Web CEO is is the software I use to manage and track the web marketing for my websites. I go with the Enterprise paid version which runs about $300, but if you have multiple websites you will be very happy you have this software.
I primarily use the software to track the search engine ranking for all my sites and to monitor both the incoming links and link partners for my sites.  It is great that you can set the software to run on a schedule, so I just check all my sites on a weekly basis.

Another great thing about the software is that you can check ranking all the way up to the first 1000 listing!  Most software will only go to the top 100, or 200 top listings max.

I also use the software to send out reports to customers.  You can send e-mails out automatically to customers with your own company logo if you get the Enterprise edition.

If you do SEO for a job, Web CEO Enterprise is a must have.  And if you have multiple sites I would highly recommend the Professional version.