TB-Profiler result

Run: ERR4818624
Summary

Run ID: ERR4818624

Sample name:

Date: 2024-10-05T12:42:01.673294

Number of reads: 1681092

Percentage reads mapped: 63.57

Median coverage: 38.0

Strain: lineage4.3.4.2.1

Spoligotype:

Drug-resistance: Other

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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
lineage4.3.4.2.1 Euro-American (LAM) RD174 1.0
lineage4.3.4 Euro-American (LAM) RD174 1.0
lineage4.3.4.2 Euro-American (LAM) RD174 1.0
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 rrs n.888G>A Uncertain significance Mutation from literature
fluoroquinolones
moxifloxacin
ofloxacin
levofloxacin
ciprofloxacin
aminoglycosides
amikacin rrs n.1402C>A Uncertain significance Mutation from literature
n.1484G>T Assoc w R
capreomycin rrs n.1402C>A Uncertain significance Mutation from literature
n.1484G>T Assoc w R
kanamycin rrs n.1402C>A Uncertain significance Mutation from literature
n.1484G>T Assoc w R
cycloserine
ethionamide
clofazimine
para-aminosalicylic_acid
delamanid
bedaquiline
linezolid
Drug resistance-Associated Mutations: This table reports mutations found in candidate resistance genes which have been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs Confidence Comment
rrs 1472733 n.888G>A non_coding_transcript_exon_variant 0.24 streptomycin Uncertain significance Mutation from literature
rrs 1473247 n.1402C>A non_coding_transcript_exon_variant 0.18 amikacin Uncertain significance Mutation from literature
capreomycin Uncertain significance Mutation from literature
kanamycin Uncertain significance Mutation from literature
rrs 1473329 n.1484G>T non_coding_transcript_exon_variant 0.15 amikacin Assoc w R
capreomycin Assoc w R
kanamycin Assoc w R
Non-Associated Mutations: This table reports mutations found in candidate resistance genes which have not been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs Confidence
gyrB 6140 p.Val301Leu missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 7066 c.-236G>C upstream_gene_variant 0.12 levofloxacin
moxifloxacin
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
rpoB 760646 c.840C>G synonymous_variant 0.12 rifampicin Not assoc w R - Interim
rpoB 760655 c.849A>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 760661 c.855A>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 760670 c.864G>C synonymous_variant 0.14 rifampicin
rpoB 760674 c.868T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 760679 c.873A>G synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoB 762003 p.Asn733Gln missense_variant 0.28 rifampicin
rpoB 762053 c.2247T>C synonymous_variant 0.25 rifampicin Not assoc w R - Interim
rpoB 762062 c.2256T>C synonymous_variant 0.23 rifampicin Not assoc w R - Interim
rpoB 762068 c.2262C>T synonymous_variant 0.18 rifampicin
rpoB 762077 c.2271G>A synonymous_variant 0.16 rifampicin
rpoB 762080 c.2274G>C synonymous_variant 0.17 rifampicin
rpoB 762086 c.2280G>C synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoB 762128 c.2322G>C synonymous_variant 0.22 rifampicin
rpoB 762131 c.2325C>G synonymous_variant 0.24 rifampicin
rpoB 762140 c.2334G>C synonymous_variant 0.22 rifampicin
rpoB 762143 c.2337T>C synonymous_variant 0.22 rifampicin
rpoB 762149 c.2343G>T synonymous_variant 0.23 rifampicin Not assoc w R - Interim
rpoB 762158 c.2352G>C synonymous_variant 0.25 rifampicin Not assoc w R - Interim
rpoB 762167 c.2361T>C synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoB 762176 c.2370T>C synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoB 762185 c.2379G>C synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoB 762233 c.2427G>C synonymous_variant 0.23 rifampicin Not assoc w R - Interim
rpoB 762254 c.2448T>C synonymous_variant 0.26 rifampicin Not assoc w R - Interim
rpoC 762926 c.-444C>G upstream_gene_variant 0.21 rifampicin
rpoB 762929 c.3123G>T synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoB 762962 c.3156C>T synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoB 763031 c.3225T>C synonymous_variant 0.25 rifampicin Not assoc w R
rpoB 763053 c.3247T>C synonymous_variant 0.26 rifampicin Not assoc w R - Interim
rpoC 763058 c.-312C>G upstream_gene_variant 0.23 rifampicin
