This directory contains reciprocal-best netted chains for aquChr2-galGal5.

 - aquChr2.galGal5.rbest.net.gz: aquChr2-referenced recip.best net to galGal5.
 - aquChr2.galGal5.rbest.chain.gz: chains extracted from the recip.best
   net.  These can be passed to the liftOver program to translate coords
   from aquChr2 to galGal5 through the recip.best net.

 - galGal5.aquChr2.rbest.net.gz: galGal5-referenced recip.best net.
 - galGal5.aquChr2.rbest.chain.gz: recip.best "liftOver" chains.

 - axtRBestNet/aquChr2.galGal5.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