Thanks for your bugreport.
Can you please attach the output of:
$ ls -l /var/lib/apt/periodic
and
$ cat /etc/apt/apt.conf.d/15update-stamp
** Changed in: update-manager (Ubuntu)
Status: New => Incomplete
--
Update manager shows warning that system was not updated for a long time (not
true)
https://bugs.launchpad.net/bugs/188127
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