The CorreLogo generates for a given RNA or DNA sequence alignment a three-dimensional representation in VRML format and JavaView JVX format. The generated model contains quantities like mutual information, composition and single column information (“conservation”) in one three-dimensional representation. This can be useful for visual inspection of the properties of a nucleotide sequence alignment and for RNA secondary structure prediction.
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E. Bindewald, T.D. Schneider, B.A. Shapiro:
CorreLogo: An online server for 3D sequence logos of RNA and DNA alignments
Nucleic Acids Res. 2006 Jul 1;34 (Web Server issue):W405-11.