The game publisher said it will investigate the matter, but it's not the first time that Ubisoft has distributed illegal versions of its own software:
Exactly why Ubisoft included an illegally ripped version of the soundtrack in the Digital Deluxe package, rather than the official copies, is unclear. Ubisoft has told Eurogamer that it is now investigating the matter.Source: Bit Tech
This isn't the first time that Ubisoft has distributed illegal versions of its own software, however. Back in 2008 Ubisoft released a patch for Tom Clancy's Rainbow Six: Vegas 2 which allowed players to run the game without the CD in the drive. PC gamers quickly discovered, however, that the patch was actually just an existing NO-CD hack by pirate group Reloaded.