TB-Profiler result

Run: SRR13837637
Summary

Run ID: SRR13837637

Sample name:

Date: 2025-02-11T11:00:44.392310

Number of reads: 296704

Percentage reads mapped: 97.94

Median coverage: 9.0

Strain: lineage4.9

Spoligotype:

Drug-resistance: Sensitive

Download CSV Download TXT Download JSON
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
rplC 801215 c.408delC frameshift_variant 1.0 linezolid
Rv1129c 1253639 p.Leu299* stop_gained 1.0 levofloxacin Uncertain significance
moxifloxacin Uncertain significance
isoniazid Uncertain significance
rifampicin Uncertain significance
fbiC 1304409 c.1479C>G synonymous_variant 1.0 pretomanid
delamanid
clofazimine
fbiC 1304501 p.Ala524Gly missense_variant 1.0 pretomanid
delamanid Uncertain significance
clofazimine Uncertain significance
sigE 1365081 c.669G>T synonymous_variant 1.0 pyrazinamide
PPE35 2168564 c.2049T>A synonymous_variant 1.0 pyrazinamide
kasA 2519179 c.1065G>C synonymous_variant 0.94 isoniazid
Rv2477c 2784407 c.-365A>G upstream_gene_variant 0.92 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
thyX 3068038 c.-93C>A upstream_gene_variant 1.0 para-aminosalicylic_acid
whiB7 3569032 c.-353C>A upstream_gene_variant 1.0 kanamycin Uncertain significance
amikacin Uncertain significance
streptomycin Uncertain significance
Rv3236c 3612721 c.396G>T synonymous_variant 1.0 pyrazinamide
rpoA 3879230 c.-723C>G upstream_gene_variant 0.9 rifampicin
clpC1 4040955 c.-251A>C upstream_gene_variant 1.0 pyrazinamide
embC 4240006 c.144A>C synonymous_variant 1.0 ethambutol