TB-Profiler result

Run: ERR12015084
Summary

Run ID: ERR12015084

Sample name:

Date: 2024-04-13T23:16:53.724496

Number of reads: 732810

Percentage reads mapped: 99.1

Median coverage: 27.0

Strain: lineage4.8

Spoligotype:

Drug-resistance: Other

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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 0.99
Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations WHO confidence Comment
rifampicin
isoniazid
ethambutol
pyrazinamide
streptomycin rrs n.462C>T Uncertain significance Mutation from literature
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
rrs 1472307 n.462C>T non_coding_transcript_exon_variant 0.42 streptomycin 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
dnaA 371 p.Pro124Leu missense_variant 1.0 isoniazid Not assoc w R
gyrA 7362 p.Glu21Gln missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
nusG 734442 c.189G>A synonymous_variant 0.3 rifampicin
rpoB 760244 c.438G>C synonymous_variant 0.23 rifampicin Not assoc w R - Interim
rpoB 760973 c.1167G>C synonymous_variant 0.3 rifampicin
rpoB 760982 c.1176G>C synonymous_variant 0.33 rifampicin Not assoc w R - Interim
rpoB 760991 c.1185G>C synonymous_variant 0.36 rifampicin
rpoB 761006 c.1200C>G synonymous_variant 0.31 rifampicin Not assoc w R - Interim
rpoB 761015 c.1209G>C synonymous_variant 0.34 rifampicin Not assoc w R - Interim
rpoB 761021 c.1215G>C synonymous_variant 0.34 rifampicin
rpoB 761027 c.1221A>G synonymous_variant 0.35 rifampicin Not assoc w R - Interim
rpoB 761036 c.1230G>C synonymous_variant 0.3 rifampicin Not assoc w R - Interim
rpoB 761037 c.1231T>C synonymous_variant 0.3 rifampicin Not assoc w R - Interim
rpoB 761057 c.1251G>C synonymous_variant 0.37 rifampicin Not assoc w R - Interim
rpoB 761084 c.1278C>G synonymous_variant 0.33 rifampicin
rpoB 761097 c.1291_1293delAGCinsTCG synonymous_variant 0.33 rifampicin
rpoB 761102 c.1296A>G synonymous_variant 0.33 rifampicin
rpoB 761129 c.1323G>C synonymous_variant 0.26 rifampicin Not assoc w R - Interim
rpoB 761195 c.1389G>C synonymous_variant 0.3 rifampicin Not assoc w R - Interim
rpoB 761207 c.1401C>T synonymous_variant 0.32 rifampicin
rpoB 761261 c.1455G>T synonymous_variant 0.32 rifampicin Not assoc w R - Interim
rpoB 762047 c.2241G>A synonymous_variant 0.28 rifampicin Not assoc w R - Interim
rpoB 762053 c.2247T>C synonymous_variant 0.27 rifampicin Not assoc w R - Interim
rpoB 762062 c.2256T>C synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoB 762065 c.2259T>C synonymous_variant 0.27 rifampicin Not assoc w R - Interim
rpoB 762074 c.2268C>G synonymous_variant 0.32 rifampicin
rpoB 762083 c.2277T>C synonymous_variant 0.35 rifampicin Not assoc w R - Interim
rpoB 762086 c.2280G>C synonymous_variant 0.35 rifampicin Not assoc w R - Interim
rpoB 762101 c.2295C>G synonymous_variant 0.36 rifampicin Not assoc w R - Interim
rpoB 762114 p.Ile770Val missense_variant 0.35 rifampicin Uncertain significance
rpoB 762131 c.2325C>G synonymous_variant 0.39 rifampicin
rpoB 762143 c.2337T>C synonymous_variant 0.4 rifampicin
rpoB 762149 c.2343G>C synonymous_variant 0.43 rifampicin Not assoc w R - Interim
rpoB 762185 c.2379G>C synonymous_variant 0.45 rifampicin Not assoc w R - Interim
rpoB 762221 c.2415G>A synonymous_variant 0.52 rifampicin
rpoB 762233 c.2427G>C synonymous_variant 0.52 rifampicin Not assoc w R - Interim
rpoB 762254 c.2448T>C synonymous_variant 0.5 rifampicin Not assoc w R - Interim
rpoB 762257 c.2451C>G synonymous_variant 0.52 rifampicin
rpoB 762284 c.2478G>T synonymous_variant 0.45 rifampicin
rpoB 762293 c.2487T>C synonymous_variant 0.43 rifampicin Not assoc w R - Interim
rpoB 762296 c.2490G>C synonymous_variant 0.42 rifampicin Not assoc w R - Interim
rpoB 762317 c.2511A>G synonymous_variant 0.42 rifampicin Not assoc w R - Interim
rpoB 762329 c.2523G>C synonymous_variant 0.38 rifampicin Not assoc w R - Interim
rpoB 762338 c.2532T>C synonymous_variant 0.36 rifampicin
