TB-Profiler result

Run: ERR4815079
Summary

Run ID: ERR4815079

Sample name:

Date: 2024-10-05T12:40:49.753612

Number of reads: 583149

Percentage reads mapped: 46.7

Median coverage: 14.0

Strain: lineage3

Spoligotype:

Drug-resistance: RR-TB

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Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family RDs Frequency
lineage3 East-African-Indian RD750 1.0
Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations WHO confidence Comment
rifampicin rpoB p.Ser441Ala Assoc w R - Interim Expert rule: Non-silent variants in RRDR of rpoB
isoniazid
ethambutol
pyrazinamide
streptomycin
fluoroquinolones
moxifloxacin
ofloxacin
levofloxacin
ciprofloxacin
aminoglycosides
amikacin rrs n.1402C>A Uncertain significance Mutation from literature
n.1484G>T Assoc w R
capreomycin rrs n.1402C>A Uncertain significance Mutation from literature
n.1484G>T Assoc w R
kanamycin rrs 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
rpoB 761127 p.Ser441Ala missense_variant 0.26 rifampicin Assoc w R - Interim Expert rule: Non-silent variants in RRDR of rpoB
rrs 1473247 n.1402C>A non_coding_transcript_exon_variant 0.84 amikacin Uncertain significance Mutation from literature
capreomycin Uncertain significance Mutation from literature
kanamycin Uncertain significance Mutation from literature
rrs 1473329 n.1484G>T non_coding_transcript_exon_variant 0.7 amikacin Assoc w R
capreomycin Assoc w R
kanamycin 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 9304 p.Gly668Asp missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
Rv0565c 657081 c.390G>A synonymous_variant 1.0 ethionamide Not assoc w R - Interim
rpoB 759746 c.-61C>T upstream_gene_variant 1.0 rifampicin Not assoc w R
rpoB 761088 c.1282_1284delAGCinsTCG synonymous_variant 0.27 rifampicin
rpoB 761097 c.1291_1292delAGinsTC synonymous_variant 0.26 rifampicin
rpoB 761102 c.1296A>G synonymous_variant 0.26 rifampicin
rpoB 761132 c.1326G>C synonymous_variant 0.26 rifampicin Not assoc w R - Interim
rpoB 761133 c.1327T>C synonymous_variant 0.26 rifampicin Not assoc w R - Interim
rpoB 761138 c.1332C>G synonymous_variant 0.26 rifampicin
rpoB 761150 c.1344A>C synonymous_variant 0.31 rifampicin Not assoc w R - Interim
rpoB 762003 p.Asn733Gln missense_variant 0.33 rifampicin
rpoB 762009 p.Leu735Met missense_variant 0.35 rifampicin
rpoB 762015 p.Glu737Ser missense_variant 0.32 rifampicin
rpoB 762026 c.2220G>C synonymous_variant 0.42 rifampicin
rpoB 762053 c.2247T>C synonymous_variant 0.41 rifampicin Not assoc w R - Interim
rpoB 762057 p.Ile751Val missense_variant 0.39 rifampicin Uncertain significance
rpoB 762062 c.2256T>C synonymous_variant 0.44 rifampicin Not assoc w R - Interim
rpoB 762065 c.2259T>C synonymous_variant 0.43 rifampicin Not assoc w R - Interim
rpoB 762083 c.2277T>C synonymous_variant 0.32 rifampicin Not assoc w R - Interim
rpoB 762086 c.2280G>C synonymous_variant 0.34 rifampicin Not assoc w R - Interim
rpoB 762434 c.2628T>G synonymous_variant 1.0 rifampicin Not assoc w R
rpoB 762920 c.3114C>T synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoB 763031 c.3225T>C synonymous_variant 1.0 rifampicin Not assoc w R
rpoC 763504 c.135C>A synonymous_variant 0.18 rifampicin
rpoC 763507 c.138G>C synonymous_variant 0.26 rifampicin
rpoC 763528 c.159G>C synonymous_variant 0.26 rifampicin
rpoC 763531 c.162G>C synonymous_variant 0.26 rifampicin Not assoc w R
rpoC 763534 c.165T>C synonymous_variant 0.26 rifampicin
rpoC 763537 c.168C>T synonymous_variant 0.25 rifampicin
