X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fappletgui%2FAnnotationPanel.java;h=c6d3b4e1aa686e6abd642edacd8e4c4730a41c57;hb=refs%2Ftags%2FRelease_2_04;hp=cd6396fd2260774cb17c23ea546c9f9a5ffc3abc;hpb=588042b69abf8e60bcc950b24c283933c7dd422f;p=jalview.git

diff --git a/src/jalview/appletgui/AnnotationPanel.java b/src/jalview/appletgui/AnnotationPanel.java
index cd6396f..c6d3b4e 100755
--- a/src/jalview/appletgui/AnnotationPanel.java
+++ b/src/jalview/appletgui/AnnotationPanel.java
@@ -336,13 +336,13 @@ public class AnnotationPanel
                             fm.charWidth(row.annotations[j].displayCharacter.
                                          charAt(0))) / 2;
           g.setColor(row.annotations[j].colour);
-          if (j == 0)
+          if (j == 0 || row.isGraph)
           {
             if (row.annotations[0].secondaryStructure == 'H'
                 || row.annotations[0].secondaryStructure == 'E')
             {
               g.drawString(row.annotations[j].displayCharacter, x,
-                           y + iconOffset + 2);
+                           y + iconOffset + 3);
             }
           }
           else if ( (row.annotations[j].secondaryStructure == 'H'
@@ -352,14 +352,14 @@ public class AnnotationPanel
                     row.annotations[j - 1].secondaryStructure))
           {
 
-            g.drawString(row.annotations[j].displayCharacter, x,
-                         y + iconOffset + 2);
+            g.drawString(row.annotations[j].displayCharacter, x + charOffset,
+                         y + iconOffset + 3);
           }
 
           if (!row.hasIcons)
           {
             g.drawString(row.annotations[j].displayCharacter, x + charOffset,
-                         y + iconOffset + 2);
+                         y + iconOffset + 3);
           }
         }