rpoB 762347 c.2541T>C synonymous_variant 0.36 rifampicin
rpoB 762362 p.Glu852Asp missense_variant 0.4 rifampicin
rpoB 762369 c.2563T>C synonymous_variant 0.38 rifampicin
rpoC 762398 c.-972T>C upstream_gene_variant 0.29 rifampicin
rpoC 762401 c.-969G>C upstream_gene_variant 0.27 rifampicin
rpoB 762404 c.2598T>C synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoC 762410 c.-960T>C upstream_gene_variant 0.28 rifampicin
rpoB 762416 c.2610A>G synonymous_variant 0.27 rifampicin Not assoc w R - Interim
rpoB 762860 c.3054G>C synonymous_variant 0.32 rifampicin Not assoc w R - Interim
rpoB 762899 c.3093G>C synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoB 762929 c.3123G>T synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoC 762947 c.-423C>G upstream_gene_variant 0.19 rifampicin
rpoB 762962 c.3156C>T synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoC 762989 c.-381G>C upstream_gene_variant 0.29 rifampicin
rpoB 762995 c.3189G>T synonymous_variant 0.28 rifampicin Not assoc w R - Interim
rpoC 762998 c.-372G>A upstream_gene_variant 0.22 rifampicin
rpoB 763028 c.3222T>C synonymous_variant 0.27 rifampicin Not assoc w R - Interim
rpoB 763031 c.3225T>G synonymous_variant 0.27 rifampicin Not assoc w R - Interim
rpoB 763034 c.3228C>G synonymous_variant 0.25 rifampicin Not assoc w R - Interim
rpoB 763040 c.3234C>G synonymous_variant 0.25 rifampicin Not assoc w R - Interim
rpoB 763070 c.3264T>C synonymous_variant 0.26 rifampicin Not assoc w R - Interim
rpoB 763085 c.3279C>G synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoB 763115 c.3309T>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 763441 c.72C>T synonymous_variant 0.17 rifampicin
rpoC 763444 c.75T>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 763456 c.87A>G synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 763486 c.117T>G synonymous_variant 0.19 rifampicin
rpoC 763528 c.159G>A synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoC 763546 c.177A>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 763570 c.201G>C synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoC 763573 c.204G>C synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoC 763576 c.207C>G synonymous_variant 0.2 rifampicin
rpoC 763594 c.225C>T synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoC 763600 c.231C>T synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 763603 c.234C>T synonymous_variant 0.25 rifampicin Not assoc w R - Interim
rpoC 763636 c.267T>C synonymous_variant 0.17 rifampicin
rpoC 763660 c.291T>G synonymous_variant 0.27 rifampicin Not assoc w R - Interim
rpoC 763675 c.306C>G synonymous_variant 0.3 rifampicin Not assoc w R - Interim
rpoC 763696 c.327T>C synonymous_variant 0.25 rifampicin Not assoc w R - Interim
rpoC 763702 c.333C>G synonymous_variant 0.27 rifampicin Not assoc w R - Interim
rpoC 763723 c.354G>C synonymous_variant 0.25 rifampicin
rpoC 763732 c.363C>G synonymous_variant 0.28 rifampicin
rpoC 763741 c.372C>T synonymous_variant 0.28 rifampicin
rpoC 763744 c.375G>C synonymous_variant 0.28 rifampicin
rpoC 764387 c.1018T>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 764405 c.1036_1038delAGGinsCC frameshift_variant&missense_variant 0.24 rifampicin
rpoC 764428 c.1059G>C synonymous_variant 0.3 rifampicin Not assoc w R - Interim
rpoC 764431 c.1062G>C synonymous_variant 0.3 rifampicin Not assoc w R - Interim
rpoC 764434 c.1065A>G synonymous_variant 0.3 rifampicin Not assoc w R - Interim
rpoC 764446 c.1077T>C synonymous_variant 0.35 rifampicin
rpoC 764449 c.1080G>C synonymous_variant 0.38 rifampicin
rpoC 764452 c.1083T>C synonymous_variant 0.38 rifampicin
rpoC 764458 c.1089G>C synonymous_variant 0.36 rifampicin Not assoc w R - Interim
rpoC 764461 c.1092A>G synonymous_variant 0.38 rifampicin Not assoc w R - Interim
rpoC 764497 c.1128A>G synonymous_variant 0.5 rifampicin Not assoc w R - Interim
rpoC 764500 c.1131C>G synonymous_variant 0.35 rifampicin
