Run ID: SRR1970693
Sample name:
Date: 2024-03-24T17:07:37.124691
Number of reads: 807164
Percentage reads mapped: 99.98
Median coverage: 0.0
Strain: lineage4.9
Spoligotype:
Drug-resistance: MDR-TB
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 | rpoB | p.Asp435Gly | Assoc w R - Interim | Expert rule: Non-silent variants in RRDR of rpoB |
isoniazid | inhA | c.-770T>A | Assoc w R - Interim | Alias fabG1_c.-8T>A. Low-level resistance (multiple, genetically linked low-level resistance mutations are additive and confer high-level resistance) |
ethambutol | ||||
pyrazinamide | ||||
streptomycin | ||||
fluoroquinolones | ||||
moxifloxacin | ||||
ofloxacin | ||||
levofloxacin | ||||
ciprofloxacin | ||||
aminoglycosides | ||||
amikacin | rrs | n.1401A>G | Assoc w R | |
capreomycin | rrs | n.1401A>G | Assoc w R | |
kanamycin | rrs | n.1401A>G | Assoc w R | |
cycloserine | ||||
ethionamide | inhA | c.-770T>A | Assoc w R - Interim | Alias fabG1_c.-8T>A |
clofazimine | ||||
para-aminosalicylic_acid | ||||
delamanid | ||||
bedaquiline | ||||
linezolid |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs | Confidence | Comment |
---|---|---|---|---|---|---|---|
rpoB | 761110 | p.Asp435Gly | missense_variant | 0.9 | rifampicin | Assoc w R - Interim | Expert rule: Non-silent variants in RRDR of rpoB |
rrs | 1473246 | n.1401A>G | non_coding_transcript_exon_variant | 0.81 | amikacin | Assoc w R | |
kanamycin | Assoc w R | ||||||
capreomycin | Assoc w R | ||||||
inhA | 1673432 | c.-770T>A | upstream_gene_variant | 0.49 | ethionamide | Assoc w R - Interim | Alias fabG1_c.-8T>A |
isoniazid | Assoc w R - Interim | Alias fabG1_c.-8T>A. Low-level resistance (multiple, genetically linked low-level resistance mutations are additive and confer high-level resistance) |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs | Confidence |
---|