TB-Profiler result

Run: ERR9786346
Summary

Run ID: ERR9786346

Sample name:

Date: 2024-04-16T07:44:35.204063

Number of reads: 1563026

Percentage reads mapped: 87.42

Median coverage: 73.0

Strain: lineage4.3.4.2

Spoligotype:

Drug-resistance: Sensitive

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Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family RDs Frequency
lineage4.3 Euro-American (LAM) None 1.0
lineage4 Euro-American None 1.0
lineage4.3.4 Euro-American (LAM) RD174 1.0
lineage4.3.4.2 Euro-American (LAM) RD174 0.98
Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations WHO confidence Comment
rifampicin
isoniazid
ethambutol
pyrazinamide
streptomycin
fluoroquinolones
moxifloxacin
ofloxacin
levofloxacin
ciprofloxacin
aminoglycosides
amikacin
capreomycin
kanamycin
cycloserine
ethionamide
clofazimine
para-aminosalicylic_acid
delamanid
bedaquiline
linezolid
Drug resistance-Associated Mutations: This table reports mutations found in candidate resistance genes which have been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs Confidence Comment
Non-Associated Mutations: This table reports mutations found in candidate resistance genes which have not been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs Confidence
gyrA 7362 p.Glu21Gln missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 7457 c.156T>C synonymous_variant 0.12 levofloxacin
moxifloxacin
gyrA 7475 c.174A>C synonymous_variant 0.13 levofloxacin
moxifloxacin
gyrA 7511 c.210C>T synonymous_variant 0.14 levofloxacin
moxifloxacin
gyrA 7514 c.213C>G synonymous_variant 0.14 levofloxacin
moxifloxacin
gyrA 7517 c.216G>A synonymous_variant 0.15 levofloxacin
moxifloxacin
gyrA 7526 c.225G>C synonymous_variant 0.15 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 7529 c.228G>C synonymous_variant 0.15 levofloxacin
moxifloxacin
gyrA 7532 c.231T>G synonymous_variant 0.15 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 7541 c.240C>G synonymous_variant 0.15 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 7568 c.267C>T synonymous_variant 0.15 levofloxacin Not assoc w R - Interim
moxifloxacin
gyrA 7585 p.Ser95Thr missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 7592 c.291G>C synonymous_variant 0.13 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 7595 c.294C>G synonymous_variant 0.14 levofloxacin
moxifloxacin
gyrA 7637 c.336C>G synonymous_variant 0.13 levofloxacin
moxifloxacin
gyrA 7658 c.357A>G synonymous_variant 0.14 levofloxacin
moxifloxacin
gyrA 7664 c.363T>C synonymous_variant 0.13 levofloxacin
moxifloxacin
gyrA 7670 c.369A>G synonymous_variant 0.14 levofloxacin
moxifloxacin
gyrA 7676 c.375G>C synonymous_variant 0.14 levofloxacin
moxifloxacin
gyrA 7679 c.378G>C synonymous_variant 0.15 levofloxacin
moxifloxacin
gyrA 8828 c.1527T>C synonymous_variant 0.14 levofloxacin
moxifloxacin
gyrA 8829 c.1528T>C synonymous_variant 0.14 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8852 c.1551T>C synonymous_variant 0.14 levofloxacin
moxifloxacin
gyrA 8858 c.1557T>G synonymous_variant 0.13 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 9304 p.Gly668Asp missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 9345 c.2044A>C synonymous_variant 0.12 levofloxacin
moxifloxacin
gyrA 9356 c.2055G>A synonymous_variant 0.13 levofloxacin
moxifloxacin
gyrA 9374 c.2073G>C synonymous_variant 0.13 levofloxacin
moxifloxacin
gyrA 9377 c.2076A>G synonymous_variant 0.13 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 9383 c.2082T>C synonymous_variant 0.13 levofloxacin
moxifloxacin
gyrA 9395 c.2094G>C synonymous_variant 0.12 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 9398 c.2097T>C synonymous_variant 0.12 levofloxacin
moxifloxacin
fgd1 491037 c.255C>G synonymous_variant 0.14 clofazimine
pretomanid
delamanid
fgd1 491043 c.261T>G synonymous_variant 0.14 clofazimine
pretomanid
delamanid
