TB-Profiler result

Run: SRR13837644
Summary

Run ID: SRR13837644

Sample name:

Date: 2024-10-05T08:58:11.330067

Number of reads: 295738

Percentage reads mapped: 98.64

Median coverage: 10.0

Strain: lineage4.9

Spoligotype:

Drug-resistance: Sensitive

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Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family RDs Frequency
lineage4 Euro-American None 1.0
lineage4.9 Euro-American (H37Rv-like) 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
isoniazid
ethambutol
pyrazinamide
streptomycin
fluoroquinolones
moxifloxacin
ofloxacin
levofloxacin
ciprofloxacin
aminoglycosides
amikacin
capreomycin
kanamycin
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
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
Rv1258c 1406845 p.Ala166Pro missense_variant 1.0 streptomycin
pyrazinamide
isoniazid
inhA 1674607 p.Pro136Ser missense_variant 1.0 isoniazid
ethionamide
inhA 1674778 p.Pro193Ala missense_variant 1.0 isoniazid
ethionamide
rpsA 1833269 c.-273G>T upstream_gene_variant 1.0 pyrazinamide
bacA 2064115 p.Ala205Asp missense_variant 1.0 kanamycin
capreomycin
streptomycin
amikacin
Rv1979c 2223306 c.-142T>A upstream_gene_variant 1.0 bedaquiline
clofazimine
pncA 2289228 p.Ile5Asn missense_variant 1.0 pyrazinamide
kasA 2518176 p.Ala21Gly missense_variant 1.0 isoniazid
ahpC 2726324 c.132A>G synonymous_variant 1.0 isoniazid Not assoc w R - Interim
ahpC 2726362 p.Phe57Ser missense_variant 1.0 isoniazid
pepQ 2859580 p.Leu280Arg missense_variant 1.0 bedaquiline
clofazimine
thyX 3067940 c.6C>G synonymous_variant 1.0 para-aminosalicylic_acid
mtrB 3626051 p.Ser188Trp missense_variant 1.0 rifampicin
bedaquiline
embC 4242041 p.Met727Leu missense_variant 1.0 ethambutol