X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;ds=sidebyside;f=src%2Fjalview%2Fio%2FDBRefFetcher.java;h=bd3c73323de37914f913ad59e54ff34fb550b361;hb=558597672640984d936ea22409a674293192a09c;hp=d26ef6deb550f4e78e6b8069d2adc62da3ab65a4;hpb=0405267e16900334a4967ff8ad812174e6e25549;p=jalview.git

diff --git a/src/jalview/io/DBRefFetcher.java b/src/jalview/io/DBRefFetcher.java
index d26ef6d..bd3c733 100644
--- a/src/jalview/io/DBRefFetcher.java
+++ b/src/jalview/io/DBRefFetcher.java
@@ -181,7 +181,7 @@ public class DBRefFetcher implements Runnable
             for(int j=0; j<uprefs.length; j++)
             {
               addSeqId(sequence, uprefs[j].getAccessionId());
-              queryString.append(uprefs[i].getAccessionId()+";");
+              queryString.append(uprefs[j].getAccessionId()+";");
             }
           }
           else
@@ -305,7 +305,8 @@ public class DBRefFetcher implements Runnable
         System.out.println("Adding dbref to " + sequence.getName() + " : " +
                            entry.getAccession().elementAt(0).toString());
 
-        String nonGapped = AlignSeq.extractGaps("-. ", sequence.getSequence()).
+        String nonGapped = AlignSeq.extractGaps("-. ",
+                                                sequence.getSequenceAsString()).
             toUpperCase();
 
         int absStart = entry.getUniprotSequence().getContent().indexOf(