TB-Profiler result

Run: SRR16058647
Summary

Run ID: SRR16058647

Sample name:

Date: 2024-04-16T03:29:35.127548

Number of reads: 1606068

Percentage reads mapped: 99.82

Median coverage: 82.0

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
gyrA 7362 p.Glu21Gln missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 7492 p.Phe64Ser missense_variant 1.0 levofloxacin
moxifloxacin
mmpL5 776528 p.Gln651His missense_variant 1.0 clofazimine
bedaquiline
rrs 1471659 n.-187C>T upstream_gene_variant 1.0 streptomycin
kanamycin
capreomycin
amikacin
tlyA 1917972 c.33A>G synonymous_variant 1.0 capreomycin Not assoc w R
ribD 2987070 p.Ala78Thr missense_variant 1.0 para-aminosalicylic_acid
Rv3083 3449713 p.Ala404Thr missense_variant 1.0 ethionamide Uncertain significance
embC 4239509 c.-354G>A upstream_gene_variant 1.0 ethambutol Uncertain significance
embC 4242495 p.Asp878Ala missense_variant 1.0 ethambutol Uncertain significance
embB 4249334 p.Ala941Thr missense_variant 1.0 ethambutol Uncertain significance
ubiA 4269032 p.Gly268Ser missense_variant 1.0 ethambutol Uncertain significance
whiB6 4338595 c.-75delG upstream_gene_variant 1.0 capreomycin Not assoc w R
amikacin Not assoc w R
kanamycin Not assoc w R