rpoB 763070 c.3264T>C synonymous_variant 0.23 rifampicin Not assoc w R - Interim
rpoB 763074 p.Thr1090Val missense_variant 0.23 rifampicin
rpoB 763082 c.3276C>T synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoB 763088 c.3282C>G synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoB 763094 c.3288G>C synonymous_variant 0.26 rifampicin Not assoc w R - Interim
rpoB 763115 c.3309T>C synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoC 763486 c.117T>C synonymous_variant 0.12 rifampicin Not assoc w R - Interim
rpoC 763528 c.159G>T synonymous_variant 0.16 rifampicin
rpoC 763531 c.162G>C synonymous_variant 0.23 rifampicin Not assoc w R
rpoC 763534 c.165T>C synonymous_variant 0.23 rifampicin
rpoC 763537 c.168C>G synonymous_variant 0.2 rifampicin
rpoC 763546 c.177A>G synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoC 763594 c.225C>T synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 763603 c.234C>T synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 763618 c.249C>T synonymous_variant 0.13 rifampicin
rpoC 763636 c.267T>C synonymous_variant 0.11 rifampicin
rpoC 763660 c.291T>G synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 763666 c.297G>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 764791 c.1422C>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 764797 c.1428G>C synonymous_variant 0.19 rifampicin
rpoC 764803 c.1434C>G synonymous_variant 0.18 rifampicin
rpoC 764810 p.Pro481Ala missense_variant 0.2 rifampicin Uncertain significance
rpoC 764815 c.1446A>G synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoC 764827 c.1458G>C synonymous_variant 0.23 rifampicin Not assoc w R - Interim
rpoC 764857 c.1488G>C synonymous_variant 0.19 rifampicin
rpoC 764858 p.Leu497Met missense_variant 0.19 rifampicin
rpoC 764887 c.1518G>C synonymous_variant 0.12 rifampicin Not assoc w R - Interim
rpoC 764995 c.1626C>G synonymous_variant 0.95 rifampicin Not assoc w R
rpoC 765826 c.2457T>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 765832 c.2463G>A synonymous_variant 0.13 rifampicin
rpoC 765835 c.2466C>T synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 765865 c.2496C>T synonymous_variant 0.14 rifampicin
rpoC 765871 c.2502T>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 765875 p.Val836Ile missense_variant 0.15 rifampicin Uncertain significance
rpoC 766348 c.2979A>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 766384 c.3015A>G synonymous_variant 0.29 rifampicin
rpoC 766408 c.3039C>T synonymous_variant 0.26 rifampicin Not assoc w R - Interim
rpoC 766426 c.3057C>T synonymous_variant 0.25 rifampicin
rpoC 766429 c.3061_3062insCGG disruptive_inframe_insertion 0.27 rifampicin
rpoC 766435 p.Glu1022Asp missense_variant 0.27 rifampicin Uncertain significance
rpoC 766456 c.3087C>T synonymous_variant 0.27 rifampicin Not assoc w R - Interim
rpoC 766459 c.3090G>T synonymous_variant 0.25 rifampicin
rpoC 767041 c.3672G>C synonymous_variant 0.19 rifampicin
rpoC 767044 c.3675G>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
mmpL5 775639 p.Ile948Val missense_variant 1.0 bedaquiline Not assoc w R - Interim
clofazimine Not assoc w R
rpsL 781395 c.-165T>C upstream_gene_variant 1.0 streptomycin Not assoc w R
rpsL 781859 c.300T>C synonymous_variant 0.12 streptomycin Not assoc w R - Interim
rpsL 781865 c.306G>C synonymous_variant 0.12 streptomycin
rpsL 781868 c.309T>C synonymous_variant 0.12 streptomycin
rpsL 781871 c.312G>C synonymous_variant 0.12 streptomycin
rpsL 781880 c.321C>G synonymous_variant 0.11 streptomycin
rpsL 781898 c.339A>C synonymous_variant 0.12 streptomycin
rpsL 781907 c.348T>C synonymous_variant 0.14 streptomycin
rrs 1471659 n.-187C>T upstream_gene_variant 1.0 kanamycin
capreomycin
streptomycin
amikacin
rrs 1471914 n.69A>G non_coding_transcript_exon_variant 0.26 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1471918 n.73A>T non_coding_transcript_exon_variant 0.26 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1471922 n.78delT non_coding_transcript_exon_variant 0.25 kanamycin
capreomycin
streptomycin
amikacin
rrs 1471925 n.80T>C non_coding_transcript_exon_variant 0.28 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1471929 n.84C>G non_coding_transcript_exon_variant 0.14 kanamycin
capreomycin
streptomycin
amikacin
