TB-Profiler result

Run: SRR5485601
Summary

Run ID: SRR5485601

Sample name:

Date: 2024-04-15T20:09:22.312650

Number of reads: 102240

Percentage reads mapped: 97.9

Median coverage: 0.0

Strain: lineage4.9

Spoligotype:

Drug-resistance: RR-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 rpoB p.Ser428Thr Assoc w R - Interim
p.His445Leu Assoc w R
p.Ser450Leu Assoc w R
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
rpoB 761089 p.Ser428Thr missense_variant 0.44 rifampicin Assoc w R - Interim
rpoB 761140 p.His445Leu missense_variant 0.39 rifampicin Assoc w R
rpoB 761155 p.Ser450Leu missense_variant 0.63 rifampicin Assoc w R
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
pncA 2289256 c.-15A>C upstream_gene_variant 0.84 pyrazinamide Uncertain significance