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. 2009 May 27;25(12):i365–i373. doi: 10.1093/bioinformatics/btp212

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© 2009 The Author(s)

This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

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Fig. 10. — Recursion for Q^gk_i,d,e,j and Q^gm_i,d,e,j, the partition functions for [i, j] excluding the gap [d, e], assuming i and j are base paired. The gap in Q^gk is assumed to contain a direct bond hence the red color, and the gap in Q^gm is assumed to contain multiple interaction arcs hence the green color. In both cases, i<k₁≤d and e≤k₂<j.