Run ID: SRR13837668
Sample name:
Date: 2024-04-16T03:24:42.578415
Number of reads: 293867
Percentage reads mapped: 95.02
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 |
---|---|---|---|---|---|---|
gyrB | 5785 | c.546C>T | synonymous_variant | 1.0 | levofloxacin | |
moxifloxacin | ||||||
gyrB | 6314 | c.1076dupC | frameshift_variant | 1.0 | levofloxacin | Uncertain significance |
moxifloxacin | ||||||
ccsA | 620129 | p.Gly80Ala | missense_variant | 1.0 | capreomycin | |
amikacin | ||||||
kanamycin | ||||||
rpoB | 761845 | p.Gln680Arg | missense_variant | 1.0 | rifampicin | |
rpsL | 781185 | c.-375T>G | upstream_gene_variant | 1.0 | streptomycin | |
rplC | 800937 | c.129A>G | synonymous_variant | 1.0 | linezolid | |
embR | 1416298 | c.1050G>C | synonymous_variant | 1.0 | ethambutol | |
embR | 1417588 | c.-241C>T | upstream_gene_variant | 1.0 | ethambutol | |
bacA | 2064860 | c.-132A>G | upstream_gene_variant | 1.0 | streptomycin | |
kanamycin | ||||||
capreomycin | ||||||
amikacin | ||||||
Rv1979c | 2223395 | c.-231G>T | upstream_gene_variant | 1.0 | clofazimine | |
bedaquiline | ||||||
rpoA | 3877496 | p.Glu338* | stop_gained | 1.0 | rifampicin | |
embC | 4238901 | c.-962T>A | upstream_gene_variant | 1.0 | ethambutol | |
embC | 4240480 | c.618G>A | synonymous_variant | 1.0 | ethambutol | |
embB | 4249447 | c.2934G>A | synonymous_variant | 1.0 | ethambutol | Not assoc w R - Interim |
whiB6 | 4338681 | c.-160A>T | upstream_gene_variant | 1.0 | capreomycin | |
amikacin | ||||||
kanamycin |