+ an individual sequence's structure. Accessed via the Sequence ID popup menu.</li>
+ <li><strong>per sequence secondary structure
+ annotation</strong><br /> Sequence associated secondary structure
+ annotation imported via stockholm, PDB files, or other sources can
+ be shown on the alignment with the <strong>Colours→By
+ Annotation</strong> dialog box. Colours are assigned according to RNA
+ helix topology number (number of distinct nested helices).
+ Alignments can also be sorted by RNA helix secondary structure
+ topology number, <em>via</em> the <strong>Calculations→Sort→By
+ Annotation→Secondary Structure</strong> option (only present when
+ per-sequence secondary structure is available).</li>
+ </ul>