TB-Profiler result

Run: SRR13837622
Summary

Run ID: SRR13837622

Sample name:

Date: 2024-03-24T16:51:49.894928

Number of reads: 293825

Percentage reads mapped: 99.0

Median coverage: 9.0

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 13524 p.Gly12Ala missense_variant 1.0 isoniazid
mshA 576259 c.912C>T synonymous_variant 1.0 ethionamide Not assoc w R - Interim
isoniazid Not assoc w R - Interim
Rv0565c 657622 c.-152G>A upstream_gene_variant 1.0 ethionamide
rpoB 759805 c.-2T>C upstream_gene_variant 1.0 rifampicin
rpoC 764895 p.Ile509Thr missense_variant 1.0 rifampicin
mmpL5 778982 c.-502A>C upstream_gene_variant 1.0 clofazimine
bedaquiline
rrl 1476479 n.2822T>G non_coding_transcript_exon_variant 1.0 capreomycin
linezolid
tlyA 1918432 p.Pro165Thr missense_variant 1.0 capreomycin
ndh 2101769 p.Arg425His missense_variant 1.0 ethionamide
delamanid
isoniazid Uncertain significance
whiB7 3569222 c.-543G>A upstream_gene_variant 1.0 streptomycin
amikacin
kanamycin
clpC1 4040148 p.Lys186Ile missense_variant 1.0 pyrazinamide
embC 4240125 p.Cys88Tyr missense_variant 1.0 ethambutol