TB-Profiler result

Run: SRR21700852
Summary

Run ID: SRR21700852

Sample name:

Date: 2024-04-16T09:13:51.672271

Number of reads: 6347696

Percentage reads mapped: 99.98

Median coverage: 216.0

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 576179 p.Lys278Gln missense_variant 1.0 ethionamide
isoniazid
Rv0565c 656842 p.Gln210Arg missense_variant 0.16 ethionamide
Rv0565c 656897 p.Ala192Thr missense_variant 0.31 ethionamide Uncertain significance
Rv0565c 657147 p.Tyr108* stop_gained 0.13 ethionamide Uncertain significance
Rv0565c 657391 p.Arg27Gln missense_variant 0.15 ethionamide
Rv1258c 1406686 p.Val219Ile missense_variant 1.0 streptomycin
isoniazid
pyrazinamide
rrs 1471659 n.-187C>T upstream_gene_variant 1.0 streptomycin
kanamycin
capreomycin
amikacin
rpoA 3878619 c.-112A>C upstream_gene_variant 0.15 rifampicin
ethA 4326842 p.Tyr211Cys missense_variant 0.97 ethionamide Uncertain significance