rrs 1471932 n.87_89delAGAinsGG non_coding_transcript_exon_variant 0.28 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1471938 n.93T>A non_coding_transcript_exon_variant 0.24 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1471943 n.98T>C non_coding_transcript_exon_variant 0.25 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472078 n.233C>T non_coding_transcript_exon_variant 0.17 kanamycin
capreomycin
streptomycin
amikacin
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.3 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Not assoc w R
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.45 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472123 n.278A>T non_coding_transcript_exon_variant 0.25 kanamycin
capreomycin
streptomycin
amikacin
rrs 1472124 n.279C>T non_coding_transcript_exon_variant 0.12 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.13 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Not assoc w R
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.28 kanamycin Uncertain significance
capreomycin Not assoc w R
streptomycin Uncertain significance
amikacin Not assoc w R
rrs 1472151 n.306C>A non_coding_transcript_exon_variant 0.29 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472155 n.310C>T non_coding_transcript_exon_variant 0.21 kanamycin
capreomycin
streptomycin
amikacin
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.22 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.44 kanamycin Uncertain significance
capreomycin Not assoc w R
streptomycin Uncertain significance
amikacin Not assoc w R
rrs 1472225 n.380C>G non_coding_transcript_exon_variant 0.28 kanamycin
capreomycin
streptomycin
amikacin
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.34 kanamycin Uncertain significance
capreomycin Not assoc w R
streptomycin Uncertain significance
amikacin Not assoc w R
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.34 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Not assoc w R
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.15 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.15 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.15 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.18 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.13 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Not assoc w R
rrs 1472580 n.735C>A non_coding_transcript_exon_variant 0.25 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472597 n.752G>A non_coding_transcript_exon_variant 0.25 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472612 n.767G>T non_coding_transcript_exon_variant 0.22 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472682 n.837T>A non_coding_transcript_exon_variant 0.23 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472683 n.838T>C non_coding_transcript_exon_variant 0.23 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.28 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Not assoc w R
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.21 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.17 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Not assoc w R
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.27 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.25 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Not assoc w R
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.29 kanamycin Uncertain significance
capreomycin Not assoc w R
streptomycin Uncertain significance
amikacin Not assoc w R
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.19 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.25 kanamycin Uncertain significance
capreomycin Not assoc w R
streptomycin Uncertain significance
amikacin Not assoc w R
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.22 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Not assoc w R
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.14 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Not assoc w R
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.14 kanamycin Uncertain significance
capreomycin Not assoc w R
streptomycin Uncertain significance
amikacin Not assoc w R
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.36 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Not assoc w R
