After you file

I just e-filed my amended return to the federal government & NY, for which the amount I owe to the federal government went down and my state refund went up. TurboTax told me to send in a 1040-V payment voucher, even though I provided by routing number when I initially filed my returns & when I filed the amended return. Am I just supposed to send the payment voucher without a check or am I supposed to send a check? If the latter, how do I know the IRS won't take money out of my account after I paid via check?