TB-Profiler result

Run: SRR17567898
Summary

Run ID: SRR17567898

Sample name:

Date: 2025-03-09T16:27:19.300345

Number of reads: 3365754

Percentage reads mapped: 99.78

Median coverage: 92.0

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 9304 p.Gly668Asp missense_variant 0.11 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
rpsL 781395 c.-165T>C upstream_gene_variant 0.1 streptomycin Not assoc w R
rrs 1471659 n.-187C>T upstream_gene_variant 1.0 amikacin Uncertain significance
capreomycin Uncertain significance
kanamycin Uncertain significance
streptomycin Uncertain significance
tsnR 1854300 p.Leu232Pro missense_variant 0.12 linezolid Not assoc w R
tlyA 1917972 c.33A>G synonymous_variant 1.0 capreomycin Not assoc w R
PPE35 2170435 p.Arg60Trp missense_variant 0.98 pyrazinamide Uncertain significance
thyA 3073868 p.Thr202Ala missense_variant 0.1 para-aminosalicylic_acid Uncertain significance
embC 4240860 p.Leu333Arg missense_variant 0.91 ethambutol Uncertain significance
whiB6 4338594 c.-75_-73delGCTinsCC upstream_gene_variant 1.0 amikacin Not assoc w R
capreomycin Uncertain significance
kanamycin Uncertain significance