TB-Profiler result

Run: ERR5979716
Summary

Run ID: ERR5979716

Sample name:

Date: 2024-04-16T07:36:00.542773

Number of reads: 2564715

Percentage reads mapped: 99.93

Median coverage: 80.0

Strain: lineage4.9

Spoligotype:

Drug-resistance: Other

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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 mmpR5 p.Ser68Gly Uncertain significance Mutation from literature
para-aminosalicylic_acid
delamanid
bedaquiline mmpR5 p.Ser68Gly Uncertain significance Mutation from literature
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
mmpR5 779191 p.Ser68Gly missense_variant 0.89 bedaquiline Uncertain significance Mutation from literature
clofazimine Uncertain significance Mutation from literature
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 576108 p.Ala254Gly missense_variant 0.19 ethionamide
isoniazid
mmpR5 779054 p.Gln22Pro missense_variant 0.18 clofazimine Uncertain significance
bedaquiline Uncertain significance
rrs 1471659 n.-187C>T upstream_gene_variant 1.0 streptomycin
kanamycin
capreomycin
amikacin