rpoC 764521 c.1152T>C synonymous_variant 0.63 rifampicin Not assoc w R - Interim
rpoC 764527 c.1158C>T synonymous_variant 0.63 rifampicin Not assoc w R - Interim
rpoC 764536 c.1167G>C synonymous_variant 0.63 rifampicin
rpoC 764539 c.1170C>G synonymous_variant 0.63 rifampicin Not assoc w R - Interim
rpoC 764548 c.1179G>A synonymous_variant 0.43 rifampicin
rpoC 764554 c.1185C>T synonymous_variant 0.61 rifampicin
rpoC 764560 c.1191T>C synonymous_variant 0.59 rifampicin Not assoc w R - Interim
rpoC 764566 c.1197C>G synonymous_variant 0.56 rifampicin Not assoc w R - Interim
rpoC 764575 c.1206T>C synonymous_variant 0.53 rifampicin
rpoC 764581 c.1212T>C synonymous_variant 0.46 rifampicin
rpoC 764593 c.1224C>T synonymous_variant 0.5 rifampicin
rpoC 764611 c.1242G>C synonymous_variant 0.44 rifampicin
rpoC 764647 c.1278C>T synonymous_variant 0.49 rifampicin
rpoC 764650 c.1281G>T synonymous_variant 0.54 rifampicin Not assoc w R - Interim
rpoC 764668 c.1299C>T synonymous_variant 0.47 rifampicin Not assoc w R - Interim
rpoC 764764 c.1395T>C synonymous_variant 0.52 rifampicin Not assoc w R - Interim
rpoC 764803 c.1434C>T synonymous_variant 0.42 rifampicin Not assoc w R - Interim
rpoC 764809 c.1440C>T synonymous_variant 0.42 rifampicin Not assoc w R
rpoC 764815 c.1446A>G synonymous_variant 0.39 rifampicin Not assoc w R - Interim
rpoC 764827 c.1458G>C synonymous_variant 0.41 rifampicin Not assoc w R - Interim
rpoC 764858 c.1489T>C synonymous_variant 0.37 rifampicin Not assoc w R - Interim
rpoC 764872 c.1503A>G synonymous_variant 0.35 rifampicin Not assoc w R - Interim
rpoC 764888 c.1519T>C synonymous_variant 0.38 rifampicin Not assoc w R - Interim
rpoC 765421 c.2052C>G synonymous_variant 0.23 rifampicin Not assoc w R - Interim
rpoC 765454 c.2085C>A synonymous_variant 0.31 rifampicin
rpoC 765466 c.2097C>T synonymous_variant 0.31 rifampicin
rpoC 765478 c.2109T>C synonymous_variant 0.35 rifampicin Not assoc w R - Interim
rpoC 765499 c.2130C>G synonymous_variant 0.36 rifampicin Not assoc w R - Interim
rpoC 765508 c.2139C>G synonymous_variant 0.38 rifampicin Not assoc w R - Interim
rpoC 765517 c.2148C>G synonymous_variant 0.37 rifampicin Not assoc w R - Interim
rpoC 765529 c.2160C>T synonymous_variant 0.34 rifampicin
rpoC 765541 c.2172C>G synonymous_variant 0.34 rifampicin
rpoC 765550 c.2181C>T synonymous_variant 0.35 rifampicin
rpoC 765553 c.2184C>T synonymous_variant 0.35 rifampicin Not assoc w R - Interim
rpoC 765556 c.2187G>C synonymous_variant 0.35 rifampicin
rpoC 765559 c.2190G>C synonymous_variant 0.35 rifampicin
rpoC 765574 c.2205C>T synonymous_variant 0.32 rifampicin
rpoC 765592 c.2223C>T synonymous_variant 0.29 rifampicin
rpoC 765631 p.Asp754Glu missense_variant 0.26 rifampicin
rpoC 765655 c.2286T>A synonymous_variant 0.26 rifampicin
rpoC 765682 c.2313C>T synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoC 766408 c.3039C>T synonymous_variant 0.27 rifampicin Not assoc w R - Interim
rpoC 766426 c.3057C>T synonymous_variant 0.37 rifampicin
rpoC 766447 c.3078T>C synonymous_variant 0.38 rifampicin
rpoC 766456 c.3087C>T synonymous_variant 0.37 rifampicin Not assoc w R - Interim
rpoC 766459 c.3090G>T synonymous_variant 0.35 rifampicin
rpoC 766480 c.3111C>A synonymous_variant 0.36 rifampicin
rpoC 766483 c.3114G>C synonymous_variant 0.35 rifampicin
rpoC 766486 c.3117A>C synonymous_variant 0.36 rifampicin
rpoC 766501 c.3132G>C synonymous_variant 0.41 rifampicin
rpoC 766522 c.3153C>G synonymous_variant 0.35 rifampicin
rpoC 766528 c.3159T>C synonymous_variant 0.34 rifampicin
rpoC 766531 c.3162G>C synonymous_variant 0.35 rifampicin
rpoC 766534 c.3165C>G synonymous_variant 0.32 rifampicin
rpoC 766549 c.3180G>C synonymous_variant 0.51 rifampicin
rpoC 766573 c.3204T>C synonymous_variant 0.53 rifampicin
rpoC 766582 c.3213C>G synonymous_variant 0.51 rifampicin
rpoC 766583 c.3214_3216delGGTinsAC frameshift_variant&missense_variant 0.51 rifampicin
rpoC 766591 c.3222A>G synonymous_variant 0.51 rifampicin
