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Transat—A Method for Detecting the Conserved Helices of Functional RNA Structures, Including Transient, Pseudo-Knotted and Alternative Structures

Figure 18

Comparison of Transat (top figure) and RNAalifold P (bottom figure) for the Cripavirus internal ribosomal entry site (IRES), RF00458.

Transat predicts the helices of the pseudo-knotted known structure correctly and also predicts several new helices, whereas RNAalifold P captures only part of the known structure and predicts three new base-pairs which extend three known helices, see also Figure 10. Please refer to the caption of Figure 16 for more information on these arc-plots.

Figure 18