-<html>\r
-<head><title>Removing Redundancy</title></head>\r
-<body>\r
-<p><strong>Removing redundancy</strong></p>\r
-<p>Selecting this option brings up a window asking you to select a threshold.\r
- If the percentage identity between two sequences exceeds this value one of the\r
- sequences (the shorter) is discarded. The redundancy calculation is done when\r
- the Apply button is pressed. For large numbers of sequences this can take a\r
- long time as all pairs have to be compared. </p>\r
-</body>\r
-</html>\r
+<html>
+<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 / commitdiff