TB-Profiler result

Run: SRR18572456
Summary

Run ID: SRR18572456

Sample name:

Date: 2024-04-15T15:01:55.503370

Number of reads: 5593599

Percentage reads mapped: 93.17

Median coverage: 138.0

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
rpoB 762879 p.Met1025Leu missense_variant 0.1 rifampicin Uncertain significance
rpoC 763570 c.201G>C synonymous_variant 0.11 rifampicin Not assoc w R - Interim
rpoC 763621 c.252C>G synonymous_variant 0.13 rifampicin
rpoC 763633 c.264T>C synonymous_variant 0.12 rifampicin Not assoc w R - Interim
rpoC 763660 c.291T>G synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 763675 c.306C>G synonymous_variant 0.1 rifampicin Not assoc w R - Interim
rpoC 763696 c.327T>C synonymous_variant 0.11 rifampicin Not assoc w R - Interim
rpoC 764650 c.1281G>C synonymous_variant 0.11 rifampicin
rpoC 764665 c.1296C>G synonymous_variant 0.12 rifampicin
rpoC 764677 c.1308C>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 764681 p.Leu438Met missense_variant 0.15 rifampicin
rpoC 764706 p.Leu446Gln missense_variant 0.13 rifampicin Uncertain significance
rpoC 764713 c.1344G>C synonymous_variant 0.12 rifampicin Not assoc w R - Interim
rpoC 764731 c.1362G>C synonymous_variant 0.12 rifampicin
rpoC 764746 c.1377G>C synonymous_variant 0.1 rifampicin
fbiC 1305250 p.Arg774Gly missense_variant 0.15 clofazimine
pretomanid
delamanid
rrs 1471659 n.-187C>T upstream_gene_variant 1.0 streptomycin
kanamycin
capreomycin
amikacin
glpK 4139183 c.572dupG frameshift_variant 0.33 ethambutol Uncertain significance
moxifloxacin Uncertain significance
streptomycin Uncertain significance
levofloxacin Uncertain significance
rifampicin Uncertain significance
isoniazid Uncertain significance