TB-Profiler result

Run: ERR4831620
Summary

Run ID: ERR4831620

Sample name:

Date: 2024-04-14T05:04:35.491607

Number of reads: 686100

Percentage reads mapped: 51.86

Median coverage: 21.0

Strain: lineage2.2.1

Spoligotype:

Drug-resistance: MDR-TB

Download CSV Download TXT Download JSON
Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family RDs Frequency
lineage2 East-Asian RD105 1.0
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.Leu430Pro Assoc w R
isoniazid katG p.Ser315Thr Assoc w R High-level resistance
ethambutol
pyrazinamide
streptomycin rrs n.514A>C Assoc w R
fluoroquinolones
moxifloxacin
ofloxacin
levofloxacin
ciprofloxacin
aminoglycosides
amikacin
capreomycin
kanamycin
cycloserine
ethionamide
clofazimine mmpR5 c.198delG Assoc w R Can only confer resistance if genetically linked to a functional MmpL5
para-aminosalicylic_acid
delamanid
bedaquiline mmpR5 c.198delG Assoc w R Can only confer resistance if genetically linked to a functional MmpL5
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 761095 p.Leu430Pro missense_variant 0.91 rifampicin Assoc w R
mmpR5 779181 c.198delG frameshift_variant 1.0 bedaquiline Assoc w R Can only confer resistance if genetically linked to a functional MmpL5
clofazimine Assoc w R Can only confer resistance if genetically linked to a functional MmpL5
rrs 1472359 n.514A>C non_coding_transcript_exon_variant 0.5 streptomycin Assoc w R
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid Assoc w R High-level resistance
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 7391 c.90C>T synonymous_variant 0.24 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 7394 c.93T>C synonymous_variant 0.24 levofloxacin Not assoc w R - Interim
moxifloxacin
gyrA 7397 c.96G>C synonymous_variant 0.3 levofloxacin
moxifloxacin
gyrA 7406 c.105G>C synonymous_variant 0.37 levofloxacin
moxifloxacin
gyrA 7412 c.111C>G synonymous_variant 0.43 levofloxacin
moxifloxacin
gyrA 7433 c.132G>A synonymous_variant 0.43 levofloxacin
moxifloxacin
gyrA 7442 c.141G>C synonymous_variant 0.42 levofloxacin
moxifloxacin
gyrA 7457 c.156T>C synonymous_variant 0.39 levofloxacin
moxifloxacin
gyrA 7463 c.162G>C synonymous_variant 0.39 levofloxacin
moxifloxacin
gyrA 7472 c.171T>C synonymous_variant 0.36 levofloxacin Not assoc w R - Interim
moxifloxacin
gyrA 7475 c.174A>G synonymous_variant 0.37 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 7480 p.Phe60Tyr missense_variant 0.35 levofloxacin
moxifloxacin
gyrA 7484 c.183T>C synonymous_variant 0.33 levofloxacin
moxifloxacin
gyrA 7499 c.198G>C synonymous_variant 0.34 levofloxacin
moxifloxacin
gyrA 7585 p.Ser95Thr missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 7763 c.462T>G synonymous_variant 0.31 levofloxacin
moxifloxacin
gyrA 7832 c.531G>T synonymous_variant 0.32 levofloxacin
moxifloxacin
gyrA 7835 c.534A>G synonymous_variant 0.32 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 7841 c.540C>T synonymous_variant 0.31 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 7847 c.546G>C synonymous_variant 0.3 levofloxacin
moxifloxacin
gyrA 7859 c.558A>C synonymous_variant 0.25 levofloxacin
moxifloxacin
gyrA 7865 c.564T>C synonymous_variant 0.22 levofloxacin
moxifloxacin
gyrA 9304 p.Gly668Asp missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 9524 c.2223G>A synonymous_variant 1.0 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
fgd1 491742 c.960T>C synonymous_variant 1.0 clofazimine Not assoc w R
pretomanid
delamanid Not assoc w R - Interim
mshA 575744 p.Ala133Thr missense_variant 0.29 ethionamide
isoniazid Uncertain significance
mshA 575749 c.402C>A synonymous_variant 0.31 ethionamide
isoniazid
mshA 575764 c.417C>G synonymous_variant 0.29 ethionamide
isoniazid
mshA 575771 p.Val142Thr missense_variant 0.3 ethionamide
isoniazid
mshA 575776 c.429C>T synonymous_variant 0.29 ethionamide
isoniazid
mshA 575782 c.435G>C synonymous_variant 0.3 ethionamide
isoniazid
mshA 575785 c.438T>C synonymous_variant 0.3 ethionamide
isoniazid
mshA 575795 p.Ile150Val missense_variant 0.28 ethionamide
isoniazid
mshA 575800 c.453G>C synonymous_variant 0.28 ethionamide
isoniazid
mshA 575803 c.456C>T synonymous_variant 0.27 ethionamide
isoniazid Not assoc w R - Interim
mshA 575821 c.474G>C synonymous_variant 0.27 ethionamide
isoniazid
ccsA 620625 p.Ile245Met missense_variant 1.0 capreomycin Not assoc w R
amikacin Not assoc w R
kanamycin Uncertain significance
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 759724 c.-83A>G upstream_gene_variant 1.0 rifampicin Uncertain significance
rpoB 760415 c.609C>T synonymous_variant 0.25 rifampicin Not assoc w R - Interim
rpoB 760661 c.855A>C synonymous_variant 0.42 rifampicin Not assoc w R - Interim
rpoB 760670 c.864G>C synonymous_variant 0.42 rifampicin
rpoB 760674 c.868T>C synonymous_variant 0.42 rifampicin Not assoc w R - Interim
rpoB 760679 c.873A>G synonymous_variant 0.4 rifampicin Not assoc w R - Interim
rpoB 760683 c.877T>C synonymous_variant 0.4 rifampicin Not assoc w R - Interim
rpoB 760721 c.915C>G synonymous_variant 0.4 rifampicin
rpoB 760724 c.918T>C synonymous_variant 0.36 rifampicin Not assoc w R - Interim
rpoB 760730 c.924T>C synonymous_variant 0.32 rifampicin Not assoc w R - Interim
rpoB 760748 c.942C>G synonymous_variant 0.33 rifampicin
rpoB 760751 c.945G>C synonymous_variant 0.33 rifampicin
rpoB 760755 c.949_951delCATinsAC frameshift_variant&missense_variant 0.36 rifampicin
rpoB 760759 p.Val318Ala missense_variant 0.38 rifampicin
rpoB 760764 p.Glu320Gln missense_variant 0.37 rifampicin
rpoB 760769 c.963C>G synonymous_variant 0.38 rifampicin
rpoB 760784 c.978G>T synonymous_variant 0.37 rifampicin
rpoB 760793 c.987A>G synonymous_variant 0.4 rifampicin
rpoB 760805 c.999G>C synonymous_variant 0.41 rifampicin
rpoB 760817 c.1011A>G synonymous_variant 0.41 rifampicin
rpoB 760820 c.1014T>C synonymous_variant 0.42 rifampicin
rpoB 760826 c.1020C>G synonymous_variant 0.41 rifampicin Not assoc w R - Interim
rpoB 760830 c.1024T>C synonymous_variant 0.41 rifampicin Not assoc w R - Interim
rpoB 760841 c.1035T>C synonymous_variant 0.35 rifampicin Not assoc w R - Interim
rpoB 760859 c.1053T>C synonymous_variant 0.29 rifampicin
rpoB 760862 c.1056G>C synonymous_variant 0.3 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 0.25 rifampicin Not assoc w R - Interim
rpoB 760919 c.1113C>T synonymous_variant 0.23 rifampicin
rpoB 760925 c.1119T>C synonymous_variant 0.19 rifampicin
