JAL-3725 restrict mapped virtual feature location to mapped region

[jalview.git] / src / jalview / datamodel / SequenceFeature.java

diff --git a/src/jalview/datamodel/SequenceFeature.java b/src/jalview/datamodel/SequenceFeature.java
index 6eeba2f..bbf1b45 100755 (executable)
--- a/src/jalview/datamodel/SequenceFeature.java
+++ b/src/jalview/datamodel/SequenceFeature.java
@@ -612,10 +612,9 @@ public class SequenceFeature implements FeatureLocationI
     String consequence = "";
     if (mf != null)
     {
-      int[] beginRange = mf.getMappedPositions(begin, begin);
-      int[] endRange = mf.getMappedPositions(end, end);
-      int from = beginRange[0];
-      int to = endRange[endRange.length - 1];
+      int[] localRange = mf.getMappedPositions(begin, end);
+      int from = localRange[0];
+      int to = localRange[localRange.length - 1];
       String s = mf.isFromCds() ? "Peptide Location" : "Coding location";
       sb.append(String.format(ROW_DATA, s, seqName, from == to ? from
               : from + (isContactFeature() ? ":" : "-") + to));