RNALogo presents a novel graphical representation of the patterns in an aligned RNA sequences with a consensus structure. Several significant features, including sequence conservation, structural conservation, and the mutual information of base-paired regions, can be revealed within a RNA sequence alignment and its consensus RNA secondary structure.
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Nucleic Acids Res. 2008 Jul 1;36(Web Server issue):W91-6. doi: 10.1093/nar/gkn258.
RNALogo: a new approach to display structural RNA alignment.
Chang TH, Horng JT, Huang HD.