TB-Profiler result

Run: SRR13837646
Summary

Run ID: SRR13837646

Sample name:

Date: 2025-02-11T09:41:29.620589

Number of reads: 294165

Percentage reads mapped: 98.12

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
fgd1 490955 p.Met58Arg missense_variant 1.0 pretomanid
delamanid
clofazimine
hadA 731861 c.-69G>C upstream_gene_variant 1.0 isoniazid
Rv1258c 1406845 p.Ala166Pro missense_variant 1.0 streptomycin
pyrazinamide
isoniazid
pncA 2289228 p.Ile5Asn missense_variant 1.0 pyrazinamide
ahpC 2726324 c.132A>G synonymous_variant 1.0 isoniazid Not assoc w R - Interim
ahpC 2726362 p.Phe57Ser missense_variant 1.0 isoniazid
Rv2681 2997338 c.600G>C synonymous_variant 1.0 capreomycin
thyX 3067940 c.6C>G synonymous_variant 1.0 para-aminosalicylic_acid
thyA 3074620 c.-149C>A upstream_gene_variant 1.0 para-aminosalicylic_acid
mtrB 3626051 p.Ser188Trp missense_variant 1.0 rifampicin
bedaquiline
ddn 3986889 p.Phe16Val missense_variant 1.0 pretomanid
delamanid
embC 4242041 p.Met727Leu missense_variant 1.0 ethambutol
aftB 4267979 c.858G>C synonymous_variant 1.0 ethambutol