Run ID: SRR13837639
Sample name:
Date: 2024-04-15T14:54:02.001919
Number of reads: 293814
Percentage reads mapped: 100.0
Median coverage: 10.0
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 |
---|---|---|---|---|---|---|
mshA | 576146 | p.Val267Leu | missense_variant | 1.0 | ethionamide | |
isoniazid | ||||||
hadA | 732095 | p.Pro56Thr | missense_variant | 1.0 | isoniazid | |
rpoC | 764568 | p.Lys400Thr | missense_variant | 1.0 | rifampicin | |
mmpL5 | 777073 | p.Lys470Glu | missense_variant | 1.0 | clofazimine | |
bedaquiline | ||||||
mmpL5 | 778981 | c.-501C>A | upstream_gene_variant | 1.0 | clofazimine | |
bedaquiline | ||||||
rplC | 801436 | p.Ser210Arg | missense_variant | 1.0 | linezolid | |
rrs | 1472605 | n.760G>C | non_coding_transcript_exon_variant | 1.0 | streptomycin | |
kanamycin | ||||||
capreomycin | ||||||
amikacin | ||||||
tlyA | 1917844 | c.-96C>A | upstream_gene_variant | 1.0 | capreomycin | |
tlyA | 1918260 | p.His107Gln | missense_variant | 1.0 | capreomycin | |
bacA | 2064394 | p.Thr112Arg | missense_variant | 1.0 | streptomycin | |
kanamycin | ||||||
capreomycin | ||||||
amikacin | ||||||
Rv1979c | 2222535 | c.630C>G | synonymous_variant | 1.0 | clofazimine | |
bedaquiline | ||||||
eis | 2714211 | c.1122G>A | synonymous_variant | 1.0 | amikacin | Not assoc w R - Interim |
kanamycin | Not assoc w R - Interim | |||||
ahpC | 2726250 | p.Gly20Arg | missense_variant | 1.0 | isoniazid | |
fbiB | 3641684 | p.Ser50Arg | missense_variant | 1.0 | clofazimine | |
pretomanid | ||||||
delamanid | ||||||
embC | 4241504 | p.Val548Met | missense_variant | 1.0 | ethambutol | Uncertain significance |
embB | 4248000 | p.Asp496Val | missense_variant | 1.0 | ethambutol | |
aftB | 4268715 | p.Leu41Pro | missense_variant | 1.0 | ethambutol |