Your crystalmark is set at 100MB, which means you are testing the controller's cache. Set it to 1000MB to test your array (I think your cache is 256MB).

I have no idea why your performance test scores are so low, they shouldn't be. Try 100% sequential with 16MB blocks 100% reads with IOmeter and see what sequential rates that shows; it should show similar rates to hdtune. Maybe performance test is just gimped... works for me though. As far as I remember it shows 450MB/s reads 300MB/s writes and 270MB/s rs+rw for me.

You can't compare the IOPS of your setup with a raid card to a single x25-e on onboard controller. If you take my setup 2 X25Es on adaptec 5405 I get ~3k IOPs in that test, over 2x higher.