X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fgui%2FAnnotationPanel.java;fp=src%2Fjalview%2Fgui%2FAnnotationPanel.java;h=ca9b95f12e7856b8f7491fdebb1a2f20f5695f43;hb=46c34fb5b641a5ec57b5eec0e7bf964a9e72219f;hp=1acc0ca9c0d0ad7c51da2ca25c309da0b900a520;hpb=227daebd9bdf92c83712e077d958a690cdee0f7a;p=jalview.git

diff --git a/src/jalview/gui/AnnotationPanel.java b/src/jalview/gui/AnnotationPanel.java
index 1acc0ca..ca9b95f 100755
--- a/src/jalview/gui/AnnotationPanel.java
+++ b/src/jalview/gui/AnnotationPanel.java
@@ -1572,12 +1572,12 @@ public class AnnotationPanel extends JPanel implements MouseListener,
           char[] dc;
 
           /**
-           * profl.length == 11 indicates that the profile of a secondary
+           * profl.length == 51 indicates that the profile of a secondary
            * structure conservation row was accesed.
            * Therefore dc gets length 2, to have space for a basepair instead of
            * just a single nucleotide
            */
-          if (profl.length == 22)
+          if (profl.length == 51)
           {
             dc = new char[2];
           }
@@ -1593,7 +1593,7 @@ public class AnnotationPanel extends JPanel implements MouseListener,
 
             if (aa.label.startsWith("StrucConsensus"))
             {
-              dc[1] = 'A';
+              dc[1] = (char) profl[c++];
             }
             
             wdth = av.charWidth;