TB-Profiler result

Run: SRR13861404
Summary

Run ID: SRR13861404

Sample name:

Date: 2024-04-15T12:34:59.825795

Number of reads: 222652

Percentage reads mapped: 5.57

Median coverage: 7.0

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
Rv1129c 1253913 p.Ile208Phe missense_variant 1.0 moxifloxacin
levofloxacin
rifampicin
isoniazid
embR 1417503 c.-156A>C upstream_gene_variant 1.0 ethambutol
embR 1417613 c.-266C>G upstream_gene_variant 1.0 ethambutol
rrl 1476753 n.3099delG non_coding_transcript_exon_variant 1.0 capreomycin
linezolid
ahpC 2725932 c.-261G>A upstream_gene_variant 1.0 isoniazid
pepQ 2860197 c.222T>C synonymous_variant 1.0 clofazimine
bedaquiline
rpoA 3878967 c.-460G>T upstream_gene_variant 1.0 rifampicin
ethA 4327644 c.-171G>A upstream_gene_variant 1.0 ethionamide