Nand chips are different then other memory due to presence of bad blocks. Getting different checksum for two chips with same functionality is normal in case of Nand chips. Pls copy your master read file to a blank chip in hard copy mode. Just make sure that your blank chip does not have any bad block. This way your blank chip will be exact replica of master chip.
Duplicating Nand Chips
http://www.xeltek.com/duplicating-nand-chips-on-superpro-6100
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