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In this unit, protocols are provided for predicting RNA secondary structure with the user‐friendly RNAstructure desktop computer program and the RNAstructure Web server. The minimum free energy structure and a set of suboptimal structures with similar free energies are predicted. Prediction of high‐affinity oligonucleotide binding sites to a structured RNA target is also presented.
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Mathews et al. (2016) studied this question.
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