JAL-2145 improvement: ensure conservation calculation performed between istart &...

diff --git a/src/jalview/analysis/Conservation.java b/src/jalview/analysis/Conservation.java
index 7b3ce25..21d990c 100755 (executable)
--- a/src/jalview/analysis/Conservation.java
+++ b/src/jalview/analysis/Conservation.java
@@ -693,7 +693,7 @@ public class Conservation
       qmax = qualityRange[1].floatValue();
     }
 
-    for (int i = 0; i < alWidth; i++)
+    for (int i = istart; i < alWidth; i++)
     {
       float value = 0;