TB-Profiler result

Run: SRR13837710
Summary

Run ID: SRR13837710

Sample name:

Date: 2024-10-05T07:37:57.128632

Number of reads: 294750

Percentage reads mapped: 95.29

Median coverage: 10.0

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
Rv0565c 656172 p.Lys433Asn missense_variant 1.0 ethionamide
nusG 733874 c.-379delC upstream_gene_variant 1.0 rifampicin
nusG 734570 p.Pro106His missense_variant 1.0 rifampicin
rpoC 762698 c.-672C>T upstream_gene_variant 1.0 rifampicin
fbiC 1303706 p.Leu259Arg missense_variant 1.0 pretomanid
delamanid
clofazimine
fbiC 1305384 c.2454G>T synonymous_variant 1.0 pretomanid
delamanid
clofazimine
Rv1258c 1406724 p.Gln206Leu missense_variant 1.0 streptomycin
pyrazinamide Uncertain significance
isoniazid Uncertain significance
embR 1416800 p.Ala183Gly missense_variant 1.0 ethambutol
bacA 2064191 p.Thr180Ala missense_variant 1.0 kanamycin
capreomycin
streptomycin
amikacin
PPE35 2167669 p.Phe982Leu missense_variant 1.0 pyrazinamide
Rv2681 2996984 c.246C>G synonymous_variant 1.0 capreomycin
Rv2681 2997866 p.Asp376Glu missense_variant 1.0 capreomycin
lpqB 3624242 c.669A>C synonymous_variant 1.0 rifampicin
bedaquiline
embB 4249144 c.2631G>C synonymous_variant 1.0 ethambutol