rpoB 760928 c.1122G>C synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoB 760931 c.1125C>G synonymous_variant 0.2 rifampicin
rpoB 761288 c.1482G>T synonymous_variant 0.23 rifampicin
rpoB 761606 c.1800C>G synonymous_variant 0.23 rifampicin
rpoB 761612 c.1806G>T synonymous_variant 0.24 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 0.23 rifampicin Not assoc w R - Interim
rpoB 761645 c.1839C>G synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoB 761648 c.1842T>C synonymous_variant 0.24 rifampicin
rpoB 761666 c.1860G>C synonymous_variant 0.26 rifampicin
rpoB 761669 c.1863C>T synonymous_variant 0.24 rifampicin
rpoB 761675 c.1869G>T synonymous_variant 0.22 rifampicin
rpoB 761948 c.2142G>C synonymous_variant 0.35 rifampicin Not assoc w R - Interim
rpoB 761954 c.2148C>G synonymous_variant 0.35 rifampicin Not assoc w R - Interim
rpoB 762008 c.2202C>T synonymous_variant 0.44 rifampicin Not assoc w R - Interim
rpoB 762014 c.2208C>T synonymous_variant 0.5 rifampicin
rpoB 762047 c.2241G>A synonymous_variant 0.38 rifampicin Not assoc w R - Interim
rpoB 762053 c.2247T>C synonymous_variant 0.36 rifampicin Not assoc w R - Interim
rpoB 762062 c.2256T>C synonymous_variant 0.37 rifampicin Not assoc w R - Interim
rpoB 762065 c.2259T>C synonymous_variant 0.37 rifampicin Not assoc w R - Interim
rpoB 762114 p.Ile770Val missense_variant 0.37 rifampicin Uncertain significance
rpoB 762131 c.2325C>G synonymous_variant 0.37 rifampicin
rpoB 762137 c.2331C>T synonymous_variant 0.39 rifampicin Not assoc w R - Interim
rpoB 762140 c.2334G>C synonymous_variant 0.36 rifampicin
rpoB 762143 c.2337T>C synonymous_variant 0.34 rifampicin
rpoB 762149 c.2343G>C synonymous_variant 0.34 rifampicin Not assoc w R - Interim
rpoB 762158 c.2352G>C synonymous_variant 0.32 rifampicin Not assoc w R - Interim
rpoB 762167 c.2361T>C synonymous_variant 0.32 rifampicin Not assoc w R - Interim
rpoB 762176 c.2370T>C synonymous_variant 0.41 rifampicin Not assoc w R - Interim
rpoB 762185 c.2379G>C synonymous_variant 0.46 rifampicin Not assoc w R - Interim
rpoB 762233 c.2427G>C synonymous_variant 0.37 rifampicin Not assoc w R - Interim
rpoB 762245 c.2439G>C synonymous_variant 0.34 rifampicin Not assoc w R - Interim
rpoB 762284 c.2478G>T synonymous_variant 0.28 rifampicin
rpoB 762293 c.2487T>C synonymous_variant 0.36 rifampicin Not assoc w R - Interim
rpoB 762308 c.2502G>C synonymous_variant 0.35 rifampicin
rpoB 762317 c.2511A>G synonymous_variant 0.33 rifampicin Not assoc w R - Interim
rpoB 762329 c.2523G>C synonymous_variant 0.34 rifampicin Not assoc w R - Interim
rpoB 762338 c.2532T>C synonymous_variant 0.32 rifampicin
rpoB 762341 c.2535G>C synonymous_variant 0.33 rifampicin
rpoB 762347 c.2541T>C synonymous_variant 0.35 rifampicin
rpoB 762350 c.2544C>T synonymous_variant 0.37 rifampicin
rpoB 762362 p.Glu852Asp missense_variant 0.35 rifampicin
rpoB 762369 c.2563T>C synonymous_variant 0.34 rifampicin
rpoC 762374 c.-996G>C upstream_gene_variant 0.38 rifampicin
rpoC 762395 c.-975G>C upstream_gene_variant 0.35 rifampicin
rpoC 762398 c.-972T>C upstream_gene_variant 0.35 rifampicin
rpoC 762401 c.-969G>C upstream_gene_variant 0.35 rifampicin
rpoB 762404 c.2598T>C synonymous_variant 0.35 rifampicin Not assoc w R - Interim
rpoC 762410 c.-960T>C upstream_gene_variant 0.37 rifampicin
rpoB 762416 c.2610A>G synonymous_variant 0.39 rifampicin Not assoc w R - Interim
rpoC 762434 c.-936T>C upstream_gene_variant 0.45 rifampicin
rpoC 762443 c.-927G>C upstream_gene_variant 0.41 rifampicin
rpoB 762449 c.2643C>A synonymous_variant 0.39 rifampicin Not assoc w R - Interim
rpoB 762452 c.2646G>C synonymous_variant 0.4 rifampicin Not assoc w R - Interim
rpoB 762470 c.2664G>C synonymous_variant 0.37 rifampicin Not assoc w R - Interim
rpoB 762491 c.2685T>C synonymous_variant 0.3 rifampicin Not assoc w R - Interim
rpoC 762509 c.-861T>G upstream_gene_variant 0.3 rifampicin
rpoB 762510 p.Ala902Pro missense_variant 0.31 rifampicin Uncertain significance
rpoB 762515 c.2709C>T synonymous_variant 0.32 rifampicin Not assoc w R - Interim
rpoB 762920 c.3114C>T synonymous_variant 0.33 rifampicin Not assoc w R - Interim
rpoB 762929 c.3123G>C synonymous_variant 0.36 rifampicin Not assoc w R - Interim
rpoB 762959 c.3153G>C synonymous_variant 0.42 rifampicin Not assoc w R - Interim
rpoB 762962 c.3156C>T synonymous_variant 0.46 rifampicin Not assoc w R - Interim
rpoB 762995 c.3189G>T synonymous_variant 0.48 rifampicin Not assoc w R - Interim
rpoB 763004 c.3198G>A synonymous_variant 0.52 rifampicin Not assoc w R - Interim
rpoB 763007 c.3201C>T synonymous_variant 0.46 rifampicin Not assoc w R - Interim
rpoB 763028 c.3222T>C synonymous_variant 0.45 rifampicin Not assoc w R - Interim
rpoB 763031 c.3225T>C synonymous_variant 0.55 rifampicin Not assoc w R
rpoB 763031 c.3225T>G synonymous_variant 0.45 rifampicin Not assoc w R - Interim
rpoB 763053 c.3247T>C synonymous_variant 0.43 rifampicin Not assoc w R - Interim
rpoC 763558 c.189C>T synonymous_variant 0.25 rifampicin Not assoc w R - Interim
rpoC 763570 c.201G>C synonymous_variant 0.25 rifampicin Not assoc w R - Interim
rpoC 763573 c.204G>C synonymous_variant 0.25 rifampicin Not assoc w R - Interim
rpoC 763603 c.234C>T synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoC 763615 c.246G>C synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoC 763618 c.249C>T synonymous_variant 0.29 rifampicin
rpoC 763633 c.264T>C synonymous_variant 0.32 rifampicin Not assoc w R - Interim
rpoC 763660 c.291T>G synonymous_variant 0.31 rifampicin Not assoc w R - Interim
rpoC 763666 c.297G>A synonymous_variant 0.33 rifampicin
rpoC 763675 c.306C>G synonymous_variant 0.31 rifampicin Not assoc w R - Interim
rpoC 763702 c.333C>G synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoC 763709 c.340C>T synonymous_variant 0.29 rifampicin
rpoC 763714 c.345G>C synonymous_variant 0.31 rifampicin Not assoc w R - Interim
rpoC 763717 c.348T>C synonymous_variant 0.3 rifampicin Not assoc w R - Interim
rpoC 763723 c.354G>C synonymous_variant 0.3 rifampicin
rpoC 763732 c.363C>T synonymous_variant 0.29 rifampicin
rpoC 763741 c.372C>T synonymous_variant 0.33 rifampicin
rpoC 763747 c.378G>A synonymous_variant 0.34 rifampicin
rpoC 763765 c.396T>G synonymous_variant 0.38 rifampicin Not assoc w R - Interim
rpoC 763792 p.Glu141Asp missense_variant 0.33 rifampicin
rpoC 763807 c.438T>C synonymous_variant 0.3 rifampicin Not assoc w R - Interim