fgd1 491091 c.309T>C synonymous_variant 0.14 clofazimine
pretomanid
delamanid
fgd1 491094 c.312C>G synonymous_variant 0.14 clofazimine
pretomanid
delamanid
fgd1 491106 c.324T>A synonymous_variant 0.14 clofazimine
pretomanid
delamanid
fgd1 491115 c.333G>C synonymous_variant 0.14 clofazimine
pretomanid
delamanid
fgd1 491121 c.339A>G synonymous_variant 0.14 clofazimine
pretomanid
delamanid
mshA 575466 p.Ala40Val missense_variant 1.0 ethionamide
isoniazid Uncertain significance
rpoB 760430 c.624T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 760475 c.669A>G synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 760478 c.672C>T synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 760481 c.675G>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 760484 c.678A>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 760487 c.681G>C synonymous_variant 0.16 rifampicin
rpoB 760502 c.696C>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 760522 p.Ser239Asn missense_variant 0.14 rifampicin Uncertain significance
rpoB 760533 p.Val243Ile missense_variant 0.12 rifampicin
rpoB 760946 c.1140A>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 762065 c.2259T>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoB 762083 c.2277T>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoB 762101 c.2295C>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 762114 p.Ile770Val missense_variant 0.13 rifampicin Uncertain significance
rpoB 762122 c.2316C>T synonymous_variant 0.14 rifampicin
rpoB 762131 c.2325C>G synonymous_variant 0.16 rifampicin
rpoB 762140 c.2334G>C synonymous_variant 0.15 rifampicin
rpoB 762143 c.2337T>C synonymous_variant 0.15 rifampicin
rpoB 762149 c.2343G>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 762158 c.2352G>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 762167 c.2361T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 762176 c.2370T>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 762233 c.2427G>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 762257 c.2451C>G synonymous_variant 0.16 rifampicin
rpoB 762275 c.2469C>G synonymous_variant 0.17 rifampicin
rpoB 762284 c.2478G>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoB 762293 c.2487T>G synonymous_variant 0.16 rifampicin
rpoB 762314 c.2508C>T synonymous_variant 0.15 rifampicin
rpoB 762317 c.2511A>G synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 762338 c.2532T>C synonymous_variant 0.19 rifampicin
rpoB 762341 c.2535G>T synonymous_variant 0.19 rifampicin
rpoB 762347 c.2541T>C synonymous_variant 0.19 rifampicin
rpoB 762362 p.Glu852Asp missense_variant 0.17 rifampicin
rpoB 762369 c.2563T>C synonymous_variant 0.16 rifampicin
rpoC 762374 c.-996G>C upstream_gene_variant 0.16 rifampicin
rpoC 762380 c.-990T>C upstream_gene_variant 0.16 rifampicin
rpoC 762390 c.-980C>T upstream_gene_variant 0.17 rifampicin
rpoC 762395 c.-975G>C upstream_gene_variant 0.17 rifampicin
rpoC 762398 c.-972T>C upstream_gene_variant 0.17 rifampicin
rpoC 762401 c.-969G>C upstream_gene_variant 0.16 rifampicin
rpoB 762404 c.2598T>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 762407 c.-963G>C upstream_gene_variant 0.18 rifampicin
rpoB 762410 c.2604T>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 762416 c.2610A>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 762434 c.-936T>C upstream_gene_variant 0.17 rifampicin
