It will display your site properly when you will click on compatibility button which is just next to address bar in IE 10.
What happened was, there was some place holder which was taking a lot of top space of page and moving real site to bottom, saying that it happened on SharePoint 2007.
I think there was some issue with our custom master page.
Try these steps out if they help you,
- Open Internet Explorer and navigate to your SharePoint site.
- Press the “ALT” key to show the File menu, and click “Tools”.
- Select “Compatibility View Settings”.
- In the box type in the URL of your SharePoint site, click “Add”, and “Close”.