Set threshold 0 if conservation

diff --git a/src/jalview/appletgui/AlignFrame.java b/src/jalview/appletgui/AlignFrame.java
index 0d6682f..fae50d9 100755 (executable)
--- a/src/jalview/appletgui/AlignFrame.java
+++ b/src/jalview/appletgui/AlignFrame.java
@@ -918,6 +918,7 @@ public class AlignFrame
         else\r
         {\r
           sg.cs.setConservation(null);\r
+          sg.cs.setThreshold(0, viewport.getIgnoreGapsConsensus());\r
         }\r
 \r
       }\r