TB-Profiler result

Run: ERR4821272
Summary

Run ID: ERR4821272

Sample name:

Date: 2024-04-15T21:29:20.506893

Number of reads: 1733787

Percentage reads mapped: 74.74

Median coverage: 48.0

Strain: lineage4.1.2.1

Spoligotype:

Drug-resistance: RR-TB

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Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family RDs Frequency
lineage4.1 Euro-American None 1.0
lineage4.1.2 Euro-American None 1.0
lineage4.1.2.1 Euro-American (Haarlem) RD182 1.0
lineage4 Euro-American None 1.0
Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations WHO confidence Comment
rifampicin rpoB p.Ser441Ala Assoc w R - Interim Expert rule: Non-silent variants in RRDR of rpoB
isoniazid
ethambutol
pyrazinamide
streptomycin rrs n.799C>T Uncertain significance Mutation from literature
fluoroquinolones
moxifloxacin
ofloxacin
levofloxacin
ciprofloxacin
aminoglycosides
amikacin rrs n.1402C>A Uncertain significance Mutation from literature
capreomycin rrs n.1402C>A Uncertain significance Mutation from literature
kanamycin rrs n.1402C>A Uncertain significance Mutation from literature
cycloserine
ethionamide
clofazimine
para-aminosalicylic_acid
delamanid
bedaquiline
linezolid
Drug resistance-Associated Mutations: This table reports mutations found in candidate resistance genes which have been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs Confidence Comment
rpoB 761127 p.Ser441Ala missense_variant 0.19 rifampicin Assoc w R - Interim Expert rule: Non-silent variants in RRDR of rpoB
rrs 1472644 n.799C>T non_coding_transcript_exon_variant 0.75 streptomycin Uncertain significance Mutation from literature
rrs 1473247 n.1402C>A non_coding_transcript_exon_variant 0.48 amikacin Uncertain significance Mutation from literature
kanamycin Uncertain significance Mutation from literature
capreomycin Uncertain significance Mutation from literature
Non-Associated Mutations: This table reports mutations found in candidate resistance genes which have not been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs Confidence
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 491591 p.Lys270Met missense_variant 1.0 clofazimine Not assoc w R
pretomanid
delamanid Uncertain significance
mshA 575679 p.Asn111Ser missense_variant 1.0 ethionamide Not assoc w R
isoniazid Not assoc w R
Rv0565c 657269 p.Ser68Pro missense_variant 1.0 ethionamide Uncertain significance
rpoB 760115 c.309C>T synonymous_variant 1.0 rifampicin Not assoc w R
rpoB 761015 c.1209G>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 761027 c.1221A>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 761037 c.1231_1233delTTGinsCC frameshift_variant&missense_variant 0.17 rifampicin
rpoB 761051 c.1245G>T synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 761054 c.1248G>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoB 761057 c.1251G>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoB 761060 c.1254C>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoB 761084 c.1278C>A synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 761088 c.1282_1284delAGCinsTCG synonymous_variant 0.15 rifampicin
rpoB 761097 c.1291_1293delAGCinsTCG synonymous_variant 0.15 rifampicin
rpoB 761102 c.1296A>G synonymous_variant 0.16 rifampicin
rpoB 761111 c.1305C>T synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoB 761126 c.1320G>C synonymous_variant 0.19 rifampicin
rpoB 761132 c.1326G>T synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoB 761133 c.1327T>C synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoB 761147 c.1341C>T synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 761150 c.1344A>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoB 761156 c.1350G>T synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoB 761973 p.His723Tyr missense_variant 0.12 rifampicin
rpoB 761980 p.Tyr725Phe missense_variant 0.12 rifampicin
rpoB 761987 c.2181C>T synonymous_variant 0.13 rifampicin
rpoB 761999 c.2193G>C synonymous_variant 0.12 rifampicin
rpoB 762002 c.2196C>G synonymous_variant 0.12 rifampicin
rpoB 762003 c.2197_2199delAACinsCG frameshift_variant&missense_variant 0.12 rifampicin
rpoB 762015 c.2209_2211delGAAinsCG frameshift_variant&missense_variant 0.12 rifampicin
rpoB 762020 p.Glu738Asp missense_variant 0.12 rifampicin
rpoB 762026 c.2220G>C synonymous_variant 0.11 rifampicin
rpoB 762030 p.Thr742Ser missense_variant 0.12 rifampicin
rpoB 762053 c.2247T>C synonymous_variant 0.12 rifampicin Not assoc w R - Interim
rpoB 762057 p.Ile751Val missense_variant 0.14 rifampicin Uncertain significance