rpoB 762449 c.2643C>A synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 762452 c.2646G>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoB 762929 c.3123G>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 762995 c.3189G>C synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoB 763004 c.3198G>A synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoB 763007 c.3201C>T synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoB 763028 c.3222T>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoB 763031 c.3225T>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoB 763034 c.3228C>G synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 763040 c.3234C>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 763070 c.3264T>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoB 763085 c.3279C>G synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 763115 c.3309T>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 763127 c.3321G>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 763133 c.-237G>C upstream_gene_variant 0.12 rifampicin
rpoC 763139 c.-231C>T upstream_gene_variant 0.12 rifampicin
rpoC 763528 c.159G>A synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 763546 c.177A>G synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoC 763570 c.201G>C synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoC 763573 c.204G>C synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoC 763594 c.225C>T synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoC 763660 c.291T>G synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 763675 c.306C>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 763765 c.396T>C synonymous_variant 0.21 rifampicin
rpoC 763768 c.399C>T synonymous_variant 0.21 rifampicin
rpoC 763774 c.405G>C synonymous_variant 0.22 rifampicin
rpoC 763781 p.Ser138Glu missense_variant 0.2 rifampicin
rpoC 763807 c.438T>C synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoC 763813 c.444C>G synonymous_variant 0.16 rifampicin
rpoC 763816 c.447C>G synonymous_variant 0.16 rifampicin
rpoC 763822 c.453C>G synonymous_variant 0.16 rifampicin
rpoC 763831 c.462A>G synonymous_variant 0.15 rifampicin
rpoC 763837 c.468G>C synonymous_variant 0.16 rifampicin
rpoC 763840 c.471G>C synonymous_variant 0.14 rifampicin
rpoC 763849 c.480G>A synonymous_variant 0.13 rifampicin
rpoC 763910 p.Leu181Met missense_variant 0.12 rifampicin
rpoC 763933 c.564C>T synonymous_variant 0.12 rifampicin Not assoc w R - Interim
rpoC 763940 p.Ala191Ser missense_variant 0.13 rifampicin Uncertain significance
rpoC 763945 c.576T>C synonymous_variant 0.13 rifampicin
rpoC 763947 p.Ala193Val missense_variant 0.13 rifampicin Uncertain significance
rpoC 763951 c.582G>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 763960 c.591T>G synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 764098 c.729A>G synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 764101 c.732C>G synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 764103 p.Val245Glu missense_variant 0.13 rifampicin
rpoC 764131 c.762T>C synonymous_variant 0.16 rifampicin
rpoC 764491 c.1122G>T synonymous_variant 0.12 rifampicin
rpoC 764497 c.1128A>G synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 764521 c.1152T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 764527 c.1158C>T synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 764536 c.1167G>T synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 764539 c.1170C>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 764575 c.1206T>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 764578 c.1209C>G synonymous_variant 0.16 rifampicin
rpoC 764585 c.1216_1218delCTCinsTG frameshift_variant&missense_variant 0.14 rifampicin
rpoC 764611 c.1242G>T synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 764650 c.1281G>T synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 764686 c.1317C>T synonymous_variant 0.15 rifampicin
rpoC 764713 c.1344G>A synonymous_variant 0.13 rifampicin
rpoC 764803 c.1434C>T synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 764809 c.1440C>T synonymous_variant 0.13 rifampicin Not assoc w R
rpoC 764812 c.1443C>G synonymous_variant 0.13 rifampicin
rpoC 764824 c.1455T>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 764995 c.1626C>G synonymous_variant 0.97 rifampicin Not assoc w R
rpoC 766951 c.3582G>T synonymous_variant 0.12 rifampicin
