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. 2022 Apr 5;19(1):496–506. doi: 10.1080/15476286.2022.2058818

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© 2022 The Author(s). Published by Informa UK Limited, trading as Taylor & Francis Group.

This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

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Figure 2. — Structural features of BVDV IRES RNA. (A) Windowed SHAPE reactivities (black) and Shannon entropies (brown) are indicated. The X-axis represents the nucleotide position, and Y-axis corresponds to windowed SHAPE reactivities (top) and entropy values (bottom). Single-stranded regions involved in pseudoknot formation are indicated with grey rectangles. (B) Arc plots represent the base-pairing probabilities for BVDV IRES RNA. The top arc plot is colour-coded according to the pairing probability scale. The bottom arc plot includes the predicted H-type pseudoknot (red).