TB-Profiler result

Run: SRR13837661
Summary

Run ID: SRR13837661

Sample name:

Date: 2024-04-16T05:49:32.579736

Number of reads: 294373

Percentage reads mapped: 97.19

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
rpoB 762257 c.2451C>G synonymous_variant 1.0 rifampicin
fbiC 1304816 p.His629Arg missense_variant 1.0 clofazimine
pretomanid
delamanid
tlyA 1917613 c.-327G>T upstream_gene_variant 1.0 capreomycin
ndh 2102259 p.Ser262Ala missense_variant 1.0 ethionamide
delamanid
isoniazid
ndh 2102557 c.485delG frameshift_variant 1.0 ethionamide Uncertain significance
delamanid Uncertain significance
isoniazid Uncertain significance
PPE35 2169123 p.Thr497Ile missense_variant 1.0 pyrazinamide
Rv2752c 3066145 p.Leu16Ser missense_variant 1.0 ethambutol
moxifloxacin
levofloxacin
rifampicin
isoniazid
Rv3236c 3612326 p.Thr264Ile missense_variant 1.0 pyrazinamide
Rv3236c 3612504 p.His205Tyr missense_variant 1.0 pyrazinamide
fbiB 3640821 c.-714G>C upstream_gene_variant 1.0 clofazimine
pretomanid
delamanid
rpoA 3878381 p.Leu43Met missense_variant 1.0 rifampicin
embC 4240536 c.678delC frameshift_variant 1.0 ethambutol