There's a huge difference in the programs at various universities, and also grey areas.
My university (Michigan Tech) for instance had a Software Engineering-like program as a "concentration" of Computer Science (College of Arts and Sciences), rather than being taught by the College of Engineering. There was also a Computer Information Systems degree, and an IS/IT Management concentration of Computer Science. I think by the time I graduated there was also an actual Software Engineering degree, but I'm not sure. There was also more of a systems/network admin program that was a concentration of Computer Science, as well as a very similar (but more practical/less theoretical) degree offered by the School of Technology. Other universities generally have similar programs, but they may not have the same names, and the one called "Computer Science" might not mean the same thing that another university thinks it does.
Also take into account electives (both in-major and otherwise). I took a databases class, a network admin class, a systems admin class, a networks class (theory/programming/algorithms rather than actually hooking up routers and stuff), etc. Other choices included HCI, 3d graphics, compiler design, higher-level algorithms classes, etc.
I think asking (at an interview) specific questions about what THAT PARTICULAR candidate knows is a lot more important than which of two different fairly closely-related majors they took in school. It's like choosing an interior decorator based on whether they majored in painting or sculpture in art school.
Basically, differences between schools and a particular student's choices of electives pretty much make them interchangeable, especially with a year or two of job experience.