TB-Profiler result

Run: ERR11081205
Summary

Run ID: ERR11081205

Sample name:

Date: 08-04-2023 11:10:59

Number of reads: 6070009

Percentage reads mapped: 99.57

Strain: lineage4.4

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
lineage4.4 Euro-American S;T 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
rpoB 761078 p.Phe424Leu missense_variant 1.0 rifampicin
rpoB 761095 p.Leu430Pro missense_variant 1.0 rifampicin
katG 2154599 p.Trp505Arg missense_variant 1.0 isoniazid
pncA 2289072 c.169delC frameshift_variant 1.0 pyrazinamide, pyrazinamide
ahpC 2726136 c.-57C>T upstream_gene_variant 1.0 isoniazid
embB 4248003 p.Gln497Arg missense_variant 1.0 ethambutol
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 9304 p.Gly668Asp missense_variant 0.99
mshA 576108 p.Ala254Gly missense_variant 0.25
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673280 c.-160C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223145 p.Arg7Ile missense_variant 0.17
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3878613 c.-106A>C upstream_gene_variant 0.24
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246584 p.Arg24Pro missense_variant 0.43
aftB 4267118 c.1719G>A synonymous_variant 1.0
aftB 4268928 c.-92C>T upstream_gene_variant 1.0
aftB 4269375 c.-539G>A upstream_gene_variant 1.0
whiB6 4338277 p.Pro82Leu missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0