<li>Order an alignment in order of average feature score or
total feature count</li>
<li>Shading features by score or associated description</li>
+ <li>Subdivide alignment and groups based on identity of selected subsequence (Make Groups from Selection).</li>
+ <li>New hide/show options including Shift+Control+H to hide everything but the currently selected region.</li>
<!-- introduced but not yet documented <li>Experimental blast report parser</li> -->
</ul>
<em>Vamsas Capabilities</em>
<li>AMSA files only contain first column of multi-character column annotation labels</li>
<li>Jalview Annotation File generation/parsing consistent with documentation (e.g. Stockholm annotation can be exported and re-imported)</li>
<li>PDB files without embedded PDB IDs given a friendly name</li>
+ <li>Find incrementally searches ID string matches as well as subsequence matches, and correctly reports total number of both.</li>
<li>Applet:
<ul>
<li></li>
sources</li>
<li>Ensured that command line das feature retrieval completes
before alignment figures are generated.</li>
+ <li>Reduced time taken when opening file browser for first time.</li>
</ul>
</li>
</ul>