TB-Profiler result

Run: SRR23650982
Summary

Run ID: SRR23650982

Sample name:

Date: 2024-10-05T02:41:49.701416

Number of reads: 21927725

Percentage reads mapped: 99.95

Median coverage: 504.0

Strain: lineage4.9

Spoligotype:

Drug-resistance: HR-TB

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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 katG p.Asn138Ser Uncertain significance Mutation from literature
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
katG 2155699 p.Asn138Ser missense_variant 0.46 isoniazid 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
rrs 1471659 n.-187C>T upstream_gene_variant 1.0 kanamycin
capreomycin
streptomycin
amikacin
katG 2155418 p.Pro232Ala missense_variant 0.13 isoniazid Uncertain significance
rpoA 3878614 c.-107A>C upstream_gene_variant 0.15 rifampicin
rpoA 3878618 c.-111A>C upstream_gene_variant 0.2 rifampicin
embB 4247028 p.Leu172Arg missense_variant 0.28 ethambutol
embB 4247033 p.Ser174Arg missense_variant 0.2 ethambutol
embB 4247039 p.Phe176Val missense_variant 0.19 ethambutol