TB-Profiler result

Run: SRR13837658
Summary

Run ID: SRR13837658

Sample name:

Date: 2024-04-15T05:24:55.687249

Number of reads: 293870

Percentage reads mapped: 95.02

Median coverage: 9.0

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 6898 c.-404G>C upstream_gene_variant 1.0 levofloxacin
moxifloxacin
gyrA 8039 c.738T>C synonymous_variant 1.0 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
mshA 575414 p.Gly23Ser missense_variant 1.0 ethionamide
isoniazid
rpsA 1834248 p.His236Leu missense_variant 1.0 pyrazinamide
bacA 2063871 p.Phe286Leu missense_variant 1.0 streptomycin
kanamycin
capreomycin
amikacin
katG 2154449 p.Ala555Ser missense_variant 1.0 isoniazid
ribD 2987590 p.Leu251Arg missense_variant 1.0 para-aminosalicylic_acid
Rv2681 2996731 c.-8C>A upstream_gene_variant 1.0 capreomycin
embA 4243228 c.-5G>T upstream_gene_variant 1.0 ethambutol Uncertain significance
embA 4243540 p.Ala103Asp missense_variant 1.0 ethambutol
embB 4249506 c.2994delG frameshift_variant 1.0 ethambutol