TB-Profiler result

Run: SRR21700851
Summary

Run ID: SRR21700851

Sample name:

Date: 2025-03-09T19:35:24.395048

Number of reads: 7538038

Percentage reads mapped: 99.97

Median coverage: 252.0

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
mshA 576179 p.Lys278Gln missense_variant 1.0 ethionamide Uncertain significance
isoniazid Uncertain significance
Rv0565c 656340 p.Met377Ile missense_variant 0.16 ethionamide Uncertain significance
Rv0565c 656842 p.Gln210Arg missense_variant 0.24 ethionamide Uncertain significance
Rv0565c 656897 p.Ala192Thr missense_variant 0.22 ethionamide Uncertain significance
Rv0565c 657147 p.Tyr108* stop_gained 0.12 ethionamide Uncertain significance
Rv0565c 657391 p.Arg27Gln missense_variant 0.2 ethionamide Uncertain significance
Rv1258c 1406686 p.Val219Ile missense_variant 1.0 isoniazid Uncertain significance
pyrazinamide Uncertain significance
streptomycin Uncertain significance
rrs 1471659 n.-187C>T upstream_gene_variant 1.0 amikacin Uncertain significance
capreomycin Uncertain significance
kanamycin Uncertain significance
streptomycin Uncertain significance
rpoA 3878614 c.-107A>C upstream_gene_variant 0.13 rifampicin Uncertain significance
rpoA 3878619 c.-112A>C upstream_gene_variant 0.15 rifampicin Uncertain significance
embB 4247028 p.Leu172Arg missense_variant 0.16 ethambutol Uncertain significance
embB 4247039 p.Phe176Val missense_variant 0.13 ethambutol Uncertain significance
ethA 4326842 p.Tyr211Cys missense_variant 0.98 ethionamide Uncertain significance