rpoB 762062 c.2256T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 762065 c.2259T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 762080 c.2274G>C synonymous_variant 0.15 rifampicin
rpoB 762086 c.2280G>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 762101 c.2295C>G synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoC 762896 c.-474G>C upstream_gene_variant 0.12 rifampicin
rpoB 762899 c.3093G>C synonymous_variant 0.12 rifampicin Not assoc w R - Interim
rpoB 762917 c.3111C>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 762923 c.3117C>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 762929 c.3123G>T synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 762980 c.-390T>C upstream_gene_variant 0.11 rifampicin
rpoC 762989 c.-381G>C upstream_gene_variant 0.11 rifampicin
rpoC 763483 c.114G>C synonymous_variant 0.17 rifampicin
rpoC 763486 c.117T>G synonymous_variant 0.17 rifampicin
rpoC 763504 c.135C>A synonymous_variant 0.2 rifampicin
rpoC 763507 c.138G>C synonymous_variant 0.2 rifampicin
rpoC 763528 c.159G>C synonymous_variant 0.18 rifampicin
rpoC 763531 c.162G>C synonymous_variant 0.19 rifampicin Not assoc w R
rpoC 763534 c.165T>C synonymous_variant 0.18 rifampicin
rpoC 763537 c.168C>T synonymous_variant 0.18 rifampicin
rpoC 763546 c.177A>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 763550 p.Tyr61Ala missense_variant 0.16 rifampicin
rpoC 763570 c.201G>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 763585 c.216C>G synonymous_variant 0.16 rifampicin
rpoC 764611 c.1242G>C synonymous_variant 0.14 rifampicin
rpoC 764662 c.1293G>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 764668 c.1299C>T synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 764679 p.Lys437Ser missense_variant 0.18 rifampicin
rpoC 764683 c.1314G>C synonymous_variant 0.19 rifampicin
rpoC 764690 p.Cys441Ala missense_variant 0.2 rifampicin
rpoC 764701 c.1332C>G synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoC 764705 p.Leu446Thr missense_variant 0.21 rifampicin
rpoC 764716 c.1347G>C synonymous_variant 0.23 rifampicin Not assoc w R - Interim
rpoC 764737 c.1368G>C synonymous_variant 0.22 rifampicin
rpoC 764746 c.1377G>C synonymous_variant 0.19 rifampicin
rpoC 764752 c.1383G>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 764755 c.1386C>T synonymous_variant 0.17 rifampicin
rpoC 764764 c.1395T>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 765150 p.Gly594Glu missense_variant 1.0 rifampicin Not assoc w R
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
rrs 1471659 n.-187C>T upstream_gene_variant 1.0 streptomycin
kanamycin
capreomycin
amikacin
rrs 1472148 n.303T>C non_coding_transcript_exon_variant 0.41 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.39 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Not assoc w R
amikacin Not assoc w R
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.44 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Not assoc w R
amikacin Not assoc w R
rrs 1472506 n.661A>T non_coding_transcript_exon_variant 0.64 streptomycin
kanamycin
capreomycin
amikacin
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.71 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Not assoc w R
rrs 1472572 n.727T>A non_coding_transcript_exon_variant 0.75 streptomycin
kanamycin
capreomycin
amikacin
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.9 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Not assoc w R
amikacin Not assoc w R
rrs 1472591 n.746G>A non_coding_transcript_exon_variant 0.92 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472607 n.762G>A non_coding_transcript_exon_variant 0.81 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 0.65 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472660 n.815T>C non_coding_transcript_exon_variant 0.65 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.65 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Not assoc w R
amikacin Not assoc w R
rrs 1472880 n.1035G>A non_coding_transcript_exon_variant 0.62 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.75 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Not assoc w R
rrs 1472952 n.1107T>C non_coding_transcript_exon_variant 0.97 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472955 n.1110C>T non_coding_transcript_exon_variant 0.9 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.9 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.9 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472973 n.1128A>G non_coding_transcript_exon_variant 0.93 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472982 n.1137G>A non_coding_transcript_exon_variant 0.93 streptomycin
