanamycin Not assoc w R - Interim
rifampicin Not assoc w R - Interim
amikacin Not assoc w R - Interim
Rv2477c 2782969 c.1074A>C synonymous_variant 0.66 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2782972 c.1071G>C synonymous_variant 0.65 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2782981 c.1062G>C synonymous_variant 0.62 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2782984 c.1059T>C synonymous_variant 0.58 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2782990 c.1053C>T synonymous_variant 0.58 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783143 p.Lys300Arg missense_variant 0.45 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783149 c.894G>C synonymous_variant 0.5 ethambutol
moxifloxacin Not assoc w R - Interim
streptomycin
levofloxacin Not assoc w R - Interim
kanamycin Not assoc w R - Interim
rifampicin Not assoc w R - Interim
amikacin Not assoc w R - Interim
Rv2477c 2783157 p.Ala296Thr missense_variant 0.5 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2783158 c.885A>C synonymous_variant 0.5 ethambutol Not assoc w R - Interim
moxifloxacin
streptomycin
levofloxacin Not assoc w R - Interim
kanamycin Not assoc w R - Interim
rifampicin Not assoc w R - Interim
amikacin Not assoc w R - Interim
fbiD 3339564 c.447G>A synonymous_variant 1.0 clofazimine
pretomanid
delamanid
Rv3236c 3612813 p.Thr102Ala missense_variant 0.9 pyrazinamide Not assoc w R - Interim
mtrB 3625065 p.Met517Leu missense_variant 0.91 bedaquiline Uncertain significance
rifampicin Not assoc w R
rpoA 3877623 c.885C>T synonymous_variant 0.35 rifampicin
rpoA 3877629 c.879C>G synonymous_variant 0.34 rifampicin
rpoA 3877656 c.852T>G synonymous_variant 0.4 rifampicin Not assoc w R - Interim
rpoA 3878053 p.Asn152Ser missense_variant 1.0 rifampicin
clpC1 4038773 c.1932T>C synonymous_variant 0.46 pyrazinamide
clpC1 4038779 c.1926C>G synonymous_variant 0.44 pyrazinamide
clpC1 4038794 p.Ser637Thr missense_variant 0.56 pyrazinamide
clpC1 4038810 p.Gln632Pro missense_variant 0.55 pyrazinamide
clpC1 4038812 c.1893T>C synonymous_variant 0.57 pyrazinamide
clpC1 4038860 c.1845G>C synonymous_variant 0.77 pyrazinamide Not assoc w R - Interim
clpC1 4038868 p.Lys613Gln missense_variant 0.15 pyrazinamide
clpC1 4038869 c.1836G>A synonymous_variant 0.16 pyrazinamide
clpC1 4038878 c.1827A>G synonymous_variant 0.48 pyrazinamide Not assoc w R - Interim
clpC1 4038881 c.1824C>G synonymous_variant 0.24 pyrazinamide
clpC1 4038905 c.1800A>G synonymous_variant 0.43 pyrazinamide
clpC1 4039018 p.Ser563Thr missense_variant 0.45 pyrazinamide
clpC1 4039022 c.1683A>G synonymous_variant 0.45 pyrazinamide
clpC1 4039028 c.1677G>A synonymous_variant 0.46 pyrazinamide
clpC1 4039046 c.1659C>G synonymous_variant 0.45 pyrazinamide
clpC1 4039067 c.1638G>C synonymous_variant 0.52 pyrazinamide
clpC1 4039070 c.1635G>C synonymous_variant 0.44 pyrazinamide
clpC1 4039073 c.1632C>A synonymous_variant 0.48 pyrazinamide
clpC1 4039079 c.1626C>G synonymous_variant 0.46 pyrazinamide Not assoc w R - Interim
clpC1 4039082 c.1623C>T synonymous_variant 0.46 pyrazinamide
clpC1 4039085 c.1620A>G synonymous_variant 0.43 pyrazinamide
clpC1 4039090 c.1615C>T synonymous_variant 0.41 pyrazinamide
clpC1 4039091 c.1614G>C synonymous_variant 0.42 pyrazinamide
clpC1 4039106 c.1599G>C synonymous_variant 0.39 pyrazinamide
clpC1 4039217 c.1488G>C synonymous_variant 0.29 pyrazinamide
clpC1 4039226 c.1479T>C synonymous_variant 0.32 pyrazinamide Not assoc w R - Interim
clpC1 4039229 c.1476C>G synonymous_variant 0.32 pyrazinamide
clpC1 4039239 p.Gly489Ala missense_variant 0.32 pyrazinamide
clpC1 4039622 c.1083C>G synonymous_variant 0.4 pyrazinamide
clpC1 4039646 p.Glu353Ala missense_variant 0.32 pyrazinamide
clpC1 4039682 c.1023C>T synonymous_variant 0.25 pyrazinamide
clpC1 4039685 c.1020C>G synonymous_variant 0.25 pyrazinamide
