Figure 5.

(A) Example states and elementary steps in Multistrand (36), a SSK simulator. States illustrated are each adjacent to state i, as they differ from i by only one base pair. Transition rates are chosen to obey detailed balance. Dots and arrows at the top indicate other possible elementary steps from state i (not shown). (B) Multistrand predictions of experimentally measured (30) strand displacement rates as a function of toehold length. Experimental data points and error bars are from Zhang and Winfree (30); the fitted line is their phenomenological model. Standard errors for Multistrand simulations are under 1% (not shown).