Run ID: SRR13837684
Sample name:
Date: 2024-10-04T05:49:40.811442
Number of reads: 296593
Percentage reads mapped: 97.91
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 |
---|---|---|---|---|---|---|
rpoB | 760652 | c.846C>A | synonymous_variant | 0.92 | rifampicin | |
mmpS5 | 778941 | c.-36A>G | upstream_gene_variant | 1.0 | bedaquiline | Uncertain significance |
clofazimine | Uncertain significance | |||||
rpsL | 781149 | c.-411C>T | upstream_gene_variant | 0.92 | streptomycin | |
rpsL | 781277 | c.-283G>T | upstream_gene_variant | 1.0 | streptomycin | |
rrl | 1473740 | n.83G>A | non_coding_transcript_exon_variant | 1.0 | capreomycin | |
linezolid | ||||||
pncA | 2289887 | c.-646A>C | upstream_gene_variant | 1.0 | pyrazinamide | |
Rv2477c | 2783316 | p.Thr243Ala | missense_variant | 1.0 | kanamycin | |
levofloxacin | ||||||
moxifloxacin | ||||||
streptomycin | ||||||
rifampicin | ||||||
ethambutol | ||||||
amikacin | ||||||
fbiD | 3338954 | c.-164A>G | upstream_gene_variant | 1.0 | pretomanid | |
delamanid | ||||||
clofazimine | ||||||
lpqB | 3624203 | c.708C>T | synonymous_variant | 1.0 | rifampicin | |
bedaquiline | ||||||
glpK | 4139747 | p.Asp3Glu | missense_variant | 1.0 | levofloxacin | |
moxifloxacin | ||||||
isoniazid | ||||||
streptomycin | ||||||
rifampicin | ||||||
ethambutol | ||||||
embA | 4243843 | c.613dupG | frameshift_variant | 1.0 | ethambutol | Uncertain significance |
embA | 4244833 | p.Val534Ala | missense_variant | 1.0 | ethambutol | |
aftB | 4267994 | p.Met281Ile | missense_variant | 1.0 | ethambutol |