automated delta building.

Deleted unneeded modules.
Added some text.

Don't recognize 'ADD' in apply.pl.

apply.pl:  Program for applying above delta.

... plus README files.

Inserted example use of map at end.

survives filtering.  I don't really want to do this here, but in a
separate script that I can use from my DAS client.  So it's going to
change soon again.  Possibly.

added mRNA to feature table
CDS is now actually CDS when there is UTR
pseudogenes dump as misc_RNA instead of as CDS

Option for keeping pmatch output added (-k).

and target independently.  Nicer output (unsorted though).

Fixed comments, added gap counting.