TB-Profiler result

Run: SRR13837604
Summary

Run ID: SRR13837604

Sample name:

Date: 2024-04-15T12:34:44.540128

Number of reads: 293830

Percentage reads mapped: 96.0

Median coverage: 9.0

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
dnaA 377 p.Thr126Asn missense_variant 1.0 isoniazid
gyrB 5709 p.Gly157Val missense_variant 1.0 levofloxacin
moxifloxacin
Rv0565c 657669 c.-199C>A upstream_gene_variant 1.0 ethionamide
mmpS5 778823 p.Ile28Thr missense_variant 1.0 clofazimine
bedaquiline
rplC 800279 c.-530A>C upstream_gene_variant 1.0 linezolid
Rv1258c 1406376 p.Gly322Val missense_variant 1.0 streptomycin
isoniazid
pyrazinamide
PPE35 2169882 p.Ser244Ile missense_variant 1.0 pyrazinamide
ald 3087311 c.492C>G synonymous_variant 1.0 cycloserine
Rv3236c 3613629 c.-513C>G upstream_gene_variant 1.0 pyrazinamide
alr 3840300 p.Pro374His missense_variant 1.0 cycloserine
rpoA 3878288 p.Thr74Pro missense_variant 1.0 rifampicin
clpC1 4040792 c.-88A>T upstream_gene_variant 1.0 pyrazinamide