MakerBot Print is our newest print-prepration software, which supports native CAD files and STL assemblies,
allows you to interact with all your printers via the Cloud, and many other exciting new features.

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Yes, I even tried that but with the same problem. The mesh looks fine in several of programs, but in repetier I can see the problems. This is really strange. Check this thread in a swedish forum, you can see some images from different software here. We are trying to understand why this happens, but no one got a clue...