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Posted by JPanek on 10 Aug 2011 at 12:24 GMT

However, the structure predicted might well be suboptimal for a number of reasons. These include inaccuracies of the energy model, kinetic folding effects, as well as neglecting tertiary structure.

Another reasons may exist, e.g. those already published in "The suboptimal structures find the optimal RNAs: homology search for bacterial non-coding RNAs using suboptimal RNA structures” by Pánek J, Krásny L, Bobek J, Jezková E, Korelusová J and Vohradsky J., Nucleic Acids Res. 2011 Apr;39(8):3418-26. Epub 2010 Dec 30.

No competing interests declared.