The data in Webmaster Tools has been historically unreliable[1][2]. If you compare it to data in Google Analytics, the two have often been world's apart. Sadly,

The data in Webmaster Tools has been historically unreliable[1][2]. If you compare it to data in Google Analytics, the two have often been world's apart. Sadly, this isn't going to come close to replacing accurate keyword data in GA. [1]http://www.portent.com/blog/analytics/google-webmaster-tools-query-data-is-worthless.htm http://www.portent.com/blog/analytics/google-webmaster-tools... [2]http://moz.com/blog/comparing-ranktracking-methods-browser-vs-crawler-vs-webmaster-tools http://moz.com/blog/comparing-ranktracking-methods-browser-v...