TB-Profiler

TB-Profiler result

Run: SRR26112156

Summary

Run ID: SRR26112156

Sample name:

Date: 2025-03-09T16:57:25.527218

Number of reads: 2633981

Percentage reads mapped: 99.77

Median coverage: 127.0

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
dnaA	1057	p.Val353Leu	missense_variant	1.0	isoniazid	Uncertain significance
gyrA	7362	p.Glu21Gln	missense_variant	1.0	levofloxacin	Not assoc w R
gyrA	7362	p.Glu21Gln	missense_variant	1.0	moxifloxacin	Not assoc w R
rrs	1471659	n.-187C>T	upstream_gene_variant	1.0	amikacin	Uncertain significance
					capreomycin	Uncertain significance
					kanamycin	Uncertain significance
					streptomycin	Uncertain significance
tlyA	1917972	c.33A>G	synonymous_variant	1.0	capreomycin	Not assoc w R
panD	4045086	c.-805C>T	upstream_gene_variant	1.0	pyrazinamide	Uncertain significance
embA	4244414	c.1182G>A	synonymous_variant	1.0	ethambutol	Uncertain significance
whiB6	4338465	c.57A>C	synonymous_variant	1.0	amikacin	Uncertain significance
					capreomycin	Uncertain significance
					kanamycin	Uncertain significance
whiB6	4338595	c.-75delG	upstream_gene_variant	1.0	amikacin	Not assoc w R
					capreomycin	Not assoc w R
					kanamycin	Not assoc w R