TB-Profiler result

Run: SRR13837694
Summary

Run ID: SRR13837694

Sample name:

Date: 2024-04-15T19:49:42.391592

Number of reads: 293796

Percentage reads mapped: 100.0

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 5906 p.Val223Leu missense_variant 1.0 levofloxacin
moxifloxacin
gyrB 6011 p.Val258Met missense_variant 1.0 levofloxacin
moxifloxacin
gyrB 6678 p.Pro480Arg missense_variant 1.0 levofloxacin
moxifloxacin
rpoB 759638 c.-169T>A upstream_gene_variant 1.0 rifampicin
rpsL 781409 c.-151T>A upstream_gene_variant 1.0 streptomycin
Rv1129c 1254013 p.Met174Ile missense_variant 1.0 moxifloxacin
levofloxacin
rifampicin Uncertain significance
isoniazid Uncertain significance
Rv1129c 1254452 p.Glu28Ala missense_variant 1.0 moxifloxacin
levofloxacin
rifampicin
isoniazid
PPE35 2170198 p.Ala139Ser missense_variant 1.0 pyrazinamide
pncA 2290069 c.-828C>T upstream_gene_variant 1.0 pyrazinamide
lpqB 3624738 p.Ala58Val missense_variant 1.0 bedaquiline
rifampicin
clpC1 4039648 p.Glu353Gln missense_variant 1.0 pyrazinamide
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