X-Git-Url: http://source.jalview.org/gitweb/?p=jalview.git;a=blobdiff_plain;f=src%2Fjalview%2Fdatamodel%2FAlignedCodonFrame.java;h=049a5f469cc5cf5384ec22d16276fc70975c673a;hp=6e83fbb7d262331d3dff05336b5c939a50bbe900;hb=df0035d38851d468e8f6991ad6ed1c8f6cce2610;hpb=44e76456cdfd0e0ba3dc3c958f0dd061b45fdd72

diff --git a/src/jalview/datamodel/AlignedCodonFrame.java b/src/jalview/datamodel/AlignedCodonFrame.java
index 6e83fbb..049a5f4 100644
--- a/src/jalview/datamodel/AlignedCodonFrame.java
+++ b/src/jalview/datamodel/AlignedCodonFrame.java
@@ -433,7 +433,8 @@ public class AlignedCodonFrame
 
   /**
    * Add search results for regions in other sequences that translate or are
-   * translated from a particular position in seq
+   * translated from a particular position in seq (which may be an aligned or
+   * dataset sequence)
    * 
    * @param seq
    * @param index
@@ -445,6 +446,10 @@ public class AlignedCodonFrame
           SearchResultsI results)
   {
     SequenceI ds = seq.getDatasetSequence();
+    if (ds == null)
+    {
+      ds = seq;
+    }
     for (SequenceToSequenceMapping ssm : mappings)
     {
       ssm.markMappedRegion(ds, index, results);