Do you have libavcodec-extra installed as suggested by the package?
The description of winff says:
For most presets to work, it is necessary to have the unstripped version of the
libavcodec package, which can be obtained by installing libavcodec-extra as
suggested by this package. It might be necessary to enable additional
repositories to find that package.
** Changed in: winff (Ubuntu)
Status: New => Incomplete
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https://bugs.launchpad.net/bugs/1617914
Title:
Winnff give unkniwn encoder libvo aacenc on yakkety
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