TB-Profiler result

Run: ERR4831657
Summary

Run ID: ERR4831657

Sample name:

Date: 2025-02-11T18:03:38.944041

Number of reads: 715389

Percentage reads mapped: 70.2

Median coverage: 21.0

Strain: lineage2.2.1

Spoligotype:

Drug-resistance: MDR-TB

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Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family RDs Frequency
lineage2 East-Asian RD105 0.99
lineage2.2.1 East-Asian (Beijing) RD105;RD207;RD181 0.99
lineage2.2 East-Asian (Beijing) RD105;RD207 1.0
Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations WHO confidence Comment
rifampicin rpoB p.Ser450Leu Assoc w R
isoniazid inhA c.-777C>T Assoc w R Alias fabG1_c.-15C>T. Low-level resistance (multiple, genetically linked low-level resistance mutations are additive and confer high-level resistance)
katG p.Ser315Thr Assoc w R High-level resistance
ethambutol embB p.Met306Val Assoc w R
pyrazinamide
streptomycin rpsL p.Lys43Arg Assoc w R
fluoroquinolones
moxifloxacin
ofloxacin
levofloxacin
ciprofloxacin
aminoglycosides
amikacin
capreomycin
kanamycin
cycloserine
ethionamide inhA c.-777C>T Assoc w R Alias fabG1_c.-15C>T
clofazimine
para-aminosalicylic_acid
delamanid
bedaquiline
linezolid
Drug resistance-Associated Mutations: This table reports mutations found in candidate resistance genes which have been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs Confidence Comment
rpoB 761155 p.Ser450Leu missense_variant 0.92 rifampicin Assoc w R
rpsL 781687 p.Lys43Arg missense_variant 0.86 streptomycin Assoc w R
inhA 1673425 c.-777C>T upstream_gene_variant 1.0 ethionamide Assoc w R Alias fabG1_c.-15C>T
isoniazid Assoc w R Alias fabG1_c.-15C>T. Low-level resistance (multiple, genetically linked low-level resistance mutations are additive and confer high-level resistance)
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid Assoc w R High-level resistance
embB 4247429 p.Met306Val missense_variant 0.87 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 9304 p.Gly668Asp missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
fgd1 491556 c.774G>A synonymous_variant 0.91 pretomanid
delamanid Not assoc w R - Interim
clofazimine Not assoc w R - Interim
fgd1 491742 c.960T>C synonymous_variant 1.0 pretomanid
delamanid Not assoc w R - Interim
clofazimine Not assoc w R
mshA 575907 p.Ala187Val missense_variant 0.97 isoniazid Not assoc w R
ethionamide Not assoc w R
ccsA 620625 p.Ile245Met missense_variant 0.96 kanamycin Uncertain significance
capreomycin Not assoc w R
amikacin Not assoc w R
Rv0565c 657081 c.390G>A synonymous_variant 1.0 ethionamide Not assoc w R - Interim
Rv0565c 657142 p.Arg110His missense_variant 1.0 ethionamide Uncertain significance
rpoB 760376 p.Asp190Glu missense_variant 0.15 rifampicin Uncertain significance
rpoB 760406 c.600G>T synonymous_variant 0.2 rifampicin
rpoB 760407 p.Ser201Gly missense_variant 0.2 rifampicin Uncertain significance
rpoB 760415 c.609C>T synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoB 760424 c.618C>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 760430 c.624T>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 760457 c.651C>T synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoB 760463 c.657C>T synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoB 760475 c.669A>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 760478 c.672C>T synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 760481 c.675G>T synonymous_variant 0.18 rifampicin
rpoB 760484 c.678A>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 760910 c.1104C>T synonymous_variant 0.25 rifampicin Not assoc w R - Interim
rpoB 760916 c.1110C>T synonymous_variant 0.23 rifampicin Not assoc w R - Interim
rpoB 760919 c.1113C>T synonymous_variant 0.23 rifampicin
rpoB 760925 c.1119T>C synonymous_variant 0.23 rifampicin
