TB-Profiler result

Run: SRR13837701
Summary

Run ID: SRR13837701

Sample name:

Date: 2024-04-16T03:24:42.505613

Number of reads: 293823

Percentage reads mapped: 99.0

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
gyrB 6027 p.His263Arg missense_variant 1.0 levofloxacin
moxifloxacin
Rv0565c 656192 p.Asp427His missense_variant 1.0 ethionamide
rpoC 764262 p.Val298Ala missense_variant 1.0 rifampicin
mmpL5 777280 p.Ala401Ser missense_variant 1.0 clofazimine
bedaquiline
embR 1416662 p.Arg229Pro missense_variant 1.0 ethambutol
katG 2155675 p.Arg146Leu missense_variant 1.0 isoniazid Uncertain significance
Rv1979c 2222433 c.732A>G synonymous_variant 1.0 clofazimine
bedaquiline
Rv2680 2996147 p.Glu15Gln missense_variant 1.0 capreomycin
Rv2681 2996821 p.Gly28Val missense_variant 1.0 capreomycin
ald 3086631 c.-189A>G upstream_gene_variant 1.0 cycloserine
Rv3236c 3613619 c.-503T>G upstream_gene_variant 1.0 pyrazinamide
glpK 4139736 p.Gly7Val missense_variant 1.0 ethambutol
moxifloxacin
streptomycin
levofloxacin
rifampicin
isoniazid
embC 4240042 p.Asn60Lys missense_variant 1.0 ethambutol
embB 4245806 c.-708G>A upstream_gene_variant 1.0 ethambutol
embB 4247075 c.563dupT frameshift_variant 1.0 ethambutol