Yes, well, the difference is that the majors have bent some metal, not plow it nose first into a ground as regionals have, when you look at the last decade. The last major/legacy crash with significant loss of life was 2001 with the AA out of JFK. Since then, the regionls have "410ed it" , took off on the wrong runway, and stalled straight into the ground, killing everyone onboard for most of those flights.
The stats speak for themselves. Some 200-600 hr wonders made it fine, but many are downright scary. The type of crash Colgan was, was just a matter of time. Low inexperienced and incompetent (as measured by checkride and PC failure rate) carried through and unable to recover from perhaps the most simplest of practiced moves in a private pilot curriculum: a simple aerodynamic stall. Numbers speak for themselves. I will not say major pilots are perfect, there is no such thing as a perfect pilot. But when you look at major crashes since 2000 and regional crashes since 2000, there is a very bad trend for regionals. A combination of inexperience and the fact that same people just can't fly worth sh*t.