MOESM6 of Construction of a large collection of small genome variations in French dairy and beef breeds using whole-genome sequences

Additional file 6. Frequency of the alternative allele of SNPs in our validation panel. (Sheet 1) Frequency of the alternative allele was calculated using the genotyping data obtained by genotyping all variants of our validation panel with the custom Illumina Bovine low-density BeadChip. Monomorphic variants (homozygous for the reference allele) in each breed are indicated by “0“. Missing genotyping data are indicated by “ng”. The numbers of observed types of genotype are in column 3 and coded as follows: (1) monomorphic variants; (2) and (3) correspond to the 276 polymorphic variants with (2) corresponding to the 51 variants for which no homozygous individual for the alternative allele was observed and (3) corresponding to variants for which we observed the three genotypes. (Sheet 2) Results of the exact binomial distribution test with event probability being set to zero (which corresponds to the number of observed homozygous individuals for the alternative allele), and n was equal to the number of animals in each breed (indicated between parenthesis). For the Simmental breed, we had only two genotyped animals and therefore we did not do the binomial distribution test.