Will I receive my total st of ct refund (1231)now that my federal was paid by direct debit, not taken out of my st refund as requested?

My initial intent was to have my fed 725 deducted from my st of ct 1231 refund, leaving 506 (1241-725), however my fed was paid directly from checking account and not from my state refund. TurboTax still shows my refund as 506, not the 1231 owed me.