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Fig. 1 | BMC Bioinformatics

Fig. 1

From: Swellix: a computational tool to explore RNA conformational space

Fig. 1

RNA Folding Problem. The sequence is the ordered list of A, C, G, and U nucleotides. The secondary structure is the set of Watson-Crick CG and AU base pairs. GU pairs may also be included. The RNA folding problem consists of how to best predict secondary structure (and ultimately three-dimensional structure and function) from sequence. For example, the sequence of a 14mer RNA oligonucleotide can fold into 119 secondary structures [21]. Two different hairpin secondary structures are shown graphically and in dot-parentheses notation. In dot-parentheses notation, dots represent unpaired nucleotides, and parentheses represent paired nucleotides. In the graph, unpaired nucleotides are red and paired nucleotides are blue. Vertical gray lines connect nucleotides in sequence and horizontal gray lines connect nucleotides in base pairs

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