TB-Profiler result

Run: SRR13837616
Summary

Run ID: SRR13837616

Sample name:

Date: 2024-04-14T17:22:32.978381

Number of reads: 293874

Percentage reads mapped: 98.02

Median coverage: 9.0

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
dnaA 442 p.Pro148Ala missense_variant 1.0 isoniazid
gyrB 6667 p.Gln476His missense_variant 1.0 levofloxacin
moxifloxacin
Rv1129c 1253885 p.Lys217Arg missense_variant 1.0 moxifloxacin
levofloxacin
rifampicin
isoniazid
sigE 1364782 p.Val124Leu missense_variant 1.0 pyrazinamide
embR 1417793 c.-446C>T upstream_gene_variant 1.0 ethambutol
rrs 1473370 n.1525T>C non_coding_transcript_exon_variant 1.0 streptomycin
kanamycin
capreomycin
amikacin
fabG1 1673813 p.Arg125Leu missense_variant 1.0 ethionamide
isoniazid
ndh 2101793 p.Trp417* stop_gained 1.0 ethionamide Uncertain significance
delamanid Uncertain significance
isoniazid Uncertain significance
ahpC 2726213 c.21C>T synonymous_variant 1.0 isoniazid
Rv2477c 2783213 p.Ala277Val missense_variant 1.0 ethambutol Uncertain significance
moxifloxacin
streptomycin Uncertain significance
levofloxacin
kanamycin
rifampicin Uncertain significance
amikacin Uncertain significance
thyA 3074595 c.-124C>A upstream_gene_variant 1.0 para-aminosalicylic_acid
embB 4246553 p.Arg14Trp missense_variant 1.0 ethambutol
embB 4248920 p.Val803Met missense_variant 1.0 ethambutol Uncertain significance
ethA 4326296 p.Leu393Gln missense_variant 1.0 ethionamide
gid 4408480 c.-278G>C upstream_gene_variant 1.0 streptomycin