You can uninstall or removes an installed libflatpak-dev package itself from Ubuntu 16.10 (Yakkety Yak) through the terminal,
$ sudo apt-get remove libflatpak-dev
If you would like to remove libflatpak-dev and it's dependent packages which are no longer needed from Ubuntu,
$ sudo apt-get remove --auto-remove libflatpak-dev
If you use with purge options to libflatpak-dev package all the configuration and dependent packages will be removed.
$ sudo apt-get purge libflatpak-dev
If you use purge options along with auto remove, will be removed everything regarding the package, It's really useful when you want to reinstall again.
$ sudo apt-get purge --auto-remove libflatpak-dev
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