The non-deductible basis of my IRA changes even though my RMD is taken only from my rollover IRA. Should the basis of the non-deductible IRA change in this case?

I have an IRA account that has deductible and non-deductible contributions. The non-deductible basis is $14000.
 I also have a rollover IRA with deductible contributions
When I took my RMD I withdrew the funds entirely from the rollover IRA. It seems that all of this RMD should be taxable.
It seems that the non-deductible basis for next year should remain at $14000 since none of the  RMD came from the IRA.
 Turbotax combines the year end totals for the IRA and rollover IRA and treats the RMD as being withdrawn from the combination reducing the basis from the initial $14000.
Is this correct?