The best solution which I've found was to change the version tag to be at the beginning of the url and to use url rewrite in order to process the requests. So if for example I used to had:
http://website/Content/Images/1.png?123456
this will become to:
http://website/123456/Content/Images/1.png
Notice that I use url rewrite in order the process the request so that http://website/123456/Content/Images/1.png
will actually bring the data from http://website/Content/Images/1.png