How do your apt config folders look like?
$ ls -la /etc/apt/apt.conf.d/
00aptitude 01autoremove-kernels 15update-stamp 70debconf
00trustcdrom 01-vendor-ubuntu 20archive
01autoremove 10periodic 50unattended-upgrades
$ ls -la /etc/apt/preferences.d/
drwxr-xr-x 2 root root 4096 Apr 14 2016 .
drwxr-xr-x 6 root root 4096 Mar 6 03:45 ..
Do you have special (maybe unwanted) files (for example for pinning) in
Do you notice a difference if using apt instead of apt-get?
sudo apt update
apt list --upgradable
and then maybe:
sudo apt upgrade
sudo apt full-upgrade
Btw. In your sources.list you have lot's of deb-src lines active - in
case you don't do development based on the package sources you should
consider to disable them (comment out).
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apt-get update doesn't get new packages
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