From 1f5616e7db919162a5cc3b25b09ccf95845f03ee Mon Sep 17 00:00:00 2001
From: jprocter <Jim Procter>
Date: Fri, 17 Dec 2010 16:47:26 +0000
Subject: [PATCH] adjust start and end of intersecting group relative to
 selected region

---
 src/jalview/datamodel/AlignmentView.java |    3 +++
 1 file changed, 3 insertions(+)

diff --git a/src/jalview/datamodel/AlignmentView.java b/src/jalview/datamodel/AlignmentView.java
index 2da7c80..21b5e7f 100644
--- a/src/jalview/datamodel/AlignmentView.java
+++ b/src/jalview/datamodel/AlignmentView.java
@@ -150,6 +150,9 @@ public class AlignmentView
             {
               sg.setEndRes(esel);
             }
+            sg.setStartRes(sg.getStartRes()-ssel+1);
+            sg.setEndRes(sg.getEndRes()-ssel+1);
+            
             isg.addElement(sg);
           }
         }
-- 
1.7.10.2