TB-Profiler result

Run: SRR13861334
Summary

Run ID: SRR13861334

Sample name:

Date: 2024-10-05T03:36:38.151332

Number of reads: 311956

Percentage reads mapped: 7.81

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
Rv0010c 13575 c.-17G>T upstream_gene_variant 0.93 isoniazid
mshA 574999 c.-349G>C upstream_gene_variant 1.0 isoniazid
ethionamide
Rv0565c 657082 p.Val130Glu missense_variant 1.0 ethionamide
rpsA 1834279 c.738C>T synonymous_variant 1.0 pyrazinamide Not assoc w R - Interim
tsnR 1853488 c.-118A>C upstream_gene_variant 1.0 linezolid
ndh 2102692 c.350_351insA frameshift_variant 1.0 isoniazid Uncertain significance
delamanid Uncertain significance
ethionamide Uncertain significance
alr 3840436 p.Leu329Val missense_variant 1.0 cycloserine
aftB 4269678 c.-842C>T upstream_gene_variant 1.0 ethambutol
ubiA 4269868 c.-35G>C upstream_gene_variant 1.0 ethambutol Uncertain significance