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Detailed trajectory for the number of correct bonds in the stem for the sequence A7C5T7 at a temperature of 327 K, which is near the melting temperature. The snapshots show two examples of the hairpin configurations obtained at the times indicated by the stars. The structure on the left, with 3 paired stem bases, is stabilized by Hoogsteen bonds. The structure on the right shows fraying of the hairpin ends.
