TB-Profiler result

Run: SRR13837640
Summary

Run ID: SRR13837640

Sample name:

Date: 2024-04-14T03:24:21.757638

Number of reads: 293790

Percentage reads mapped: 99.0

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
Rv0010c 13575 c.-17G>T upstream_gene_variant 1.0 isoniazid
mshA 574999 c.-349G>C upstream_gene_variant 1.0 ethionamide
isoniazid
Rv0565c 657082 p.Val130Glu missense_variant 1.0 ethionamide
rpoB 760182 p.Pro126Ala missense_variant 1.0 rifampicin
rrs 1472286 n.441C>T non_coding_transcript_exon_variant 1.0 streptomycin
kanamycin Uncertain significance
capreomycin
amikacin Uncertain significance
rrs 1472840 n.997delG non_coding_transcript_exon_variant 1.0 streptomycin
kanamycin
capreomycin
amikacin
tlyA 1917527 c.-413G>A upstream_gene_variant 1.0 capreomycin
clpC1 4038224 c.2481G>C synonymous_variant 1.0 pyrazinamide
aftB 4269678 c.-842C>T upstream_gene_variant 1.0 ethambutol
ubiA 4269868 c.-35G>C upstream_gene_variant 1.0 ethambutol Uncertain significance
ethR 4327906 p.Val120Leu missense_variant 1.0 ethionamide
whiB6 4338910 c.-389G>C upstream_gene_variant 1.0 capreomycin
amikacin
kanamycin