Run ID: SRR8692905
Sample name:
Date: 2024-05-22T10:19:39.261192
Number of reads: 603286
Percentage reads mapped: 23.86
Median coverage: 14.0
Strain:
Spoligotype:
Drug-resistance: Sensitive
Lineage | Family | RDs | Frequency |
---|
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 |
---|---|---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 0.69 | levofloxacin | Not assoc w R |
moxifloxacin | Not assoc w R | |||||
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 | streptomycin | |
kanamycin | ||||||
capreomycin | ||||||
amikacin | ||||||
rrs | 1472489 | n.644A>T | non_coding_transcript_exon_variant | 0.5 | streptomycin | Uncertain significance |
kanamycin | Uncertain significance | |||||
capreomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrs | 1473104 | n.1259C>T | non_coding_transcript_exon_variant | 0.64 | streptomycin | Uncertain significance |
kanamycin | Uncertain significance | |||||
capreomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrs | 1473110 | n.1265T>G | non_coding_transcript_exon_variant | 0.6 | streptomycin | Uncertain significance |
kanamycin | Uncertain significance | |||||
capreomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrs | 1473111 | n.1266A>G | non_coding_transcript_exon_variant | 0.6 | streptomycin | Uncertain significance |
kanamycin | Uncertain significance | |||||
capreomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrs | 1473123 | n.1278delAinsTC | non_coding_transcript_exon_variant | 0.64 | streptomycin | |
kanamycin | Uncertain significance | |||||
capreomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrs | 1473276 | n.1431A>G | non_coding_transcript_exon_variant | 0.47 | streptomycin | Uncertain significance |
kanamycin | Uncertain significance | |||||
capreomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrs | 1473301 | n.1456T>C | non_coding_transcript_exon_variant | 0.56 | streptomycin | Uncertain significance |
kanamycin | Uncertain significance | |||||
capreomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrl | 1473806 | n.149C>T | non_coding_transcript_exon_variant | 0.54 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1473814 | n.157A>C | non_coding_transcript_exon_variant | 0.58 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1473815 | n.158T>G | non_coding_transcript_exon_variant | 0.64 | capreomycin | Uncertain significance |
linezolid | ||||||
rrl | 1473816 | n.159C>G | non_coding_transcript_exon_variant | 0.64 | capreomycin | Uncertain significance |
linezolid | ||||||
rrl | 1473828 | n.171G>C | non_coding_transcript_exon_variant | 0.64 | capreomycin | |
linezolid | ||||||
rrl | 1473829 | n.172G>C | non_coding_transcript_exon_variant | 0.64 | capreomycin | Uncertain significance |
linezolid | ||||||
rrl | 1473830 | n.173T>G | non_coding_transcript_exon_variant | 0.64 | capreomycin | |
linezolid | ||||||
rrl | 1473831 | n.174G>T | non_coding_transcript_exon_variant | 0.64 | capreomycin | Uncertain significance |
linezolid | ||||||
rrl | 1474632 | n.975G>T | non_coding_transcript_exon_variant | 0.45 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1474672 | n.1015C>T | non_coding_transcript_exon_variant | 0.47 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1474673 | n.1016T>C | non_coding_transcript_exon_variant | 0.47 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1474676 | n.1019T>A | non_coding_transcript_exon_variant | 0.47 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1474709 | n.1053delT | non_coding_transcript_exon_variant | 0.53 | capreomycin | |
linezolid | ||||||
rrl | 1474714 | n.1058delT | non_coding_transcript_exon_variant | 0.56 | capreomycin | |
linezolid | ||||||
rrl | 1474753 | n.1096A>G | non_coding_transcript_exon_variant | 0.54 | capreomycin | Uncertain significance |
linezolid | ||||||
rrl | 1474760 | n.1103A>G | non_coding_transcript_exon_variant | 0.57 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1474794 | n.1137C>T | non_coding_transcript_exon_variant | 0.57 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1474812 | n.1155G>A | non_coding_transcript_exon_variant | 0.64 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1474830 | n.1173A>G | non_coding_transcript_exon_variant | 0.69 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1475395 | n.1738T>G | non_coding_transcript_exon_variant | 0.56 | capreomycin | |
linezolid | ||||||
rrl | 1475396 | n.1739C>G | non_coding_transcript_exon_variant | 0.56 | capreomycin | |
linezolid | ||||||
rrl | 1475397 | n.1740G>T | non_coding_transcript_exon_variant | 0.56 | capreomycin | |
linezolid | ||||||
rrl | 1475402 | n.1745C>T | non_coding_transcript_exon_variant | 0.59 | capreomycin | |
linezolid | ||||||
rrl | 1475419 | n.1762C>T | non_coding_transcript_exon_variant | 0.5 | capreomycin | Uncertain significance |
linezolid | ||||||