rpoB 760928 c.1122G>C synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoB 760931 c.1125C>G synonymous_variant 0.21 rifampicin
rpoB 760946 c.1140A>G synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoB 760958 c.1152G>C synonymous_variant 0.2 rifampicin
rpoB 761612 c.1806G>T synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoB 761615 c.1809A>C synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoB 761636 c.1830G>T synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoB 761645 c.1839C>G synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoB 761648 c.1842T>C synonymous_variant 0.22 rifampicin
rpoB 762008 c.2202C>T synonymous_variant 0.31 rifampicin Not assoc w R - Interim
rpoB 762014 c.2208C>T synonymous_variant 0.32 rifampicin
rpoB 762047 c.2241G>A synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoB 762053 c.2247T>C synonymous_variant 0.32 rifampicin Not assoc w R - Interim
rpoB 762062 c.2256T>C synonymous_variant 0.35 rifampicin Not assoc w R - Interim
rpoB 762065 c.2259T>C synonymous_variant 0.34 rifampicin Not assoc w R - Interim
rpoB 762083 c.2277T>C synonymous_variant 0.31 rifampicin Not assoc w R - Interim
rpoB 762086 c.2280G>C synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoB 762101 c.2295C>G synonymous_variant 0.31 rifampicin Not assoc w R - Interim
rpoB 762114 p.Ile770Val missense_variant 0.31 rifampicin Uncertain significance
rpoB 762131 c.2325C>G synonymous_variant 0.29 rifampicin
rpoB 762137 c.2331C>T synonymous_variant 0.3 rifampicin Not assoc w R - Interim
rpoB 762140 c.2334G>C synonymous_variant 0.27 rifampicin
rpoB 762143 c.2337T>C synonymous_variant 0.29 rifampicin
rpoB 762149 c.2343G>C synonymous_variant 0.28 rifampicin Not assoc w R - Interim
rpoB 762158 c.2352G>C synonymous_variant 0.3 rifampicin Not assoc w R - Interim
rpoB 762167 c.2361T>C synonymous_variant 0.27 rifampicin Not assoc w R - Interim
rpoB 762176 c.2370T>C synonymous_variant 0.3 rifampicin Not assoc w R - Interim
rpoB 762185 c.2379G>C synonymous_variant 0.3 rifampicin Not assoc w R - Interim
rpoB 762233 c.2427G>C synonymous_variant 0.28 rifampicin Not assoc w R - Interim
rpoB 762245 c.2439G>C synonymous_variant 0.25 rifampicin Not assoc w R - Interim
rpoB 762284 c.2478G>T synonymous_variant 0.26 rifampicin
rpoB 762287 c.2481C>T synonymous_variant 0.25 rifampicin
rpoB 762293 c.2487T>C synonymous_variant 0.23 rifampicin Not assoc w R - Interim
rpoB 762308 c.2502G>C synonymous_variant 0.23 rifampicin
rpoB 762317 c.2511A>G synonymous_variant 0.25 rifampicin Not assoc w R - Interim
rpoB 762329 c.2523G>C synonymous_variant 0.28 rifampicin Not assoc w R - Interim
rpoB 762338 c.2532T>C synonymous_variant 0.27 rifampicin
rpoB 762341 c.2535G>C synonymous_variant 0.28 rifampicin
rpoB 762347 c.2541T>C synonymous_variant 0.28 rifampicin
rpoB 762350 c.2544C>T synonymous_variant 0.29 rifampicin
rpoB 762362 p.Glu852Asp missense_variant 0.31 rifampicin
rpoB 762369 c.2563T>C synonymous_variant 0.34 rifampicin
rpoC 762434 c.-936T>C upstream_gene_variant 0.26 rifampicin
rpoC 762443 c.-927G>C upstream_gene_variant 0.25 rifampicin
rpoB 762449 c.2643C>A synonymous_variant 0.25 rifampicin Not assoc w R - Interim
rpoB 762452 c.2646G>C synonymous_variant 0.25 rifampicin Not assoc w R - Interim
rpoB 762470 c.2664G>C synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoB 762491 c.2685T>C synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoB 762920 c.3114C>T synonymous_variant 0.25 rifampicin Not assoc w R - Interim
rpoB 762929 c.3123G>C synonymous_variant 0.26 rifampicin Not assoc w R - Interim
rpoB 762959 c.3153G>C synonymous_variant 0.33 rifampicin Not assoc w R - Interim
rpoB 762962 c.3156C>T synonymous_variant 0.32 rifampicin Not assoc w R - Interim
rpoB 762995 c.3189G>T synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoB 763004 c.3198G>A synonymous_variant 0.23 rifampicin Not assoc w R - Interim