rpoC 766963 c.3594T>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 766978 c.3609C>T synonymous_variant 0.14 rifampicin
rpoC 766981 c.3612T>C synonymous_variant 0.13 rifampicin
rpoC 766996 c.3627C>T synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 767002 c.3633G>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 767020 c.3651C>T synonymous_variant 0.12 rifampicin
rpoC 767023 c.3654C>T synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 767098 c.3729T>C synonymous_variant 0.13 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
rplC 800693 c.-116A>C upstream_gene_variant 0.12 linezolid
rplC 800702 c.-107G>A upstream_gene_variant 0.13 linezolid
rplC 800703 c.-106T>C upstream_gene_variant 0.14 linezolid
rplC 800715 c.-94A>C upstream_gene_variant 0.15 linezolid
rplC 800720 c.-89T>C upstream_gene_variant 0.14 linezolid
rplC 800723 c.-86C>G upstream_gene_variant 0.15 linezolid
rplC 800735 c.-74C>G upstream_gene_variant 0.14 linezolid
rplC 800738 c.-71T>C upstream_gene_variant 0.14 linezolid
rplC 800747 c.-62C>G upstream_gene_variant 0.13 linezolid
rplC 800762 c.-47T>G upstream_gene_variant 0.13 linezolid
rplC 800774 c.-35C>T upstream_gene_variant 0.12 linezolid
rplC 800815 c.7C>A synonymous_variant 0.12 linezolid
rrs 1471659 n.-187C>T upstream_gene_variant 1.0 streptomycin
kanamycin
capreomycin
amikacin
rrs 1472279 n.434T>C non_coding_transcript_exon_variant 0.15 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472286 n.441C>G non_coding_transcript_exon_variant 0.14 streptomycin
kanamycin
capreomycin
amikacin
rrs 1472287 n.442C>T non_coding_transcript_exon_variant 0.14 streptomycin
kanamycin
capreomycin
amikacin
rrs 1472297 n.453_454delGT non_coding_transcript_exon_variant 0.14 streptomycin
kanamycin
capreomycin
amikacin
rrs 1472327 n.482G>A non_coding_transcript_exon_variant 0.18 streptomycin
kanamycin
capreomycin
amikacin
rrs 1472328 n.483G>C non_coding_transcript_exon_variant 0.18 streptomycin Uncertain significance
kanamycin
capreomycin
amikacin
rrs 1472446 n.601T>A non_coding_transcript_exon_variant 0.16 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472452 n.607G>A non_coding_transcript_exon_variant 0.18 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472464 n.619A>G non_coding_transcript_exon_variant 0.17 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472489 n.644A>G non_coding_transcript_exon_variant 0.17 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472973 n.1128A>G non_coding_transcript_exon_variant 0.25 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.19 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.18 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.18 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473123 n.1278delAinsTC non_coding_transcript_exon_variant 0.17 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.13 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473289 n.1444T>G non_coding_transcript_exon_variant 0.13 streptomycin
kanamycin
capreomycin
amikacin
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.14 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrl 1473743 n.86C>T non_coding_transcript_exon_variant 0.14 capreomycin
linezolid
rrl 1473770 n.113T>G non_coding_transcript_exon_variant 0.16 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473788 n.131A>G non_coding_transcript_exon_variant 0.16 capreomycin Uncertain significance
linezolid
rrl 1473806 n.149C>T non_coding_transcript_exon_variant 0.16 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473807 n.150T>C non_coding_transcript_exon_variant 0.16 capreomycin Uncertain significance
linezolid
rrl 1473811 n.154C>A non_coding_transcript_exon_variant 0.16 capreomycin
linezolid
rrl 1473813 n.156C>G non_coding_transcript_exon_variant 0.17 capreomycin
linezolid
rrl 1473814 n.157A>C non_coding_transcript_exon_variant 0.17 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473815 n.158T>G non_coding_transcript_exon_variant 0.17 capreomycin Uncertain significance
