Re:AMD64 is very fast (Score 3, Insightful)

OK. I can't give you the code but it is my own implementation of a pretty standard bioinformatics sequence comparison program which doesn't use SSE/MMX type instructions and is single threaded. On all platforms it was compiled using gcc with -O3 optimisation. I have tried adding other optimisations but it doesn't really make much difference to these numbers (no more than a couple of percent at best).

When you say you've tried "adding other optimizations," are you referring only to other GCC optimization flags? If your program's algorithms have any moderate degree of parallelism and you haven't tried vectorization either by compiler (GCC and ICC can both do this) or by hand, the benchmark you've done is not unlike a race where no one is allowed to shift out of first gear. Can you go into any more specifics about how this program does sequence comparisons?

Also, the disappointing numbers from the G5 may be partially explained by the fact that its integer unit has higher latency than the other desktop processors in that list. The G5 isn't exactly known for blistering integer performance, anyway.