TB-Profiler result

Run: SRR13837682
Summary

Run ID: SRR13837682

Sample name:

Date: 2024-04-15T19:49:37.389016

Number of reads: 293857

Percentage reads mapped: 99.01

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 7949 c.648G>T synonymous_variant 1.0 levofloxacin
moxifloxacin
gyrA 8123 p.Leu274Phe missense_variant 1.0 levofloxacin Uncertain significance
moxifloxacin
rrl 1476640 n.2983C>A non_coding_transcript_exon_variant 1.0 capreomycin
linezolid
tlyA 1918034 p.Val32Ala missense_variant 1.0 capreomycin
bacA 2064615 p.Leu38Phe missense_variant 1.0 streptomycin
kanamycin
capreomycin
amikacin
katG 2155918 p.Ala65Val missense_variant 1.0 isoniazid
PPE35 2168767 p.Ser616Gly missense_variant 1.0 pyrazinamide
Rv3083 3448649 p.Arg49Pro missense_variant 1.0 ethionamide
Rv3236c 3613315 c.-199T>G upstream_gene_variant 1.0 pyrazinamide
fbiA 3640435 c.-108A>C upstream_gene_variant 1.0 clofazimine
pretomanid
delamanid
rpoA 3878982 c.-475A>T upstream_gene_variant 1.0 rifampicin