This directory contains reciprocal-best netted chains for regenRn1-macFas5.

 - regenRn1.macFas5.rbest.net.gz: regenRn1-referenced recip.best net to macFas5.
 - regenRn1.macFas5.rbest.chain.gz: chains extracted from the recip.best
   net.  These can be passed to the liftOver program to translate coords
   from regenRn1 to macFas5 through the recip.best net.

 - macFas5.regenRn1.rbest.net.gz: macFas5-referenced recip.best net.
 - macFas5.regenRn1.rbest.chain.gz: recip.best "liftOver" chains.

 - axtRBestNet/*.regenRn1.macFas5.net.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