Troubled Threaded Comment

Hello, I have a problem with the theme. I’m confused to implement threded comment, it does not show the correct. New comments appear below

1. comment
2. reply to comment

, Not in the comment box which I reply.

1. comment
1.1. reply to comment

I’ve tried to use the plugin, and it does not solve the problem.

Comment.php http://pastebin.com/DX4kJRGg

<ol class="commentlist">
<?php wp_list_comments(array('type'=>'comment','callback'=>
'my_comment','avatar_size'=>64, 'reply_text'=>'Reply'));
?>
</ol>

functions.php http://pastebin.com/4CGuYvcM