The major difference between these systems is data collection:
It's worth noting that a company named Quantcast uses panel data and also enables a site to add page tags to collect actual site data, which are then merged together in a completely different type of "hybrid" model.
All these different approaches to data collection lead to opposition when these systems are used for the same purpose. For example, conflict arises between the yin and yang when identifying reach using unique visitor metrics. Audience measurement firms may cry "cookie deletion" when analytics tools are used to count unique visitors, and Web analytics firms may shout back "coverage error" and "selection bias" at the unique visitor numbers from panel-based firms. Another area of opposition is demographics. I've been told that only audience measurement firms provide demographic data, and that you can't get demographic data from Web analytics systems. That's not true at all.
All enterprise-level Web analytics systems provide demographic location information at the country, city, state, and MSA levels. This information will be different than that provided by audience measurement companies.
Demographics that are harder to elicit from a Web analytics system, but are easily provided by audience measurement, include attributes like a visitor's age, gender, occupation, income, and education.
But it is possible to integrate very detailed demographic attributes per visitor into a Web analytics system! Once demographic information is captured in a registration database, it can be joined with behavioral data in the Web analytics system and reported on. For a real-world example of analytics/demographic integration, take a look at what Microsoft is doing with Gatineau, the company's free Web analytics offering currently in beta. Microsoft is joining Web site behavioral data with rich demographic data from MS Live profiles.
Even with differences and oppositions between these online metrics systems, companies find ways to use the data in complementary ways:
You can even use both data sources as part of the same site optimization activity. For example, you could use audience measurement data to determine that a competitor is gaining ground on a particular product or search term. Then you could look at your Web analytics tool to see how you're doing for the same term and how visitors who searched for that keyword behave on your site. You may find a high bounce rate and low conversion rate for the keyword, so you segment that data perhaps by demographics! Next you suggest a hypothesis to minimize bounce and maximize conversion for each segment. Then you test your hypothesis, and reexamine the data. Based on the results, you then continuously improve your online performance through controlled experimentation. At the end of the day, you will drive more online revenue by understanding how the yin of audience measurement and the yang of Web analytics complement each other, than by worrying about how they differ and oppose.