TB-Profiler

TB-Profiler result

Run: SRR5153215

This average coverage of the target regions is below the recommended 30x. Some mutations may not be detected due to low coverage.

Summary

Run ID: SRR5153215

Sample name:

Date: 2024-04-14T20:00:36.760459

Number of reads: 959491

Percentage reads mapped: 99.08

Median coverage: 12.0

Strain: lineage2.2.1;lineage4

Spoligotype:

Drug-resistance: RR-TB

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Lineage Table: The lineage is inferred by analysing lineage specific SNPs

Lineage	Family	RDs	Frequency
lineage2.2.1	East-Asian (Beijing)	RD105;RD207;RD181	0.18
lineage2.2	East-Asian (Beijing)	RD105;RD207	0.21
lineage4	Euro-American	None	0.69

Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes

Drug	Resistance	Supporting mutations	WHO confidence
rifampicin	rpoB	p.Ser450Leu	Assoc w R
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
rpoB	761155	p.Ser450Leu	missense_variant	0.8	rifampicin	Assoc w R

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
embA	4243460	c.228C>T	synonymous_variant	1.0	ethambutol	Not assoc w R
gid	4407927	p.Glu92Asp	missense_variant	0.9	streptomycin	Not assoc w R