Secondary Structure Prediction for Aligned RNA Sequences
Most 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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|Date of creation:||Nov 2001|
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Web page: http://www.santafe.edu/sfi/publications/working-papers.html
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