Figure 4.
Structures of a growing RNA molecule. Minimum free energy structures of the growing chain of the ydhL Adenine riboswitch. The list of all optimal fa(i, n) structures is shown. The 3' dots correspond to the unpaired intervals i ... n. The bottom two (square bracketed) structures show the ON and the OFF state of the riboswitch taken from [16]. As can be seen, the ON state corresponds to an intermediate mfe structure (-13.40 kcal/mol, green 5' box), while the terminator loop is part of the overall minimum free energy structure (red 3' box).