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First I would look to see if they e-mails are coming it at consistent times. If so you could look at your cron jobs on the server to see if a certain job is running at those times. If the times are consistent I would run the "top" command and see what is running with high processor usage.
There is a utility called "atop". It may not be installed by default though. If you are on a 32 bit system you could install it using "rpm -Uvh http://3es.atomicrocketturtle.com/packages/atop/atop-1.23-8.art.i386.rpm" This ustility shows overall processor usage of programs over time.
What operating system are you running? CentOS? You need ncurses-libs to be installed. If you are using CentOS you could try running "yum install ncurses-libs"
I have Cent OS 5.4. I ran it and this is what I got.
Excluding Packages from CentOS-5 - Addons
Finished
Excluding Packages from CentOS-5 - Base
Finished
Excluding Packages from CentOS-5 - Extras
Finished
Excluding Packages from CentOS-5 - Updates
Finished
Setting up Install Process
No package ncurses-libs available.
Nothing to do