A low-density SNP array for analyzing differential selection in freshwater and marine populations of threespine stickleback (Gasterosteus aculeatus)

Table 1 RAD sequencing statistics

Population	N	Raw read count (M)	Read counts (M) after FASTX filtering and BOWTIE alignment	% Raw reads aligned	% Raw reads used
Hadsten	20	2.85	1.87	65.5	63.3
Lake Hald	20	2.80	1.12	40.0	38.8
Mariager Fjord	20	2.80	1.66	59.2	57.47

Summary-statistics for different steps of restriction-site associated DNA-sequencing (RAD-seq) data processing. N denotes the number of individuals in each sample. For each population the per individual average of raw read counts (Raw read count in Million bp), the number and percentage of high quality reads that were successfully aligned to the stickleback genome (Bowtie aligned), and the percentage of the aligned reads subsequently fed into Stacks (% Raw reads used) are presented.

ISSN: 1471-2164