rpoB 763007 c.3201C>T synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoB 763028 c.3222T>C synonymous_variant 0.27 rifampicin Not assoc w R - Interim
rpoB 763031 c.3225T>C synonymous_variant 0.74 rifampicin Not assoc w R
rpoB 763031 c.3225T>G synonymous_variant 0.26 rifampicin Not assoc w R - Interim
rpoC 763434 p.Gln22Arg missense_variant 0.95 rifampicin Uncertain significance
rpoC 763675 c.306C>G synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 763702 c.333C>G synonymous_variant 0.28 rifampicin Not assoc w R - Interim
rpoC 764272 c.903G>C synonymous_variant 0.32 rifampicin
rpoC 764278 c.909A>G synonymous_variant 0.3 rifampicin Not assoc w R - Interim
rpoC 764293 c.924G>C synonymous_variant 0.32 rifampicin Not assoc w R - Interim
rpoC 764297 p.Met310Leu missense_variant 0.31 rifampicin
rpoC 764344 c.975C>T synonymous_variant 0.38 rifampicin
rpoC 764353 c.984G>T synonymous_variant 0.44 rifampicin Not assoc w R - Interim
rpoC 764365 c.996C>T synonymous_variant 0.46 rifampicin Not assoc w R - Interim
rpoC 764371 c.1002G>C synonymous_variant 0.45 rifampicin Not assoc w R - Interim
rpoC 764380 c.1011G>C synonymous_variant 0.38 rifampicin Not assoc w R - Interim
rpoC 764387 c.1018T>C synonymous_variant 0.4 rifampicin Not assoc w R - Interim
rpoC 764405 c.1036_1038delAGGinsCGC synonymous_variant 0.37 rifampicin Not assoc w R - Interim
rpoC 764485 c.1116G>C synonymous_variant 0.26 rifampicin
rpoC 764632 c.1263T>C synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoC 764701 c.1332C>G synonymous_variant 0.31 rifampicin Not assoc w R - Interim
rpoC 764713 c.1344G>T synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoC 764716 c.1347G>C synonymous_variant 0.28 rifampicin Not assoc w R - Interim
rpoC 764746 c.1377G>T synonymous_variant 0.28 rifampicin Not assoc w R - Interim
rpoC 764752 c.1383G>C synonymous_variant 0.27 rifampicin Not assoc w R - Interim
rpoC 764758 c.1389C>G synonymous_variant 0.25 rifampicin Not assoc w R - Interim
rpoC 764764 c.1395T>C synonymous_variant 0.28 rifampicin Not assoc w R - Interim
rpoC 764840 p.Ile491Val missense_variant 0.84 rifampicin Uncertain significance
rpoC 765466 c.2097C>T synonymous_variant 0.2 rifampicin
rpoC 765478 c.2109T>C synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoC 765480 p.Tyr704Phe missense_variant 0.2 rifampicin Uncertain significance
rpoC 765908 c.2539C>T synonymous_variant 0.32 rifampicin
rpoC 765934 c.2565C>T synonymous_variant 0.28 rifampicin
rpoC 767098 c.3729T>C synonymous_variant 0.33 rifampicin Not assoc w R - Interim
rpoC 767104 c.3735C>G synonymous_variant 0.35 rifampicin Not assoc w R - Interim
mmpL5 775639 p.Ile948Val missense_variant 1.0 bedaquiline Not assoc w R - Interim
clofazimine Not assoc w R
mmpL5 775951 c.2530C>T synonymous_variant 0.33 bedaquiline
clofazimine
mmpL5 775981 p.Leu834Met missense_variant 0.31 bedaquiline
clofazimine
mmpL5 776100 p.Thr794Ile missense_variant 1.0 bedaquiline Not assoc w R - Interim
clofazimine Not assoc w R
mmpL5 776182 p.Asp767Asn missense_variant 1.0 bedaquiline Not assoc w R
clofazimine Not assoc w R
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0 bedaquiline
clofazimine
rpsL 781395 c.-165T>C upstream_gene_variant 1.0 streptomycin Not assoc w R
rpsL 781772 c.213C>T synonymous_variant 0.22 streptomycin Not assoc w R - Interim
rpsL 781814 c.255C>T synonymous_variant 0.18 streptomycin
rpsL 781817 c.258G>T synonymous_variant 0.18 streptomycin
rplC 800633 c.-176T>C upstream_gene_variant 0.16 linezolid
rplC 800645 c.-164C>G upstream_gene_variant 0.18 linezolid
rplC 800648 c.-161A>G upstream_gene_variant 0.17 linezolid
rplC 800654 c.-155T>C upstream_gene_variant 0.18 linezolid
Rv1129c 1254562 c.-28T>C upstream_gene_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
isoniazid Not assoc w R
rifampicin Not assoc w R
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0 streptomycin Uncertain significance
pyrazinamide Uncertain significance
