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. 2017 Sep;23(9):1376–1384. doi: 10.1261/rna.061655.117

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© 2017 Ritchie et al.; Published by Cold Spring Harbor Laboratory Press for the RNA Society

This article is distributed exclusively by the RNA Society for the first 12 months after the full-issue publication date (see http://rnajournal.cshlp.org/site/misc/terms.xhtml). After 12 months, it is available under a Creative Commons License (Attribution-NonCommercial 4.0 International), as described at http://creativecommons.org/licenses/by-nc/4.0/.

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FIGURE 3. — Refolding intermediates in FECs for the upper stem alone. (A) Representative FECs with on-pathway refolding intermediates showing individual unfolding (red) and refolding (black) FECs with WLC fits to the folded (cyan) and unfolded (orange) branches and the intermediate state (blue). The folding progresses from unfolded to folded through the intermediate, indicating the latter is on-pathway. (B) Representative FECs with off-pathway refolding intermediates showing individual unfolding (red) and refolding (black) FECs with WLC fits to the folded (cyan) and unfolded (orange) branches and the intermediate state (blue). The intermediate state appears as a transient excursion out of the unfolded state that returns to the unfolded state before the folded structure is attained, indicating that it is likely off-pathway. (C) Distribution of contour length changes from the intermediate states to the unfolded state. The broad range indicates the presence of several different intermediate structures.