rpoC 763813 c.444C>G synonymous_variant 0.3 rifampicin
rpoC 763837 c.468G>C synonymous_variant 0.24 rifampicin
rpoC 763921 c.552G>C synonymous_variant 0.32 rifampicin
rpoC 763924 c.555G>A synonymous_variant 0.31 rifampicin
rpoC 763930 c.561G>A synonymous_variant 0.32 rifampicin
rpoC 763933 c.564C>T synonymous_variant 0.32 rifampicin Not assoc w R - Interim
rpoC 763940 p.Ala191Ser missense_variant 0.31 rifampicin Uncertain significance
rpoC 763945 c.576T>C synonymous_variant 0.27 rifampicin
rpoC 763947 p.Ala193Val missense_variant 0.28 rifampicin Uncertain significance
rpoC 763951 c.582G>C synonymous_variant 0.28 rifampicin Not assoc w R - Interim
rpoC 763960 c.591T>G synonymous_variant 0.25 rifampicin Not assoc w R - Interim
rpoC 763969 c.600C>T synonymous_variant 0.26 rifampicin Not assoc w R - Interim
rpoC 763978 c.609C>T synonymous_variant 0.26 rifampicin
rpoC 764239 c.870T>G synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoC 764254 c.885G>C synonymous_variant 0.27 rifampicin
rpoC 764257 c.888G>C synonymous_variant 0.32 rifampicin
rpoC 764263 c.894G>C synonymous_variant 0.32 rifampicin
rpoC 764266 c.897T>C synonymous_variant 0.32 rifampicin
rpoC 764272 c.903G>C synonymous_variant 0.27 rifampicin
rpoC 764278 c.909A>G synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoC 764293 c.924G>C synonymous_variant 0.33 rifampicin Not assoc w R - Interim
rpoC 764297 p.Met310Leu missense_variant 0.33 rifampicin
rpoC 764344 c.975C>T synonymous_variant 0.43 rifampicin
rpoC 764353 c.984G>T synonymous_variant 0.42 rifampicin Not assoc w R - Interim
rpoC 764365 c.996C>T synonymous_variant 0.42 rifampicin Not assoc w R - Interim
rpoC 764485 c.1116G>C synonymous_variant 0.44 rifampicin
rpoC 764491 c.1122G>T synonymous_variant 0.44 rifampicin
rpoC 764497 c.1128A>G synonymous_variant 0.43 rifampicin Not assoc w R - Interim
rpoC 764500 c.1131C>G synonymous_variant 0.43 rifampicin
rpoC 764512 c.1143G>T synonymous_variant 0.48 rifampicin Not assoc w R - Interim
rpoC 764521 c.1152T>C synonymous_variant 0.47 rifampicin Not assoc w R - Interim
rpoC 764527 c.1158C>T synonymous_variant 0.5 rifampicin Not assoc w R - Interim
rpoC 764536 c.1167G>T synonymous_variant 0.5 rifampicin Not assoc w R - Interim
rpoC 764539 c.1170C>G synonymous_variant 0.53 rifampicin Not assoc w R - Interim
rpoC 764575 c.1206T>G synonymous_variant 0.53 rifampicin Not assoc w R - Interim
rpoC 764605 c.1236G>C synonymous_variant 0.53 rifampicin Not assoc w R - Interim
rpoC 764611 c.1242G>T synonymous_variant 0.53 rifampicin Not assoc w R - Interim
rpoC 764623 c.1254C>G synonymous_variant 0.5 rifampicin Not assoc w R - Interim
rpoC 764626 c.1257C>T synonymous_variant 0.52 rifampicin Not assoc w R - Interim
rpoC 764632 c.1263T>C synonymous_variant 0.43 rifampicin Not assoc w R - Interim
rpoC 764650 c.1281G>T synonymous_variant 0.57 rifampicin Not assoc w R - Interim
rpoC 764701 c.1332C>G synonymous_variant 0.6 rifampicin Not assoc w R - Interim
rpoC 764713 c.1344G>T synonymous_variant 0.55 rifampicin Not assoc w R - Interim
rpoC 764716 c.1347G>C synonymous_variant 0.55 rifampicin Not assoc w R - Interim
rpoC 764746 c.1377G>T synonymous_variant 0.55 rifampicin Not assoc w R - Interim
rpoC 764752 c.1383G>C synonymous_variant 0.52 rifampicin Not assoc w R - Interim
rpoC 764758 c.1389C>G synonymous_variant 0.53 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 0.54 rifampicin Not assoc w R - Interim
rpoC 764809 c.1440C>T synonymous_variant 0.52 rifampicin Not assoc w R
rpoC 764815 c.1446A>G synonymous_variant 0.48 rifampicin Not assoc w R - Interim
rpoC 764824 c.1455T>C synonymous_variant 0.46 rifampicin Not assoc w R - Interim
rpoC 764827 c.1458G>C synonymous_variant 0.5 rifampicin Not assoc w R - Interim
rpoC 764858 c.1489T>C synonymous_variant 0.58 rifampicin Not assoc w R - Interim
rpoC 764869 c.1500C>T synonymous_variant 0.64 rifampicin Not assoc w R - Interim
rpoC 764875 c.1506C>T synonymous_variant 0.64 rifampicin
rpoC 764878 c.1509C>G synonymous_variant 0.67 rifampicin
rpoC 764887 c.1518G>C synonymous_variant 0.62 rifampicin Not assoc w R - Interim
rpoC 764888 c.1519T>C synonymous_variant 0.65 rifampicin Not assoc w R - Interim
rpoC 764911 c.1542A>G synonymous_variant 0.56 rifampicin
rpoC 764912 p.Met515Gln missense_variant 0.53 rifampicin Uncertain significance
rpoC 764935 c.1566T>C synonymous_variant 0.56 rifampicin
rpoC 764948 c.1579T>C synonymous_variant 0.47 rifampicin Not assoc w R - Interim
rpoC 765814 c.2445A>C synonymous_variant 0.26 rifampicin
rpoC 765871 c.2502T>C synonymous_variant 0.33 rifampicin
rpoC 765875 p.Val836Ile missense_variant 0.36 rifampicin Uncertain significance
rpoC 765886 c.2517C>G synonymous_variant 0.41 rifampicin
rpoC 765904 c.2535C>G synonymous_variant 0.37 rifampicin Not assoc w R - Interim
rpoC 765908 c.2539C>T synonymous_variant 0.37 rifampicin
rpoC 766996 c.3627C>T synonymous_variant 0.38 rifampicin Not assoc w R - Interim
rpoC 767002 c.3633G>C synonymous_variant 0.38 rifampicin Not assoc w R - Interim
rpoC 767008 c.3639G>A synonymous_variant 0.44 rifampicin Not assoc w R - Interim
rpoC 767020 c.3651C>G synonymous_variant 0.46 rifampicin Not assoc w R - Interim
rpoC 767098 c.3729T>C synonymous_variant 0.32 rifampicin Not assoc w R - Interim
rpoC 767104 c.3735C>G synonymous_variant 0.3 rifampicin Not assoc w R - Interim
rpoC 767105 c.3736_3738delAACinsCG frameshift_variant&missense_variant 0.3 rifampicin
rpoC 767119 c.3750A>G synonymous_variant 0.31 rifampicin Not assoc w R - Interim
rpoC 767134 c.3765C>T synonymous_variant 0.28 rifampicin Not assoc w R - Interim
rpoC 767138 c.3769C>T synonymous_variant 0.25 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
mmpL5 775951 c.2530C>T synonymous_variant 0.47 clofazimine
bedaquiline
mmpL5 775966 p.Ala839Ser missense_variant 0.32 clofazimine
bedaquiline
mmpL5 775981 p.Leu834Met missense_variant 0.4 clofazimine
bedaquiline
mmpL5 776100 p.Thr794Ile missense_variant 1.0 clofazimine Not assoc w R
bedaquiline Not assoc w R - Interim
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0 clofazimine
bedaquiline
rpsL 781395 c.-165T>C upstream_gene_variant 1.0 streptomycin Not assoc w R
rpsL 781682 c.123T>C synonymous_variant 0.23 streptomycin
rpsL 781808 c.249C>T synonymous_variant 0.19 streptomycin
rpsL 781814 c.255C>T synonymous_variant 0.17 streptomycin
rpsL 781817 c.258G>T synonymous_variant 0.17 streptomycin
