TB-Profiler result

Run: SRR5013532
Summary

Run ID: SRR5013532

Sample name:

Date: 2024-04-16T06:07:41.484739

Number of reads: 5011897

Percentage reads mapped: 56.97

Median coverage: 0.0

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 576319 c.972G>A synonymous_variant 0.88 ethionamide
isoniazid
mshA 576476 p.Leu377Val missense_variant 0.92 ethionamide
isoniazid
katG 2156686 c.-575T>C upstream_gene_variant 0.27 isoniazid
katG 2156723 c.-612G>A upstream_gene_variant 0.23 isoniazid
katG 2156754 c.-643G>A upstream_gene_variant 0.21 isoniazid
katG 2156786 c.-675C>A upstream_gene_variant 0.2 isoniazid
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 0.99 pyrazinamide