The resequencing GWAS results are output from RepeatABEL, and can be linked to the raw genotype data in the .tped easily by 
chromosome name (first column in the .tped file) and chromosome position (4th column in the .tped file). The SNP names in the 
.tped file are completely arbitrary. The chromosome order (1-33) is the same as in the order of chromosomes shown in Figure 2 in our paper.