X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhtml%2Ffeatures%2Fannotation.html;h=0c0ccfcabf604cb69971b205136182e7adae85ef;hb=6905363d02254a557f93f66a2b69d85aa0b23696;hp=447961e21a59ed689e9351bd751a5308624107e3;hpb=90255554ddb63f5474c11afcaba96d23ffd88a46;p=jalview.git

diff --git a/help/html/features/annotation.html b/help/html/features/annotation.html
index 447961e..0c0ccfc 100755
--- a/help/html/features/annotation.html
+++ b/help/html/features/annotation.html
@@ -11,8 +11,9 @@
 <p>Web services can also add annotation to an alignment (see the
   <a href="../webServices/jnet.html">JNet web service</a>), and as of Jalview 2.08 quantitative and symbolic
   annotations can be added to an alignment via an <a href="annotationsFormat.html">Annotations 
-  File</a> for more details.</p>
-
+  File</a> dragged into the alignment window or loaded from the
+  alignment's file menu.</p>
+<p><strong>Interactive Alignment Annotation</strong></p>
 <p>
 Annotation rows are added using the <strong>Annotation Label</strong>
 menu, which is obtained by clicking anywhere on the annotation row labels
@@ -79,6 +80,8 @@ rows is not possible. If you save
 your annotation as a Jalview file, however, it will be reloaded with user 
 annotations at the top (nearest the alignment), above any of the
 automatically generated Conservation, Quality or consensus
-annotations.</p>
+annotations. Finally, the Jalview GUI will not, as yet, allow you to output
+Jalview annotation files for the current alignment, change the line
+colour, display style, or create groups of quantitative annotation rows.</p>
 </body>
 </html>