Figure 4.

Quality of universal sticky bridge design of AptaBlocks and Nupack Design for various number of cargoes and sequence similarity between cargoes. (A) Probabilities of preserving the original structures of the aptamers and cargoes (based on the secondary structure model without pseudoknots) for different number of cargoes and different sequence similarity between cargoes. (B) Probabilities of binding between the designed universal sticky bridges for different number of cargoes and different sequence similarity between cargoes. Note that Nupack Design was not originally designed for this purpose and while it can be used to perform this task as described in the text, it does not ensure high binding affinity nor structural preservation.