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The Nucleic Acid Package (NUPACK) is a growing software suite for the analysis and design of nucleic acid systems. The NUPACK web server (http://www.nupack.org) currently enables: • Analysis: thermodynamic analysis of dilute solutions of interacting nucleic acid strands. • Design: sequence design for complexes of nucleic acid strands intended to adopt a target secondary structure at equilibrium. • Utilities: evaluation, display, and annotation of equilibrium properties of a complex of nucleicdoi:10.1002/jcc.21596 pmid:20645303 fatcat:izrwy3b2u5b2hjfprkxlaebpxm