She said overseas research had found the pay gap between men and women was higher at higher incomes, partly because minimum wage laws forced more equal pay at low incomes while a "glass ceiling" often excluded women from top jobs.
"There is a common thing that women don't put their hand up [for pay rises], but there is also an element that it could be discrimination."
The study found that the gender gap in average hourly earnings narrowed from about 18 per cent in the early 1990s. The gap has widened again was 13.3 per cent at the end 2015.
Coalition for Equal Value Equal Pay economist Prue Hyman said the finding that about two-thirds of the gender pay gap was unexplained was higher than in many overseas studies.
But she said it might be partly because the study used only the broadest breakdown of industries and occupations.
NZ Initiative economist Dr Eric Crampton said the study did not look at pay differences between qualifications in different subjects.
E Tu union official John Ryall said a working party led by Governor-General-designate Dame Patsy Reddy was due to report to ministers on principles to be used by the Employment Court to determine cases such as a claim by caregiver Kristine Bartlett that she is underpaid because she works in a female-dominated industry.