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

Figure 19

Comparison of Transat (top figure) and RNAalifold P (bottom figure) for the S-adenosyl-L-homocysteine ribo-switch, RF01057.

Transat predicts the helices of the known structures correctly and also provides strong statistical evidence (p-value ) for additional helices that would render the known secondary structure pseudo-knotted, see the blue bottom-arcs. RNAalifold P predicts only part of the known structure correctly, but proposes a similar new helix, see also Figure 14. Please refer to the caption of Figure 16 for more information on arc-plots.

Figure 19

doi: https://doi.org/10.1371/journal.pcbi.1000823.g019