TB-Profiler result

Run: ERR4821978
Summary

Run ID: ERR4821978

Sample name:

Date: 2024-10-05T12:43:07.934838

Number of reads: 188520

Percentage reads mapped: 97.7

Median coverage: 6.0

Strain: lineage4.1.2.1

Spoligotype:

Drug-resistance: Sensitive

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Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family RDs Frequency
lineage4.1 Euro-American None 0.49
lineage4.1.2 Euro-American None 0.43
lineage4.1.2.1 Euro-American (Haarlem) RD182 0.49
lineage4 Euro-American 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 7585 p.Ser95Thr missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 9569 c.2268C>T synonymous_variant 1.0 levofloxacin Not assoc w R - Interim
moxifloxacin
rpsL 781395 c.-165T>C upstream_gene_variant 1.0 streptomycin Not assoc w R
ald 3086788 c.-32T>C upstream_gene_variant 1.0 cycloserine