isoniazid Uncertain significance
rrs 1471659 n.-187C>T upstream_gene_variant 1.0 kanamycin
capreomycin
streptomycin
amikacin
rrs 1471986 n.141C>T non_coding_transcript_exon_variant 0.36 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472019 n.174G>A non_coding_transcript_exon_variant 0.35 kanamycin
capreomycin
streptomycin
amikacin
rrs 1472023 n.178G>T non_coding_transcript_exon_variant 0.37 kanamycin
capreomycin
streptomycin
amikacin
rrs 1472031 n.186G>C non_coding_transcript_exon_variant 0.3 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1472033 n.188A>C non_coding_transcript_exon_variant 0.3 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1472035 n.190G>T non_coding_transcript_exon_variant 0.31 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1472040 n.195T>G non_coding_transcript_exon_variant 0.33 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1472041 n.196C>T non_coding_transcript_exon_variant 0.33 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472042 n.197T>G non_coding_transcript_exon_variant 0.33 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1472053 n.211_212delGC non_coding_transcript_exon_variant 0.35 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1472061 n.216A>T non_coding_transcript_exon_variant 0.35 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1472075 n.230A>G non_coding_transcript_exon_variant 0.41 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.43 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Not assoc w R
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.43 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472446 n.601T>A non_coding_transcript_exon_variant 0.56 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1472452 n.607G>A non_coding_transcript_exon_variant 0.54 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1472464 n.619A>G non_coding_transcript_exon_variant 0.6 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472846 n.1001C>A non_coding_transcript_exon_variant 0.32 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472847 n.1002G>C non_coding_transcript_exon_variant 0.32 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1472849 n.1004C>G non_coding_transcript_exon_variant 0.3 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1472850 n.1005T>C non_coding_transcript_exon_variant 0.32 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472857 n.1012A>G non_coding_transcript_exon_variant 0.3 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472858 n.1013G>T non_coding_transcript_exon_variant 0.3 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472860 n.1015C>G non_coding_transcript_exon_variant 0.32 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1472861 n.1016G>T non_coding_transcript_exon_variant 0.32 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.31 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.34 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.32 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.32 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473123 n.1278delAinsTC non_coding_transcript_exon_variant 0.33 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.23 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474266 n.609T>C non_coding_transcript_exon_variant 0.23 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474269 n.612C>T non_coding_transcript_exon_variant 0.2 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474753 n.1096A>G non_coding_transcript_exon_variant 0.4 capreomycin Uncertain significance
linezolid
