Restriction site-associated DNA sequencing technologies as an alternative to low-density SNP chips for genomic selection: a simulation study in layer chickens

Table 3 Summary of the fragment number obtained, the number of SNPs detected based on the fragments and the 1,027 simulated sequences and the overlap between the HD SNP chip and SNPs detected with the different RADseq methods

	EcoRI	TaqI	TaqI + PstI	AvaII	PstI
Total Fragment number	270,629	425,312	530,105	869,482	829,382
Fragment number between 200 and 500 bp	21,267	51,163	128,823	178,980	165,804
Percentage of fragment between 200 and 500 bp	7.86%	12.03%	24.30%	20.58%	19.99%
Number of SNPs detected	46,568	122,248	318,408	470,425	427,141
Overlap between SNPs detected and HD SNP chip	1,797	4,126	11,193	12,453	14,390

ISSN: 1471-2164