rpoC 766594 c.3225G>C synonymous_variant 0.53 rifampicin
rpoC 766597 c.3228C>G synonymous_variant 0.54 rifampicin Not assoc w R - Interim
rpoC 766607 p.Ile1080Leu missense_variant 0.54 rifampicin
rpoC 766630 c.3261G>T synonymous_variant 0.51 rifampicin
rpoC 766657 c.3288A>G synonymous_variant 0.5 rifampicin
rpoC 766660 c.3291G>C synonymous_variant 0.45 rifampicin
rpoC 766666 c.3297C>T synonymous_variant 0.45 rifampicin Not assoc w R - Interim
rpoC 766672 c.3303T>C synonymous_variant 0.51 rifampicin
rpoC 766690 c.3321G>C synonymous_variant 0.56 rifampicin
rpoC 766693 c.3324C>T synonymous_variant 0.55 rifampicin
rpoC 766711 c.3342C>T synonymous_variant 0.45 rifampicin Not assoc w R - Interim
rpoC 766726 c.3357T>C synonymous_variant 0.47 rifampicin
rpoC 766738 c.3369G>C synonymous_variant 0.5 rifampicin
rpoC 766765 c.3396A>C synonymous_variant 0.46 rifampicin Not assoc w R - Interim
rpoC 766774 c.3405T>C synonymous_variant 0.44 rifampicin
rpoC 766801 c.3432C>A synonymous_variant 0.4 rifampicin
rpoC 766804 c.3435A>G synonymous_variant 0.4 rifampicin Not assoc w R - Interim
rpoC 766807 c.3438T>C synonymous_variant 0.39 rifampicin Not assoc w R - Interim
rpoC 767098 c.3729T>C synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoC 767119 c.3750A>G synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoC 767134 c.3765C>A synonymous_variant 0.2 rifampicin
rpoC 767158 c.3789T>C synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoC 767167 c.3798C>G synonymous_variant 0.21 rifampicin Not assoc w R - Interim
mmpL5 775639 p.Ile948Val missense_variant 1.0 clofazimine Not assoc w R
bedaquiline Not assoc w R - Interim
rpsL 781395 c.-165T>C upstream_gene_variant 1.0 streptomycin Not assoc w R
rpsL 781808 c.249C>T synonymous_variant 0.24 streptomycin
rpsL 781817 c.258G>T synonymous_variant 0.22 streptomycin
rpsL 781832 c.273T>C synonymous_variant 0.29 streptomycin
rpsL 781838 c.279G>C synonymous_variant 0.26 streptomycin
rpsL 781841 c.282C>G synonymous_variant 0.27 streptomycin
rpsL 781865 c.306G>C synonymous_variant 0.27 streptomycin
rpsL 781868 c.309T>C synonymous_variant 0.27 streptomycin
rpsL 781871 c.312G>C synonymous_variant 0.27 streptomycin
rpsL 781892 c.333A>G synonymous_variant 0.31 streptomycin
rpsL 781898 c.339A>T synonymous_variant 0.29 streptomycin
rpsL 781916 c.357T>C synonymous_variant 0.33 streptomycin
rpsL 781929 p.Gly124Ser missense_variant 0.33 streptomycin Uncertain significance
rplC 800654 c.-155T>C upstream_gene_variant 0.21 linezolid
Rv1129c 1254015 p.Met174Val missense_variant 1.0 moxifloxacin Uncertain significance
levofloxacin
rifampicin Uncertain significance
isoniazid Uncertain significance
fbiC 1305092 p.Ala721Gly missense_variant 0.16 clofazimine
pretomanid
delamanid
fbiC 1305096 c.2166T>C synonymous_variant 0.19 clofazimine
pretomanid
delamanid
fbiC 1305099 c.2169T>C synonymous_variant 0.19 clofazimine
pretomanid
delamanid
rrs 1471659 n.-187C>T upstream_gene_variant 1.0 streptomycin
kanamycin
capreomycin
amikacin
rrs 1472061 n.216A>T non_coding_transcript_exon_variant 0.14 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472075 n.230A>G non_coding_transcript_exon_variant 0.21 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.24 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472969 n.1124A>G non_coding_transcript_exon_variant 0.49 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472970 n.1125C>G non_coding_transcript_exon_variant 0.48 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472977 n.1132G>C non_coding_transcript_exon_variant 0.47 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472978 n.1133T>C non_coding_transcript_exon_variant 0.48 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.16 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473105 n.1260G>A non_coding_transcript_exon_variant 0.29 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473123 n.1278delAinsTT non_coding_transcript_exon_variant 0.3 streptomycin
