TB-Profiler result

Run: SRR13837681
Summary

Run ID: SRR13837681

Sample name:

Date: 2024-10-05T13:01:39.537303

Number of reads: 293865

Percentage reads mapped: 97.01

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
gyrA 9768 p.Gly823Cys missense_variant 1.0 levofloxacin Uncertain significance
moxifloxacin Uncertain significance
rpoC 763734 p.Pro122Leu missense_variant 1.0 rifampicin
Rv1129c 1253309 p.His409Pro missense_variant 1.0 levofloxacin
moxifloxacin
isoniazid
rifampicin
tsnR 1853566 c.-40C>T upstream_gene_variant 1.0 linezolid
tlyA 1918034 p.Val32Ala missense_variant 1.0 capreomycin
katG 2155918 p.Ala65Val missense_variant 1.0 isoniazid
PPE35 2168767 p.Ser616Gly missense_variant 1.0 pyrazinamide
PPE35 2170815 c.-203C>G upstream_gene_variant 1.0 pyrazinamide
Rv2752c 3065787 c.405G>C synonymous_variant 1.0 levofloxacin
moxifloxacin
isoniazid
rifampicin
ethambutol
Rv3083 3448649 p.Arg49Pro missense_variant 1.0 ethionamide
Rv3236c 3613067 p.Val17Gly missense_variant 1.0 pyrazinamide
Rv3236c 3613315 c.-199T>G upstream_gene_variant 1.0 pyrazinamide
fbiA 3640435 c.-108A>C upstream_gene_variant 1.0 pretomanid
delamanid
clofazimine
rpoA 3878982 c.-475A>T upstream_gene_variant 1.0 rifampicin
clpC1 4039842 c.862_863insT frameshift_variant 1.0 pyrazinamide
embA 4245031 p.Arg600Gln missense_variant 1.0 ethambutol