Secondary Structure Prediction for Aligned RNA Sequences
AbstractMost functional RNA molecules have characteristic secondary structures that are highly conserved in evolution. Here we present a method for computing the consensus structure of a set aligned RNA sequences taking into account both thermodynamic stability and sequence covariation. Comparison with phylogenetic structures of rRNAs shows that a reliability of prediction of more than 80% is achieved for only five related sequences. As an application we show that the Early Noduline mRNA contains significant secondary structure that is supported by sequence covariation.
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Bibliographic InfoPaper provided by Santa Fe Institute in its series Working Papers with number 01-11-067.
Date of creation: Nov 2001
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RNA secondary structure prediction; conserved substructures; compensatory mutations;
This paper has been announced in the following NEP Reports:
- NEP-ALL-2002-03-14 (All new papers)
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