Figure 1
Distribution of SVAs is associated with genic regions. A - The SVA density of each human chromosome was plotted against the gene density of that chromosome showing a positive relationship between the two variables (correlation coefficient = 0.74). The correlation coefficient was calculated using bootstrap confidence interval (95%). B – The number of observed retrotransposons in defined regions of the human genome compared to the expected (based on the size of the region) and expressed as a percentage. (SVAs X2 = 339.5, df = 2, P < 0.001, SINEs X2 = 170647, df = 2, P < 0.001, LINEs X2 = 44320, df = 2, P < 0.001, LTRs X2 = 77018, df = 2, P < 0.001). C – The distribution of SVAs within genes, intergenic regions and gene deserts broken down by subtype and compared to their distribution across the whole human genome. (Genes X2 = 0.71, df = 6, P = 0.99), (Intergenic X2 = 0.47, df = 6, P = 0.99), (Gene deserts X2 = 13.91, df = 6, P < 0.05). D – The number of SVAs located within set distances upstream of a transcriptional start site (1 kb, 10 kb 20 kb and 100 kb) (X2 = 506.8, df = 3, P < 0.001).