TB-Profiler result

Run: SRR13837635
Summary

Run ID: SRR13837635

Sample name:

Date: 2024-10-04T20:50:48.948677

Number of reads: 293838

Percentage reads mapped: 100.0

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
rpsA 1833851 p.Lys104Gln missense_variant 1.0 pyrazinamide
Rv1979c 2223241 c.-77C>G upstream_gene_variant 1.0 bedaquiline
clofazimine
pncA 2289811 c.-570C>T upstream_gene_variant 1.0 pyrazinamide
Rv2752c 3064886 p.Ala436Pro missense_variant 1.0 levofloxacin
moxifloxacin
isoniazid
rifampicin
ethambutol
Rv2752c 3065258 p.Met312Val missense_variant 1.0 levofloxacin Uncertain significance
moxifloxacin Uncertain significance
isoniazid Uncertain significance
rifampicin Uncertain significance
ethambutol Uncertain significance
Rv2752c 3066561 c.-370A>C upstream_gene_variant 1.0 levofloxacin
moxifloxacin
isoniazid
rifampicin
ethambutol
Rv3083 3449104 p.Pro201Ala missense_variant 1.0 ethionamide
Rv3236c 3613541 c.-425C>A upstream_gene_variant 1.0 pyrazinamide
rpoA 3877740 c.768G>T synonymous_variant 1.0 rifampicin
embC 4241005 c.1143G>T synonymous_variant 1.0 ethambutol
embC 4241081 c.1220delT frameshift_variant 1.0 ethambutol