I'm guessing the jumper setting on the driver for the Z-axis is not set correctly.
From http://wiki.ultimaker.com/Electronics_build_guide
"Check if all jumpers are in the 'closed' position on the MS1,2,3 inputs on the PCB. There is one exception, the Z-axis will be configured to 1/8th step, by not connecting the third jumper below this stepper motor driver. So: MS3 of Z should be open."
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gr5 2,266
Very strange! Probably 4X taller? Check the jumpers for the Z driver. You can see them in the assembly instructions picture. If the jumper is touching only one pin then it is equivalent to being removed as it isn't conducting:
Click the above photo to zoom. Then you can zoom in more by right clicking and do "show image". Then you can zoom in more by clicking it a third time.
The circled jumper in the above photo should be the only Z jumper not installed (or installed only touching one pin). Also I think to the right it might tell you the setting based on which jumpers are installed.
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