TB-Profiler result

Run: SRR13837641
Summary

Run ID: SRR13837641

Sample name:

Date: 2024-04-15T10:14:28.641600

Number of reads: 293843

Percentage reads mapped: 97.01

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
rpoB 762490 p.Val895Gly missense_variant 1.0 rifampicin
rpoC 765707 c.2340delA frameshift_variant 1.0 rifampicin
tsnR 1854059 p.Leu152Val missense_variant 1.0 linezolid
Rv1979c 2222084 p.Leu361Ile missense_variant 1.0 clofazimine
bedaquiline
Rv1979c 2222431 p.Met245Arg missense_variant 1.0 clofazimine
bedaquiline
Rv1979c 2223625 c.-461C>A upstream_gene_variant 1.0 clofazimine Uncertain significance
bedaquiline Uncertain significance
mtrB 3625191 p.Val475Leu missense_variant 1.0 bedaquiline
rifampicin
alr 3841157 c.264A>G synonymous_variant 1.0 cycloserine
rpoA 3878047 p.Ala154Asp missense_variant 1.0 rifampicin
ethR 4326799 c.-750G>A upstream_gene_variant 1.0 ethionamide