No headers on output

[danielmarrama]

From @khaeuk: "It will be better to have header for the output, so that it's clear to the users.
(I think it's suppose to be 'input sequence', 'matching sequence', and 'score')"

From me: I know this is because of the process_output.py script, but maybe the user just wants initial output so adding headers would be good?

[acrinklaw]

This was also brought up by Scott, +1 definitely should add. Or just remove the need by unifying the 2 scripts