If you are referring to a Form 1099-R, you should report the gross distribution amount in box 1. Box 2 is where the taxable amount goes.
Once the program calculates your taxable amount, it will show on either line 4b or 5b on your Form 1040 depending if it's an IRA or pension. If it is not taxable, it will shows on line 4a and 5a for reporting purposes.
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