Figure 6.

Distribution of base-stacking interactions in 22-mer, 25-mer, and 30-mer PMO molecules

(A) The ensemble average number of base stacks, shown for the 22-mer (red bars), 25-mer (green bars), and 30-mer PMOs (black bars), are broken down into different types of interacting bases: purine interacting with purine, pyrimidine stacked with purine, and pyrimidine stacked with a pyrimidine. (B) The ensemble average number of base stacks shown broken down into different nearest-neighbor pairs of interacting bases, including guanine (G), cytosine (C), thymine (T), and adenine (A) (bottom $x$ axis), sorted in a descending order of their interaction enthalpies $\Delta H$ of single-stranded base stacks coming from the nearest-neighbor model⁵⁶ (top $x$ axis).