this is what jQuery Says about the Conflict Read More
Here is the steps how to use the JQuery in Magento
Step 1. Download jQuery from jquery.com
Step 2. Copy the jquery file to the following directory: skin/frontend/default/your_custom_theme/js/
Step 3. Navigate to the app/design/frontend/default/your_custom_theme/layout/page.xml and open it in the editor of your choice.
Step 4. In page.xml file, search for block with name “head” and add the following code inside it.
Navigate to the app/design/frontend/default/your_custom_theme/template/page/head.phtml and open it in the editor of your choice
Add the following code at the end of this page
You have done. You can use jQuery in your Magento store without any conflict.