TB-Profiler result

Run: SRR29096420
Summary

Run ID: SRR29096420

Sample name:

Date: 2024-10-03T23:21:10.427423

Number of reads: 33864

Percentage reads mapped: 43.17

Median coverage: 0.0

Strain: lineage4.9

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 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
fgd1 491523 c.741G>C synonymous_variant 1.0 pretomanid
delamanid
clofazimine
fgd1 491526 c.744T>C synonymous_variant 1.0 pretomanid
delamanid
clofazimine
fgd1 491542 c.760T>C synonymous_variant 0.91 pretomanid
delamanid
clofazimine
fgd1 491547 c.765A>G synonymous_variant 0.92 pretomanid
delamanid
clofazimine
fgd1 491563 c.781_783delAGCinsTCG synonymous_variant 0.92 pretomanid
delamanid
clofazimine
fgd1 491595 c.813C>T synonymous_variant 0.95 pretomanid
delamanid
clofazimine
fgd1 491610 c.828A>G synonymous_variant 0.89 pretomanid
delamanid
clofazimine
fgd1 491616 c.834A>G synonymous_variant 0.88 pretomanid
delamanid
clofazimine
fgd1 491620 p.Ile280Val missense_variant 0.87 pretomanid
delamanid
clofazimine
fgd1 491649 c.867C>T synonymous_variant 0.83 pretomanid
delamanid
clofazimine
fgd1 491655 c.873C>T synonymous_variant 0.82 pretomanid
delamanid
clofazimine
fgd1 491658 c.876A>G synonymous_variant 0.82 pretomanid
delamanid
clofazimine
fgd1 491661 c.879C>G synonymous_variant 0.82 pretomanid
delamanid
clofazimine
fgd1 491667 c.885A>G synonymous_variant 0.8 pretomanid
delamanid
clofazimine
fgd1 491676 c.894T>C synonymous_variant 0.8 pretomanid
delamanid
clofazimine
fgd1 491679 c.897A>G synonymous_variant 0.8 pretomanid
delamanid
clofazimine
rpoB 760082 c.276C>T synonymous_variant 0.9 rifampicin Not assoc w R - Interim
rpoB 760088 c.282C>G synonymous_variant 0.9 rifampicin
rpoB 760091 c.285G>C synonymous_variant 0.9 rifampicin Not assoc w R - Interim
rpoB 760101 c.295T>C synonymous_variant 0.9 rifampicin Not assoc w R - Interim
rpoB 760104 c.298_300delTCGinsAGC synonymous_variant 0.9 rifampicin
rpoB 760112 c.306T>C synonymous_variant 0.91 rifampicin
rpoB 760118 c.312T>G synonymous_variant 0.91 rifampicin Not assoc w R - Interim
rpoB 760121 c.315T>C synonymous_variant 0.92 rifampicin Not assoc w R - Interim
rpoB 760130 p.Asp108Glu missense_variant 0.93 rifampicin Uncertain significance
rpoB 760136 c.330G>A synonymous_variant 0.93 rifampicin
rpoB 760139 c.333A>T synonymous_variant 0.94 rifampicin
rpoB 760142 c.336C>G synonymous_variant 0.94 rifampicin
rpoB 760178 c.372G>A synonymous_variant 1.0 rifampicin Not assoc w R - Interim
rpoB 760181 c.375T>C synonymous_variant 1.0 rifampicin Not assoc w R - Interim
rpoB 760184 c.378A>G synonymous_variant 1.0 rifampicin Not assoc w R - Interim
rpoB 760196 c.390C>G synonymous_variant 1.0 rifampicin Not assoc w R - Interim
rpoB 760235 c.429T>C synonymous_variant 1.0 rifampicin Not assoc w R - Interim
rpoB 760244 c.438G>C synonymous_variant 1.0 rifampicin Not assoc w R - Interim
rpoB 760283 c.477G>C synonymous_variant 1.0 rifampicin Not assoc w R - Interim
clpC1 4038623 c.2082A>G synonymous_variant 1.0 pyrazinamide
clpC1 4038640 p.Asp689Asn missense_variant 1.0 pyrazinamide
clpC1 4038647 c.2058T>G synonymous_variant 1.0 pyrazinamide
clpC1 4038658 p.Lys683Gln missense_variant 1.0 pyrazinamide
clpC1 4038660 c.2044_2045delTCinsAG synonymous_variant 1.0 pyrazinamide
clpC1 4038662 c.2043T>C synonymous_variant 1.0 pyrazinamide
clpC1 4038671 c.2034T>G synonymous_variant 1.0 pyrazinamide Not assoc w R - Interim
clpC1 4038683 c.2022T>C synonymous_variant 1.0 pyrazinamide Not assoc w R - Interim