Genome-wide distribution and size of deletions within genes. Deletions were called by intersecting a tiling array signal ratio <-1.0 (log2) of individual 25-bp tiles with no coverage of the entire tiles by UHTS short reads, for at least 100 bp. Tiles within a gene that fulfilled these criteria were added up, taking into account the gaps between tiles (typically 10 bp; maximum 39 bp), to calculate the approximate proportion of a gene affected by a deletion(s) (y axis). Each dot represents a gene: red dots represent transposable element genes (which cluster around the centromeres); black dots represent protein coding genes. The genes are plotted along the five Arabidopsis chromosomes (chr.), drawn to scale (x axis).