TB-Profiler result

Run: SRR13861247
Summary

Run ID: SRR13861247

Sample name:

Date: 2024-04-15T14:54:14.012874

Number of reads: 291700

Percentage reads mapped: 14.6

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
gyrA 9502 p.Arg734His missense_variant 1.0 levofloxacin
moxifloxacin
Rv0010c 13527 p.Ser11* stop_gained 1.0 isoniazid Uncertain significance
rpoB 761239 p.Cys478Tyr missense_variant 1.0 rifampicin
mmpL5 776185 p.Lys766Glu missense_variant 1.0 clofazimine
bedaquiline
mmpL5 779400 c.-920C>A upstream_gene_variant 1.0 clofazimine
bedaquiline
katG 2155856 p.Thr86Ser missense_variant 1.0 isoniazid
Rv2752c 3066351 c.-160G>T upstream_gene_variant 1.0 ethambutol
moxifloxacin
levofloxacin
rifampicin
isoniazid
lpqB 3623219 c.1692A>G synonymous_variant 1.0 bedaquiline
rifampicin
mtrA 3627790 c.-441A>G upstream_gene_variant 1.0 bedaquiline
rifampicin
rpoA 3877601 p.Gln303* stop_gained 1.0 rifampicin
embC 4241864 p.Leu668Met missense_variant 1.0 ethambutol
gid 4408151 p.Leu18Val missense_variant 1.0 streptomycin