rplC 800594 c.-215C>G upstream_gene_variant 0.4 linezolid
rplC 800597 c.-212A>G upstream_gene_variant 0.4 linezolid
rplC 800600 c.-209G>C upstream_gene_variant 0.4 linezolid
rplC 800603 c.-206G>C upstream_gene_variant 0.4 linezolid
rplC 800612 c.-197A>G upstream_gene_variant 0.44 linezolid
rplC 800618 c.-191T>C upstream_gene_variant 0.44 linezolid
rplC 800633 c.-176T>C upstream_gene_variant 0.48 linezolid
rplC 800645 c.-164C>G upstream_gene_variant 0.46 linezolid
rplC 800648 c.-161A>G upstream_gene_variant 0.46 linezolid
rplC 800654 c.-155T>C upstream_gene_variant 0.42 linezolid
rplC 800678 c.-131C>T upstream_gene_variant 0.27 linezolid
fbiC 1304613 c.1683T>C synonymous_variant 0.3 clofazimine
pretomanid
delamanid
fbiC 1304634 c.1704C>G synonymous_variant 0.29 clofazimine
pretomanid
delamanid
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0 streptomycin Uncertain significance
isoniazid Uncertain significance
pyrazinamide Uncertain significance
rrs 1471659 n.-187C>T upstream_gene_variant 1.0 streptomycin
kanamycin
capreomycin
amikacin
rrs 1471986 n.141C>T non_coding_transcript_exon_variant 0.4 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472019 n.174G>A non_coding_transcript_exon_variant 0.52 streptomycin
kanamycin
capreomycin
amikacin
rrs 1472023 n.178G>T non_coding_transcript_exon_variant 0.52 streptomycin
kanamycin
capreomycin
amikacin
rrs 1472061 n.216A>T non_coding_transcript_exon_variant 0.52 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472075 n.230A>G non_coding_transcript_exon_variant 0.54 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.63 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Not assoc w R
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.63 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.62 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Not assoc w R
amikacin Not assoc w R
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.54 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Not assoc w R
amikacin Not assoc w R
rrs 1472380 n.535G>C non_coding_transcript_exon_variant 0.65 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472446 n.601T>A non_coding_transcript_exon_variant 0.73 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472452 n.607G>A non_coding_transcript_exon_variant 0.75 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472464 n.619A>G non_coding_transcript_exon_variant 0.78 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472846 n.1001C>A non_coding_transcript_exon_variant 0.48 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472847 n.1002G>C non_coding_transcript_exon_variant 0.48 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472849 n.1004C>G non_coding_transcript_exon_variant 0.48 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472850 n.1005T>C non_coding_transcript_exon_variant 0.48 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472857 n.1012A>G non_coding_transcript_exon_variant 0.5 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472858 n.1013G>T non_coding_transcript_exon_variant 0.5 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472860 n.1015C>G non_coding_transcript_exon_variant 0.5 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472861 n.1016G>T non_coding_transcript_exon_variant 0.5 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.5 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.54 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.53 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.53 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473123 n.1278delAinsTC non_coding_transcript_exon_variant 0.55 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.57 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473290 n.1445C>T non_coding_transcript_exon_variant 0.46 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473291 n.1446_1447insT non_coding_transcript_exon_variant 0.46 streptomycin
kanamycin
capreomycin
amikacin
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.45 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrl 1473770 n.113T>G non_coding_transcript_exon_variant 0.38 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473788 n.131A>G non_coding_transcript_exon_variant 0.38 capreomycin Uncertain significance
linezolid
rrl 1473806 n.149C>T non_coding_transcript_exon_variant 0.32 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474135 n.478G>A non_coding_transcript_exon_variant 0.36 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474140 n.483C>T non_coding_transcript_exon_variant 0.36 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474151 n.494C>T non_coding_transcript_exon_variant 0.4 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474174 n.517A>G non_coding_transcript_exon_variant 0.27 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.39 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474362 n.705A>G non_coding_transcript_exon_variant 0.31 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474413 n.756_757delACinsTAT non_coding_transcript_exon_variant 0.29 capreomycin
linezolid
rrl 1474417 n.762_765delACGC non_coding_transcript_exon_variant 0.29 capreomycin
linezolid
rrl 1474426 n.769_773delTACGCinsGTA non_coding_transcript_exon_variant 0.29 capreomycin
linezolid
rrl 1474432 n.775C>T non_coding_transcript_exon_variant 0.29 capreomycin
linezolid
rrl 1474438 n.781delAinsGT non_coding_transcript_exon_variant 0.3 capreomycin
linezolid
rrl 1474439 n.782A>G non_coding_transcript_exon_variant 0.32 capreomycin
linezolid
rrl 1474446 n.789C>T non_coding_transcript_exon_variant 0.31 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474753 n.1096A>G non_coding_transcript_exon_variant 0.39 capreomycin Uncertain significance
linezolid
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.45 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475061 n.1404C>A non_coding_transcript_exon_variant 0.29 capreomycin Uncertain significance
linezolid
rrl 1475062 n.1405A>T non_coding_transcript_exon_variant 0.3 capreomycin Uncertain significance
linezolid
rrl 1475120 n.1463G>T non_coding_transcript_exon_variant 0.37 capreomycin Uncertain significance
linezolid
rrl 1475452 n.1795C>A non_coding_transcript_exon_variant 0.54 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475753 n.2096C>T non_coding_transcript_exon_variant 0.49 capreomycin Uncertain significance
linezolid
