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Efficient pairwise RNA structure prediction and alignment using sequence alignment constraints.
Efficient pairwise RNA structure prediction and alignment using sequence alignment constraints
Robin D Dowell and Sean R Eddy
BMC Bioinformatics 7 (1), 400 (04 Sep 2006)
 
Incorporating chemical modification constraints into a dynamic programming algorithm for prediction of RNA secondary structure.
Proceedings of the National Academy of Sciences 101 (19), 7287 (2004)

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