TB-Profiler result

Run: SRR13861193
Summary

Run ID: SRR13861193

Sample name:

Date: 2024-10-04T00:30:26.194177

Number of reads: 277226

Percentage reads mapped: 6.94

Median coverage: 9.0

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
gyrB 7090 p.Asp617Glu missense_variant 1.0 levofloxacin
moxifloxacin
gyrA 8436 p.Tyr379Asn missense_variant 1.0 levofloxacin
moxifloxacin
fgd1 491701 p.His307Asn missense_variant 1.0 pretomanid
delamanid
clofazimine
ccsA 619765 c.-126G>A upstream_gene_variant 1.0 kanamycin
capreomycin
amikacin
mmpL5 775867 p.Arg872Gly missense_variant 1.0 bedaquiline
clofazimine
mmpL5 776710 p.Cys591Ser missense_variant 1.0 bedaquiline
clofazimine
rrl 1475224 n.1567T>C non_coding_transcript_exon_variant 1.0 capreomycin
linezolid
PPE35 2170487 c.126T>A synonymous_variant 1.0 pyrazinamide
Rv1979c 2221853 p.Phe438Ile missense_variant 0.9 bedaquiline
clofazimine
Rv3236c 3612013 c.1104A>T synonymous_variant 1.0 pyrazinamide
Rv3236c 3612032 p.Met362Arg missense_variant 1.0 pyrazinamide
mtrB 3627491 c.-878G>T upstream_gene_variant 1.0 rifampicin
bedaquiline
ethA 4326298 c.1176G>A synonymous_variant 1.0 ethionamide