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.4 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.61 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474803 n.1146G>A non_coding_transcript_exon_variant 0.56 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 0.64 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 0.56 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 0.35 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476160 n.2503T>C non_coding_transcript_exon_variant 0.29 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.48 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476215 n.2558C>T non_coding_transcript_exon_variant 0.48 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.55 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476251 n.2594T>G non_coding_transcript_exon_variant 0.62 capreomycin Uncertain significance
linezolid
rrl 1476256 n.2599A>T non_coding_transcript_exon_variant 0.65 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.74 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.75 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.65 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476299 n.2642C>T non_coding_transcript_exon_variant 0.65 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476529 n.2872A>G non_coding_transcript_exon_variant 0.43 capreomycin Uncertain significance
linezolid
rrl 1476540 n.2883C>T non_coding_transcript_exon_variant 0.45 capreomycin Uncertain significance
linezolid
rrl 1476583 n.2926G>A non_coding_transcript_exon_variant 0.43 capreomycin Uncertain significance
linezolid
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.41 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476594 n.2937C>T non_coding_transcript_exon_variant 0.43 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476597 n.2940G>A non_coding_transcript_exon_variant 0.43 capreomycin Uncertain significance
linezolid
rrl 1476603 n.2946G>A non_coding_transcript_exon_variant 0.44 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476628 n.2971T>A non_coding_transcript_exon_variant 0.39 capreomycin Uncertain significance
linezolid Uncertain significance
inhA 1674210 c.9A>C synonymous_variant 1.0 isoniazid Not assoc w R
ethionamide Not assoc w R - Interim
rpsA 1833862 c.321G>T synonymous_variant 0.22 pyrazinamide
rpsA 1833894 p.Ala118Glu missense_variant 0.26 pyrazinamide
rpsA 1833904 c.363G>A synonymous_variant 0.27 pyrazinamide
rpsA 1833928 c.387G>C synonymous_variant 0.28 pyrazinamide
rpsA 1833949 c.408T>C synonymous_variant 0.27 pyrazinamide
rpsA 1833970 c.429G>T synonymous_variant 0.25 pyrazinamide
rpsA 1833976 c.435C>T synonymous_variant 0.24 pyrazinamide
rpsA 1833979 c.438T>C synonymous_variant 0.24 pyrazinamide
rpsA 1833991 c.450C>A synonymous_variant 0.27 pyrazinamide
rpsA 1834000 c.459G>C synonymous_variant 0.29 pyrazinamide
rpsA 1834009 c.468C>T synonymous_variant 0.28 pyrazinamide
rpsA 1834012 c.471G>T synonymous_variant 0.28 pyrazinamide
rpsA 1834015 c.474G>C synonymous_variant 0.28 pyrazinamide
rpsA 1834021 c.480C>T synonymous_variant 0.33 pyrazinamide
rpsA 1834030 c.489C>G synonymous_variant 0.32 pyrazinamide
rpsA 1834177 c.636A>C synonymous_variant 1.0 pyrazinamide Not assoc w R - Interim
rpsA 1834189 c.648G>C synonymous_variant 0.26 pyrazinamide
rpsA 1834213 c.672G>C synonymous_variant 0.29 pyrazinamide
rpsA 1834234 c.693G>C synonymous_variant 0.25 pyrazinamide
rpsA 1834240 c.699T>C synonymous_variant 0.28 pyrazinamide
rpsA 1834246 c.705G>C synonymous_variant 0.29 pyrazinamide
rpsA 1834249 c.708T>C synonymous_variant 0.28 pyrazinamide
rpsA 1834252 c.711C>G synonymous_variant 0.3 pyrazinamide
rpsA 1834261 c.720A>G synonymous_variant 0.3 pyrazinamide Not assoc w R - Interim
rpsA 1834264 c.723G>C synonymous_variant 0.29 pyrazinamide
rpsA 1834279 c.738C>T synonymous_variant 0.38 pyrazinamide Not assoc w R - Interim
rpsA 1834297 c.756C>T synonymous_variant 0.42 pyrazinamide
rpsA 1834303 c.762T>G synonymous_variant 0.42 pyrazinamide
rpsA 1834306 c.765T>C synonymous_variant 0.45 pyrazinamide
rpsA 1834345 c.804C>T synonymous_variant 0.34 pyrazinamide
rpsA 1834348 c.807T>C synonymous_variant 0.3 pyrazinamide Not assoc w R - Interim
