Figure 9.

(Left) Free energy for all MEA(k) structural neighbors, 0 ≤ k ≤ 99, of the TPP-riboswitch, AF269819/1811-1669, described in the previous figure. Clearly, MEA(0) and MEA(61) have the least energy, - 46.0 kcal/mol, and MEA(61) has the largest MEA score, 134.555, of all secondary structures for the given RNA sequence. It is more common that the free energy of the MEA(k) structure is monotonically increasing as a function of k. (Right) MEA score for all MEA(k) structural neighbors, 0 ≤ k ≤ 99, of the TPP-riboswitch, AF269819/1811-1669, described in the previous figure. Clearly, MEA(61) has the largest MEA score, 134.555, of all secondary structures for the given RNA sequence.

Clote et al. BMC Bioinformatics 2012 13(Suppl 5):S6   doi:10.1186/1471-2105-13-S5-S6