TB-Profiler result

Run: ERR028606
Summary

Run ID: ERR028606

Sample name:

Date: 2024-10-05T04:20:53.916122

Number of reads: 781944

Percentage reads mapped: 99.41

Median coverage: 14.0

Strain: lineage2.2.1;lineage4.1.2.1;lineage4.2.2.1

Spoligotype:

Drug-resistance: Sensitive

Download CSV Download TXT Download JSON
Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family RDs Frequency
lineage4.2.2.1 Euro-American None 0.22
lineage4.2.2 Euro-American (Ural) None 0.15
lineage2 East-Asian RD105 0.08
lineage4.1 Euro-American None 0.18
lineage4.1.2 Euro-American None 0.05
lineage4.2 Euro-American None 0.06
lineage4.1.2.1 Euro-American (Haarlem) RD182 0.11
lineage2.2.1 East-Asian (Beijing) RD105;RD207;RD181 0.07
lineage2.2 East-Asian (Beijing) RD105;RD207 0.09
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 7362 p.Glu21Gln missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
Rv0565c 657081 c.390G>A synonymous_variant 0.35 ethionamide Not assoc w R - Interim
rrs 1471659 n.-187C>T upstream_gene_variant 1.0 kanamycin
capreomycin
streptomycin
amikacin
tlyA 1917972 c.33A>G synonymous_variant 1.0 capreomycin Not assoc w R
ald 3086788 c.-32T>C upstream_gene_variant 1.0 cycloserine
whiB6 4338732 c.-211C>T upstream_gene_variant 1.0 kanamycin
capreomycin
amikacin