Figure 6

Predicted secondary structure conformations at the 3′ splice site of influenza C segment 7. The top structure is the predicted hairpin for the consensus sequence and the corresponding base pair count table. Below is the DotKnot [59] predicted, alternative pseudoknot conformation and base pair count table. Figure annotations and base pair count table are as described in Figure 2. The predicted folding free energy, ΔG°₃₇, for the consensus sequence: in hairpin conformation is −3.8 kcal/mol using parameters from RNAstructure [54, 55] and in pseudoknot conformation is −9.9 kcal/mol from DotKnot [59].