TB-Profiler result

Run: SRR6797301
Summary

Run ID: SRR6797301

Sample name:

Date: 2024-04-14T03:49:48.839730

Number of reads: 547661

Percentage reads mapped: 99.04

Median coverage: 11.0

Strain: lineage4.3.4;lineage4.8

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
lineage4.8 Euro-American (mainly T) RD219 0.28
lineage4.3.4 Euro-American (LAM) RD174 0.32
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
rpsL 781395 c.-165T>C upstream_gene_variant 1.0 streptomycin Not assoc w R
tlyA 1917972 c.33A>G synonymous_variant 1.0 capreomycin Not assoc w R
thyA 3073868 p.Thr202Ala missense_variant 0.8 para-aminosalicylic_acid
ald 3086788 c.-32T>C upstream_gene_variant 0.52 cycloserine
Rv3236c 3612009 p.Ala370Thr missense_variant 0.7 pyrazinamide Not assoc w R
clpC1 4038287 c.2418C>T synonymous_variant 0.7 pyrazinamide Not assoc w R
clpC1 4039729 p.Asp326Asn missense_variant 0.35 pyrazinamide Not assoc w R
embC 4239763 c.-100C>T upstream_gene_variant 0.72 ethambutol Not assoc w R
embC 4242643 c.2781C>T synonymous_variant 1.0 ethambutol Not assoc w R
gid 4408156 p.Leu16Arg missense_variant 0.61 streptomycin Not assoc w R