Update vs Fresh Install - File & Folder Comparison

Hi,

When I did a files & folder comparison between fresh installed website & newly updated website, I found out that there is so many files with a different content/code. I thought that all updated site should have a new and updated files. Did I missing something obvious here?

Is that normal?

Both website is installed & updated with the current version of EB, ED & ES.

Please see my attached files.

Thanks.