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<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.9.0b1)
- * Copyright (C) 2015 The Jalview Authors
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
*
* This file is part of Jalview.
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matrix, and (since 2.8.1) is available for Tree and PCA
calculations.</li>
<li><a href="#simplenucleotide">Simple Nucleotide
- Substition</a> is a (fairly) arbitrary DNA/RNA substitution matrix.</li>
+ Substitution</a> is a (fairly) arbitrary DNA/RNA substitution
+ matrix.</li>
<!-- <li><a href="#conservation">Conservation Matrices</a> A range of matrices for distinguishing amino-acids by physicochemical property conservation.
</li> -->
</ul>
<strong><a name="pam250">PAM250</a></strong><br /> <em><strong>P</strong>ercentage
<strong>A</strong>ccepted <strong>M</strong>utation matrix. PAM250
estimates substitutions after 250% of sites have changed (each
- site can be mutated multple times).<br /> Jalview 2.8.1 introduced
- support for PAM250 based <a href="../calculations/pca.html">PCA</a>
- and <a href="../calculations/tree.html">tree</a> calculations.</em>
+ site can be mutated multple times).<br /> Jalview 2.8.1
+ introduced support for PAM250 based <a
+ href="../calculations/pca.html">PCA</a> and <a
+ href="../calculations/tree.html">tree</a> calculations.</em>
<table border="1">
<tr>
<td></td>
</table>
<strong><em>This nucleotide matrix was introduced in
Jalview 2.8. If you'd like to improve it - please take a look at <a
- href="http://issues.jalview.org/browse/JAL-1027"
- >Issue JAL-1027 - introduce a nucleotide substitution matrix that
+ href="http://issues.jalview.org/browse/JAL-1027">Issue
+ JAL-1027 - introduce a nucleotide substitution matrix that
supports RNA/DNA and ambiguity codes</a>
</em></strong>
</p>