X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=code_ruby%2Flib%2Fmaasha%2Fseq%2Fassemble.rb;h=016322727cf15eb824f9e3f0518cca9b2ecb0241;hb=2e68dd027a2bc1809f53a8c24eb11269049a95fc;hp=7b02d03a61a827782a802ade399ebd5c378105cb;hpb=5d3ea65c9ddd26186bac044b7617a79b8f2045f7;p=biopieces.git

diff --git a/code_ruby/lib/maasha/seq/assemble.rb b/code_ruby/lib/maasha/seq/assemble.rb
index 7b02d03..0163227 100644
--- a/code_ruby/lib/maasha/seq/assemble.rb
+++ b/code_ruby/lib/maasha/seq/assemble.rb
@@ -64,8 +64,9 @@ class Assemble
           entry_overlap = @entry1[-1 * overlap .. -1]
         end
 
-        entry_left.seq.upcase!
-        entry_right.seq.upcase!
+        entry_left.seq.downcase!
+        entry_overlap.seq.upcase!
+        entry_right.seq.downcase!
         entry_merged          = entry_left + entry_overlap + entry_right
         entry_merged.seq_name = @entry1.seq_name + ":overlap=#{overlap}:hamming=#{hamming_dist}"