Assuming this report is accurate, at least it makes a little sense now. Hermaphrodites are apparently not that rare. She probably never knew, which is why there was no attempt made to feminize her appearance, as has been the case with so many other athletes who presumably were suffering the secondary effects of the use of performance enhancing drugs. It will be interesting to see what happens with her medals and the future of her competitive career.
According to the Science of Sport, "Even if all this were true, it still does not necessarily mean that she will be disqualified from future events. There are conditions which are allowable,
which would see Semenya being able to compete after surgery (the
surgery, by the way, is for health reasons. If you have internal
testes, then they can become cancerous, and so must be removed).