When you import or create a skeleton, you need to fit it to your mesh. The joint Box is the tool you need in this situation.
Run it from the KarmaBuilder
at the top right you have three icons/options :
The window can be docked as you want
For all this window, when you want to confirm an action on joints, the ‘selected joints’ mean :
the direct selection if you hit the choosen confirm action
the hierarchy above if you hit shift
the inbetween 2 selected if you hit control
Simple clic
hit shift
hit control
This tab is where you manage the individual orientation of selected joints.