From 3188a29183ee5acaad2f5ab9d6c88a1bfd758f61 Mon Sep 17 00:00:00 2001
From: TZVanaalten <TZVanaalten@LS30916.ad.lifesci.dundee.ac.uk>
Date: Fri, 25 Aug 2017 14:54:17 +0100
Subject: [PATCH] JAL-2629 hmm annotation consensus characters are now upper
 case

---
 src/jalview/analysis/AAFrequency.java |    3 ++-
 1 file changed, 2 insertions(+), 1 deletion(-)

diff --git a/src/jalview/analysis/AAFrequency.java b/src/jalview/analysis/AAFrequency.java
index 219794b..72b3d00 100755
--- a/src/jalview/analysis/AAFrequency.java
+++ b/src/jalview/analysis/AAFrequency.java
@@ -418,7 +418,8 @@ public class AAFrequency
 
       String description = value + " bits";
       information.annotations[i] = new Annotation(
-              Character.toString(hmm.getConsensusAtAlignColumn(i)),
+              Character.toString(Character
+                      .toUpperCase(hmm.getConsensusAtAlignColumn(i))),
               description, ' ', value);
     }
     information.graphMax = max;
-- 
1.7.10.2