TB-Profiler result

Run: SRR13837663
Summary

Run ID: SRR13837663

Sample name:

Date: 2024-04-16T03:24:40.886745

Number of reads: 293806

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
mshA 575967 p.Val207Asp missense_variant 1.0 ethionamide
isoniazid
rpoB 759961 p.Thr52Asn missense_variant 1.0 rifampicin
rpoB 763050 p.Leu1082Met missense_variant 1.0 rifampicin
mmpL5 775701 p.Pro927Gln missense_variant 1.0 clofazimine
bedaquiline
mmpL5 778828 c.-348G>A upstream_gene_variant 1.0 clofazimine
bedaquiline
rplC 800500 c.-309A>C upstream_gene_variant 1.0 linezolid
embR 1417704 c.-357T>C upstream_gene_variant 1.0 ethambutol
katG 2156840 c.-729C>T upstream_gene_variant 1.0 isoniazid
ald 3087218 p.Met133Ile missense_variant 1.0 cycloserine
whiB7 3568679 p.Val1Leu missense_variant 1.0 streptomycin
amikacin
kanamycin
embB 4248436 c.1923C>T synonymous_variant 1.0 ethambutol