X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fdatamodel%2FAlignedCodonFrame.java;h=ec11fc13b73dfb193fedb4cddee7821fd88731be;hb=60068a9887dba34c9e7cf49b2f5f53a6fdc15931;hp=83eeb3de75f9b46578a360a836dcc8ce6acc1bed;hpb=3d0101179759ef157b088ea135423cd909512d9f;p=jalview.git

diff --git a/src/jalview/datamodel/AlignedCodonFrame.java b/src/jalview/datamodel/AlignedCodonFrame.java
index 83eeb3d..ec11fc1 100644
--- a/src/jalview/datamodel/AlignedCodonFrame.java
+++ b/src/jalview/datamodel/AlignedCodonFrame.java
@@ -505,12 +505,11 @@ public class AlignedCodonFrame
          * Read off the mapped nucleotides (converting to position base 0)
          */
         codonPos = MappingUtils.flattenRanges(codonPos);
-        char[] dna = dnaSeq.getSequence();
         int start = dnaSeq.getStart();
-        result.add(
-                new char[]
-                { dna[codonPos[0] - start], dna[codonPos[1] - start],
-                    dna[codonPos[2] - start] });
+        char c1 = dnaSeq.getCharAt(codonPos[0] - start);
+        char c2 = dnaSeq.getCharAt(codonPos[1] - start);
+        char c3 = dnaSeq.getCharAt(codonPos[2] - start);
+        result.add(new char[] { c1, c2, c3 });
       }
     }
     return result.isEmpty() ? null : result;