Bayesian email filters take advantage of Bayes' theorem. Bayes' theorem, in the context of spam, says that the probability that an email is spam, given that it has certain words in it, is equal to the probability of finding those certain words in spam email, times the probability that any email is spam, divided by the probability of finding those words in any email:

Particular words have particular probabilities of occurring in spam email and in legitimate email. For instance, most email users will frequently encounter the word Viagra in spam email, but will seldom see it in other email. The filter doesn't know these probabilities in advance, and must first be trained so it can build them up. To train the filter, the user must manually indicate whether a new email is spam or not. For all words in each training email, the filter will adjust the probabilities that each word will appear in spam or legitimate email in its database. For instance, Bayesian spam filters will typically have learned a very high spam probability for the words "Viagra" and "refinance", but a very low spam probability for words seen only in legitimate email, such as the names of friends and family members.
After training, the word probabilities (also known as likelihood functions) are used to compute the probability that an email with a particular set of words in it belongs to either category. Each word in the email contributes to the email's spam probability. This contribution is called the posterior probability and is computed using Bayes' theorem. Then, the email's spam probability is computed over all words in the email, and if the total exceeds a certain threshold (say 95%), the filter will mark the email as a spam. Email marked as spam can then be automatically moved to a "Junk" email folder, or even deleted outright.