The USB cables plug into standard 9-pin USB headers, usually blue but sometimes yellow.

[size=10px]Blue USB Headers[/size]
Each header has 2 sets of 4 pins; Voltage, Data In/Out and Ground. The 9th pin is for cable shielding, and not necessary.
The wiring order is (starting furtherest from the single 9th pin)
VCC, 2-D, 2+D, GND
VCC, 1-D, 1+D, GND
The GND (Ground) connect closest to the 9th/d pin. It doesn't matter which VCC or GND you use for those pins, neither does it matter whether port 1 or 2 are above or bellow. You need to make doubley sure that the GND and VCC pins are theÂÂ! correct way around, or you will kill any USB device plugged in. If - and + are the wrong way around, it will simply not work.
Audio headers are a little more tricky, and for a host of reasons, I don't recommend connecting them.