TB-Profiler result

Run: SRR8692858
Summary

Run ID: SRR8692858

Sample name:

Date: 2024-10-05T03:53:00.945473

Number of reads: 2085480

Percentage reads mapped: 65.25

Median coverage: 47.0

Strain: lineage4.9

Spoligotype:

Drug-resistance: Other

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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 rrl n.2270G>T Assoc w R - Interim
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
rrl 1475927 n.2270G>T non_coding_transcript_exon_variant 0.57 linezolid Assoc w R - Interim
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
Rv1258c 1406686 p.Val219Ile missense_variant 0.95 streptomycin
pyrazinamide
isoniazid
rrs 1471659 n.-187C>T upstream_gene_variant 1.0 kanamycin
capreomycin
streptomycin
amikacin
rrl 1475753 n.2096C>T non_coding_transcript_exon_variant 0.71 capreomycin Uncertain significance
linezolid
rrl 1475759 n.2102C>T non_coding_transcript_exon_variant 0.71 capreomycin
linezolid
rrl 1475762 n.2105G>T non_coding_transcript_exon_variant 0.71 capreomycin Uncertain significance
linezolid
rrl 1475763 n.2106C>T non_coding_transcript_exon_variant 0.71 capreomycin Uncertain significance
linezolid
rrl 1475764 n.2107A>C non_coding_transcript_exon_variant 0.77 capreomycin Uncertain significance
linezolid
rrl 1475765 n.2108A>G non_coding_transcript_exon_variant 0.77 capreomycin Uncertain significance
linezolid
rrl 1475775 n.2118G>A non_coding_transcript_exon_variant 0.77 capreomycin Uncertain significance
linezolid
rrl 1476529 n.2872A>G non_coding_transcript_exon_variant 0.53 capreomycin Uncertain significance
linezolid
rrl 1476597 n.2940G>A non_coding_transcript_exon_variant 0.7 capreomycin Uncertain significance
linezolid