kanamycin
capreomycin
amikacin
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.27 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473148 n.1303G>A non_coding_transcript_exon_variant 0.73 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.26 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473288 n.1443C>T non_coding_transcript_exon_variant 0.12 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473290 n.1445C>T non_coding_transcript_exon_variant 0.14 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473291 n.1446G>T non_coding_transcript_exon_variant 0.12 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrl 1473752 n.95G>T non_coding_transcript_exon_variant 0.17 capreomycin
linezolid
rrl 1473756 n.99G>A non_coding_transcript_exon_variant 0.17 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 1474001 n.344C>T non_coding_transcript_exon_variant 1.0 capreomycin Not assoc w R
linezolid Not assoc w R
rrl 1474140 n.483C>T non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474151 n.494C>T non_coding_transcript_exon_variant 0.14 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474181 n.524C>T non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.22 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474282 n.625G>A non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid
rrl 1474288 n.632_634delCTT non_coding_transcript_exon_variant 0.15 capreomycin
linezolid
rrl 1474294 n.638_649delCTCTCCGGAGGA non_coding_transcript_exon_variant 0.16 capreomycin
linezolid
rrl 1474308 n.651G>T non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474310 n.653T>G non_coding_transcript_exon_variant 0.19 capreomycin
linezolid
rrl 1474356 n.699T>C non_coding_transcript_exon_variant 0.25 capreomycin Uncertain significance
linezolid
rrl 1474362 n.705A>G non_coding_transcript_exon_variant 0.24 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474376 n.719T>C non_coding_transcript_exon_variant 0.26 capreomycin
linezolid
rrl 1474409 n.756_766delACCCACACGCG non_coding_transcript_exon_variant 0.26 capreomycin
linezolid
rrl 1474427 n.770A>C non_coding_transcript_exon_variant 0.23 capreomycin
linezolid
rrl 1474429 n.772G>C non_coding_transcript_exon_variant 0.24 capreomycin
linezolid
rrl 1474431 n.774_775delGCinsTTTGGG non_coding_transcript_exon_variant 0.24 capreomycin
linezolid
rrl 1474435 n.780_783delGAAT non_coding_transcript_exon_variant 0.24 capreomycin
linezolid
rrl 1474639 n.982G>A non_coding_transcript_exon_variant 0.52 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.49 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 0.45 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474823 n.1166C>T non_coding_transcript_exon_variant 0.46 capreomycin
linezolid
rrl 1474831 n.1174A>G non_coding_transcript_exon_variant 0.41 capreomycin Uncertain significance
linezolid
rrl 1474904 n.1247G>A non_coding_transcript_exon_variant 0.25 capreomycin
linezolid
rrl 1475006 n.1349A>T non_coding_transcript_exon_variant 0.13 capreomycin
linezolid
rrl 1475013 n.1356G>A non_coding_transcript_exon_variant 0.18 capreomycin
linezolid
rrl 1475028 n.1371G>A non_coding_transcript_exon_variant 0.12 capreomycin
linezolid
rrl 1475061 n.1404C>T non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid
rrl 1475088 n.1431A>T non_coding_transcript_exon_variant 0.21 capreomycin
linezolid
rrl 1475199 n.1542G>A non_coding_transcript_exon_variant 0.12 capreomycin
linezolid
rrl 1475249 n.1592T>C non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475252 n.1595C>T non_coding_transcript_exon_variant 0.14 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 0.16 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475315 n.1658A>T non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475355 n.1698C>T non_coding_transcript_exon_variant 0.22 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475409 n.1752T>C non_coding_transcript_exon_variant 0.14 capreomycin
