This directory contains reciprocal-best netted chains for fr3-danRer10.

 - fr3.danRer10.rbest.net.gz: fr3-referenced recip.best net to danRer10.
 - fr3.danRer10.rbest.chain.gz: chains extracted from the recip.best
   net.  These can be passed to the liftOver program to translate coords
   from fr3 to danRer10 through the recip.best net.

 - danRer10.fr3.rbest.net.gz: danRer10-referenced recip.best net.
 - danRer10.fr3.rbest.chain.gz: recip.best "liftOver" chains.

 - axtRBestNet/fr3.danRer10.rbest.axt.gz reciprocal best alignments in
   AXT format

See also, description of AXT format::
    http://genome.ucsc.edu/goldenPath/help/axt.html
description of CHAIN format:
    http://genome.ucsc.edu/goldenPath/help/chain.html
description of NET format:
    http://genome.ucsc.edu/goldenPath/help/net.html