If you're a little confused by codecs and containers, you're not alone. It's a difficult subject. We've put together a short summary of terms in our InqScribe blog:
https://blogs.inquirium.net/inqscribe/2014/11/what-is-a-codec-anyway/

This should help you to understand a little bit about how digital video works and how to resolve issues of incompatibility. If you're still having trouble getting InqScribe to recognize your media files, send us an email at inqscribe.com/support.