rpoC 763546 c.177A>G synonymous_variant 0.26 rifampicin Not assoc w R - Interim
rpoC 763550 p.Tyr61Ala missense_variant 0.26 rifampicin
rpoC 763570 c.201G>C synonymous_variant 0.35 rifampicin Not assoc w R - Interim
rpoC 763622 p.Ala85Ser missense_variant 0.41 rifampicin Uncertain significance
rpoC 763633 c.264T>C synonymous_variant 0.41 rifampicin Not assoc w R - Interim
rpoC 763636 c.267T>C synonymous_variant 0.41 rifampicin
rpoC 763639 p.Glu90Asp missense_variant 0.42 rifampicin
rpoC 763642 c.273G>C synonymous_variant 0.44 rifampicin Not assoc w R - Interim
rpoC 763660 c.291T>G synonymous_variant 0.5 rifampicin Not assoc w R - Interim
rpoC 763663 c.294C>T synonymous_variant 0.5 rifampicin
rpoC 763669 c.300C>G synonymous_variant 0.46 rifampicin Not assoc w R - Interim
rpoC 763696 c.327T>C synonymous_variant 0.44 rifampicin Not assoc w R - Interim
rpoC 763708 c.339G>C synonymous_variant 0.4 rifampicin
rpoC 763714 c.345G>C synonymous_variant 0.36 rifampicin Not assoc w R - Interim
rpoC 763717 c.348T>C synonymous_variant 0.35 rifampicin Not assoc w R - Interim
rpoC 763732 c.363C>G synonymous_variant 0.29 rifampicin
rpoC 763744 c.375G>C synonymous_variant 0.24 rifampicin
rpoC 763751 p.Ile128Val missense_variant 0.23 rifampicin
rpoC 763765 c.396T>G synonymous_variant 0.23 rifampicin Not assoc w R - Interim
rpoC 764380 c.1011G>C synonymous_variant 0.43 rifampicin Not assoc w R - Interim
rpoC 764387 c.1018_1020delTTGinsCTC synonymous_variant 0.46 rifampicin Not assoc w R - Interim
rpoC 764404 c.1035C>T synonymous_variant 0.46 rifampicin Not assoc w R - Interim
rpoC 764405 c.1036_1038delAGGinsCGC synonymous_variant 0.48 rifampicin Not assoc w R - Interim
rpoC 764419 c.1050C>T synonymous_variant 0.64 rifampicin
rpoC 764428 c.1059G>C synonymous_variant 0.64 rifampicin Not assoc w R - Interim
rpoC 764434 c.1065A>G synonymous_variant 0.63 rifampicin Not assoc w R - Interim
rpoC 764435 c.1066A>C synonymous_variant 0.65 rifampicin Not assoc w R - Interim
rpoC 764441 p.Ile358Leu missense_variant 0.72 rifampicin
rpoC 764446 c.1077T>C synonymous_variant 0.58 rifampicin
rpoC 764449 c.1080G>C synonymous_variant 0.58 rifampicin
rpoC 764452 c.1083T>C synonymous_variant 0.56 rifampicin
rpoC 764458 c.1089G>C synonymous_variant 0.57 rifampicin Not assoc w R - Interim
rpoC 764461 c.1092A>G synonymous_variant 0.58 rifampicin Not assoc w R - Interim
rpoC 764485 c.1116G>C synonymous_variant 0.62 rifampicin
rpoC 764497 c.1128A>G synonymous_variant 0.62 rifampicin Not assoc w R - Interim
rpoC 764498 p.Ser377Ala missense_variant 0.67 rifampicin
rpoC 764507 p.Ala380Ser missense_variant 0.69 rifampicin
rpoC 764521 c.1152T>C synonymous_variant 0.66 rifampicin Not assoc w R - Interim
rpoC 764539 c.1170C>G synonymous_variant 0.69 rifampicin Not assoc w R - Interim
rpoC 764542 c.1173C>G synonymous_variant 0.69 rifampicin
rpoC 764548 c.1179G>C synonymous_variant 0.76 rifampicin
rpoC 764560 c.1191T>C synonymous_variant 0.72 rifampicin Not assoc w R - Interim
rpoC 764575 c.1206T>C synonymous_variant 0.68 rifampicin
rpoC 764581 c.1212T>C synonymous_variant 0.71 rifampicin
rpoC 764582 p.Leu405Met missense_variant 0.72 rifampicin
rpoC 764611 c.1242G>T synonymous_variant 0.74 rifampicin Not assoc w R - Interim
rpoC 764632 c.1263T>C synonymous_variant 0.65 rifampicin Not assoc w R - Interim
rpoC 764635 c.1266C>G synonymous_variant 0.64 rifampicin
rpoC 764650 c.1281G>C synonymous_variant 0.63 rifampicin
rpoC 764665 c.1296C>G synonymous_variant 0.58 rifampicin
rpoC 764668 c.1299C>T synonymous_variant 0.55 rifampicin Not assoc w R - Interim
