X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fanalysis%2FConservation.java;h=1342e93fb1abfb57c4ee0d4b7ddadc5855501ec9;hb=ae83cc59079dc5374a41402889b6f4192f66e9e2;hp=63f791c55289ed1afb826c8b456ef7181e41d621;hpb=e905bf509cf285c9b73ee6d89be1a038c4e41e2c;p=jalview.git

diff --git a/src/jalview/analysis/Conservation.java b/src/jalview/analysis/Conservation.java
index 63f791c..1342e93 100755
--- a/src/jalview/analysis/Conservation.java
+++ b/src/jalview/analysis/Conservation.java
@@ -295,6 +295,12 @@ public class Conservation
         Hashtable resultHash ;
         Enumeration enumeration;
 
+        //NOTE THIS SHOULD CHECK IF THE CONSEQUENCE ALREADY
+        //EXISTS AND NOT OVERWRITE WITH '-', BUT THIS CASE
+        //DOES NOT EXIST IN JALVIEW 2.1.2
+        for(int i=0; i<start; i++)
+          consString.append('-');
+
 
         for (int i = start; i <= end; i++)
         {
@@ -343,7 +349,7 @@ public class Conservation
             }
             else
             {
-                consString.append("-");
+                consString.append('-');
             }
         }