TB-Profiler result

Run: SRR5013493
Summary

Run ID: SRR5013493

Sample name:

Date: 2024-10-04T23:43:46.704489

Number of reads: 5442546

Percentage reads mapped: 58.8

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 576616 c.1269G>A synonymous_variant 0.47 isoniazid
ethionamide
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
pepQ 2859959 c.460C>T synonymous_variant 0.57 bedaquiline Not assoc w R - Interim
clofazimine Not assoc w R - Interim
pepQ 2860289 c.130C>T synonymous_variant 0.32 bedaquiline
clofazimine
whiB7 3568473 c.207G>A synonymous_variant 0.69 kanamycin
amikacin
streptomycin
whiB7 3568531 p.Arg50Gln missense_variant 0.32 kanamycin
amikacin
streptomycin
whiB7 3568612 p.Gly23Asp missense_variant 0.78 kanamycin Uncertain significance
amikacin Uncertain significance
streptomycin Uncertain significance
mtrB 3626660 c.-47C>T upstream_gene_variant 0.51 rifampicin Uncertain significance
bedaquiline
panD 4044648 c.-367G>T upstream_gene_variant 0.17 pyrazinamide