rrl 1475762 n.2105G>T non_coding_transcript_exon_variant 0.5 capreomycin Uncertain significance
linezolid
rrl 1475763 n.2106C>T non_coding_transcript_exon_variant 0.5 capreomycin Uncertain significance
linezolid
rrl 1475764 n.2107A>C non_coding_transcript_exon_variant 0.5 capreomycin Uncertain significance
linezolid
rrl 1475765 n.2108A>G non_coding_transcript_exon_variant 0.5 capreomycin Uncertain significance
linezolid
rrl 1475775 n.2118G>A non_coding_transcript_exon_variant 0.5 capreomycin Uncertain significance
linezolid
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.29 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1475991 n.2334T>C non_coding_transcript_exon_variant 0.29 capreomycin Uncertain significance
linezolid
rrl 1475995 n.2338G>A non_coding_transcript_exon_variant 0.32 capreomycin Uncertain significance
linezolid
rrl 1476030 n.2373A>G non_coding_transcript_exon_variant 0.41 capreomycin Uncertain significance
linezolid
rrl 1476032 n.2375C>A non_coding_transcript_exon_variant 0.41 capreomycin
linezolid
rrl 1476033 n.2376T>G non_coding_transcript_exon_variant 0.43 capreomycin
linezolid
rrl 1476035 n.2378G>C non_coding_transcript_exon_variant 0.43 capreomycin Uncertain significance
linezolid
rrl 1476044 n.2387T>G non_coding_transcript_exon_variant 0.44 capreomycin Uncertain significance
linezolid
rrl 1476046 n.2389G>T non_coding_transcript_exon_variant 0.44 capreomycin
linezolid
rrl 1476047 n.2390G>T non_coding_transcript_exon_variant 0.44 capreomycin
linezolid
rrl 1476049 n.2392C>T non_coding_transcript_exon_variant 0.48 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476088 n.2431A>C non_coding_transcript_exon_variant 0.45 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476099 n.2442A>G non_coding_transcript_exon_variant 0.4 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476103 n.2446C>G non_coding_transcript_exon_variant 0.4 capreomycin Uncertain significance
linezolid
rrl 1476105 n.2448G>A non_coding_transcript_exon_variant 0.4 capreomycin Uncertain significance
linezolid
rrl 1476106 n.2449A>T non_coding_transcript_exon_variant 0.4 capreomycin Uncertain significance
linezolid
rrl 1476110 n.2453G>C non_coding_transcript_exon_variant 0.43 capreomycin Uncertain significance
linezolid
rrl 1476115 n.2458T>C non_coding_transcript_exon_variant 0.43 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 0.55 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476160 n.2503T>C non_coding_transcript_exon_variant 0.48 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.63 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476215 n.2558C>T non_coding_transcript_exon_variant 0.63 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.63 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476251 n.2594T>G non_coding_transcript_exon_variant 0.7 capreomycin Uncertain significance
linezolid
rrl 1476256 n.2599A>T non_coding_transcript_exon_variant 0.72 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.73 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.69 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.69 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476299 n.2642C>T non_coding_transcript_exon_variant 0.69 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476529 n.2872A>G non_coding_transcript_exon_variant 0.65 capreomycin Uncertain significance
linezolid
rrl 1476540 n.2883C>T non_coding_transcript_exon_variant 0.62 capreomycin Uncertain significance
linezolid
rrl 1476583 n.2926G>A non_coding_transcript_exon_variant 0.41 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 0.39 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476597 n.2940G>A non_coding_transcript_exon_variant 0.36 capreomycin Uncertain significance
linezolid
rrl 1476603 n.2946G>A non_coding_transcript_exon_variant 0.38 capreomycin Uncertain significance
linezolid Uncertain significance
rpsA 1833589 c.48A>C synonymous_variant 0.18 pyrazinamide
rpsA 1833616 c.75A>C synonymous_variant 0.19 pyrazinamide
rpsA 1833619 c.78A>C synonymous_variant 0.2 pyrazinamide
rpsA 1833628 c.87G>C synonymous_variant 0.25 pyrazinamide
rpsA 1833634 c.93G>A synonymous_variant 0.28 pyrazinamide
rpsA 1833661 c.120A>G synonymous_variant 0.33 pyrazinamide
rpsA 1833664 c.123C>A synonymous_variant 0.38 pyrazinamide
rpsA 1833676 c.135A>G synonymous_variant 0.34 pyrazinamide
rpsA 1833679 c.138G>T synonymous_variant 0.32 pyrazinamide
rpsA 1833685 c.144G>T synonymous_variant 0.33 pyrazinamide
rpsA 1833694 c.153G>C synonymous_variant 0.31 pyrazinamide
rpsA 1833697 c.156C>G synonymous_variant 0.31 pyrazinamide
rpsA 1833703 c.162C>T synonymous_variant 0.3 pyrazinamide Not assoc w R - Interim
rpsA 1833709 c.168C>T synonymous_variant 0.3 pyrazinamide
rpsA 1833724 c.183C>T synonymous_variant 0.29 pyrazinamide
rpsA 1833727 c.186G>C synonymous_variant 0.29 pyrazinamide
rpsA 1833730 c.189C>T synonymous_variant 0.29 pyrazinamide
rpsA 1833733 c.192C>T synonymous_variant 0.28 pyrazinamide
rpsA 1833734 p.Ala65Ser missense_variant 0.28 pyrazinamide
rpsA 1833745 c.204G>C synonymous_variant 0.35 pyrazinamide
rpsA 1833760 c.219C>T synonymous_variant 0.32 pyrazinamide Not assoc w R - Interim
rpsA 1833787 c.246C>G synonymous_variant 0.29 pyrazinamide
rpsA 1833790 c.249T>C synonymous_variant 0.3 pyrazinamide
rpsA 1833793 c.252C>T synonymous_variant 0.29 pyrazinamide
rpsA 1833802 c.261A>G synonymous_variant 0.25 pyrazinamide
rpsA 1833808 c.267G>C synonymous_variant 0.22 pyrazinamide
rpsA 1833811 c.270G>T synonymous_variant 0.24 pyrazinamide
rpsA 1833829 c.288A>G synonymous_variant 0.28 pyrazinamide
rpsA 1833832 c.291G>A synonymous_variant 0.28 pyrazinamide
rpsA 1833838 c.297G>C synonymous_variant 0.28 pyrazinamide
rpsA 1833841 c.300C>G synonymous_variant 0.31 pyrazinamide
rpsA 1833847 c.306C>G synonymous_variant 0.31 pyrazinamide
rpsA 1833856 c.315A>G synonymous_variant 0.31 pyrazinamide
rpsA 1833862 c.321G>T synonymous_variant 0.3 pyrazinamide
rpsA 1833894 p.Ala118Glu missense_variant 0.33 pyrazinamide
rpsA 1833904 c.363G>A synonymous_variant 0.33 pyrazinamide
rpsA 1833928 c.387G>C synonymous_variant 0.32 pyrazinamide
rpsA 1833949 c.408T>C synonymous_variant 0.36 pyrazinamide
rpsA 1833970 c.429G>T synonymous_variant 0.38 pyrazinamide
rpsA 1833976 c.435C>T synonymous_variant 0.36 pyrazinamide
rpsA 1833979 c.438T>C synonymous_variant 0.34 pyrazinamide
rpsA 1833991 c.450C>A synonymous_variant 0.36 pyrazinamide
