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It contains a number of things:
ePub version
page-progression direction (right to left flip or left to right)
metadata about author, book name, description, isbn etc...
font or fixed layout information
a manifest with all the files includded in the ePub package
the order of which the distinct html files should be read
So basically it has to be a part of the ePub of you want readers to be able to read your file properly.
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