That would certainly qualify as a mistake in a repo-supplied version of qt5, I think. If they needed to move it after compilation, they should at least be able to provide a qt.conf file to make sure that the qmake -query functionality reports accurate locations.
I use qmake -query to determine the installed locations of the qt libs/plugins/translations on Linux and Windows Sigil builds (Linux primarily for configuring the launch script in question), and this is the first time anyone has reported a failure of this kind with a repo-installed version of qt5 on Linux.
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