rpsA 1834000 c.459G>C synonymous_variant 0.39 pyrazinamide
rpsA 1834009 c.468C>T synonymous_variant 0.36 pyrazinamide
rpsA 1834012 c.471G>T synonymous_variant 0.37 pyrazinamide
rpsA 1834015 c.474G>C synonymous_variant 0.37 pyrazinamide
rpsA 1834021 c.480C>T synonymous_variant 0.38 pyrazinamide
rpsA 1834030 c.489C>G synonymous_variant 0.38 pyrazinamide
rpsA 1834097 c.556_557delTCinsAG synonymous_variant 0.32 pyrazinamide
rpsA 1834102 c.561T>C synonymous_variant 0.36 pyrazinamide
rpsA 1834177 c.636A>C synonymous_variant 1.0 pyrazinamide Not assoc w R - Interim
rpsA 1834189 c.648G>C synonymous_variant 0.31 pyrazinamide
rpsA 1834213 c.672G>C synonymous_variant 0.37 pyrazinamide
rpsA 1834234 c.693G>C synonymous_variant 0.43 pyrazinamide
rpsA 1834240 c.699T>C synonymous_variant 0.48 pyrazinamide
rpsA 1834246 c.705G>C synonymous_variant 0.5 pyrazinamide
rpsA 1834249 c.708T>C synonymous_variant 0.5 pyrazinamide
rpsA 1834252 c.711C>G synonymous_variant 0.5 pyrazinamide
rpsA 1834261 c.720A>G synonymous_variant 0.52 pyrazinamide Not assoc w R - Interim
rpsA 1834264 c.723G>C synonymous_variant 0.48 pyrazinamide
rpsA 1834279 c.738C>T synonymous_variant 0.46 pyrazinamide Not assoc w R - Interim
rpsA 1834297 c.756C>T synonymous_variant 0.48 pyrazinamide
rpsA 1834303 c.762T>G synonymous_variant 0.52 pyrazinamide
rpsA 1834306 c.765T>C synonymous_variant 0.54 pyrazinamide
rpsA 1834345 c.804C>T synonymous_variant 0.5 pyrazinamide
rpsA 1834348 c.807T>C synonymous_variant 0.5 pyrazinamide Not assoc w R - Interim
rpsA 1834361 c.820T>C synonymous_variant 0.48 pyrazinamide
rpsA 1834366 c.825A>G synonymous_variant 0.48 pyrazinamide Not assoc w R - Interim
rpsA 1834396 c.855G>C synonymous_variant 0.45 pyrazinamide
rpsA 1834411 c.870T>C synonymous_variant 0.37 pyrazinamide
rpsA 1834423 c.882G>T synonymous_variant 0.37 pyrazinamide
rpsA 1834451 c.910T>C synonymous_variant 0.34 pyrazinamide
rpsA 1834456 c.915T>G synonymous_variant 0.38 pyrazinamide
rpsA 1834468 c.927A>G synonymous_variant 0.44 pyrazinamide
rpsA 1834489 c.948T>C synonymous_variant 0.39 pyrazinamide
rpsA 1834498 c.957C>T synonymous_variant 0.38 pyrazinamide
rpsA 1834633 c.1092A>G synonymous_variant 0.31 pyrazinamide
rpsA 1834639 c.1098T>C synonymous_variant 0.31 pyrazinamide
rpsA 1834690 c.1149T>C synonymous_variant 0.27 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 clofazimine Not assoc w R
bedaquiline Not assoc w R - Interim
pncA 2288937 p.Ala102Val missense_variant 1.0 pyrazinamide Not assoc w R - Interim
kasA 2518756 c.642G>C synonymous_variant 0.28 isoniazid
kasA 2518780 p.Glu222Asp missense_variant 0.27 isoniazid
kasA 2518783 c.669T>C synonymous_variant 0.29 isoniazid
kasA 2518785 p.Glu224Ala missense_variant 0.28 isoniazid
kasA 2518787 c.673_675delCGGinsGT frameshift_variant&missense_variant 0.27 isoniazid
kasA 2518792 c.678C>G synonymous_variant 0.27 isoniazid
kasA 2518795 c.681C>T synonymous_variant 0.27 isoniazid
kasA 2518813 c.699C>T synonymous_variant 0.33 isoniazid
kasA 2518816 c.702C>T synonymous_variant 0.36 isoniazid
kasA 2518825 c.711T>C synonymous_variant 0.34 isoniazid
kasA 2518843 c.729T>C synonymous_variant 0.32 isoniazid
kasA 2518847 p.Leu245Met missense_variant 0.31 isoniazid
kasA 2518853 p.Leu247Ile missense_variant 0.29 isoniazid
kasA 2518864 c.750G>C synonymous_variant 0.29 isoniazid
Rv2752c 3065109 c.1081_1083delAGAinsCC frameshift_variant&missense_variant 0.35 ethambutol Uncertain significance
moxifloxacin Uncertain significance
levofloxacin Uncertain significance
rifampicin Uncertain significance
isoniazid Uncertain significance
Rv2752c 3065126 p.Ser356Ala missense_variant 0.36 ethambutol
moxifloxacin
levofloxacin
rifampicin
isoniazid
Rv2752c 3065130 c.1062A>G synonymous_variant 0.33 ethambutol
moxifloxacin
levofloxacin
rifampicin
isoniazid
Rv2752c 3065133 c.1059T>C synonymous_variant 0.35 ethambutol
moxifloxacin
levofloxacin
rifampicin
isoniazid
Rv2752c 3065142 c.1050A>G synonymous_variant 0.31 ethambutol
moxifloxacin
levofloxacin
rifampicin
isoniazid
Rv2752c 3065146 p.Phe349Tyr missense_variant 0.31 ethambutol
moxifloxacin
levofloxacin
rifampicin
isoniazid
Rv2752c 3065154 c.1038G>A synonymous_variant 0.29 ethambutol
moxifloxacin
levofloxacin
rifampicin
isoniazid
ald 3086788 c.-32T>C upstream_gene_variant 1.0 cycloserine
whiB7 3569220 c.-541C>T upstream_gene_variant 1.0 streptomycin
amikacin
kanamycin
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0 pyrazinamide Not assoc w R - Interim
mtrB 3625065 p.Met517Leu missense_variant 1.0 bedaquiline Uncertain significance
rifampicin Not assoc w R
mtrB 3625729 c.885A>G synonymous_variant 0.24 bedaquiline
rifampicin Not assoc w R - Interim
mtrB 3625732 c.882C>T synonymous_variant 0.24 bedaquiline
rifampicin Not assoc w R - Interim
lpqB 3625735 c.-825C>T upstream_gene_variant 0.24 bedaquiline
rifampicin
mtrB 3625753 p.Ala287Gln missense_variant 0.29 bedaquiline
rifampicin
lpqB 3625762 c.-852A>C upstream_gene_variant 0.28 bedaquiline
rifampicin
mtrB 3625765 c.849C>G synonymous_variant 0.28 bedaquiline
rifampicin Not assoc w R - Interim
mtrB 3625804 c.808_810delAGGinsCC frameshift_variant&missense_variant 0.28 bedaquiline Uncertain significance
rifampicin Uncertain significance
lpqB 3625822 c.-912C>T upstream_gene_variant 0.27 bedaquiline
rifampicin
lpqB 3625828 c.-918G>C upstream_gene_variant 0.27 bedaquiline
rifampicin
mtrB 3625837 c.777C>G synonymous_variant 0.25 bedaquiline
rifampicin Not assoc w R - Interim
lpqB 3625840 c.-930A>G upstream_gene_variant 0.26 bedaquiline
rifampicin
mtrB 3625845 p.Ser257Thr missense_variant 0.27 bedaquiline
rifampicin
mtrB 3626562 p.Pro18Ser missense_variant 1.0 bedaquiline Uncertain significance
rifampicin Not assoc w R
mtrA 3626978 p.Asp124Glu missense_variant 0.23 bedaquiline
rifampicin Uncertain significance
mtrB 3626999 c.-386G>C upstream_gene_variant 0.25 bedaquiline
rifampicin
mtrB 3627002 c.-389G>C upstream_gene_variant 0.24 bedaquiline
rifampicin
mtrB 3627005 c.-392G>A upstream_gene_variant 0.24 bedaquiline
rifampicin
mtrB 3627008 c.-395G>C upstream_gene_variant 0.25 bedaquiline
rifampicin
mtrB 3627011 c.-398T>G upstream_gene_variant 0.25 bedaquiline
rifampicin
rpoA 3877638 c.870T>C synonymous_variant 0.27 rifampicin Not assoc w R - Interim
rpoA 3877647 c.861C>T synonymous_variant 0.32 rifampicin
rpoA 3877656 c.852T>G synonymous_variant 0.38 rifampicin Not assoc w R - Interim
rpoA 3877668 c.840A>G synonymous_variant 0.32 rifampicin
