The URLs are showing the structure that was given to them by the creating program. From viewing your source code, it appears to have been a Microsoft product of some sort.
The /index.htm appearance is due to the way the Home button link is coded.
The /index_files portion of the URL is due to all files except the index.htm file beign stored in a folder of that name. The links to other files have to look in the index_files folder, so that is part of the URL.
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