linezolid
rrl 1473816 n.159C>G non_coding_transcript_exon_variant 0.17 capreomycin Uncertain significance
linezolid
rrl 1473822 n.165A>G non_coding_transcript_exon_variant 0.17 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473828 n.171G>C non_coding_transcript_exon_variant 0.18 capreomycin
linezolid
rrl 1473829 n.172G>C non_coding_transcript_exon_variant 0.18 capreomycin Uncertain significance
linezolid
rrl 1473830 n.173T>G non_coding_transcript_exon_variant 0.2 capreomycin
linezolid
rrl 1473831 n.174G>T non_coding_transcript_exon_variant 0.2 capreomycin Uncertain significance
linezolid
rrl 1473833 n.176G>T non_coding_transcript_exon_variant 0.19 capreomycin
linezolid
rrl 1473836 n.179A>G non_coding_transcript_exon_variant 0.2 capreomycin
linezolid Uncertain significance
rrl 1473876 n.219G>A non_coding_transcript_exon_variant 0.21 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473898 n.241C>T non_coding_transcript_exon_variant 0.21 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473899 n.242A>T non_coding_transcript_exon_variant 0.2 capreomycin
linezolid
rrl 1474202 n.545T>C non_coding_transcript_exon_variant 0.13 capreomycin
linezolid
rrl 1474282 n.625G>A non_coding_transcript_exon_variant 0.14 capreomycin Uncertain significance
linezolid
rrl 1474350 n.693G>C non_coding_transcript_exon_variant 0.17 capreomycin
linezolid
rrl 1474351 n.694G>C non_coding_transcript_exon_variant 0.17 capreomycin Uncertain significance
linezolid
rrl 1474362 n.705A>G non_coding_transcript_exon_variant 0.2 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474374 n.717T>G non_coding_transcript_exon_variant 0.17 capreomycin Uncertain significance
linezolid
rrl 1474446 n.789C>T non_coding_transcript_exon_variant 0.12 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474452 n.795C>G non_coding_transcript_exon_variant 0.13 capreomycin
linezolid
rrl 1474626 n.969T>C non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474627 n.970G>A non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474629 n.972G>A non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid
rrl 1474632 n.975G>T non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474636 n.979A>T non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid
rrl 1474637 n.980C>T non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid
rrl 1474638 n.981C>G non_coding_transcript_exon_variant 0.12 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474639 n.982G>T non_coding_transcript_exon_variant 0.12 capreomycin Uncertain significance
linezolid
rrl 1474710 n.1053delTinsACAA non_coding_transcript_exon_variant 0.17 capreomycin
linezolid
rrl 1474720 n.1063C>T non_coding_transcript_exon_variant 0.17 capreomycin
linezolid
rrl 1474753 n.1096A>G non_coding_transcript_exon_variant 0.18 capreomycin Uncertain significance
linezolid
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.21 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 0.16 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475505 n.1848G>A non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid
rrl 1475526 n.1869C>A non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475532 n.1875A>G non_coding_transcript_exon_variant 0.14 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475603 n.1946G>C non_coding_transcript_exon_variant 0.13 capreomycin
linezolid
rrl 1475604 n.1947A>C non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid
rrl 1475606 n.1949T>C non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid
rrl 1475608 n.1951T>C non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid
rrl 1475613 n.1956A>T non_coding_transcript_exon_variant 0.13 capreomycin
linezolid
rrl 1475615 n.1958C>A non_coding_transcript_exon_variant 0.13 capreomycin
linezolid
rrl 1475616 n.1959A>G non_coding_transcript_exon_variant 0.14 capreomycin
