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JAL-2089 patch broken merge to master for Release 2.10.0b1
[jalview.git] / help / html / calculations / conservation.html
diff --git a/help/html/calculations/conservation.html b/help/html/calculations/conservation.html
index 6bec7a4..4535525 100755 (executable)
--- a/help/html/calculations/conservation.html
+++ b/help/html/calculations/conservation.html
@@ -1,7 +1,7 @@
 <html>
 <!--
- * 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.
  * 
@@ -40,8 +40,8 @@
     <b>9</b> No. 6 (745-756)).
   </ul>
   <em><a
-    href="http://www.compbio.dundee.ac.uk/papers/amas/amas3d.html"
-  >View an HTML version of the paper</a></em>
+    href="http://www.compbio.dundee.ac.uk/papers/amas/amas3d.html">View
+      an HTML version of the paper</a></em>
   </p>
   <p>
     Conservation is measured as a numerical index reflecting the
@@ -65,11 +65,18 @@
     (e.g. !proline).
   </p>
   <p>
-    <em>Colouring an alignment by conservation</em><br>
+    <strong>Colouring an alignment by conservation</strong><br>
     Conservation scores can be used to colour an alignment. This is
     explained further in the help page for <a
-      href="../colourSchemes/conservation.html"
-    >conservation colouring</a>.
+      href="../colourSchemes/conservation.html">conservation
+      colouring</a>.
+  </p>
+  <p>
+    <strong>Group conservation</strong><br> If sequence groups have
+    been defined, then selecting option 'Group Conservation' in the <a
+      href="../menus/alwannotation.html">Annotations menu</a> will
+    result in Conservation being calculated for each group, as well as
+    the alignment as a whole.
   </p>
 </body>
 </html>