TB-Profiler result

Run: SRR13861251
Summary

Run ID: SRR13861251

Sample name:

Date: 2024-10-03T20:34:53.220863

Number of reads: 296173

Percentage reads mapped: 14.82

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
rrs 1472288 n.444delT non_coding_transcript_exon_variant 1.0 kanamycin
capreomycin
streptomycin
amikacin
tsnR 1853872 c.267G>T synonymous_variant 1.0 linezolid
tlyA 1917989 p.Ala17Gly missense_variant 1.0 capreomycin
bacA 2063805 c.924G>A synonymous_variant 1.0 kanamycin
capreomycin
streptomycin
amikacin
bacA 2064585 c.144C>A synonymous_variant 1.0 kanamycin
capreomycin
streptomycin
amikacin
ndh 2102525 p.Phe173Tyr missense_variant 1.0 isoniazid
delamanid
ethionamide
ndh 2102538 c.504_505insT frameshift_variant 1.0 isoniazid Uncertain significance
delamanid Uncertain significance
ethionamide Uncertain significance
Rv1979c 2223052 p.Glu38Val missense_variant 1.0 bedaquiline
clofazimine
kasA 2518057 c.-58A>C upstream_gene_variant 1.0 isoniazid
fbiB 3642056 c.522C>G synonymous_variant 1.0 pretomanid
delamanid
clofazimine
rpoA 3877967 p.Thr181Ser missense_variant 1.0 rifampicin Uncertain significance
rpoA 3877972 c.535delG frameshift_variant 1.0 rifampicin
clpC1 4039777 c.927_928insG frameshift_variant 1.0 pyrazinamide
embB 4247545 p.Ser344Arg missense_variant 1.0 ethambutol Uncertain significance
aftB 4268812 p.Ser9Pro missense_variant 1.0 ethambutol