TB-Profiler result

Run: ERR2229177
Summary

Run ID: ERR2229177

Sample name:

Date: 31-03-2023 16:46:45

Number of reads: 395213

Percentage reads mapped: 99.37

Strain: lineage4

Drug-resistance: Sensitive

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Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family Main Spoligotype RDs Frequency
lineage4 Euro-American LAM;T;S;X;H None 1.0
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
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
gyrA 7362 p.Glu21Gln missense_variant 1.0
rpoB 760924 p.Arg373His missense_variant 0.15
rpoB 762136 p.Asp777Val missense_variant 0.18
rpoC 762854 c.-516G>T upstream_gene_variant 0.18
rpoC 764342 p.Arg325Cys missense_variant 0.33
rpoC 764900 p.Ala511Pro missense_variant 0.13
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 778252 p.His77Tyr missense_variant 0.13
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781458 c.-102C>T upstream_gene_variant 0.18
fbiC 1303747 p.Thr273Ala missense_variant 1.0
Rv1258c 1406294 c.1047C>T synonymous_variant 0.29
Rv1258c 1406547 p.Met265Lys missense_variant 0.22
Rv1258c 1406597 c.744G>A synonymous_variant 0.22
embR 1416996 p.Glu118* stop_gained 0.29
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
fabG1 1673380 c.-60C>G upstream_gene_variant 0.5
inhA 1673772 c.-430C>A upstream_gene_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167745 p.Thr956Arg missense_variant 0.25
PPE35 2168140 p.Ala825Thr missense_variant 0.29
PPE35 2168143 p.Phe824Leu missense_variant 0.29
PPE35 2168150 c.2463T>C synonymous_variant 0.2
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169269 c.1344A>G synonymous_variant 0.26
PPE35 2169272 c.1341C>G synonymous_variant 0.29
PPE35 2169278 c.1335T>C synonymous_variant 0.41
PPE35 2169281 c.1332T>G synonymous_variant 0.39
PPE35 2169287 c.1326T>C synonymous_variant 0.29
PPE35 2169293 c.1320T>C synonymous_variant 0.21
PPE35 2169308 c.1305C>T synonymous_variant 0.18
PPE35 2170048 p.Leu189Val missense_variant 0.44
PPE35 2170053 p.Thr187Ser missense_variant 0.45
PPE35 2170298 c.315A>G synonymous_variant 0.13
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714608 p.Arg242Lys missense_variant 0.12
ahpC 2726529 p.Asp113Asn missense_variant 0.13
Rv2752c 3066136 p.Thr19Ile missense_variant 0.2
Rv3236c 3613120 c.-4A>T upstream_gene_variant 0.33
fbiB 3641855 c.321C>T synonymous_variant 0.4
rpoA 3877861 p.Val216Asp missense_variant 0.14
clpC1 4039829 p.Leu292Ile missense_variant 0.21
clpC1 4039972 p.Lys245Glu missense_variant 0.22
clpC1 4040458 p.Arg83Ser missense_variant 0.18
clpC1 4040502 p.Gly68Asp missense_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243285 p.Val18Asp missense_variant 0.33
embA 4243734 p.Pro168Thr missense_variant 0.67
embA 4245164 p.His644Gln missense_variant 0.25
embA 4246200 p.Gln990Glu missense_variant 0.4
embB 4249176 p.Val888Glu missense_variant 0.25
embB 4249177 c.2665delC frameshift_variant 0.25
aftB 4268530 p.Gly103Ser missense_variant 0.5
ubiA 4269879 c.-46C>T upstream_gene_variant 0.18
ethR 4327631 p.Ala28Glu missense_variant 0.22
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448499 c.-4_*1408del transcript_ablation 1.0