Just a word of advice - if you use kobobooks.com you won't be able to use the same desktop app that is connected to Whitcouls. You can only have one desktop app on your computer at a time - either the Whitcouls one or the Kobo one. If you use the kepubs and sync you will need to download the epubs from the other store and use ADE to load them.
When I started buying from kobobooks.com I stopped using any desktop apps as I now have books from Borders, Kobo and Amazon. I load either via Calibre or ADE.
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