Figure 3.

Scatter plots showing the strand dependence of 8-mer localization, and the comparison of localization between different organisms (Drosophila and human). The clustering factors for all 8-mers, calculated for 20 bp bins, are plotted on the positive (CF⁺) versus the negative (CF^-) strand for (a) Drosophila, (b) human (UCSC), and (c) human (DBTSS) promoters. The 256 palindromic sequences have equivalent CF⁺/CF^- values but are plotted with a CF^- value of -1. Comparison of CF values of 8-mers for (d) human (UCSC) versus Drosophila, (e) human (DBTSS) versus Drosophila, and (f) human (UCSC) versus human (DBTSS). Common elements should lie along the diagonal.