rpoC 764671 c.1302G>C synonymous_variant 0.57 rifampicin
rpoC 764695 c.1326T>C synonymous_variant 0.52 rifampicin
rpoC 764701 c.1332C>G synonymous_variant 0.51 rifampicin Not assoc w R - Interim
rpoC 764706 p.Leu446Gln missense_variant 0.5 rifampicin Uncertain significance
rpoC 764746 c.1377G>T synonymous_variant 0.4 rifampicin Not assoc w R - Interim
rpoC 764749 c.1380G>C synonymous_variant 0.4 rifampicin
rpoC 764758 c.1389C>G synonymous_variant 0.38 rifampicin Not assoc w R - Interim
rpoC 764764 c.1395T>C synonymous_variant 0.36 rifampicin Not assoc w R - Interim
rpoC 764780 c.1411_1412delAGinsTC synonymous_variant 0.41 rifampicin
rpoC 764804 p.Gln479Phe missense_variant 0.3 rifampicin
mmpL5 775639 p.Ile948Val missense_variant 1.0 bedaquiline Not assoc w R - Interim
clofazimine Not assoc w R
mmpL5 776100 p.Thr794Ile missense_variant 1.0 bedaquiline Not assoc w R - Interim
clofazimine Not assoc w R
rpsL 781395 c.-165T>C upstream_gene_variant 1.0 streptomycin Not assoc w R
Rv1129c 1254562 c.-28T>C upstream_gene_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
isoniazid Not assoc w R
rifampicin Not assoc w R
rrs 1471659 n.-187C>T upstream_gene_variant 1.0 kanamycin
capreomycin
streptomycin
amikacin
rrs 1472102 n.257G>A non_coding_transcript_exon_variant 0.36 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.36 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Not assoc w R
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.36 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472112 n.267C>T non_coding_transcript_exon_variant 0.36 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472113 n.268T>C non_coding_transcript_exon_variant 0.36 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.66 kanamycin Uncertain significance
capreomycin Not assoc w R
streptomycin Uncertain significance
amikacin Not assoc w R
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.76 kanamycin Uncertain significance
capreomycin Not assoc w R
streptomycin Uncertain significance
amikacin Not assoc w R
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.64 kanamycin Uncertain significance
capreomycin Not assoc w R
streptomycin Uncertain significance
amikacin Not assoc w R
rrs 1472952 n.1107T>C non_coding_transcript_exon_variant 0.5 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472955 n.1110C>T non_coding_transcript_exon_variant 0.5 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.5 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472973 n.1128A>C non_coding_transcript_exon_variant 0.48 kanamycin
capreomycin
streptomycin
amikacin
rrs 1472974 n.1129A>G non_coding_transcript_exon_variant 0.48 kanamycin
capreomycin
streptomycin
amikacin
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.47 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.47 kanamycin Not assoc w R
capreomycin Not assoc w R
streptomycin Uncertain significance
amikacin Not assoc w R
rrs 1473022 n.1177G>A non_coding_transcript_exon_variant 0.55 kanamycin
capreomycin
streptomycin
amikacin
rrs 1473026 n.1181T>C non_coding_transcript_exon_variant 0.59 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.56 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Not assoc w R
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.57 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.59 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Not assoc w R
