fixes

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@1851 ee4ac58c-ac51-4696-9907-e4b3aa274f04

uk/ac/sanger/artemis/editor/FastaTextPane.java

@@ -210,6 +210,9 @@ public class FastaTextPane extends JScrollPane
             hitInfoCollection.add(hit);
           }
 
+        }
+        else if(line.indexOf("-------------------------") > -1)
+        {
         }
         else if(line.startsWith(">"))  // start of alignment
         {
@@ -300,7 +303,7 @@ public class FastaTextPane extends JScrollPane
           if(ind1 == -1)
           {
             String nextLine = null;
-            while((nextLine = buffReader.readLine()).indexOf(" letters)") < -1)
+            while((nextLine = buffReader.readLine()).indexOf(" letters)") < 0)
             {
               len += nextLine.length()+1;
               sbuff.append(nextLine+"\n");