comRNA is a new program that predicts common RNA secondary structure motifs in a group of related sequences.The algorithm applies graph-theoretical approaches to automatically detect common RNA secondary structure motifs in a group of functionally or evolutionarily related RNA sequences.
Stormo Lab in Department of Genetics, Washington University
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Yongmei Ji, Xing Xu and Gary D. Stormo,
A graph theoretical approach for predicting common RNA secondary structure motifs including pseudoknots in unaligned sequences, Bioinformatics, 2004 Jul 10; 20(10):1591-1602.”