TB-Profiler result

Run: SRR13837654
Summary

Run ID: SRR13837654

Sample name:

Date: 2024-10-05T03:36:27.750951

Number of reads: 293846

Percentage reads mapped: 97.01

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
rpoB 761402 c.1596C>T synonymous_variant 1.0 rifampicin
mmpS5 778694 p.Tyr71Ser missense_variant 1.0 bedaquiline
clofazimine
mmpR5 779478 p.Glu163Asp missense_variant 1.0 bedaquiline
clofazimine
embR 1417498 c.-151G>T upstream_gene_variant 1.0 ethambutol
embR 1417937 c.-591_-590insA upstream_gene_variant 1.0 ethambutol
rrs 1473125 n.1280A>T non_coding_transcript_exon_variant 1.0 kanamycin
capreomycin
streptomycin
amikacin
rrl 1475195 n.1538G>T non_coding_transcript_exon_variant 1.0 capreomycin
linezolid
fbiA 3640597 p.Val19Leu missense_variant 1.0 pretomanid
delamanid
clofazimine
alr 3840493 p.Leu310Val missense_variant 1.0 cycloserine
embC 4241184 p.Thr441Lys missense_variant 1.0 ethambutol
embB 4247920 c.1407T>C synonymous_variant 1.0 ethambutol