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.67 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473089 n.1244A>T non_coding_transcript_exon_variant 0.57 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473093 n.1248C>T non_coding_transcript_exon_variant 0.57 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.55 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473102 n.1257C>T non_coding_transcript_exon_variant 0.55 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.55 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.55 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.55 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473115 n.1270G>T non_coding_transcript_exon_variant 0.57 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.57 kanamycin Uncertain significance
capreomycin Not assoc w R
streptomycin Uncertain significance
amikacin Not assoc w R
rrs 1473122 n.1277T>A non_coding_transcript_exon_variant 0.57 kanamycin Uncertain significance
capreomycin Not assoc w R
streptomycin Uncertain significance
amikacin Not assoc w R
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.62 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.62 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.85 kanamycin Not assoc w R
capreomycin Not assoc w R
streptomycin Uncertain significance
amikacin Not assoc w R
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.85 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Not assoc w R
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.79 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473290 n.1445C>T non_coding_transcript_exon_variant 0.74 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1473292 n.1447_1449delGGAinsTGGG non_coding_transcript_exon_variant 0.74 kanamycin
capreomycin
streptomycin
amikacin
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.68 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473315 n.1470T>C non_coding_transcript_exon_variant 0.71 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473317 n.1472G>A non_coding_transcript_exon_variant 0.71 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrl 1474662 n.1005C>A non_coding_transcript_exon_variant 0.8 capreomycin
linezolid
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.7 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.76 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.7 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.73 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.71 capreomycin Not assoc w R
linezolid Uncertain significance
rpsA 1833721 c.180A>G synonymous_variant 0.4 pyrazinamide
rpsA 1833727 c.186G>C synonymous_variant 0.35 pyrazinamide
rpsA 1833733 c.192C>G synonymous_variant 0.33 pyrazinamide
rpsA 1833734 p.Ala65Ser missense_variant 0.33 pyrazinamide
rpsA 1833742 c.201A>G synonymous_variant 0.36 pyrazinamide
rpsA 1833763 c.222C>G synonymous_variant 0.36 pyrazinamide
rpsA 1833769 c.228C>G synonymous_variant 0.29 pyrazinamide
rpsA 1833770 p.Asn77Asp missense_variant 0.29 pyrazinamide
rpsA 1833829 c.288A>G synonymous_variant 0.37 pyrazinamide
rpsA 1833835 c.294C>T synonymous_variant 0.36 pyrazinamide
rpsA 1833838 c.297G>C synonymous_variant 0.34 pyrazinamide
rpsA 1833841 c.300C>G synonymous_variant 0.34 pyrazinamide
rpsA 1833850 c.309C>G synonymous_variant 0.31 pyrazinamide
rpsA 1833856 c.315A>G synonymous_variant 0.3 pyrazinamide
rpsA 1834219 c.678C>G synonymous_variant 0.31 pyrazinamide
rpsA 1834222 c.681T>C synonymous_variant 0.32 pyrazinamide
rpsA 1834225 c.684C>G synonymous_variant 0.32 pyrazinamide
rpsA 1834231 c.690T>C synonymous_variant 0.34 pyrazinamide
rpsA 1834240 c.699T>C synonymous_variant 0.35 pyrazinamide
