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. 2016 Jun 22;7:11995. doi: 10.1038/ncomms11995

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(a–c) Histograms depicting the relative SNP abundance within 15-bp bins in relation to the total number of SNPs identified within the flanking region of 300 bp upstream and downstream of 84 representative import events (24-short and 60-long import events) and 40 random stretches. The latter stretches were obtained by randomly assigning simulated 1-kb imports in ∼10-kb steps of the J99-R3^Cm donor genome and analysed regarding polymorphisms between donor and recipient sequence within the flanking region. Short authentic imports are <300 bp, while long authentic imports are >300 bp. The position 0 labels the first and the last position of the analysed events, thus, eliminating the size of the import or random stretch. (d) Heatmap visualizing the distances between SNPs for the same set of 84 representative import events and 40 random stretches in a window of 300 bp upstream and downstream of import/stretch borders. Import/stretch borders are indicated by a single vertical black line. For each import or random stretch, the distances between individual SNPs were calculated and a heatmap colour code was applied that marked short distances (0–19 bp) in rose and long distances (26–300 bp) with a light to dark green colour. Intermediate distances (20–25 bp) are marked in a rose-green mixture colour. Each box depicts the distance between two SNPs upstream or downstream of one individual import/stretch. The width of the boxes does not correlate with distances between SNPs. The boxes representing the distances between the first five SNPs proximal to import/stretch borders the widest, followed by five intermediate-sized boxes depicting the next five distance values, and a variable number of narrow boxes. Different numbers of coloured boxes are a consequence of different SNP abundances up- and downstream of individual imports/stretches. Non-coloured boxes mark regions that lie in the outer rim of the 300-bp window upstream or downstream of imports/stretches and are therefore not included into the heatmap colouring.