[x] indicate how many Rscape-significant base pairs are not shown in the displayed structure. This would be both a quality control hint (if an Rfam curated structure was messed up and missing a bunch of base pairs), plus an indication of whether a pseudoknot might be present.
[x] include a note of how many Rfam-annotated base pairs are not shown in the Rfam structure because they're an annotated pseudoknot.
[x] display pseudoknots. Perhaps draw a bracket over a contiguous string of nucleotides that are one side of the PK stem and lettering the two halves A and a, B and b.
[x] indicate how many Rscape-significant base pairs are not shown in the displayed structure. This would be both a quality control hint (if an Rfam curated structure was messed up and missing a bunch of base pairs), plus an indication of whether a pseudoknot might be present.
[x] include a note of how many Rfam-annotated base pairs are not shown in the Rfam structure because they're an annotated pseudoknot.
[x] display pseudoknots. Perhaps draw a bracket over a contiguous string of nucleotides that are one side of the PK stem and lettering the two halves A and a, B and b.