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. 2014 May 18;15:147. doi: 10.1186/1471-2105-15-147

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Copyright © 2014 Jabbari and Condon; licensee BioMed Central Ltd.

This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.

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Pseudoknotted and pseudoknot-free secondary structures. Examples of loops and canonical base pairs in a pseudoknotted and a pseudoknot-free secondary structure. The blue base pairs belong to the G_big structure and the green base pairs belong to the G_small structure, as defined in Section ‘Definition of G_big and G_small’. This figure was produced using the VARNA software [55].