rpsA 1834361 c.820T>C synonymous_variant 0.36 pyrazinamide
rpsA 1834366 c.825A>G synonymous_variant 0.33 pyrazinamide Not assoc w R - Interim
rpsA 1834396 c.855G>C synonymous_variant 0.47 pyrazinamide
rpsA 1834411 c.870T>C synonymous_variant 0.53 pyrazinamide
rpsA 1834423 c.882G>T synonymous_variant 0.53 pyrazinamide
rpsA 1834451 c.910T>C synonymous_variant 0.41 pyrazinamide
rpsA 1834456 c.915T>G synonymous_variant 0.41 pyrazinamide
rpsA 1834468 c.927A>G synonymous_variant 0.38 pyrazinamide
rpsA 1834489 c.948T>C synonymous_variant 0.35 pyrazinamide
rpsA 1834498 c.957C>T synonymous_variant 0.33 pyrazinamide
rpsA 1834513 c.972C>G synonymous_variant 0.34 pyrazinamide
rpsA 1834520 p.Ala327Ser missense_variant 0.33 pyrazinamide
rpsA 1834528 c.987T>C synonymous_variant 0.25 pyrazinamide
rpsA 1834540 c.999G>C synonymous_variant 0.23 pyrazinamide
rpsA 1834543 c.1002C>G synonymous_variant 0.23 pyrazinamide
rpsA 1834546 c.1005T>C synonymous_variant 0.22 pyrazinamide
tsnR 1854300 p.Leu232Pro missense_variant 1.0 linezolid Not assoc w R
tlyA 1917972 c.33A>G synonymous_variant 1.0 capreomycin Not assoc w R
katG 2154724 p.Arg463Leu missense_variant 1.0 isoniazid Not assoc w R
PPE35 2167926 p.Leu896Ser missense_variant 1.0 pyrazinamide Not assoc w R
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0 bedaquiline Not assoc w R - Interim
clofazimine Not assoc w R
Rv1979c 2223445 c.-281C>T upstream_gene_variant 1.0 bedaquiline Uncertain significance
clofazimine Uncertain significance
pncA 2289238 p.Arg2Trp missense_variant 1.0 pyrazinamide Uncertain significance
pepQ 2859864 c.555T>G synonymous_variant 1.0 bedaquiline Not assoc w R - Interim
clofazimine Not assoc w R - Interim
ald 3086788 c.-32T>C upstream_gene_variant 1.0 cycloserine
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0 pyrazinamide Not assoc w R - Interim
mtrB 3625065 p.Met517Leu missense_variant 1.0 rifampicin Not assoc w R
bedaquiline Uncertain significance
mtrB 3626562 p.Pro18Ser missense_variant 1.0 rifampicin Not assoc w R
bedaquiline Uncertain significance
rpoA 3877848 c.660C>T synonymous_variant 0.41 rifampicin Not assoc w R - Interim
rpoA 3877856 c.652T>C synonymous_variant 0.38 rifampicin Not assoc w R - Interim
rpoA 3877857 c.651G>A synonymous_variant 0.36 rifampicin
rpoA 3877866 c.642G>C synonymous_variant 0.38 rifampicin
rpoA 3877875 c.633T>A synonymous_variant 0.35 rifampicin
rpoA 3877878 c.630G>C synonymous_variant 0.35 rifampicin
rpoA 3877887 c.621G>C synonymous_variant 0.38 rifampicin
rpoA 3877893 c.615C>T synonymous_variant 0.34 rifampicin Not assoc w R - Interim
rpoA 3877905 c.603A>G synonymous_variant 0.37 rifampicin Not assoc w R - Interim
rpoA 3877908 c.600T>C synonymous_variant 0.37 rifampicin Not assoc w R - Interim
rpoA 3877920 c.588G>C synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoA 3877923 c.585C>T synonymous_variant 0.3 rifampicin Not assoc w R - Interim
rpoA 3877926 c.582G>C synonymous_variant 0.3 rifampicin
rpoA 3877962 c.546G>T synonymous_variant 0.19 rifampicin Not assoc w R - Interim
clpC1 4038623 c.2082A>G synonymous_variant 0.47 pyrazinamide
clpC1 4038640 p.Asp689Asn missense_variant 0.35 pyrazinamide
clpC1 4038647 c.2058T>G synonymous_variant 0.32 pyrazinamide
clpC1 4039046 c.1659C>T synonymous_variant 0.29 pyrazinamide Not assoc w R - Interim
clpC1 4039064 c.1641C>T synonymous_variant 0.27 pyrazinamide
clpC1 4039067 c.1638G>C synonymous_variant 0.26 pyrazinamide
clpC1 4039079 c.1626C>G synonymous_variant 0.3 pyrazinamide Not assoc w R - Interim
clpC1 4039085 c.1620A>G synonymous_variant 0.27 pyrazinamide
clpC1 4039898 c.807C>G synonymous_variant 0.3 pyrazinamide
clpC1 4039904 c.801A>G synonymous_variant 0.27 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
aftB 4267647 p.Asp397Gly 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
gid 4407927 p.Glu92Asp missense_variant 1.0 streptomycin Not assoc w R