Find unique regions in DNA sequencesadnan@genetics.med.harvard.edu

File of sequences to process (*)  
Compare sequences within this file? 
Which strand(s)?    both    forward only    opposite only

Compare sequences above with background sequences in another file? 
File of background sequences (*)  
Which strand(s)?    both    forward only    opposite only
Skip matches if headers are identical?

Minimum match length
Keep  bases on each side of unique fragments, if available.

* File(s) must be in FASTA format but can be gzipped (extension must be ".gz").