Windows key under X: = super or hyper+super?

[Will Parsons]

I'd like to use the "Windows" keys as super key modifiers in Emacs under X,
but on a FreeBSD system with Xorg 6.9, Emacs sees the Windows keys as being
a super+hyper combination, i.e., if I type "C-h k <Windows>-a", I see
"H-s-a is undefined".  But this seems to be contradicted by the evidence of
xkeycaps and xmodmap.  xkeycaps shows the left windows key as being KeyCode
115 and KeySym Super_L, and this is confirmed by the output of
"xmodmap -pk".  So, if X thinks that the Windows keys are super modifier
keys, where is Emacs interpreting them as hyper + super?

-- 
Will