Fix zipalign alignment error

Problem: Zipalign operates over several false assumptions. First it
assumes that zip entries are in the same order in the body and in
the Central Direcotry. Second, it assumes there are not space
between entries. This makes alignment incorrect when these asserts
are not true.

Solution: Don't align entries by tracking bias based on input zip
entry location. Calculate the expected alignment based on the out-
put zip file and correct with extra padding.

Fixes: 162117652
Test: Units Tests
Change-Id: Ia179338f658cab18a377cba2c7c8e629089a2785