Figure 3.

Local and extended divergence. From the knowledge of the point-wise distances $D_n^{(X)}(B\wedge C_i|B)$ (right box) an integrated comparison of the landscapes is performed by computing either and average distance or a cumulative distance ${\overline{D}}_{[n,n+\Delta n]}^{(X)}(B\wedge C_i|B)$ (left box) as a weighted sum of the distances ${\left[D_j^{(X)}\right]}_{n\le j\le j+\Delta n}$. This procedure allows the extended sequence features (such as an exon for instance, black bar above nucleotide sequence) to be treated in a coherent manner. Individual nucleotide features (such as SNP data for instance), are compared directly (right box).