TB-Profiler result

Run: SRR13837743
Summary

Run ID: SRR13837743

Sample name:

Date: 2025-03-06T15:17:07.082757

Number of reads: 2936343

Percentage reads mapped: 100.0

Median coverage: 100.0

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
Rv0565c 657052 p.Phe140Cys missense_variant 1.0 ethionamide Uncertain significance
sigE 1364478 c.66C>T synonymous_variant 1.0 pyrazinamide Uncertain significance
rpsA 1833851 p.Lys104Gln missense_variant 1.0 pyrazinamide Uncertain significance
Rv1979c 2223241 c.-77C>G upstream_gene_variant 1.0 bedaquiline Uncertain significance
clofazimine Uncertain significance
pncA 2289811 c.-570C>T upstream_gene_variant 1.0 pyrazinamide Uncertain significance
pncA 2289994 c.-753A>C upstream_gene_variant 1.0 pyrazinamide Uncertain significance
kasA 2518301 p.His63Asp missense_variant 1.0 isoniazid Uncertain significance
pepQ 2859859 p.Ala187Glu missense_variant 0.99 bedaquiline Uncertain significance
clofazimine Uncertain significance
Rv2752c 3064886 p.Ala436Pro missense_variant 1.0 ethambutol Uncertain significance
isoniazid Uncertain significance
levofloxacin Uncertain significance
moxifloxacin Uncertain significance
rifampicin Uncertain significance
Rv2752c 3065258 p.Met312Val missense_variant 1.0 ethambutol Uncertain significance
isoniazid Uncertain significance
levofloxacin Uncertain significance
moxifloxacin Uncertain significance
rifampicin Uncertain significance
Rv2752c 3066561 c.-370A>C upstream_gene_variant 1.0 ethambutol Uncertain significance
isoniazid Uncertain significance
levofloxacin Uncertain significance
moxifloxacin Uncertain significance
rifampicin Uncertain significance
Rv3083 3449104 p.Pro201Ala missense_variant 1.0 ethionamide Uncertain significance
Rv3236c 3612337 c.779delG frameshift_variant 1.0 pyrazinamide Uncertain significance
Rv3236c 3613541 c.-425C>A upstream_gene_variant 1.0 pyrazinamide Uncertain significance
mtrA 3627882 c.-533C>G upstream_gene_variant 1.0 bedaquiline Uncertain significance
rifampicin Uncertain significance
fbiB 3641723 c.189T>C synonymous_variant 1.0 clofazimine Uncertain significance
delamanid Uncertain significance
pretomanid Uncertain significance
rpoA 3877740 c.768G>T synonymous_variant 1.0 rifampicin Uncertain significance
embC 4239546 c.-317C>T upstream_gene_variant 1.0 ethambutol Uncertain significance
embC 4241005 c.1143G>T synonymous_variant 1.0 ethambutol Uncertain significance
embC 4241081 c.1220delT frameshift_variant 1.0 ethambutol Uncertain significance
embC 4242746 p.Pro962Ser missense_variant 1.0 ethambutol Uncertain significance
embA 4243969 p.Val246Ala missense_variant 1.0 ethambutol Uncertain significance