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Fast Folding and Comparison of RNA Secondary Structures

by: Ivo L. Hofacker, Walter Fontana, Peter F. Stadler, Sebastian L. Bonhoeffer, Manfred Tacker, Peter Schuster
Monatsh.\ Chem., Vol. 125 (1994), pp. 167-188  Key: citeulike:339293

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Abstract

Computer codes for computation and comparison of RNA secondary structures, the Vienna RNA package, are presented, that are based on dynamic programming algorithms and aim at predictions of structures with minimum free energies as well as at computations of the equilibrium partition functions and base pairing probabilities. An efficient heuristic for the inverse folding problem of RNA is introduced. In addition we present compact and efficient programs for the comparison of RNA secondary...


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