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. 2013 Sep 7;41(22):10641–10658. doi: 10.1093/nar/gkt801

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© The Author(s) 2013. Published by Oxford University Press.

This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/3.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com

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Figure 15. — (A) Free-energy landscape of a system with a two base-pair toehold, with the system prevented from forming other base pairs between invader and substrate and also prevented from having either base pair separation exceed 3.7 nm. HB1 and HB2 are the base-pair separations defined in Figure 14B. The free energy landscape is measured in bins of 0.255 nm—the labels indicate the values of HB1 and HB2 at the center of the bins. The arbitrary offset of G is chosen so that the most probable bin has a free energy kcal/mol. All bins with a free energy greater than zero on this scale are shown in light green. (B) The melting trajectory from Figure 14 projected onto the HB1, HB2 space.

Inline graphic — (A) Free-energy landscape of a system with a two base-pair toehold, with the system prevented from forming other base pairs between invader and substrate and also prevented from having either base pair separation exceed 3.7 nm. HB1 and HB2 are the base-pair separations defined in Figure 14B. The free energy landscape is measured in bins of 0.255 nm—the labels indicate the values of HB1 and HB2 at the center of the bins. The arbitrary offset of G is chosen so that the most probable bin has a free energy kcal/mol. All bins with a free energy greater than zero on this scale are shown in light green. (B) The melting trajectory from Figure 14 projected onto the HB1, HB2 space.