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.18 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.39 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472958 n.1113A>G non_coding_transcript_exon_variant 0.15 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1472971 n.1126G>A non_coding_transcript_exon_variant 0.12 kanamycin
capreomycin
streptomycin
amikacin
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.38 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1472974 n.1129A>G non_coding_transcript_exon_variant 0.15 kanamycin
capreomycin
streptomycin
amikacin
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.18 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472988 n.1143T>C non_coding_transcript_exon_variant 0.17 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.31 kanamycin Not assoc w R
capreomycin Not assoc w R
streptomycin Uncertain significance
amikacin Not assoc w R
rrs 1473005 n.1160C>T non_coding_transcript_exon_variant 0.15 kanamycin
capreomycin
streptomycin
amikacin
rrs 1473026 n.1181T>C non_coding_transcript_exon_variant 0.12 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.38 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Not assoc w R
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.33 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.34 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Not assoc w R
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.34 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.55 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.54 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473102 n.1257C>T non_coding_transcript_exon_variant 0.18 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.55 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.54 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.55 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.53 kanamycin Uncertain significance
capreomycin Not assoc w R
streptomycin Uncertain significance
amikacin Not assoc w R
rrs 1473123 n.1278A>T non_coding_transcript_exon_variant 0.46 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.12 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473148 n.1303G>T non_coding_transcript_exon_variant 0.15 kanamycin
capreomycin
streptomycin
amikacin
rrs 1473173 n.1328C>T non_coding_transcript_exon_variant 0.44 kanamycin Uncertain significance
capreomycin Not assoc w R
streptomycin Not assoc w R
amikacin Not assoc w R
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.19 kanamycin Not assoc w R
capreomycin Not assoc w R
streptomycin Uncertain significance
amikacin Not assoc w R
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.22 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Not assoc w R
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.28 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473290 n.1445C>T non_coding_transcript_exon_variant 0.42 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1473291 n.1446_1447insT non_coding_transcript_exon_variant 0.42 kanamycin
capreomycin
streptomycin
amikacin
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.29 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473316 n.1471C>T non_coding_transcript_exon_variant 0.28 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrl 1473756 n.99G>T non_coding_transcript_exon_variant 0.25 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473757 n.100T>G non_coding_transcript_exon_variant 0.26 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473758 n.101G>A non_coding_transcript_exon_variant 0.27 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473806 n.149C>T non_coding_transcript_exon_variant 0.32 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473811 n.154C>T non_coding_transcript_exon_variant 0.32 capreomycin
linezolid
rrl 1473814 n.157A>C non_coding_transcript_exon_variant 0.28 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473815 n.158T>A non_coding_transcript_exon_variant 0.28 capreomycin
linezolid
