TB-Profiler

TB-Profiler result

Run: SRR6117347

Summary

Run ID: SRR6117347

Sample name:

Date: 2025-03-06T13:09:59.222480

Number of reads: 2535425

Percentage reads mapped: 99.79

Median coverage: 73.0

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
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
Rv1129c	1254643	c.-109G>T	upstream_gene_variant	1.0	isoniazid	Uncertain significance
					levofloxacin	Uncertain significance
					moxifloxacin	Uncertain significance
					rifampicin	Uncertain significance
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
Rv3083	3449070	c.567G>C	synonymous_variant	1.0	ethionamide	Uncertain significance
embA	4243191	c.-42C>A	upstream_gene_variant	1.0	ethambutol	Uncertain significance
ubiA	4269810	p.Gln8His	missense_variant	0.99	ethambutol	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