Run ID: SRR5818412
Sample name:
Date: 2024-04-15T17:39:36.200846
Number of reads: 517395
Percentage reads mapped: 96.91
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.Ser450Leu | Assoc w R | |
isoniazid | katG | p.Ser315Thr | Assoc w R | High-level resistance |
ethambutol | embB | p.Met306Ile | Assoc w R | |
pyrazinamide | pncA | p.Val128Gly | Assoc w R | |
streptomycin | ||||
fluoroquinolones | ||||
moxifloxacin | ||||
ofloxacin | ||||
levofloxacin | ||||
ciprofloxacin | ||||
aminoglycosides | ||||
amikacin | ||||
capreomycin | tlyA | p.Asn236Lys | Assoc w R | |
kanamycin | ||||
cycloserine | ||||
ethionamide | ||||
clofazimine | ||||
para-aminosalicylic_acid | ||||
delamanid | ||||
bedaquiline | ||||
linezolid |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs | Confidence | Comment |
---|---|---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Leu | missense_variant | 0.99 | rifampicin | Assoc w R | |
tlyA | 1918647 | p.Asn236Lys | missense_variant | 0.99 | capreomycin | Assoc w R | |
katG | 2155168 | p.Ser315Thr | missense_variant | 0.89 | isoniazid | Assoc w R | High-level resistance |
pncA | 2288859 | p.Val128Gly | missense_variant | 0.97 | pyrazinamide | Assoc w R | |
embB | 4247431 | p.Met306Ile | missense_variant | 0.99 | ethambutol | Assoc w R |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs | Confidence |
---|---|---|---|---|---|---|
gyrA | 7585 | p.Ser95Thr | missense_variant | 0.98 | levofloxacin | Not assoc w R |
moxifloxacin | Not assoc w R | |||||
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 | capreomycin | Not assoc w R |
ethA | 4326764 | p.Ala237Val | missense_variant | 0.26 | ethionamide | |
gid | 4407748 | p.Leu152Ser | missense_variant | 0.97 | streptomycin | Uncertain significance |