Run ID: ERR11465684
Sample name:
Date: 2025-03-04T23:54:38.709586
Number of reads: 3384026
Percentage reads mapped: 99.74
Median coverage: 70.0
Strain: lineage4.9
Spoligotype:
Drug-resistance: Sensitive
Lineage | Family | RDs | Frequency |
---|---|---|---|
lineage4 | Euro-American | None | 1.0 |
lineage4.9 | Euro-American (H37Rv-like) | None | 1.0 |
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 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs | Confidence | Comment |
---|
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 | |||||
mshA | 575761 | c.414C>T | synonymous_variant | 1.0 | ethionamide | Not assoc w R - Interim |
isoniazid | Not assoc w R - Interim | |||||
Rv0565c | 657192 | p.Met93Ile | missense_variant | 1.0 | ethionamide | Uncertain significance |
rpoB | 759814 | p.Asp3Gly | missense_variant | 1.0 | rifampicin | Uncertain significance |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 0.98 | bedaquiline | Not assoc w R - Interim |
clofazimine | Not assoc w R | |||||
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 | streptomycin | Not assoc w R |
rpsL | 781502 | c.-58G>T | upstream_gene_variant | 1.0 | streptomycin | Uncertain significance |
fbiC | 1303893 | c.963G>A | synonymous_variant | 1.0 | clofazimine | Uncertain significance |
delamanid | Uncertain significance | |||||
pretomanid | Uncertain significance | |||||
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 | amikacin | Uncertain significance |
capreomycin | Uncertain significance | |||||
kanamycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
rrs | 1471892 | n.47G>A | non_coding_transcript_exon_variant | 1.0 | amikacin | Uncertain significance |
capreomycin | Uncertain significance | |||||
kanamycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 | capreomycin | Not assoc w R |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 | bedaquiline | Not assoc w R - Interim |
clofazimine | Not assoc w R | |||||
embC | 4241480 | p.Leu540Met | missense_variant | 1.0 | ethambutol | Uncertain significance |
embB | 4246700 | p.Gln63Lys | missense_variant | 1.0 | ethambutol | Uncertain significance |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 | amikacin | Not assoc w R |
capreomycin | Not assoc w R | |||||
kanamycin | Not assoc w R |