Figure 4.

Single-gene examples. The nonspecific TF-DNA binding free energy (normalized per bp) profiles, $\Delta f={\langle \Delta F\rangle }_{TF}/M$ (blue), computed for eight individual genes. The corresponding nucleosome occupancy profiles are shown for comparison (red). The last example (CDC11) shows the position of the minimum of $\Delta f$, and the maxima of the nucleosome occupancy of +1 and +2 nucleosomes, respectively.