Q: if you hit wrong code reader button can it mess up the system?

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i used a code reader provided by an auto parts place without instruction and i think i hit a wrong default button and next day now my battery is dead...i would like to know it removing the positive battery cable will reset the system or do i need to have somone use a code reader again to reset it...i am sure that the code reader somehow did this

My car has 210000 miles.
My car has an automatic transmission.

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