Run ID: SRR13837695
Sample name:
Date: 2024-10-04T02:22:50.108056
Number of reads: 294847
Percentage reads mapped: 97.34
Median coverage: 10.0
Strain: lineage4.9
Spoligotype:
Drug-resistance: HR-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 | ||||
isoniazid | katG | c.1313_1314insT | Assoc w R | High-level resistance |
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 |
---|---|---|---|---|---|---|---|
katG | 2154798 | c.1313_1314insT | frameshift_variant | 1.0 | isoniazid | Assoc w R | High-level resistance |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs | Confidence |
---|---|---|---|---|---|---|
gyrB | 5906 | p.Val223Leu | missense_variant | 1.0 | levofloxacin | |
moxifloxacin | ||||||
fgd1 | 490676 | c.-107G>C | upstream_gene_variant | 1.0 | pretomanid | |
delamanid | ||||||
clofazimine | ||||||
rpoB | 760454 | c.650delG | frameshift_variant | 0.94 | rifampicin | |
rpsL | 781409 | c.-151T>A | upstream_gene_variant | 1.0 | streptomycin | |
Rv1129c | 1254452 | p.Glu28Ala | missense_variant | 1.0 | levofloxacin | |
moxifloxacin | ||||||
isoniazid | ||||||
rifampicin | ||||||
fbiC | 1302873 | c.-58A>T | upstream_gene_variant | 1.0 | pretomanid | |
delamanid | ||||||
clofazimine | ||||||
rrs | 1471874 | n.29A>C | non_coding_transcript_exon_variant | 1.0 | kanamycin | |
capreomycin | ||||||
streptomycin | ||||||
amikacin | ||||||
bacA | 2064843 | c.-115C>T | upstream_gene_variant | 1.0 | kanamycin | |
capreomycin | ||||||
streptomycin | ||||||
amikacin | ||||||
katG | 2154882 | c.1230G>A | synonymous_variant | 1.0 | isoniazid | |
katG | 2155857 | c.255C>A | synonymous_variant | 1.0 | isoniazid | |
eis | 2714922 | c.411G>A | synonymous_variant | 1.0 | kanamycin | |
amikacin | ||||||
thyA | 3074067 | c.405C>G | synonymous_variant | 1.0 | para-aminosalicylic_acid | |
lpqB | 3624738 | p.Ala58Val | missense_variant | 0.94 | rifampicin | |
bedaquiline | ||||||
mtrB | 3625436 | p.Ile393Asn | missense_variant | 1.0 | rifampicin | |
bedaquiline | ||||||
embA | 4245071 | c.1839G>A | synonymous_variant | 1.0 | ethambutol |