From: amwaterhouse <Andrew Waterhouse>
Date: Thu, 16 Dec 2004 13:19:57 +0000 (+0000)
Subject: ilen and jlen no longer +1
X-Git-Tag: Release_2_0~797
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=74aa9aa23dce90e649abce71577e56be2c9ac00e;p=jalview.git

ilen and jlen no longer +1
---

diff --git a/src/jalview/util/Comparison.java b/src/jalview/util/Comparison.java
index d8e599b..e6aae96 100755
--- a/src/jalview/util/Comparison.java
+++ b/src/jalview/util/Comparison.java
@@ -13,8 +13,8 @@ public class Comparison {
      String si   = ii.getSequence();
      String sj   = jj.getSequence();
 
-     int ilen = end-start+1;
-     int jlen = end-start+1;
+     int ilen = end-start;
+     int jlen = end-start;
 
      if ( jalview.util.Comparison.isGap( si.charAt(start+ilen)) )
       {