Long Term Capital Gains

When filling out the info for Short and Long Term Capital Gains, it looks like the program doesn't differentiate between the 2 and just adds both gains together and then the value is inserted on the 1040 Form, Line 6 taken from Schedule D. The tax rates, as I understand it, are different for long term and short yet it appears from the program that I am being taxed at my income rate instead of the long term rate for the long term gains.Iis that right?