How do i pause/stop something running in the background?

I'll try to give as many details as I can:
I am using an auto clicker program (quick keys x), and I copied and pasted 150 or so of the same mouse recording, each lasting around 5 minutes. I want them to run, but I need to know how to pause them whenever. I didn't change any of the hot key options or anything. The program that is up and running (that I see listed in the top left corner) is google chrome. I want that to stay up while the auto clicker is running. The top right has a thing with a Q, pause symbol, and a stop symbol. That's where it's running, and I want to know how to pause that (or stop if neccesary) without closing google chrome at all.
If you have any questions on the situation, please ask, I need all the help I can get!
Thanks!

I usually just kill the process.  If I know a specific app is running in the background, say "iPhoto", and I can't close it normally, I open a terminal and type:
ps -A | grep iPhoto
then i kill the proccess id with:
kill -9 ###
where ### is the process id.  you might need to add a sudo before that if root access is required:
sudo kill -9 ###

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