kanamycin
capreomycin
amikacin
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.93 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 0.93 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.93 streptomycin Uncertain significance
kanamycin Not assoc w R
capreomycin Not assoc w R
amikacin Not assoc w R
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.81 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Not assoc w R
rrs 1473047 n.1202C>T non_coding_transcript_exon_variant 0.83 streptomycin
kanamycin
capreomycin
amikacin
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.79 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.82 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Not assoc w R
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.87 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473081 n.1236C>T non_coding_transcript_exon_variant 0.83 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473091 n.1246G>A non_coding_transcript_exon_variant 0.82 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473093 n.1248C>A non_coding_transcript_exon_variant 0.83 streptomycin Uncertain significance
kanamycin
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473094 n.1249T>A non_coding_transcript_exon_variant 0.81 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473099 n.1254T>A non_coding_transcript_exon_variant 0.79 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473100 n.1255G>C non_coding_transcript_exon_variant 0.79 streptomycin
kanamycin
capreomycin
amikacin
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.79 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473109 n.1264T>G non_coding_transcript_exon_variant 0.81 streptomycin
kanamycin
capreomycin
amikacin
rrs 1473111 n.1266A>C non_coding_transcript_exon_variant 0.81 streptomycin
kanamycin
capreomycin
amikacin
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.81 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Not assoc w R
amikacin Not assoc w R
rrs 1473123 n.1278A>T non_coding_transcript_exon_variant 0.81 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473130 n.1285G>A non_coding_transcript_exon_variant 0.82 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473147 n.1302G>T non_coding_transcript_exon_variant 0.76 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473148 n.1303G>A non_coding_transcript_exon_variant 0.77 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473157 n.1312C>T non_coding_transcript_exon_variant 0.73 streptomycin
kanamycin
capreomycin
amikacin
rrs 1473163 n.1318C>T non_coding_transcript_exon_variant 0.74 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473164 n.1319C>A non_coding_transcript_exon_variant 0.72 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.48 streptomycin Uncertain significance
kanamycin Not assoc w R
capreomycin Not assoc w R
amikacin Not assoc w R
rrl 1473832 n.175C>T non_coding_transcript_exon_variant 0.44 capreomycin Uncertain significance
linezolid
rrl 1473833 n.176_177insT non_coding_transcript_exon_variant 0.47 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474171 n.514C>G non_coding_transcript_exon_variant 0.8 capreomycin
linezolid
rrl 1474181 n.524C>T non_coding_transcript_exon_variant 0.91 capreomycin Uncertain significance
linezolid
rrl 1474183 n.526T>C non_coding_transcript_exon_variant 0.91 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474184 n.527C>T non_coding_transcript_exon_variant 0.91 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474202 n.545T>C non_coding_transcript_exon_variant 0.82 capreomycin
linezolid
rrl 1474263 n.606G>A non_coding_transcript_exon_variant 0.77 capreomycin Uncertain significance
linezolid
rrl 1474269 n.612C>T non_coding_transcript_exon_variant 0.77 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474287 n.630T>A non_coding_transcript_exon_variant 0.69 capreomycin
linezolid
rrl 1474290 n.633T>C non_coding_transcript_exon_variant 0.64 capreomycin
linezolid
rrl 1474292 n.635_651delTTCCTCTCCGGAGGAGGinsGGTT non_coding_transcript_exon_variant 0.64 capreomycin
linezolid
rrl 1474551 n.894G>C non_coding_transcript_exon_variant 0.75 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474558 n.901G>T non_coding_transcript_exon_variant 0.78 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474584 n.927C>T non_coding_transcript_exon_variant 0.89 capreomycin
