TB-Profiler result

Run: SRR13837638
Summary

Run ID: SRR13837638

Sample name:

Date: 2024-10-04T00:30:02.552216

Number of reads: 294488

Percentage reads mapped: 98.22

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 6088 c.849C>A synonymous_variant 1.0 levofloxacin
moxifloxacin
hadA 731690 c.-240A>G upstream_gene_variant 1.0 isoniazid
nusG 734764 p.Ala171Ser missense_variant 1.0 rifampicin
rpsL 781532 c.-28G>T upstream_gene_variant 1.0 streptomycin
rplC 800224 c.-585G>C upstream_gene_variant 1.0 linezolid
fbiC 1302843 c.-88A>C upstream_gene_variant 1.0 pretomanid
delamanid
clofazimine
Rv1979c 2222030 p.Val379Met missense_variant 1.0 bedaquiline
clofazimine
kasA 2519238 p.Thr375Lys missense_variant 1.0 isoniazid
folC 2747285 p.Val105Ala missense_variant 1.0 para-aminosalicylic_acid
Rv2681 2997178 p.Val147Glu missense_variant 1.0 capreomycin
thyX 3068085 c.-140T>A upstream_gene_variant 1.0 para-aminosalicylic_acid
ald 3087003 p.Asp62His missense_variant 1.0 cycloserine
Rv3083 3448914 p.Ile137Met missense_variant 1.0 ethionamide
glpK 4139790 c.-35C>T upstream_gene_variant 1.0 levofloxacin
moxifloxacin
isoniazid
streptomycin
rifampicin
ethambutol
embC 4241029 p.Trp389* stop_gained 1.0 ethambutol
embB 4249631 p.Thr1040Pro missense_variant 1.0 ethambutol
ethA 4327197 p.Gly93Arg missense_variant 1.0 ethionamide Uncertain significance