Are 2 separate applications. Google Webmaster is helping you with indexing your site and Analytics is just counting your visitors and doing a lot of nice graphs. Regards
webmaster tools can be used to submit 1 : sitemap to google 2 : add/editing robots.txt file 3 : keeping track of crawling errors analytics on the other hand can be used for 1 : tracking your websites overall stats 2 : setting up goals
analytics shows how many visitors comming to your website and their behaviour and webmaster is help you to admin your website index in google etc