rrl 1473844 n.187C>T non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473870 n.213G>A non_coding_transcript_exon_variant 0.16 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473871 n.214T>C non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.22 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474467 n.810A>G non_coding_transcript_exon_variant 0.19 capreomycin
linezolid
rrl 1474488 n.831G>T non_coding_transcript_exon_variant 0.16 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474516 n.859C>A non_coding_transcript_exon_variant 0.24 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474527 n.870T>C non_coding_transcript_exon_variant 0.26 capreomycin
linezolid
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.45 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474542 n.885A>G non_coding_transcript_exon_variant 0.23 capreomycin
linezolid
rrl 1474552 n.895C>T non_coding_transcript_exon_variant 0.2 capreomycin
linezolid
rrl 1474632 n.975G>T non_coding_transcript_exon_variant 0.3 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474634 n.977T>G non_coding_transcript_exon_variant 0.23 capreomycin
linezolid
rrl 1474636 n.979A>C non_coding_transcript_exon_variant 0.25 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474638 n.981C>G non_coding_transcript_exon_variant 0.28 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474658 n.1001A>G non_coding_transcript_exon_variant 0.25 capreomycin
linezolid
rrl 1474663 n.1006C>T non_coding_transcript_exon_variant 0.29 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474672 n.1015C>T non_coding_transcript_exon_variant 0.2 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474676 n.1019T>A non_coding_transcript_exon_variant 0.41 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474677 n.1020A>G non_coding_transcript_exon_variant 0.26 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474692 n.1035G>A non_coding_transcript_exon_variant 0.28 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474710 n.1053_1060delTGGTGTAAinsGTGTGTGAG non_coding_transcript_exon_variant 0.17 capreomycin
linezolid
rrl 1474734 n.1077G>T non_coding_transcript_exon_variant 0.24 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474749 n.1092C>T non_coding_transcript_exon_variant 0.11 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474753 n.1097delC non_coding_transcript_exon_variant 0.17 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.35 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.43 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474803 n.1146G>A non_coding_transcript_exon_variant 0.24 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 0.27 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.27 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474824 n.1167A>G non_coding_transcript_exon_variant 0.47 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 0.31 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474831 n.1174A>G non_coding_transcript_exon_variant 0.23 capreomycin Uncertain significance
linezolid
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 0.25 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1474903 n.1246T>C non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475090 n.1433A>T non_coding_transcript_exon_variant 0.29 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475104 n.1447T>A non_coding_transcript_exon_variant 0.17 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475114 n.1457C>T non_coding_transcript_exon_variant 0.38 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475124 n.1467A>T non_coding_transcript_exon_variant 0.2 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475526 n.1869C>A non_coding_transcript_exon_variant 0.26 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475751 n.2094C>A non_coding_transcript_exon_variant 0.14 capreomycin
linezolid
rrl 1475754 n.2097G>A non_coding_transcript_exon_variant 0.13 capreomycin
linezolid
rrl 1475756 n.2099_2108delTAACCCGCAAinsCAACCCCCTTGTG non_coding_transcript_exon_variant 0.14 capreomycin
linezolid
rrl 1475774 n.2117C>T non_coding_transcript_exon_variant 0.12 capreomycin
linezolid
rrl 1475777 n.2120A>T non_coding_transcript_exon_variant 0.16 capreomycin
linezolid
rrl 1475791 n.2134A>G non_coding_transcript_exon_variant 0.11 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.15 capreomycin
linezolid