linezolid
rrl 1475626 n.1969T>C non_coding_transcript_exon_variant 0.14 capreomycin
linezolid
rrl 1475627 n.1970G>C non_coding_transcript_exon_variant 0.14 capreomycin
linezolid
rrl 1475628 n.1971G>C non_coding_transcript_exon_variant 0.14 capreomycin
linezolid
rrl 1475629 n.1972G>A non_coding_transcript_exon_variant 0.14 capreomycin
linezolid
rrl 1475637 n.1980T>G non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid
rrl 1475638 n.1981C>G non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid
rrl 1475639 n.1982C>G non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid
rrl 1475643 n.1986C>G non_coding_transcript_exon_variant 0.13 capreomycin
linezolid
rrl 1475647 n.1990G>C non_coding_transcript_exon_variant 0.16 capreomycin
linezolid
rrl 1475659 n.2002G>A non_coding_transcript_exon_variant 0.14 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475707 n.2050T>G non_coding_transcript_exon_variant 0.15 capreomycin
linezolid
rrl 1475884 n.2227A>G non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475916 n.2259C>T non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.18 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1475991 n.2334T>C non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid
rrl 1475995 n.2338G>A non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid
rrl 1476030 n.2373A>G non_coding_transcript_exon_variant 0.17 capreomycin Uncertain significance
linezolid
rrl 1476032 n.2375C>A non_coding_transcript_exon_variant 0.17 capreomycin
linezolid
rrl 1476033 n.2376T>G non_coding_transcript_exon_variant 0.17 capreomycin
linezolid
rrl 1476034 n.2377C>T non_coding_transcript_exon_variant 0.18 capreomycin
linezolid
rrl 1476035 n.2378G>C non_coding_transcript_exon_variant 0.18 capreomycin Uncertain significance
linezolid
rrl 1476044 n.2387T>G non_coding_transcript_exon_variant 0.17 capreomycin Uncertain significance
linezolid
rrl 1476045 n.2388G>A non_coding_transcript_exon_variant 0.17 capreomycin
linezolid
rrl 1476046 n.2389G>T non_coding_transcript_exon_variant 0.17 capreomycin
linezolid
rrl 1476047 n.2390G>T non_coding_transcript_exon_variant 0.17 capreomycin
linezolid
rrl 1476049 n.2392C>T non_coding_transcript_exon_variant 0.17 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476058 n.2401T>C non_coding_transcript_exon_variant 0.17 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476088 n.2431A>C non_coding_transcript_exon_variant 0.22 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476115 n.2458T>C non_coding_transcript_exon_variant 0.25 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476165 n.2508T>A non_coding_transcript_exon_variant 0.24 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.22 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476215 n.2558C>T non_coding_transcript_exon_variant 0.22 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.24 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476251 n.2594T>G non_coding_transcript_exon_variant 0.21 capreomycin Uncertain significance
linezolid
rrl 1476252 n.2595T>A non_coding_transcript_exon_variant 0.21 capreomycin Uncertain significance
linezolid
rrl 1476256 n.2599A>T non_coding_transcript_exon_variant 0.2 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.22 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476529 n.2872A>G non_coding_transcript_exon_variant 0.22 capreomycin Uncertain significance
linezolid
rrl 1476583 n.2926G>A non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid
rrl 1476597 n.2940G>A non_coding_transcript_exon_variant 0.16 capreomycin Uncertain significance
linezolid
rpsA 1833733 c.192C>T synonymous_variant 0.13 pyrazinamide
rpsA 1833734 p.Ala65Ser missense_variant 0.13 pyrazinamide
rpsA 1833745 c.204G>C synonymous_variant 0.16 pyrazinamide
rpsA 1833787 c.246C>G synonymous_variant 0.15 pyrazinamide
