TB-Profiler result

Run: ERR4423494

Summary

Run ID: ERR4423494

Sample name:

Date: 01-04-2023 05:51:13

Number of reads: 885997

Percentage reads mapped: 99.55

Strain: lineage4.3.3

Drug-resistance: MDR-TB


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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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.3 Euro-American (LAM) LAM;T RD115 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
rpoB 761101 p.Gln432Leu missense_variant 1.0 rifampicin
fabG1 1673425 c.-15C>T upstream_gene_variant 1.0 isoniazid, ethionamide
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
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8040 p.Gly247Ser missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491599 p.Asp273Tyr missense_variant 0.12
mshA 575909 p.Leu188Val missense_variant 1.0
rpoB 760427 c.621G>A synonymous_variant 0.18
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpoC 765609 p.Asp747Gly missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777493 p.Pro330Thr missense_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1305083 p.His718Leu missense_variant 0.12
embR 1417510 c.-163C>A upstream_gene_variant 0.27
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673154 c.-286A>G upstream_gene_variant 0.68
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155141 p.Thr324Ile missense_variant 0.22
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518318 c.204C>A synonymous_variant 0.4
kasA 2518394 p.Leu94Ile missense_variant 0.25
kasA 2518569 p.Ala152Val missense_variant 0.12
kasA 2518919 p.Gly269Ser missense_variant 1.0
Rv2752c 3065559 c.633C>A synonymous_variant 0.15
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086714 c.-106G>A upstream_gene_variant 0.14
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448777 p.Phe92Leu missense_variant 0.2
Rv3083 3449352 p.Met283Ile missense_variant 0.25
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3877656 c.852T>C synonymous_variant 0.13
ddn 3986714 c.-130C>T upstream_gene_variant 1.0
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
ethA 4326538 c.936G>C synonymous_variant 0.12
ethR 4326799 c.-750G>T upstream_gene_variant 0.12
ethA 4326942 p.Ile178Val missense_variant 0.12
ethA 4327113 p.Gln121Glu missense_variant 0.18
whiB6 4338367 p.Leu52Gln missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0