rpoA 3877671 c.837C>G synonymous_variant 0.35 rifampicin
rpoA 3877677 c.831G>C synonymous_variant 0.33 rifampicin Not assoc w R - Interim
rpoA 3877704 c.804G>T synonymous_variant 0.32 rifampicin Not assoc w R - Interim
rpoA 3877818 c.690A>G synonymous_variant 0.32 rifampicin Not assoc w R - Interim
rpoA 3877848 c.660C>T synonymous_variant 0.34 rifampicin Not assoc w R - Interim
rpoA 3877856 c.652T>C synonymous_variant 0.32 rifampicin Not assoc w R - Interim
rpoA 3877857 c.651G>A synonymous_variant 0.32 rifampicin
rpoA 3877866 c.642G>C synonymous_variant 0.3 rifampicin
rpoA 3877893 c.615C>T synonymous_variant 0.3 rifampicin Not assoc w R - Interim
rpoA 3877905 c.603A>G synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoA 3877908 c.600T>C synonymous_variant 0.32 rifampicin Not assoc w R - Interim
rpoA 3877920 c.588G>C synonymous_variant 0.32 rifampicin Not assoc w R - Interim
rpoA 3877923 c.585C>T synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoA 3877926 c.582G>C synonymous_variant 0.29 rifampicin
rpoA 3877962 c.546G>T synonymous_variant 0.26 rifampicin Not assoc w R - Interim
rpoA 3878001 c.507A>G synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoA 3878019 c.489A>G synonymous_variant 0.25 rifampicin
rpoA 3878022 c.486T>C synonymous_variant 0.25 rifampicin
rpoA 3878025 c.483C>T synonymous_variant 0.25 rifampicin
rpoA 3878028 c.480G>C synonymous_variant 0.25 rifampicin
rpoA 3878031 c.477T>C synonymous_variant 0.25 rifampicin
rpoA 3878034 c.474A>G synonymous_variant 0.26 rifampicin
rpoA 3878040 c.468T>C synonymous_variant 0.27 rifampicin Not assoc w R - Interim
rpoA 3878046 c.462T>G synonymous_variant 0.27 rifampicin
rpoA 3878050 p.Arg153Lys missense_variant 0.26 rifampicin
rpoA 3878055 c.453A>G synonymous_variant 0.27 rifampicin
rpoA 3878061 c.447G>A synonymous_variant 0.29 rifampicin
rpoA 3878070 c.438T>C synonymous_variant 0.28 rifampicin
rpoA 3878082 c.426T>C synonymous_variant 0.3 rifampicin
rpoA 3878103 c.405A>G synonymous_variant 0.25 rifampicin
rpoA 3878127 c.381G>C synonymous_variant 0.22 rifampicin
rpoA 3878143 p.Gly122Asp missense_variant 0.29 rifampicin Uncertain significance
rpoA 3878145 c.363C>G synonymous_variant 0.3 rifampicin
rpoA 3878160 c.348C>G synonymous_variant 0.3 rifampicin Not assoc w R - Interim
rpoA 3878163 c.345C>T synonymous_variant 0.3 rifampicin Not assoc w R - Interim
rpoA 3878187 c.321C>A synonymous_variant 0.3 rifampicin
rpoA 3878193 c.315T>C synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoA 3878197 p.Glu104Ala missense_variant 0.32 rifampicin Uncertain significance
rpoA 3878205 c.303T>C synonymous_variant 0.37 rifampicin Not assoc w R - Interim
rpoA 3878217 c.291A>G synonymous_variant 0.41 rifampicin Not assoc w R - Interim
rpoA 3878238 c.270C>T synonymous_variant 0.42 rifampicin
rpoA 3878244 c.264G>A synonymous_variant 0.42 rifampicin
rpoA 3878247 c.261G>C synonymous_variant 0.44 rifampicin
rpoA 3878256 c.252G>C synonymous_variant 0.4 rifampicin
rpoA 3878264 p.Ser82Gly missense_variant 0.4 rifampicin
rpoA 3878271 c.237T>C synonymous_variant 0.4 rifampicin Not assoc w R - Interim
rpoA 3878283 p.Glu75Asp missense_variant 0.33 rifampicin Uncertain significance
clpC1 4038519 p.Arg729Gln missense_variant 0.19 pyrazinamide
clpC1 4038530 p.Glu725Asp missense_variant 0.19 pyrazinamide
clpC1 4038551 c.2154C>G synonymous_variant 0.19 pyrazinamide
clpC1 4038563 c.2142C>T synonymous_variant 0.21 pyrazinamide
clpC1 4038584 c.2121G>A synonymous_variant 0.22 pyrazinamide
clpC1 4038587 c.2118C>G synonymous_variant 0.21 pyrazinamide
clpC1 4038596 c.2109A>G synonymous_variant 0.24 pyrazinamide
clpC1 4038602 c.2103G>C synonymous_variant 0.27 pyrazinamide
clpC1 4038623 c.2082A>G synonymous_variant 0.39 pyrazinamide
clpC1 4038640 p.Asp689Asn missense_variant 0.36 pyrazinamide
clpC1 4038647 c.2058T>G synonymous_variant 0.3 pyrazinamide
clpC1 4038671 c.2034T>G synonymous_variant 0.26 pyrazinamide Not assoc w R - Interim
clpC1 4038679 p.Pro676Ala missense_variant 0.31 pyrazinamide
clpC1 4038683 c.2022T>C synonymous_variant 0.33 pyrazinamide Not assoc w R - Interim
clpC1 4038695 c.2010C>G synonymous_variant 0.37 pyrazinamide
clpC1 4038704 c.2001T>C synonymous_variant 0.33 pyrazinamide
clpC1 4038710 c.1995G>C synonymous_variant 0.33 pyrazinamide
clpC1 4038713 c.1992T>C synonymous_variant 0.34 pyrazinamide
clpC1 4038725 c.1980C>G synonymous_variant 0.34 pyrazinamide
clpC1 4038740 c.1965G>C synonymous_variant 0.38 pyrazinamide
clpC1 4038755 c.1950G>C synonymous_variant 0.42 pyrazinamide
clpC1 4038767 c.1938G>T synonymous_variant 0.4 pyrazinamide
clpC1 4038770 c.1935C>T synonymous_variant 0.4 pyrazinamide
clpC1 4038773 c.1932T>C synonymous_variant 0.38 pyrazinamide
clpC1 4038776 c.1929G>A synonymous_variant 0.4 pyrazinamide
clpC1 4038779 c.1926C>G synonymous_variant 0.4 pyrazinamide
clpC1 4038782 c.1923G>C synonymous_variant 0.4 pyrazinamide
clpC1 4038790 c.1915C>T synonymous_variant 0.44 pyrazinamide Not assoc w R - Interim
clpC1 4038812 c.1893T>C synonymous_variant 0.57 pyrazinamide
clpC1 4038815 c.1890G>C synonymous_variant 0.55 pyrazinamide
clpC1 4038842 c.1863G>C synonymous_variant 0.48 pyrazinamide
clpC1 4038860 c.1845G>C synonymous_variant 0.48 pyrazinamide Not assoc w R - Interim
clpC1 4038878 c.1827A>G synonymous_variant 0.5 pyrazinamide Not assoc w R - Interim
clpC1 4038890 c.1815G>A synonymous_variant 0.47 pyrazinamide
clpC1 4038953 c.1752A>G synonymous_variant 0.38 pyrazinamide
clpC1 4038956 c.1749T>C synonymous_variant 0.38 pyrazinamide
clpC1 4038965 c.1740T>C synonymous_variant 0.38 pyrazinamide
clpC1 4038971 c.1734T>C synonymous_variant 0.39 pyrazinamide
clpC1 4038974 c.1731T>C synonymous_variant 0.42 pyrazinamide Not assoc w R - Interim
clpC1 4038989 c.1716T>C synonymous_variant 0.45 pyrazinamide
clpC1 4038997 c.1708T>C synonymous_variant 0.48 pyrazinamide Not assoc w R - Interim
clpC1 4039022 c.1683A>G synonymous_variant 0.39 pyrazinamide
clpC1 4039103 c.1602T>C synonymous_variant 0.52 pyrazinamide
clpC1 4039106 c.1599G>C synonymous_variant 0.55 pyrazinamide
clpC1 4039118 c.1587C>G synonymous_variant 0.43 pyrazinamide
clpC1 4039121 c.1584T>C synonymous_variant 0.42 pyrazinamide
clpC1 4039136 c.1569C>T synonymous_variant 0.5 pyrazinamide
clpC1 4039142 c.1563A>G synonymous_variant 0.48 pyrazinamide
clpC1 4039145 c.1560G>C synonymous_variant 0.48 pyrazinamide
clpC1 4039169 c.1536A>G synonymous_variant 0.5 pyrazinamide
