Assuming you have 6-8 solid clips … get pdf files of the "first" pages as they printed, then print them on 8.5x 11 paper. This will allow you to show how prominently a particular clip was placed. Attach each pdf with a single staple to a printed, text-only version of the story, so an editor can then read the story simply. Don't submit columns/edits. No one cares what you think. They are looking for variety and profieciency. Keep your resume to a single page, and write a crisp cover letter focused on action, not desire. Good: "I got the story because I was the only reporter willing to stand in the rain for three hours on that below-freezing night. I got the quote. And we owned the story." Bad: "I love talking to people and I've always wanted to be a writer." Duh. That will set you apart from the pack — not! When finished, attached everything with a single paper clip. Don't bind, or get cute. Let the "package" speak for itself. Of course, check spelling, addresses, titles, etc. a million times. Good luck.
