TB-Profiler result

Run: SRR13837628
Summary

Run ID: SRR13837628

Sample name:

Date: 2024-10-05T02:16:43.194622

Number of reads: 293856

Percentage reads mapped: 96.01

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 6406 p.Asn389Lys missense_variant 1.0 levofloxacin
moxifloxacin
Rv1129c 1254144 p.Thr131Ala missense_variant 1.0 levofloxacin Uncertain significance
moxifloxacin Uncertain significance
isoniazid Uncertain significance
rifampicin Uncertain significance
rrl 1473558 n.-100T>G upstream_gene_variant 1.0 capreomycin
linezolid
inhA 1673792 c.-410G>T upstream_gene_variant 1.0 isoniazid
ethionamide
rpsA 1833709 c.168C>T synonymous_variant 1.0 pyrazinamide
rpsA 1834448 p.Lys303* stop_gained 1.0 pyrazinamide Uncertain significance
tlyA 1918103 p.Val55Ala missense_variant 1.0 capreomycin
bacA 2064591 c.138C>A synonymous_variant 1.0 kanamycin
capreomycin
streptomycin
amikacin
Rv1979c 2222544 c.621G>A synonymous_variant 1.0 bedaquiline
clofazimine
Rv3083 3449935 p.Ile478Val missense_variant 1.0 ethionamide
mtrB 3627581 c.-968G>A upstream_gene_variant 1.0 rifampicin
bedaquiline
fbiB 3642147 p.Val205Phe missense_variant 1.0 pretomanid
delamanid
clofazimine
embC 4239311 c.-552G>C upstream_gene_variant 1.0 ethambutol