-<html>\r
-<body>\r
-tree \r
-</body>\r
-</html>\r
+<html>
+<!--
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3
+ * of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
+ -->
+<head>
+<title>Removing Redundancy</title>
+</head>
+<body>
+ <p>
+ <strong>Removing redundancy</strong>
+ </p>
+ <p>
+ Selecting the option in the Alignment window's <strong>Edit</strong>
+ menu or pressing <strong>'CONTROL+D'</strong> brings up a dialog box
+ asking you to select a threshold. If the percentage identity between
+ the aligned positions of any two sequences in the visible alignment
+ exceeds this value, the shorter sequence is discarded.<br> <em>Note:</em>
+ The redundancy calculation is done when the dialog box is opened.
+ For large numbers of sequences this can take a long time as all
+ pairs have to be compared.
+ </p>
+</body>
+</html>
git://source.jalview.org / jalview.git / blobdiff