linezolid
rrl 1475419 n.1762C>T non_coding_transcript_exon_variant 0.16 capreomycin Uncertain significance
linezolid
rrl 1475429 n.1772G>A non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475483 n.1826C>T non_coding_transcript_exon_variant 0.21 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475505 n.1848G>A non_coding_transcript_exon_variant 0.24 capreomycin Uncertain significance
linezolid
rrl 1475526 n.1869C>A non_coding_transcript_exon_variant 0.22 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475599 n.1942A>G non_coding_transcript_exon_variant 0.23 capreomycin
linezolid Uncertain significance
rrl 1475608 n.1951T>C non_coding_transcript_exon_variant 0.23 capreomycin Uncertain significance
linezolid
rrl 1475638 n.1981C>T non_coding_transcript_exon_variant 0.12 capreomycin
linezolid
rrl 1475642 n.1985T>C non_coding_transcript_exon_variant 0.24 capreomycin
linezolid
rrl 1475657 n.2000A>G non_coding_transcript_exon_variant 0.27 capreomycin
linezolid
rrl 1475659 n.2002G>T non_coding_transcript_exon_variant 0.25 capreomycin
linezolid
rrl 1475758 n.2104delC non_coding_transcript_exon_variant 0.46 capreomycin
linezolid
rrl 1475765 n.2111delG non_coding_transcript_exon_variant 0.52 capreomycin
linezolid
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.52 capreomycin
linezolid
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.29 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476045 n.2388G>T non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid
rrl 1476047 n.2390G>T non_coding_transcript_exon_variant 0.13 capreomycin
linezolid
rrl 1476048 n.2391G>A non_coding_transcript_exon_variant 0.13 capreomycin
linezolid
rrl 1476049 n.2392C>T non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476086 n.2429G>A non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476089 n.2432T>C non_coding_transcript_exon_variant 0.18 capreomycin
linezolid
rrl 1476095 n.2438C>G non_coding_transcript_exon_variant 0.18 capreomycin
linezolid
rrl 1476103 n.2446C>G non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid
rrl 1476105 n.2448G>A non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid
rrl 1476106 n.2449A>T non_coding_transcript_exon_variant 0.17 capreomycin Uncertain significance
linezolid
rrl 1476110 n.2453G>C non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid
rrl 1476115 n.2458T>C non_coding_transcript_exon_variant 0.25 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476117 n.2460G>C non_coding_transcript_exon_variant 0.25 capreomycin
linezolid
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 0.14 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.24 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476215 n.2558C>T non_coding_transcript_exon_variant 0.24 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.25 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.25 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.16 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476299 n.2642C>T non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476583 n.2926G>A non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.19 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476597 n.2940G>A non_coding_transcript_exon_variant 0.21 capreomycin Uncertain significance
linezolid
rrl 1476608 n.2951C>G non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476628 n.2971T>A non_coding_transcript_exon_variant 0.18 capreomycin Uncertain significance
linezolid Uncertain significance
rpsA 1833554 p.Thr5Ala missense_variant 0.16 pyrazinamide Uncertain significance
rpsA 1833589 c.48A>T synonymous_variant 0.15 pyrazinamide
rpsA 1833667 c.126C>G synonymous_variant 0.25 pyrazinamide
rpsA 1833703 c.162C>T synonymous_variant 0.15 pyrazinamide Not assoc w R - Interim
rpsA 1833724 c.183C>G synonymous_variant 0.26 pyrazinamide
rpsA 1833727 c.186G>C synonymous_variant 0.26 pyrazinamide
