TB-Profiler result

Run: SRR13837672
Summary

Run ID: SRR13837672

Sample name:

Date: 2024-04-15T07:52:39.830632

Number of reads: 293826

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
rpoB 762083 c.2277T>A synonymous_variant 1.0 rifampicin
rpoC 766578 p.Asp1070Val missense_variant 1.0 rifampicin
mmpL5 776436 p.Ala682Gly missense_variant 1.0 clofazimine
bedaquiline
fbiC 1304155 p.Arg409Gly missense_variant 1.0 clofazimine
pretomanid
delamanid
atpE 1460879 c.-166C>A upstream_gene_variant 1.0 bedaquiline
pncA 2290201 c.-960G>A upstream_gene_variant 1.0 pyrazinamide
kasA 2518058 c.-57G>A upstream_gene_variant 1.0 isoniazid
eis 2714947 p.Phe129Ser missense_variant 1.0 amikacin
kanamycin
pepQ 2860319 p.Ser34Thr missense_variant 1.0 clofazimine
bedaquiline
Rv2752c 3064817 p.Asp459Tyr missense_variant 1.0 ethambutol
moxifloxacin
levofloxacin
rifampicin
isoniazid
mtrA 3627016 p.Leu112Val missense_variant 1.0 bedaquiline
rifampicin
alr 3841536 c.-117_-116insT upstream_gene_variant 1.0 cycloserine