Automatic Detection of of Conserved Base Pairing Patterns in RNA Virus Genomes

Ivo L. Hofacker and Peter F. Stadler

Working Papers from Santa Fe Institute

Abstract: Almost all RNA molecules - and consequently also almost all subsequences of a large RNA molecule - form secondary structures. The presence of secondary structure in itself therefore does not indicate any functional significance. In fact, we may not expect a conserved secondary structure for all parts of a viral genome or a mRNA, even if there is a significant level of sequence conservation.

Keywords: RNA Secondary Structure prediction; structure alignment; conserved substructures; compensatory mutations; RNA virus genomes (search for similar items in EconPapers)
Date: 1998-06
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