rpsA 1833745 c.204G>C synonymous_variant 0.23 pyrazinamide
rpsA 1833838 c.297G>C synonymous_variant 0.16 pyrazinamide
rpsA 1833841 c.300C>G synonymous_variant 0.17 pyrazinamide
rpsA 1833847 c.306C>G synonymous_variant 0.18 pyrazinamide
rpsA 1833856 c.315A>G synonymous_variant 0.15 pyrazinamide
rpsA 1833874 c.333T>C synonymous_variant 0.14 pyrazinamide
rpsA 1833928 c.387G>C synonymous_variant 0.15 pyrazinamide
rpsA 1833971 c.430C>T synonymous_variant 0.17 pyrazinamide
rpsA 1833979 c.438T>C synonymous_variant 0.16 pyrazinamide
rpsA 1834000 c.459G>C synonymous_variant 0.16 pyrazinamide
rpsA 1834021 c.480C>T synonymous_variant 0.16 pyrazinamide
rpsA 1834030 c.489C>G synonymous_variant 0.17 pyrazinamide
rpsA 1834150 c.609G>C synonymous_variant 0.17 pyrazinamide
rpsA 1834153 c.612T>C synonymous_variant 0.17 pyrazinamide
rpsA 1834154 c.613_615delAACinsCG frameshift_variant&missense_variant 0.17 pyrazinamide Uncertain significance
rpsA 1834157 c.616T>C synonymous_variant 0.17 pyrazinamide
rpsA 1834162 c.621A>G synonymous_variant 0.17 pyrazinamide Not assoc w R - Interim
rpsA 1834165 c.624A>G synonymous_variant 0.17 pyrazinamide
rpsA 1834169 p.Thr210Ala missense_variant 0.19 pyrazinamide Uncertain significance
rpsA 1834177 c.636A>C synonymous_variant 0.21 pyrazinamide Not assoc w R - Interim
rpsA 1834186 c.645C>G synonymous_variant 0.16 pyrazinamide
rpsA 1834192 c.651C>G synonymous_variant 0.14 pyrazinamide Not assoc w R - Interim
rpsA 1834222 c.681T>C synonymous_variant 0.26 pyrazinamide
rpsA 1834225 c.684C>T synonymous_variant 0.13 pyrazinamide Not assoc w R - Interim
rpsA 1834240 c.699T>C synonymous_variant 0.16 pyrazinamide
rpsA 1834249 c.708T>C synonymous_variant 0.22 pyrazinamide
rpsA 1834261 c.720A>G synonymous_variant 0.24 pyrazinamide Not assoc w R - Interim
rpsA 1834264 c.723G>C synonymous_variant 0.24 pyrazinamide
rpsA 1834294 c.753G>T synonymous_variant 0.24 pyrazinamide
rpsA 1834297 c.756C>T synonymous_variant 0.24 pyrazinamide
rpsA 1834303 c.762T>C synonymous_variant 0.24 pyrazinamide
rpsA 1834306 c.765T>C synonymous_variant 0.22 pyrazinamide
rpsA 1834348 c.807T>C synonymous_variant 0.29 pyrazinamide Not assoc w R - Interim
rpsA 1834366 c.825A>G synonymous_variant 0.28 pyrazinamide Not assoc w R - Interim
rpsA 1834369 c.828C>G synonymous_variant 0.24 pyrazinamide
rpsA 1834396 c.855G>C synonymous_variant 0.2 pyrazinamide
rpsA 1834411 c.870T>C synonymous_variant 0.18 pyrazinamide
rpsA 1834417 c.876G>C synonymous_variant 0.23 pyrazinamide
rpsA 1834423 c.882G>C synonymous_variant 0.24 pyrazinamide
rpsA 1834435 c.894G>C synonymous_variant 0.21 pyrazinamide
rpsA 1834451 c.910T>C synonymous_variant 0.26 pyrazinamide
rpsA 1834468 c.927A>G synonymous_variant 0.22 pyrazinamide
rpsA 1834474 c.933C>G synonymous_variant 0.17 pyrazinamide
rpsA 1834606 c.1065C>T synonymous_variant 0.28 pyrazinamide
rpsA 1834609 c.1068T>C synonymous_variant 0.28 pyrazinamide
rpsA 1834619 c.1078T>C synonymous_variant 0.21 pyrazinamide
rpsA 1834633 c.1092A>G synonymous_variant 0.31 pyrazinamide
rpsA 1834639 c.1098T>C synonymous_variant 0.27 pyrazinamide
rpsA 1834654 p.Glu371Asp missense_variant 0.31 pyrazinamide
rpsA 1834690 c.1149T>C synonymous_variant 0.32 pyrazinamide
tlyA 1917972 c.33A>G synonymous_variant 1.0 capreomycin Not assoc w R
PPE35 2170048 p.Leu189Val missense_variant 0.18 pyrazinamide
PPE35 2170053 p.Thr187Ser missense_variant 0.18 pyrazinamide
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0 clofazimine Not assoc w R
bedaquiline Not assoc w R - Interim
alr 3840764 c.657G>C synonymous_variant 1.0 cycloserine
rpoA 3877572 c.936G>A synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoA 3877587 c.921A>G synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoA 3877613 p.Ile299Val missense_variant 0.17 rifampicin
rpoA 3877656 c.852T>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoA 3877668 c.840A>G synonymous_variant 0.17 rifampicin
