-<html>\r
-<head><title>Alignment Consensus Annotation</title></head>\r
-<body>\r
-<p><strong>Alignment Consensus Annotation</strong></p>\r
-<p>The consensus displayed below the alignment is the percentage of the modal \r
- residue per column. By default this calculation takes includes gaps in column. \r
- You can choose to ignore gaps in the calculation by right clicking on the label \r
- "Consensus" to the left of the consensus bar chart. \r
-<p>If the modal value is shared by more than 1 residue, a "+" symbol \r
- is used in the display for the simple reason that it is not possible to display \r
- multiple characters in a single character space.\r
-</body>\r
-</html>\r
+<html>
+<!--
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, J Engelhardt, LM Lui, G Barton, M Clamp, S Searle
+ *
+ * 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/>.
+-->
+<head><title>Alignment Consensus Annotation</title></head>
+<body>
+<p><strong>Alignment Consensus Annotation</strong></p>
+<p>The consensus displayed below the alignment is the percentage of the modal
+ residue per column. By default this calculation takes includes gaps in column.
+ You can choose to ignore gaps in the calculation by right clicking on the label
+ "Consensus" to the left of the consensus bar chart.
+<p>If the modal value is shared by more than 1 residue, a "+" symbol
+ is used in the display for the simple reason that it is not possible to display
+ multiple characters in a single character space.
+<p><strong>Copying the consensus sequence</strong></p>
+<p>Select the <strong>"Copy Consensus Sequence"</strong> entry from
+the consensus annotation label to copy the alignment's consensus sequence to the
+clipboard.
+
+<p><strong>Sequence logo</strong></p>
+By clicking on the label you can also activate the sequence logo. It
+indicates the relative amount of residues per column which can be
+estimated by it's size in the logo. The tooltip of a column gives the
+exact numbers for all occuring residues.
+</p>
+</body>
+</html>
git://source.jalview.org / jalview.git / blobdiff