rpsA 1833790 c.249T>C synonymous_variant 0.15 pyrazinamide
rpsA 1833793 c.252C>T synonymous_variant 0.15 pyrazinamide
rpsA 1833811 c.270G>C synonymous_variant 0.15 pyrazinamide
rpsA 1833832 c.291G>A synonymous_variant 0.18 pyrazinamide
rpsA 1833841 c.300C>G synonymous_variant 0.19 pyrazinamide
rpsA 1833847 c.306C>G synonymous_variant 0.21 pyrazinamide
rpsA 1833856 c.315A>G synonymous_variant 0.2 pyrazinamide
rpsA 1833862 c.321G>C synonymous_variant 0.19 pyrazinamide
rpsA 1833874 c.333T>C synonymous_variant 0.14 pyrazinamide
rpsA 1833892 c.351G>A synonymous_variant 0.15 pyrazinamide
rpsA 1833894 p.Ala118Glu missense_variant 0.15 pyrazinamide
rpsA 1833901 c.360G>A synonymous_variant 0.12 pyrazinamide
rpsA 1833928 c.387G>C synonymous_variant 0.15 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
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0 clofazimine Not assoc w R
bedaquiline Not assoc w R - Interim
Rv2752c 3065293 p.Val300Ala missense_variant 1.0 ethambutol Not assoc w R
moxifloxacin Uncertain significance
levofloxacin Uncertain significance
rifampicin Not assoc w R
isoniazid Not assoc w R - Interim
thyA 3073868 p.Thr202Ala missense_variant 0.98 para-aminosalicylic_acid
ald 3086788 c.-32T>C upstream_gene_variant 1.0 cycloserine
fbiD 3339014 c.-104C>A upstream_gene_variant 0.97 clofazimine
pretomanid
delamanid
Rv3236c 3612009 p.Ala370Thr missense_variant 1.0 pyrazinamide Not assoc w R
mtrB 3625065 p.Met517Leu missense_variant 1.0 bedaquiline Uncertain significance
rifampicin Not assoc w R
mtrB 3625650 p.Tyr322His missense_variant 0.13 bedaquiline
rifampicin
lpqB 3625663 c.-753G>C upstream_gene_variant 0.13 bedaquiline
rifampicin
lpqB 3625690 c.-780T>C upstream_gene_variant 0.13 bedaquiline
rifampicin
lpqB 3625696 c.-786A>G upstream_gene_variant 0.13 bedaquiline
rifampicin
mtrB 3625755 p.Ala287Thr missense_variant 0.12 bedaquiline
rifampicin Uncertain significance
mtrB 3626969 c.-356C>G upstream_gene_variant 0.12 bedaquiline
rifampicin
mtrB 3626999 c.-386G>C upstream_gene_variant 0.12 bedaquiline
rifampicin
rpoA 3877794 c.714G>T synonymous_variant 0.14 rifampicin
rpoA 3877818 c.690A>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoA 3877848 c.660C>T synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoA 3877856 c.652T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoA 3877857 c.651G>A synonymous_variant 0.14 rifampicin
rpoA 3877866 c.642G>C synonymous_variant 0.15 rifampicin
rpoA 3877872 c.636C>T synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoA 3877875 c.633T>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoA 3877896 c.612G>C synonymous_variant 0.12 rifampicin
rpoA 3877920 c.588G>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoA 3877926 c.582G>C synonymous_variant 0.13 rifampicin
rpoA 3877962 c.546G>T synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoA 3877971 p.Asp179Glu missense_variant 0.17 rifampicin Uncertain significance
rpoA 3877986 c.522G>C synonymous_variant 0.18 rifampicin
rpoA 3877989 c.519A>G synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoA 3878001 c.505_507delTCAinsAGC synonymous_variant 0.2 rifampicin
rpoA 3878019 c.489A>G synonymous_variant 0.19 rifampicin
rpoA 3878022 c.486T>C synonymous_variant 0.19 rifampicin
rpoA 3878028 c.480G>C synonymous_variant 0.18 rifampicin
rpoA 3878031 c.477T>C synonymous_variant 0.18 rifampicin
rpoA 3878034 c.474A>G synonymous_variant 0.17 rifampicin
rpoA 3878040 c.468T>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoA 3878046 c.462T>C synonymous_variant 0.16 rifampicin
rpoA 3878050 p.Arg153Lys missense_variant 0.16 rifampicin
rpoA 3878055 c.453A>G synonymous_variant 0.16 rifampicin
rpoA 3878061 c.447G>C synonymous_variant 0.19 rifampicin
rpoA 3878064 c.444G>C synonymous_variant 0.19 rifampicin
rpoA 3878070 c.438T>C synonymous_variant 0.21 rifampicin
rpoA 3878082 c.426T>C synonymous_variant 0.24 rifampicin
