Figure 5: Multi-state design benchmark.

(a) Multi-state gRNAde shows a consistent 3–5% improvement over the single-state variant in terms of sequence recovery on the multi-state test set of 100 RNAs, with the best performance obtained using 3 states. (b) When plotting sequence recovery per-nucleotide, multi-state gRNAde improves over a single-state model for structurally flexible regions of RNAs, as characterised by nucleotides that tend to undergo changes in base pairing (left) and nucleotides with higher average RMSD across multiple states (right). Marginal histograms in blue show the distribution of values. We plot performance for one consistent random seed across all models; collated results and ablations are available in Appendix B.