TB-Profiler result

Run: SRR12199458
Summary

Run ID: SRR12199458

Sample name:

Date: 2024-10-05T04:56:04.799113

Number of reads: 186658

Percentage reads mapped: 73.91

Median coverage: 5.0

Strain: lineage1.1.3.1

Spoligotype:

Drug-resistance: Sensitive

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Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family RDs Frequency
lineage1.1.3 Indo-Oceanic RD239 1.0
lineage1.1 Indo-Oceanic RD239 0.33
lineage1 Indo-Oceanic RD239 0.25
lineage1.1.3.1 Indo-Oceanic RD239 0.48
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
rplC 800357 c.-452C>A upstream_gene_variant 1.0 linezolid Not assoc w R
kasA 2518132 c.18C>T synonymous_variant 1.0 isoniazid
alr 3841546 c.-126C>A upstream_gene_variant 0.43 cycloserine