rrl 1475883 n.2226A>T non_coding_transcript_exon_variant 0.41 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475884 n.2227A>G non_coding_transcript_exon_variant 0.37 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475892 n.2235A>C non_coding_transcript_exon_variant 0.29 capreomycin
linezolid
rrl 1475897 n.2240T>C non_coding_transcript_exon_variant 0.38 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475916 n.2259C>T non_coding_transcript_exon_variant 0.33 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.27 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.31 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 1475990 n.2333G>A non_coding_transcript_exon_variant 0.18 capreomycin
linezolid
rrl 1475997 n.2340A>T non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476049 n.2392C>G non_coding_transcript_exon_variant 0.14 capreomycin
linezolid
rrl 1476076 n.2419A>G non_coding_transcript_exon_variant 0.29 capreomycin
linezolid
rrl 1476086 n.2429G>A non_coding_transcript_exon_variant 0.21 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476099 n.2442A>G non_coding_transcript_exon_variant 0.17 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476103 n.2446C>A non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid
rrl 1476105 n.2450delA non_coding_transcript_exon_variant 0.19 capreomycin
linezolid
rrl 1476110 n.2453G>T non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 0.24 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476164 n.2507A>G non_coding_transcript_exon_variant 0.16 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.3 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476297 n.2640C>G non_coding_transcript_exon_variant 0.27 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476298 n.2641C>G non_coding_transcript_exon_variant 0.27 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476300 n.2643G>A non_coding_transcript_exon_variant 0.21 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476301 n.2644A>T non_coding_transcript_exon_variant 0.26 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476309 n.2652G>C non_coding_transcript_exon_variant 0.31 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476357 n.2700T>C non_coding_transcript_exon_variant 0.13 capreomycin
linezolid
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.22 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.3 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.46 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476429 n.2772A>T non_coding_transcript_exon_variant 0.17 capreomycin Uncertain significance
linezolid
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.28 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.11 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476524 n.2867delC non_coding_transcript_exon_variant 0.16 capreomycin
linezolid
rrl 1476539 n.2882A>G non_coding_transcript_exon_variant 0.29 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.25 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.33 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476585 n.2928A>G non_coding_transcript_exon_variant 0.33 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476608 n.2951C>G non_coding_transcript_exon_variant 0.28 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476614 n.2957A>T non_coding_transcript_exon_variant 0.27 capreomycin
linezolid
rrl 1476616 n.2959A>G non_coding_transcript_exon_variant 0.23 capreomycin
linezolid
rrl 1476619 n.2962C>T non_coding_transcript_exon_variant 0.26 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476629 n.2972C>A non_coding_transcript_exon_variant 0.24 capreomycin Uncertain significance
linezolid
rpsA 1833625 c.84A>G synonymous_variant 0.17 pyrazinamide
rpsA 1833742 c.201A>G synonymous_variant 0.13 pyrazinamide
rpsA 1833829 c.288A>G synonymous_variant 0.16 pyrazinamide
rpsA 1833832 c.291G>A synonymous_variant 0.16 pyrazinamide
rpsA 1833838 c.297G>C synonymous_variant 0.16 pyrazinamide
rpsA 1833841 c.300C>G synonymous_variant 0.16 pyrazinamide
rpsA 1833856 c.315A>G synonymous_variant 0.2 pyrazinamide
rpsA 1833874 c.333T>G synonymous_variant 0.14 pyrazinamide
rpsA 1833877 c.336C>G synonymous_variant 0.13 pyrazinamide
rpsA 1833886 c.345C>G synonymous_variant 0.15 pyrazinamide
