Fig. 5

RNA multitarget design. A Three target RNA secondary structures of length 100 as 2D plots (by VARNA [38]) and dot-bracket strings; taken from a multitarget design benchmark set [39]. B Histograms of the features G C content (left), and the Turner energies (kcal/mol) of the three targets (right) in 5000 sequences sampled from the multitarget design model \(\mathcal {N} _{\text {design}}\) at weight -5 for every feature. One can observe that (1) equal weights lead to different mean energies for the targets; (2) strong control of the G C weight is required to avoid extreme G C content for stable designs. To automate the calibration of weights (and target specific feature value combinations), we suggest multidimensional Boltzmann sampling in Section “Multidimensional Boltzmann sampling”