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The contact maps of the native conformation (a) and the conformations with the LNNC to be 50 (b), 100 (c), 175 (d), and 250 (e) for add A-riboswitch, respectively. Each native contact is marked by a dot in the maps. The rectangles labelled with letters (a)–(g) represent the contacts between different secondary structures that are indicated in the lower right corner.
