that helps, yes, since most of my sub pages are below 4 pr.
But not all of my pages above pr 4 show up using link:www.mydomain.com. And the don't show up at all for link:mydomain.com.
I'm just wondering if I'm doing something to hurt my position.
I wouldn't worry about that at all. I don't show any links using that format either.
>>>and found only a few links from within my own site
Make sure the pages that you think should be showing(pr4 or higher) are actually indexed themselves. If you are using links with query strings(?id=value&page=anothervalue), it is possible they are not indexed. Sometimes google won't crawl those pages.