TB-Profiler result

Run: SRR13837697
Summary

Run ID: SRR13837697

Sample name:

Date: 2024-10-05T03:36:29.095696

Number of reads: 295644

Percentage reads mapped: 98.6

Median coverage: 10.0

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
gyrB 6678 p.Pro480Arg missense_variant 0.92 levofloxacin
moxifloxacin
fgd1 490676 c.-107G>C upstream_gene_variant 1.0 pretomanid
delamanid
clofazimine
rpsL 781409 c.-151T>A upstream_gene_variant 1.0 streptomycin
Rv1129c 1254013 p.Met174Ile missense_variant 1.0 levofloxacin
moxifloxacin
isoniazid Uncertain significance
rifampicin Uncertain significance
Rv1129c 1254452 p.Glu28Ala missense_variant 1.0 levofloxacin
moxifloxacin
isoniazid
rifampicin
bacA 2063125 p.Ala535Asp missense_variant 1.0 kanamycin
capreomycin
streptomycin
amikacin
katG 2155857 c.255C>A synonymous_variant 1.0 isoniazid
PPE35 2170198 p.Ala139Ser missense_variant 1.0 pyrazinamide
pncA 2290069 c.-828C>T upstream_gene_variant 1.0 pyrazinamide
eis 2714922 c.411G>A synonymous_variant 1.0 kanamycin
amikacin
mtrB 3625436 p.Ile393Asn missense_variant 1.0 rifampicin
bedaquiline
alr 3840223 c.1198A>C synonymous_variant 1.0 cycloserine
embC 4242023 p.Val721Leu missense_variant 1.0 ethambutol
embA 4245071 c.1839G>A synonymous_variant 1.0 ethambutol
ethA 4327364 p.Lys37Arg missense_variant 1.0 ethionamide