Whole genome sequencing data for the Eilenburg, Loch Ness and Slavice accessions of the species Arabidopsis thaliana was generated as a part of the 1001 Genomes Project in order to create a complete catalog of genomic variations for these plants. We identified large deleted regions by intersecting data from short reads with tiling arrays with high true positive rate, base on validations by PCR amplification. Individual deletions were frequently observed in two or more of the accessions examined in this study.