rpsA 1833894 p.Ala118Glu missense_variant 0.21 pyrazinamide
rpsA 1833928 c.387G>C synonymous_variant 0.24 pyrazinamide
rpsA 1833952 c.411C>T synonymous_variant 0.19 pyrazinamide
rpsA 1833961 c.420C>G synonymous_variant 0.24 pyrazinamide
rpsA 1834030 c.489C>G synonymous_variant 0.27 pyrazinamide
rpsA 1834034 p.Ile165Val missense_variant 0.26 pyrazinamide
rpsA 1834069 c.528G>C synonymous_variant 0.24 pyrazinamide
rpsA 1834093 c.552G>C synonymous_variant 0.16 pyrazinamide
rpsA 1834249 c.708T>C synonymous_variant 0.17 pyrazinamide
rpsA 1834261 c.720A>G synonymous_variant 0.21 pyrazinamide Not assoc w R - Interim
rpsA 1834264 c.723G>C synonymous_variant 0.21 pyrazinamide
rpsA 1834294 c.753G>C synonymous_variant 0.15 pyrazinamide
rpsA 1834298 p.Gln253Glu missense_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 bedaquiline Not assoc w R - Interim
clofazimine Not assoc w R
thyA 3073868 p.Thr202Ala missense_variant 1.0 para-aminosalicylic_acid
ald 3086788 c.-32T>C upstream_gene_variant 1.0 cycloserine
Rv3236c 3612009 p.Ala370Thr missense_variant 1.0 pyrazinamide Not assoc w R
mtrB 3625065 p.Met517Leu missense_variant 1.0 rifampicin Not assoc w R
bedaquiline Uncertain significance
alr 3840719 c.702A>G synonymous_variant 1.0 cycloserine
clpC1 4038287 c.2418C>T synonymous_variant 1.0 pyrazinamide Not assoc w R
clpC1 4038878 c.1827A>G synonymous_variant 0.12 pyrazinamide Not assoc w R - Interim
clpC1 4038932 c.1773G>C synonymous_variant 0.13 pyrazinamide
clpC1 4038941 c.1764G>C synonymous_variant 0.12 pyrazinamide
clpC1 4039046 c.1659C>T synonymous_variant 0.19 pyrazinamide Not assoc w R - Interim
clpC1 4039070 c.1635G>C synonymous_variant 0.17 pyrazinamide
clpC1 4039073 c.1632C>T synonymous_variant 0.18 pyrazinamide
clpC1 4039079 c.1626C>G synonymous_variant 0.16 pyrazinamide Not assoc w R - Interim
clpC1 4039082 c.1623C>T synonymous_variant 0.16 pyrazinamide
clpC1 4039085 c.1620A>G synonymous_variant 0.17 pyrazinamide
clpC1 4039091 c.1614G>T synonymous_variant 0.16 pyrazinamide
clpC1 4039097 c.1608G>C synonymous_variant 0.17 pyrazinamide
clpC1 4039100 c.1605C>T synonymous_variant 0.17 pyrazinamide Not assoc w R - Interim
clpC1 4039106 c.1599G>C synonymous_variant 0.17 pyrazinamide
clpC1 4039121 c.1584T>C synonymous_variant 0.15 pyrazinamide
clpC1 4039484 c.1221T>C synonymous_variant 0.11 pyrazinamide
clpC1 4039553 c.1152C>G synonymous_variant 0.15 pyrazinamide
clpC1 4039559 c.1146C>G synonymous_variant 0.16 pyrazinamide
clpC1 4039598 c.1107C>T synonymous_variant 0.12 pyrazinamide Not assoc w R - Interim
clpC1 4039616 c.1089G>C synonymous_variant 0.14 pyrazinamide
clpC1 4039636 p.Glu357Lys missense_variant 0.12 pyrazinamide
clpC1 4039649 c.1056G>C synonymous_variant 0.19 pyrazinamide
clpC1 4039670 c.1035G>C synonymous_variant 0.19 pyrazinamide
clpC1 4039682 c.1023C>G synonymous_variant 0.16 pyrazinamide
clpC1 4039688 c.1017G>A synonymous_variant 0.18 pyrazinamide Not assoc w R - Interim
clpC1 4039694 c.1011G>C synonymous_variant 0.24 pyrazinamide
clpC1 4039724 c.981A>G synonymous_variant 0.23 pyrazinamide
clpC1 4039733 c.972G>C synonymous_variant 0.17 pyrazinamide
clpC1 4039748 c.957G>C synonymous_variant 0.13 pyrazinamide
clpC1 4039751 c.954A>G synonymous_variant 0.2 pyrazinamide
clpC1 4039757 c.948A>G synonymous_variant 0.14 pyrazinamide
clpC1 4039760 c.945T>C synonymous_variant 0.14 pyrazinamide
clpC1 4039766 c.939T>C synonymous_variant 0.13 pyrazinamide
clpC1 4039769 c.936C>G synonymous_variant 0.15 pyrazinamide
clpC1 4039778 c.927A>G synonymous_variant 0.15 pyrazinamide
clpC1 4039898 c.807C>G synonymous_variant 0.16 pyrazinamide
clpC1 4040108 c.597G>C synonymous_variant 0.13 pyrazinamide
clpC1 4040117 c.588A>G synonymous_variant 0.17 pyrazinamide
clpC1 4040124 p.Glu194Ser missense_variant 0.13 pyrazinamide
clpC1 4040138 c.567G>C synonymous_variant 0.17 pyrazinamide
clpC1 4040144 c.561G>C synonymous_variant 0.17 pyrazinamide
embC 4242643 c.2781C>T synonymous_variant 1.0 ethambutol Not assoc w R
whiB6 4338595 c.-75delG upstream_gene_variant 1.0 kanamycin Not assoc w R
capreomycin Not assoc w R
amikacin Not assoc w R
whiB6 4338732 c.-211C>T upstream_gene_variant 1.0 kanamycin
capreomycin
amikacin
gid 4408156 p.Leu16Arg missense_variant 1.0 streptomycin Not assoc w R