Skip to main content

Table 2 Minor allele frequency of validated SNPs

From: Development and characterisation of an expressed sequence tags (EST)-derived single nucleotide polymorphisms (SNPs) resource in rainbow trout

SNPs DH lines INRA SP INRA SY* NCCCWA 3 pop.*
Monomorphic 352 390 367 351 346
Potentially duplicated 262 272 268 266 262
True 344 296 322 341 350
MAF < 0.05 27 7 11 22 21
0.05 > = MAF < 0.10 30 33 30 36 26
0.10 > = MAF < 0.20 58 55 51 73 74
0.20 > = MAF < 0.30 63 55 71 56 66
0.0 > = MAF < 0.40 85 68 77 67 66
0.40 > = MAF < 0.50 81 78 82 87 97
Total count 958 958 957 958 958
  1. SNPs were clustered into different categories based on their observed MAF in rainbow trout DH individuals and in the three population samples analysed
  2. * one snp was not considered for MAF calculation because of genotyping failure in all samples.