linezolid
rrl 1474636 n.979A>T non_coding_transcript_exon_variant 0.82 capreomycin Uncertain significance
linezolid
rrl 1474637 n.980C>T non_coding_transcript_exon_variant 0.82 capreomycin Uncertain significance
linezolid
rrl 1474638 n.981C>G non_coding_transcript_exon_variant 0.82 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474639 n.982G>C non_coding_transcript_exon_variant 0.82 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474663 n.1006C>T non_coding_transcript_exon_variant 0.75 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474806 n.1149A>G non_coding_transcript_exon_variant 0.94 capreomycin
linezolid
rrl 1474822 n.1165G>T non_coding_transcript_exon_variant 0.95 capreomycin
linezolid
rrl 1474827 n.1170C>T non_coding_transcript_exon_variant 0.95 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 0.95 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474905 n.1248T>A non_coding_transcript_exon_variant 1.0 capreomycin
linezolid
rrl 1475696 n.2039T>A non_coding_transcript_exon_variant 0.88 capreomycin Uncertain significance
linezolid
rrl 1475697 n.2040C>T non_coding_transcript_exon_variant 0.88 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475699 n.2042C>T non_coding_transcript_exon_variant 0.94 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475703 n.2046A>T non_coding_transcript_exon_variant 0.84 capreomycin Uncertain significance
linezolid
rrl 1475763 n.2106C>T non_coding_transcript_exon_variant 1.0 capreomycin Uncertain significance
linezolid
rrl 1475883 n.2226A>T non_coding_transcript_exon_variant 0.9 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475884 n.2227A>G non_coding_transcript_exon_variant 0.9 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475897 n.2240T>C non_coding_transcript_exon_variant 0.68 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475898 n.2241A>G non_coding_transcript_exon_variant 0.68 capreomycin Uncertain significance
linezolid
rrl 1475899 n.2242G>A non_coding_transcript_exon_variant 0.68 capreomycin Uncertain significance
linezolid
rrl 1475916 n.2259C>T non_coding_transcript_exon_variant 0.62 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.56 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.56 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476337 n.2680C>T non_coding_transcript_exon_variant 0.58 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.78 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.8 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.83 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.83 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.76 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.61 capreomycin Not assoc w R
linezolid Uncertain significance
rpsA 1834348 c.807T>G synonymous_variant 0.16 pyrazinamide
rpsA 1834354 c.813G>C synonymous_variant 0.14 pyrazinamide Not assoc w R - Interim
rpsA 1834357 c.816T>C synonymous_variant 0.14 pyrazinamide
rpsA 1834361 c.820_822delTTGinsCC frameshift_variant&missense_variant 0.14 pyrazinamide Uncertain significance
rpsA 1834366 c.825A>G synonymous_variant 0.15 pyrazinamide Not assoc w R - Interim
rpsA 1834378 c.837T>G synonymous_variant 0.17 pyrazinamide
rpsA 1834387 c.846C>T synonymous_variant 0.18 pyrazinamide
rpsA 1834395 p.Arg285Gln missense_variant 0.21 pyrazinamide
rpsA 1834408 c.867C>G synonymous_variant 0.18 pyrazinamide
rpsA 1834411 c.870T>C synonymous_variant 0.18 pyrazinamide
rpsA 1834416 p.Ala292Val missense_variant 0.19 pyrazinamide
rpsA 1834423 c.882G>C synonymous_variant 0.18 pyrazinamide
rpsA 1834451 c.910_912delTTGinsCC frameshift_variant&missense_variant 0.19 pyrazinamide Uncertain significance
rpsA 1834468 c.927A>G synonymous_variant 0.2 pyrazinamide
rpsA 1834474 c.933C>G synonymous_variant 0.17 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
kasA 2518076 c.-39C>T upstream_gene_variant 1.0 isoniazid
Rv2680 2996034 c.-71G>A upstream_gene_variant 0.19 capreomycin Uncertain significance
Rv2680 2996085 c.-20G>A upstream_gene_variant 0.14 capreomycin Uncertain significance
Rv2680 2996136 p.Ser11Asn missense_variant 0.18 capreomycin
ald 3086788 c.-32T>C upstream_gene_variant 1.0 cycloserine
mtrB 3625065 p.Met517Leu missense_variant 1.0 bedaquiline Uncertain significance
rifampicin Not assoc w R
mtrA 3627756 c.-407A>T upstream_gene_variant 1.0 bedaquiline
rifampicin
embC 4239298 c.-565C>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
embC 4242803 p.Val981Leu missense_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