1040-V for amended return

After submitting my federal return, I set-up an auto-payment for April.  Then, I amended my federal return and got a Form 1040-V payment voucher with the amount I owed the IRS (which Turbo Tax noted that I need to send to complete my amended tax return).  But, I'm worried about double paying if I send a payment with the 1040-V, and then my auto-payment in April still happens.