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

Table 2 Minor allele frequency of validated SNPs

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

SNPs were clustered into different categories based on their observed MAF in rainbow trout DH individuals and in the three population samples analysed
* one snp was not considered for MAF calculation because of genotyping failure in all samples.

ISSN: 1471-2164