First try this, reboot into recovery, twrp or cwm, and wipe just dalvik and cache but not data. This will force your phone to rebuild its app index and cache and should fix your problem. If that doesn't help see below.
Sounds like you may have deleted the wrong file using TB. You may want to download one of the stock rooted roms either odex or deodex (your choice) and dirty flash it. In other words don't wipe anything but cache and dalvik, don't wipe data. This way the install will replace the files you deleted and you should be up and running.
Phones & Tablets: Galaxy S4, Galaxy Note 8", Evo 4g LTE, Evo 3D, Acer Iconia A500, Samsung Galaxy Tab 2 10.1, Ipad 2, Nabi 2,
Rom: Rooted Stock for now, Hotspot Mod, Xposed, Wanum
Kernel: Stock for now