rpsA 1834243 c.702G>C synonymous_variant 0.36 pyrazinamide
rpsA 1834249 c.708T>C synonymous_variant 0.5 pyrazinamide
rpsA 1834261 c.720A>G synonymous_variant 0.59 pyrazinamide Not assoc w R - Interim
rpsA 1834264 c.723G>C synonymous_variant 0.59 pyrazinamide
rpsA 1834294 c.753G>C synonymous_variant 0.57 pyrazinamide
rpsA 1834298 p.Gln253Glu missense_variant 0.57 pyrazinamide
rpsA 1834303 c.762T>G synonymous_variant 0.52 pyrazinamide
rpsA 1834306 c.765T>C synonymous_variant 0.54 pyrazinamide
rpsA 1834307 p.Asp256Gln missense_variant 0.54 pyrazinamide
rpsA 1834327 c.786G>C synonymous_variant 0.47 pyrazinamide
rpsA 1834333 p.Asp264Glu missense_variant 0.45 pyrazinamide
rpsA 1834336 c.795C>G synonymous_variant 0.41 pyrazinamide
rpsA 1834348 c.807T>C synonymous_variant 0.26 pyrazinamide Not assoc w R - Interim
rpsA 1834354 c.813G>T synonymous_variant 0.25 pyrazinamide
rpsA 1834357 c.816T>C synonymous_variant 0.24 pyrazinamide
rpsA 1834360 c.819G>C synonymous_variant 0.24 pyrazinamide
rpsA 1834361 c.820T>C synonymous_variant 0.22 pyrazinamide
rpsA 1834366 c.825A>G synonymous_variant 0.26 pyrazinamide Not assoc w R - Interim
rpsA 1834369 c.828C>G synonymous_variant 0.29 pyrazinamide
rpsA 1834378 c.837T>C synonymous_variant 0.32 pyrazinamide Not assoc w R - Interim
rpsA 1834384 c.843A>G synonymous_variant 0.33 pyrazinamide
rpsA 1834395 p.Arg285Gln missense_variant 0.29 pyrazinamide
rpsA 1834398 p.His286Leu missense_variant 0.28 pyrazinamide
rpsA 1834411 c.870T>C synonymous_variant 0.24 pyrazinamide
rpsA 1834417 c.876G>C synonymous_variant 0.26 pyrazinamide
rpsA 1834418 p.Ile293Leu missense_variant 0.25 pyrazinamide
rpsA 1834423 c.882G>C synonymous_variant 0.26 pyrazinamide
rpsA 1834427 p.Ile296Val missense_variant 0.26 pyrazinamide Uncertain significance
rpsA 1834451 c.910_912delTTGinsCTC synonymous_variant 0.26 pyrazinamide
katG 2154724 p.Arg463Leu missense_variant 1.0 isoniazid Not assoc w R
PPE35 2167926 p.Leu896Ser missense_variant 1.0 pyrazinamide Not assoc w R
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0 bedaquiline Not assoc w R - Interim
clofazimine Not assoc w R
pncA 2289365 c.-125delC upstream_gene_variant 1.0 pyrazinamide
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0 isoniazid Not assoc w R
Rv2477c 2782498 c.1545C>T synonymous_variant 1.0 kanamycin Not assoc w R
levofloxacin Not assoc w R
moxifloxacin Not assoc w R
streptomycin Not assoc w R - Interim
rifampicin Not assoc w R
ethambutol Not assoc w R
amikacin Not assoc w R
ald 3086788 c.-32T>C upstream_gene_variant 1.0 cycloserine
ald 3086987 p.Gln56His missense_variant 1.0 cycloserine
rpoA 3877974 c.534G>C synonymous_variant 0.26 rifampicin
clpC1 4040015 c.690G>C synonymous_variant 0.29 pyrazinamide
clpC1 4040021 c.684A>C synonymous_variant 0.25 pyrazinamide Not assoc w R - Interim
clpC1 4040024 c.681A>G synonymous_variant 0.31 pyrazinamide
clpC1 4040033 c.672G>C synonymous_variant 0.34 pyrazinamide
clpC1 4040063 c.642G>C synonymous_variant 0.47 pyrazinamide Not assoc w R - Interim
clpC1 4040069 c.636G>C synonymous_variant 0.45 pyrazinamide
clpC1 4040087 c.618G>C synonymous_variant 0.38 pyrazinamide
clpC1 4040090 c.615T>C synonymous_variant 0.36 pyrazinamide Not assoc w R - Interim
embC 4242075 p.Arg738Gln missense_variant 1.0 ethambutol Not assoc w R
whiB6 4338595 c.-75delG upstream_gene_variant 1.0 kanamycin Not assoc w R
capreomycin Not assoc w R
amikacin Not assoc w R
whiB6 4338732 c.-211C>T upstream_gene_variant 1.0 kanamycin
capreomycin
amikacin
gid 4407588 c.615A>G synonymous_variant 1.0 streptomycin Not assoc w R