Dr. Miranker has a Bioinf course (CS329e) that I have heard is quite good.

http://www.cs.utexas.edu/users/miranker/

On this page you should examine Graduate/Undergraduate Course link.

http://ccbb.biosci.utexas.edu/

These are graduate courses. Sometimes you can gain access to these if you speak with the professor.

Here is one by Marcotte:

http://polaris.icmb.utexas.edu/CH391L/

I don't know when it is regularly taught but at least it was taught in Spring.

Another from CS

http://www.cs.utexas.edu/users/tandy/329E-2008.html

also

http://www.cs.utexas.edu/users/kincaid/cs329e-info.html

Two from Bio

Lauren Myers Bio337 Intro to Computational Biology Spring 2008

Robin Gutell Bio337J Computational Biology

Please let me know about other courses.