TB-Profiler result

Run: SRR11823425
Summary

Run ID: SRR11823425

Sample name:

Date: 2024-04-15T10:02:26.793769

Number of reads: 2967936

Percentage reads mapped: 99.18

Median coverage: 88.0

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
rplC 800223 c.-586C>T upstream_gene_variant 1.0 linezolid
rrs 1471659 n.-187C>T upstream_gene_variant 1.0 streptomycin
kanamycin
capreomycin
amikacin
fabG1 1673380 c.-60C>G upstream_gene_variant 0.13 ethionamide
isoniazid
PPE35 2170048 p.Leu189Val missense_variant 0.41 pyrazinamide
PPE35 2170053 p.Thr187Ser missense_variant 0.44 pyrazinamide
embB 4246544 p.Thr11Pro missense_variant 0.16 ethambutol Uncertain significance
embB 4246548 p.Pro12Gln missense_variant 0.22 ethambutol Uncertain significance
embB 4246555 c.42G>C synonymous_variant 0.22 ethambutol
embB 4246556 p.Ala15Pro missense_variant 0.22 ethambutol Uncertain significance
gid 4407661 p.Ser181Leu missense_variant 1.0 streptomycin Uncertain significance