TB-Profiler result

Run: SRR13837607
Summary

Run ID: SRR13837607

Sample name:

Date: 2024-10-04T11:43:16.774456

Number of reads: 293810

Percentage reads mapped: 100.0

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
mmpL5 775981 p.Leu834Val missense_variant 1.0 bedaquiline
clofazimine
mmpL5 777942 p.Pro180Leu missense_variant 1.0 bedaquiline Uncertain significance
clofazimine Uncertain significance
rplC 800343 c.-466G>C upstream_gene_variant 1.0 linezolid
rpsA 1834091 p.Val184Met missense_variant 1.0 pyrazinamide
tlyA 1918473 c.534T>A synonymous_variant 1.0 capreomycin
Rv1979c 2221849 p.Leu439Gln missense_variant 1.0 bedaquiline
clofazimine
Rv1979c 2222710 p.Asn152Ile missense_variant 1.0 bedaquiline
clofazimine
folC 2746975 p.Asp208Glu missense_variant 1.0 para-aminosalicylic_acid
Rv2477c 2782420 c.1623T>A synonymous_variant 1.0 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin
whiB7 3568689 c.-11delT upstream_gene_variant 1.0 kanamycin
amikacin
streptomycin
embA 4245672 p.Gly814Arg missense_variant 1.0 ethambutol
embB 4247458 p.Tyr315* stop_gained 1.0 ethambutol