jnet file is 1 to 1 mapping

diff --git a/src/jalview/io/JnetAnnotationMaker.java b/src/jalview/io/JnetAnnotationMaker.java
index 60fb601..61f0ce1 100755 (executable)
--- a/src/jalview/io/JnetAnnotationMaker.java
+++ b/src/jalview/io/JnetAnnotationMaker.java
@@ -111,7 +111,7 @@ public class JnetAnnotationMaker
 \r
         if (seqRef != null)\r
         {\r
-          annot.createSequenceMapping(seqRef, 1, false);\r
+          annot.createSequenceMapping(seqRef, 1, true);\r
           seqRef.addAlignmentAnnotation(annot);\r
         }\r
 \r