clpC1 4039694 c.1011G>C synonymous_variant 0.26 pyrazinamide
clpC1 4039697 c.1006_1008delGCCinsCG frameshift_variant&synonymous_variant 0.56 pyrazinamide
clpC1 4039711 p.Ile332Val missense_variant 0.37 pyrazinamide
clpC1 4039724 c.981A>G synonymous_variant 0.62 pyrazinamide
clpC1 4039733 c.972G>C synonymous_variant 0.56 pyrazinamide
clpC1 4039742 c.963C>T synonymous_variant 0.42 pyrazinamide
clpC1 4039748 c.957G>C synonymous_variant 0.52 pyrazinamide
clpC1 4039751 c.954A>G synonymous_variant 0.43 pyrazinamide
clpC1 4039757 c.948A>G synonymous_variant 0.38 pyrazinamide
clpC1 4039760 c.945T>C synonymous_variant 0.4 pyrazinamide
clpC1 4039766 c.939T>C synonymous_variant 0.54 pyrazinamide
clpC1 4039769 c.936C>G synonymous_variant 0.42 pyrazinamide
clpC1 4039773 p.Lys311Met missense_variant 0.52 pyrazinamide
clpC1 4039778 c.927A>G synonymous_variant 0.46 pyrazinamide
clpC1 4039787 c.916_918delTCGinsAGC synonymous_variant 0.48 pyrazinamide
clpC1 4039817 c.888A>C synonymous_variant 0.66 pyrazinamide Not assoc w R - Interim
clpC1 4039820 c.885T>C synonymous_variant 0.66 pyrazinamide Not assoc w R - Interim
clpC1 4039829 c.874_876delTTGinsCC frameshift_variant&missense_variant 0.69 pyrazinamide
clpC1 4039838 c.865_867delCTGinsAC frameshift_variant&missense_variant 0.62 pyrazinamide
clpC1 4039850 c.855T>C synonymous_variant 0.68 pyrazinamide
clpC1 4039855 p.Leu284Met missense_variant 0.67 pyrazinamide
clpC1 4039865 c.840T>C synonymous_variant 0.69 pyrazinamide
clpC1 4039875 p.Asn277Arg missense_variant 0.65 pyrazinamide
clpC1 4039898 c.807C>G synonymous_variant 0.64 pyrazinamide
clpC1 4039901 c.804C>G synonymous_variant 0.59 pyrazinamide
clpC1 4039904 c.801A>G synonymous_variant 0.57 pyrazinamide
clpC1 4039907 c.798G>A synonymous_variant 0.55 pyrazinamide Not assoc w R - Interim
clpC1 4039916 c.789T>C synonymous_variant 0.52 pyrazinamide
clpC1 4039929 c.775_776delAGinsTC synonymous_variant 0.32 pyrazinamide
clpC1 4039934 c.771G>C synonymous_variant 0.31 pyrazinamide
clpC1 4040015 c.690G>C synonymous_variant 0.53 pyrazinamide
clpC1 4040024 c.681A>G synonymous_variant 0.61 pyrazinamide
clpC1 4040033 c.672G>C synonymous_variant 0.65 pyrazinamide
clpC1 4040084 c.621C>G synonymous_variant 0.62 pyrazinamide
clpC1 4040087 c.618G>T synonymous_variant 0.55 pyrazinamide
clpC1 4040090 c.615T>C synonymous_variant 0.5 pyrazinamide Not assoc w R - Interim
clpC1 4040093 c.612C>G synonymous_variant 0.5 pyrazinamide Not assoc w R - Interim
clpC1 4040315 p.Glu130Asp missense_variant 0.62 pyrazinamide
clpC1 4040324 c.381G>C synonymous_variant 0.73 pyrazinamide
clpC1 4040348 c.357G>C synonymous_variant 0.64 pyrazinamide
clpC1 4040351 c.354C>T synonymous_variant 0.6 pyrazinamide
clpC1 4040357 c.348T>C synonymous_variant 0.6 pyrazinamide
clpC1 4040363 c.342A>C synonymous_variant 0.55 pyrazinamide
clpC1 4040375 c.330G>C synonymous_variant 0.52 pyrazinamide
clpC1 4040380 c.325T>C synonymous_variant 0.48 pyrazinamide
clpC1 4040387 c.318A>G synonymous_variant 0.46 pyrazinamide
clpC1 4040393 c.312G>C synonymous_variant 0.43 pyrazinamide Not assoc w R - Interim
clpC1 4040618 c.87C>T synonymous_variant 0.3 pyrazinamide
clpC1 4040644 c.61A>C synonymous_variant 0.32 pyrazinamide
clpC1 4040654 c.51G>A synonymous_variant 0.37 pyrazinamide
clpC1 4040657 c.48T>C synonymous_variant 0.37 pyrazinamide Not assoc w R - Interim
clpC1 4040669 c.36C>T synonymous_variant 0.38 pyrazinamide
clpC1 4040674 c.31A>C synonymous_variant 0.41 pyrazinamide
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
whiB6 4338595 c.-75delG upstream_gene_variant 1.0 capreomycin Not assoc w R
amikacin Not assoc w R
kanamycin Not assoc w R
whiB6 4338732 c.-211C>T upstream_gene_variant 1.0 capreomycin
amikacin
kanamycin
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