clpC1 4039178 c.1527G>C synonymous_variant 0.48 pyrazinamide
clpC1 4039183 c.1522T>C synonymous_variant 0.47 pyrazinamide
clpC1 4039187 c.1518G>T synonymous_variant 0.43 pyrazinamide
clpC1 4039190 c.1515C>G synonymous_variant 0.4 pyrazinamide
clpC1 4039220 c.1485G>C synonymous_variant 0.39 pyrazinamide
clpC1 4039241 c.1464G>C synonymous_variant 0.41 pyrazinamide
clpC1 4039274 c.1431G>C synonymous_variant 0.34 pyrazinamide Not assoc w R - Interim
clpC1 4039286 c.1419T>C synonymous_variant 0.33 pyrazinamide
clpC1 4039295 c.1410A>C synonymous_variant 0.33 pyrazinamide
clpC1 4039298 c.1407T>C synonymous_variant 0.33 pyrazinamide
clpC1 4039310 c.1395A>G synonymous_variant 0.28 pyrazinamide
clpC1 4039313 c.1392C>G synonymous_variant 0.28 pyrazinamide
clpC1 4039320 p.Ala462Gly missense_variant 0.28 pyrazinamide
clpC1 4039322 c.1383T>C synonymous_variant 0.27 pyrazinamide
clpC1 4039328 c.1377A>C synonymous_variant 0.27 pyrazinamide
clpC1 4039337 p.Thr456Gln missense_variant 0.29 pyrazinamide
clpC1 4039352 c.1353C>T synonymous_variant 0.29 pyrazinamide Not assoc w R - Interim
clpC1 4039382 c.1323C>G synonymous_variant 0.3 pyrazinamide
clpC1 4039391 c.1314T>G synonymous_variant 0.23 pyrazinamide
clpC1 4039610 c.1095G>C synonymous_variant 0.38 pyrazinamide
clpC1 4039616 c.1089G>C synonymous_variant 0.38 pyrazinamide
clpC1 4039622 c.1083C>T synonymous_variant 0.4 pyrazinamide
clpC1 4039649 c.1056G>C synonymous_variant 0.42 pyrazinamide
clpC1 4039652 c.1053G>C synonymous_variant 0.48 pyrazinamide
clpC1 4039670 c.1035G>C synonymous_variant 0.48 pyrazinamide
clpC1 4039682 c.1023C>G synonymous_variant 0.46 pyrazinamide
clpC1 4039694 c.1011G>C synonymous_variant 0.41 pyrazinamide
clpC1 4039724 c.981A>G synonymous_variant 0.45 pyrazinamide
clpC1 4039733 c.972G>C synonymous_variant 0.5 pyrazinamide
clpC1 4039742 c.963C>T synonymous_variant 0.52 pyrazinamide
clpC1 4039748 c.957G>C synonymous_variant 0.48 pyrazinamide
clpC1 4039751 c.954A>G synonymous_variant 0.46 pyrazinamide
clpC1 4039757 c.948A>G synonymous_variant 0.4 pyrazinamide
clpC1 4039760 c.945T>C synonymous_variant 0.33 pyrazinamide
clpC1 4039769 c.936C>G synonymous_variant 0.3 pyrazinamide
clpC1 4039991 c.714G>C synonymous_variant 0.37 pyrazinamide
clpC1 4040003 c.702G>C synonymous_variant 0.38 pyrazinamide
clpC1 4040021 c.684A>C synonymous_variant 0.35 pyrazinamide Not assoc w R - Interim
clpC1 4040024 c.681A>G synonymous_variant 0.35 pyrazinamide
clpC1 4040033 c.672G>C synonymous_variant 0.38 pyrazinamide
clpC1 4040042 c.663C>T synonymous_variant 0.36 pyrazinamide Not assoc w R - Interim
clpC1 4040087 c.618G>C synonymous_variant 0.28 pyrazinamide
clpC1 4040090 c.613_615delTCTinsAGC synonymous_variant 0.27 pyrazinamide
clpC1 4040093 c.612C>G synonymous_variant 0.28 pyrazinamide Not assoc w R - Interim
clpC1 4040411 c.294T>C synonymous_variant 0.43 pyrazinamide Not assoc w R - Interim
clpC1 4040423 c.282A>G synonymous_variant 0.43 pyrazinamide Not assoc w R - Interim
clpC1 4040431 c.274T>C synonymous_variant 0.35 pyrazinamide
clpC1 4040433 c.271_272delAGinsTC synonymous_variant 0.35 pyrazinamide
clpC1 4040441 c.264C>G synonymous_variant 0.37 pyrazinamide
clpC1 4040444 c.261C>G synonymous_variant 0.37 pyrazinamide
clpC1 4040450 c.255A>G synonymous_variant 0.37 pyrazinamide Not assoc w R - Interim
clpC1 4040459 c.246C>G synonymous_variant 0.33 pyrazinamide
clpC1 4040462 c.243C>T synonymous_variant 0.33 pyrazinamide
clpC1 4040465 c.240T>C synonymous_variant 0.3 pyrazinamide
clpC1 4040468 c.237G>C synonymous_variant 0.3 pyrazinamide
clpC1 4040471 c.234T>C synonymous_variant 0.29 pyrazinamide Not assoc w R - Interim
clpC1 4040477 c.228G>C synonymous_variant 0.3 pyrazinamide
clpC1 4040480 c.225T>C synonymous_variant 0.33 pyrazinamide Not assoc w R - Interim
clpC1 4040495 c.210C>G synonymous_variant 0.35 pyrazinamide
clpC1 4040522 c.183T>C synonymous_variant 0.33 pyrazinamide Not assoc w R - Interim
clpC1 4040531 c.174T>C synonymous_variant 0.33 pyrazinamide
clpC1 4040546 c.159G>C synonymous_variant 0.39 pyrazinamide
clpC1 4040561 c.144A>G synonymous_variant 0.32 pyrazinamide
clpC1 4040573 c.132T>A synonymous_variant 0.29 pyrazinamide
clpC1 4040579 c.126A>G synonymous_variant 0.29 pyrazinamide
clpC1 4040582 c.123G>C synonymous_variant 0.3 pyrazinamide Not assoc w R - Interim
clpC1 4040585 c.120A>G synonymous_variant 0.3 pyrazinamide
clpC1 4040588 c.117T>C synonymous_variant 0.3 pyrazinamide
clpC1 4040591 c.114C>T synonymous_variant 0.3 pyrazinamide
clpC1 4040594 c.111G>T synonymous_variant 0.3 pyrazinamide
clpC1 4040597 c.108C>T synonymous_variant 0.29 pyrazinamide
clpC1 4040600 c.105A>G synonymous_variant 0.29 pyrazinamide
clpC1 4040603 c.102T>G synonymous_variant 0.29 pyrazinamide
clpC1 4040606 c.99T>C synonymous_variant 0.28 pyrazinamide
clpC1 4040618 c.87C>G synonymous_variant 0.28 pyrazinamide
clpC1 4040644 c.61A>C synonymous_variant 0.26 pyrazinamide
clpC1 4040648 c.57G>A synonymous_variant 0.24 pyrazinamide
clpC1 4040654 c.51G>A synonymous_variant 0.21 pyrazinamide
clpC1 4040657 c.48T>G synonymous_variant 0.21 pyrazinamide Not assoc w R - Interim
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
embB 4248157 c.1644A>G synonymous_variant 0.38 ethambutol Not assoc w R - Interim
embB 4248158 p.Cys549Ser missense_variant 0.38 ethambutol
embB 4248167 p.Thr552Ala missense_variant 0.38 ethambutol
embB 4248170 p.Ala553Ser missense_variant 0.38 ethambutol
embB 4248173 p.Val554Leu missense_variant 0.38 ethambutol
embB 4248199 c.1686A>G synonymous_variant 0.42 ethambutol
embB 4248200 p.Ile563Val missense_variant 0.42 ethambutol
embB 4248206 p.Ser565Gly missense_variant 0.42 ethambutol Uncertain significance
embB 4248220 c.1707A>G synonymous_variant 0.39 ethambutol Not assoc w R - Interim
embB 4248225 p.Ala571Val missense_variant 0.42 ethambutol Uncertain significance
embB 4248242 p.Val577Ile missense_variant 0.3 ethambutol
aftB 4267647 p.Asp397Gly missense_variant 1.0 ethambutol Not assoc w R
ethA 4326676 p.Ser266Arg missense_variant 1.0 ethionamide Uncertain significance
whiB6 4338595 c.-75delG upstream_gene_variant 1.0 capreomycin Not assoc w R
amikacin Not assoc w R
kanamycin Not assoc w R
whiB6 4338732 c.-211C>T upstream_gene_variant 1.0 capreomycin
amikacin
kanamycin
gid 4407588 c.615A>G synonymous_variant 1.0 streptomycin Not assoc w R
gid 4407927 p.Glu92Asp missense_variant 0.96 streptomycin Not assoc w R