Comment Issue

Hi,
I have everything working great on my new wordpress, but I can’t seem to find the right file to edit that will keep my comments where I want them. My blog kept within a table on my index.php, but when I click the title to view the comments, all the colors and font sizes are correct, but the table width is disreguarded. Also, my comments pop up in windows, but so does my main graphic and everything else from my index.php page. I want to know how to only have the comments there without anything else. Thanks so much! Also my Url is http://www.xokevin.net if that helps.