TB-Profiler result

Run: SRR5013478
Summary

Run ID: SRR5013478

Sample name:

Date: 2024-04-15T22:48:02.433961

Number of reads: 1950762

Percentage reads mapped: 52.81

Median coverage: 0.0

Strain: lineage4.9

Spoligotype:

Drug-resistance: Other

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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 pncA p.Asp136Tyr Uncertain significance Mutation from literature
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
pncA 2288836 p.Asp136Tyr missense_variant 0.25 pyrazinamide Uncertain significance Mutation from literature
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
pncA 2288682 c.560G>A splice_region_variant&stop_retained_variant 0.99 pyrazinamide Not assoc w R - Interim
pncA 2289242 c.-1T>C upstream_gene_variant 1.0 pyrazinamide
pncA 2289245 c.-4A>C upstream_gene_variant 1.0 pyrazinamide