rrl | 1475429 | n.1772G>A | non_coding_transcript_exon_variant | 0.55 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1475452 | n.1795C>A | non_coding_transcript_exon_variant | 0.62 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1475460 | n.1803A>G | non_coding_transcript_exon_variant | 0.65 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1475479 | n.1822C>T | non_coding_transcript_exon_variant | 0.58 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1475480 | n.1823A>T | non_coding_transcript_exon_variant | 0.58 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1475505 | n.1848G>A | non_coding_transcript_exon_variant | 0.55 | capreomycin | Uncertain significance |
linezolid | ||||||
rrl | 1475526 | n.1869C>A | non_coding_transcript_exon_variant | 0.52 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1475531 | n.1874C>T | non_coding_transcript_exon_variant | 0.52 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1475544 | n.1887A>T | non_coding_transcript_exon_variant | 0.44 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1475988 | n.2331A>G | non_coding_transcript_exon_variant | 0.54 | capreomycin | Not assoc w R |
linezolid | Uncertain significance | |||||
rrl | 1475991 | n.2334T>C | non_coding_transcript_exon_variant | 0.5 | capreomycin | Uncertain significance |
linezolid | ||||||
rrl | 1475995 | n.2338G>A | non_coding_transcript_exon_variant | 0.5 | capreomycin | Uncertain significance |
linezolid | ||||||
rrl | 1476030 | n.2373A>G | non_coding_transcript_exon_variant | 0.46 | capreomycin | Uncertain significance |
linezolid | ||||||
rrl | 1476032 | n.2375C>A | non_coding_transcript_exon_variant | 0.46 | capreomycin | |
linezolid | ||||||
rrl | 1476034 | n.2377C>G | non_coding_transcript_exon_variant | 0.46 | capreomycin | Uncertain significance |
linezolid | ||||||
rrl | 1476035 | n.2378G>C | non_coding_transcript_exon_variant | 0.46 | capreomycin | Uncertain significance |
linezolid | ||||||
rrl | 1476044 | n.2387T>G | non_coding_transcript_exon_variant | 0.55 | capreomycin | Uncertain significance |
linezolid | ||||||
rrl | 1476045 | n.2388G>T | non_coding_transcript_exon_variant | 0.55 | capreomycin | Uncertain significance |
linezolid | ||||||
rrl | 1476047 | n.2390G>T | non_coding_transcript_exon_variant | 0.55 | capreomycin | |
linezolid | ||||||
rrl | 1476049 | n.2392C>T | non_coding_transcript_exon_variant | 0.55 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1476056 | n.2399G>A | non_coding_transcript_exon_variant | 0.55 | capreomycin | Not assoc w R |
linezolid | Uncertain significance | |||||
rrl | 1476214 | n.2557G>T | non_coding_transcript_exon_variant | 0.5 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1476215 | n.2558C>T | non_coding_transcript_exon_variant | 0.5 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1476224 | n.2567A>G | non_coding_transcript_exon_variant | 0.53 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1476251 | n.2594T>G | non_coding_transcript_exon_variant | 0.73 | capreomycin | Uncertain significance |
linezolid | ||||||
rrl | 1476256 | n.2599A>T | non_coding_transcript_exon_variant | 0.73 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1476260 | n.2603A>G | non_coding_transcript_exon_variant | 0.67 | capreomycin | Not assoc w R |
linezolid | Uncertain significance | |||||
rrl | 1476529 | n.2872A>G | non_coding_transcript_exon_variant | 0.71 | capreomycin | Uncertain significance |
linezolid | ||||||
rrl | 1476583 | n.2926G>C | non_coding_transcript_exon_variant | 0.69 | capreomycin | |
linezolid | ||||||
rrl | 1476597 | n.2940G>A | non_coding_transcript_exon_variant | 0.55 | capreomycin | Uncertain significance |
linezolid | ||||||
tlyA | 1917972 | c.33A>G | synonymous_variant | 0.38 | capreomycin | Not assoc w R |
clpC1 | 4038878 | c.1827A>G | synonymous_variant | 0.3 | pyrazinamide | Not assoc w R - Interim |
clpC1 | 4038881 | c.1824C>G | synonymous_variant | 0.3 | pyrazinamide | |
clpC1 | 4038890 | c.1815G>A | synonymous_variant | 0.33 | pyrazinamide | |
clpC1 | 4039733 | c.972G>C | synonymous_variant | 0.38 | pyrazinamide | |
clpC1 | 4039751 | c.954A>G | synonymous_variant | 0.38 | pyrazinamide | |
clpC1 | 4039757 | c.948A>G | synonymous_variant | 0.4 | pyrazinamide | |
clpC1 | 4039760 | c.945T>C | synonymous_variant | 0.38 | pyrazinamide | |
clpC1 | 4039766 | c.939T>C | synonymous_variant | 0.38 | pyrazinamide | |
clpC1 | 4039769 | c.936C>G | synonymous_variant | 0.38 | pyrazinamide | |
clpC1 | 4039775 | c.930G>C | synonymous_variant | 0.35 | pyrazinamide | |
clpC1 | 4039778 | c.927A>G | synonymous_variant | 0.35 | pyrazinamide | |
clpC1 | 4039817 | c.888A>T | synonymous_variant | 0.46 | pyrazinamide | |
clpC1 | 4039820 | c.885T>C | synonymous_variant | 0.46 | pyrazinamide | Not assoc w R - Interim |
clpC1 | 4039823 | c.882T>A | synonymous_variant | 0.46 | pyrazinamide | |
clpC1 | 4039831 | c.874T>C | synonymous_variant | 0.46 | pyrazinamide | |
clpC1 | 4039832 | c.873C>G | synonymous_variant | 0.46 | pyrazinamide | |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 0.32 | capreomycin | Not assoc w R |
amikacin | Not assoc w R | |||||
kanamycin | Not assoc w R |