X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fdatamodel%2FColumnSelection.java;h=589c19bf417aaea1eedee6ffdc3bb5022efa4753;hb=453439b6b855fd668efeb5d5da446bb996dc0a83;hp=0bcbd5b2eb61e958cb4a1992ffd55f17d012820e;hpb=c5b266dbd1a12ac4b5e0a070b10fa707a73cd889;p=jalview.git

diff --git a/src/jalview/datamodel/ColumnSelection.java b/src/jalview/datamodel/ColumnSelection.java
index 0bcbd5b..589c19b 100644
--- a/src/jalview/datamodel/ColumnSelection.java
+++ b/src/jalview/datamodel/ColumnSelection.java
@@ -1181,9 +1181,16 @@ public class ColumnSelection
                 sq = sq + sb;
                 while ((diff = spos + offset - sq.length() - 1) > 0)
                 {
-                  sq = sq
-                          + ((diff >= sb.length()) ? sb.toString() : sb
-                                  .substring(0, diff));
+                  //sq = sq
+                  //        + ((diff >= sb.length()) ? sb.toString() : sb
+                  //                .substring(0, diff));
+                  if (diff>=sb.length()) {
+                    sq+=sb.toString();
+                  } else {
+                    char[] buf = new char[diff];
+                    sb.getChars(0, diff, buf, 0);
+                    sq+=buf.toString();
+                  }
                 }
               }
               sq += sb.toString();