rpoA 3878103 c.405A>G synonymous_variant 0.24 rifampicin
rpoA 3878106 c.402G>C synonymous_variant 0.24 rifampicin
rpoA 3878118 c.390T>C synonymous_variant 0.23 rifampicin
rpoA 3878124 c.384G>C synonymous_variant 0.22 rifampicin
rpoA 3878127 c.381G>C synonymous_variant 0.22 rifampicin
rpoA 3878143 p.Gly122Asp missense_variant 0.23 rifampicin Uncertain significance
rpoA 3878160 c.348C>G synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoA 3878163 c.345C>T synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoA 3878172 c.336G>C synonymous_variant 0.2 rifampicin
rpoA 3878187 c.321C>G synonymous_variant 0.18 rifampicin
rpoA 3878193 c.315T>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoA 3878202 c.306G>T synonymous_variant 0.21 rifampicin
rpoA 3878205 c.303T>C synonymous_variant 0.22 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
rpoA 3878253 c.255G>C synonymous_variant 0.19 rifampicin
rpoA 3878256 c.252G>C synonymous_variant 0.18 rifampicin
rpoA 3878264 p.Ser82Gly missense_variant 0.19 rifampicin
rpoA 3878271 c.237T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
clpC1 4038287 c.2418C>T synonymous_variant 1.0 pyrazinamide Not assoc w R
clpC1 4038812 c.1893T>C synonymous_variant 0.15 pyrazinamide
clpC1 4038932 c.1773G>C synonymous_variant 0.14 pyrazinamide
clpC1 4038953 c.1752A>G synonymous_variant 0.15 pyrazinamide
clpC1 4038956 c.1749T>C synonymous_variant 0.15 pyrazinamide
clpC1 4038965 c.1740T>C synonymous_variant 0.15 pyrazinamide
clpC1 4038971 c.1734T>C synonymous_variant 0.15 pyrazinamide
clpC1 4038974 c.1731T>G synonymous_variant 0.15 pyrazinamide
clpC1 4038989 c.1716T>C synonymous_variant 0.13 pyrazinamide
clpC1 4038997 c.1708T>C synonymous_variant 0.14 pyrazinamide Not assoc w R - Interim
clpC1 4039004 c.1701C>G synonymous_variant 0.13 pyrazinamide
clpC1 4039724 c.981A>G synonymous_variant 0.14 pyrazinamide
clpC1 4040105 c.600C>G synonymous_variant 0.15 pyrazinamide
clpC1 4040144 c.561G>C synonymous_variant 0.18 pyrazinamide
clpC1 4040147 c.558A>G synonymous_variant 0.16 pyrazinamide Not assoc w R - Interim
clpC1 4040153 c.552A>G synonymous_variant 0.19 pyrazinamide
clpC1 4040162 c.543G>C synonymous_variant 0.16 pyrazinamide Not assoc w R - Interim
clpC1 4040165 c.540G>C synonymous_variant 0.16 pyrazinamide
clpC1 4040168 c.537G>C synonymous_variant 0.16 pyrazinamide
clpC1 4040171 c.534C>G synonymous_variant 0.16 pyrazinamide
clpC1 4040180 c.525C>T synonymous_variant 0.18 pyrazinamide
clpC1 4040200 c.505T>C synonymous_variant 0.19 pyrazinamide
clpC1 4040201 c.504C>G synonymous_variant 0.18 pyrazinamide
clpC1 4040207 c.498T>G synonymous_variant 0.18 pyrazinamide
clpC1 4040210 c.495G>C synonymous_variant 0.19 pyrazinamide
clpC1 4040213 c.492T>A synonymous_variant 0.19 pyrazinamide
clpC1 4040228 c.477G>A synonymous_variant 0.21 pyrazinamide
clpC1 4040237 c.468C>T synonymous_variant 0.21 pyrazinamide
clpC1 4040243 c.462C>T synonymous_variant 0.21 pyrazinamide Not assoc w R - Interim
clpC1 4040249 c.456A>G synonymous_variant 0.22 pyrazinamide
clpC1 4040257 p.Ala150Thr missense_variant 0.23 pyrazinamide
clpC1 4040267 c.438A>G synonymous_variant 0.24 pyrazinamide Not assoc w R - Interim
clpC1 4040273 c.432T>A synonymous_variant 0.22 pyrazinamide
clpC1 4040277 c.427_428delTCinsAG synonymous_variant 0.19 pyrazinamide
clpC1 4040279 c.426C>G synonymous_variant 0.19 pyrazinamide Not assoc w R - Interim
clpC1 4040291 c.414G>C synonymous_variant 0.21 pyrazinamide
clpC1 4040300 c.405C>T synonymous_variant 0.2 pyrazinamide
clpC1 4040330 c.375C>G synonymous_variant 0.16 pyrazinamide
clpC1 4040335 c.370C>T synonymous_variant 0.16 pyrazinamide
clpC1 4040345 c.360C>G synonymous_variant 0.14 pyrazinamide
embC 4239763 c.-100C>T upstream_gene_variant 1.0 ethambutol Not assoc w R
embC 4242643 c.2781C>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 4408156 p.Leu16Arg missense_variant 1.0 streptomycin Not assoc w R