What is the relationship of primary windings of a transformer to the secondary windings regarding output and input voltage?

The phase relationship between the primary voltage and the secondary voltage of a transformer is 180 degrees (typically) on single phase Transformers.

If working with three phase transformers, a zero phase shift is often used in Y/Y grounded transformers. If the transformer is wired Delta / Wye, the phase shift will be 30 degrees. I've seen transformers with a phase shift of 150 as well (quite abnormal, but it exists!) due to the starring and a delta / wye configuration.

If you are looking at a transformer phasor diagram, this will show the phase shift between primary or secondary (three phase transformers). For single phase, there should be a drawing showing polarity markings - what goes in the polarity marking on the primary comes out on the secondary polarity marking.