rpoA 3878118 c.390T>C synonymous_variant 0.16 rifampicin
rpoA 3878130 c.378C>G synonymous_variant 0.19 rifampicin
rpoA 3878141 p.Met123Leu missense_variant 0.18 rifampicin Uncertain significance
rpoA 3878143 p.Gly122Asp missense_variant 0.18 rifampicin Uncertain significance
rpoA 3878163 c.345C>T synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoA 3878169 c.339G>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoA 3878184 c.324C>G synonymous_variant 0.2 rifampicin
rpoA 3878187 c.321C>G synonymous_variant 0.2 rifampicin
rpoA 3878193 c.315T>C synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoA 3878205 c.303T>C synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoA 3878217 c.291A>G synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoA 3878247 c.261G>C synonymous_variant 0.21 rifampicin
clpC1 4038587 c.2118C>T synonymous_variant 0.36 pyrazinamide
clpC1 4038596 c.2109A>G synonymous_variant 0.36 pyrazinamide
clpC1 4038602 c.2103G>C synonymous_variant 0.35 pyrazinamide
clpC1 4038623 c.2082A>G synonymous_variant 0.38 pyrazinamide
clpC1 4038640 p.Asp689Asn missense_variant 0.45 pyrazinamide
clpC1 4038653 c.2052C>T synonymous_variant 0.42 pyrazinamide
clpC1 4038656 c.2047_2049delAAGinsCA frameshift_variant&missense_variant 0.39 pyrazinamide
clpC1 4038661 p.Ser682Thr missense_variant 0.41 pyrazinamide
clpC1 4038662 c.2043T>C synonymous_variant 0.41 pyrazinamide
clpC1 4038671 c.2034T>C synonymous_variant 0.4 pyrazinamide
clpC1 4038683 c.2022T>C synonymous_variant 0.39 pyrazinamide Not assoc w R - Interim
clpC1 4038695 c.2010C>G synonymous_variant 0.36 pyrazinamide
clpC1 4038701 c.2004G>C synonymous_variant 0.37 pyrazinamide
clpC1 4038704 c.2001T>C synonymous_variant 0.37 pyrazinamide
clpC1 4038707 c.1998C>G synonymous_variant 0.37 pyrazinamide
clpC1 4038710 c.1995G>C synonymous_variant 0.37 pyrazinamide
clpC1 4038713 c.1992T>C synonymous_variant 0.4 pyrazinamide
clpC1 4038740 c.1965G>C synonymous_variant 0.41 pyrazinamide
clpC1 4038755 c.1950G>T synonymous_variant 0.41 pyrazinamide
clpC1 4038773 c.1932T>C synonymous_variant 0.45 pyrazinamide
clpC1 4038782 c.1923G>C synonymous_variant 0.44 pyrazinamide
clpC1 4038790 c.1915C>T synonymous_variant 0.44 pyrazinamide Not assoc w R - Interim
clpC1 4038812 c.1893T>C synonymous_variant 0.48 pyrazinamide
clpC1 4038815 c.1890G>C synonymous_variant 0.43 pyrazinamide
clpC1 4038863 c.1842G>C synonymous_variant 0.4 pyrazinamide
clpC1 4038878 c.1827A>G synonymous_variant 0.43 pyrazinamide Not assoc w R - Interim
clpC1 4038908 c.1797C>G synonymous_variant 0.45 pyrazinamide
clpC1 4038914 c.1791G>C synonymous_variant 0.44 pyrazinamide
clpC1 4038923 c.1780_1782delCTAinsTG frameshift_variant&synonymous_variant 0.46 pyrazinamide
clpC1 4038953 c.1752A>G synonymous_variant 0.46 pyrazinamide
clpC1 4038965 c.1740T>C synonymous_variant 0.47 pyrazinamide
clpC1 4038971 c.1734T>C synonymous_variant 0.37 pyrazinamide
clpC1 4038974 c.1731T>C synonymous_variant 0.37 pyrazinamide Not assoc w R - Interim
clpC1 4038989 c.1716T>C synonymous_variant 0.42 pyrazinamide
clpC1 4038997 c.1708T>C synonymous_variant 0.43 pyrazinamide Not assoc w R - Interim
clpC1 4039022 c.1683A>G synonymous_variant 0.45 pyrazinamide
clpC1 4039025 c.1680C>G synonymous_variant 0.41 pyrazinamide
clpC1 4039037 c.1668T>C synonymous_variant 0.37 pyrazinamide
clpC1 4039064 c.1641C>T synonymous_variant 0.34 pyrazinamide
clpC1 4039103 c.1602T>C synonymous_variant 0.31 pyrazinamide
clpC1 4039106 c.1599G>C synonymous_variant 0.31 pyrazinamide
clpC1 4039724 c.981A>G synonymous_variant 0.16 pyrazinamide
panD 4044017 p.Ala89Thr missense_variant 1.0 pyrazinamide
embC 4242643 c.2781C>T synonymous_variant 1.0 ethambutol Not assoc w R
embA 4245578 c.2346G>A synonymous_variant 1.0 ethambutol Not assoc w R - Interim
ethA 4328338 c.-865G>A upstream_gene_variant 1.0 ethionamide
whiB6 4338595 c.-75delG upstream_gene_variant 1.0 capreomycin Not assoc w R
amikacin Not assoc w R
kanamycin Not assoc w R