Check ISBN only checks books that have a value in the ISBN, so for your own books you should not have anything in that field?
As for ASIN, maybe Kovid will correct me if wrong but I believe that once the new metadata API is finished in Calibre 0.8 that ASIN will be retrieved and stored in a separate ASIN identifier field. So Quality Check will be correct in flagging ASIN values that are in ISBN as these should be "moved" into the new proper place.
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