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Knudsen-Hein algorithm for predicting structure of aligned RNA sequences
Knudsen & Hein: RNA secondary structure prediction using stochastic context-free grammars and evolutionary history. Bioinformatics 1999;15:446-54.
- Knudsen & Hein: Pfold: RNA secondary structure prediction using stochastic context-free grammars. Nucleic Acids Res. 2003;31:3423-8.
- PFOLD program
- Xfold Program, available in DART