Minor changes to the operation of NextGenSeq.
The refrence seqence is now used to find the best open reading frame in
the experimental seqence. Frist the refrence seqence is autophased using
the his tag key. The best open reading frame is taken and then randomly
parsed into 4x 6 AA long fragments. These fragments are then used to
autophase the experimental seqence. If none of the four fragments match
exactly the best open reading frame is used.