If you have a header and bottom pager, they have the same id. This cause 2 problems.
#1 - div with same ids is bad
#2 - the jquery function to add and remove the active class only adds and removes from the header pager (because it comes first)
You may say, well it was only attended for 1 pager to be used. In my scenario I am using 2 pagers. One is the content title, the other one is non-numeric pager, kinda like the one on lullabot.com.