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You are confusing the issue and this forum's ability to support you if you are discussing epub files and Sigil if you're only reading original mobi files on your Kindle. Cybmole is correct that the two different formats are entirely unrelated to one another, it doesn't matter what you see that's 'similar'.
The only theory I can come up with is you bought a book on Amazon which contains a TOC. Possibly you didn't understand how to remove the DRM or get that into your local Calibre library so you downloaded epub and mobi copies from the Darknet. Darknet does not equal Retail - they are not the same thing at all in most cases. Of course I'm just making up theories since you still haven't provided any of this sort of detail.
If you want help you need to start describing what happens from A to Z (including how you got the books and steps taken to transfer them, etc), and leave out extraneous details like what alternative ebook downloads in other formats look like.
on a side note, based on your descriptions of Sigil's GUI it's fairly clear you don't have a good grasp of what an epub TOC is. The left hand side pane of Sigil is not a 'TOC' - an epub is made up of many files and the left hand side shows the file list.
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