This directory contains reciprocal-best netted chains for caeSp111-caePb3.

 - caeSp111.caePb3.rbest.net.gz: caeSp111-referenced recip.best net to caePb3.
 - caeSp111.caePb3.rbest.chain.gz: chains extracted from the recip.best
   net.  These can be passed to the liftOver program to translate coords
   from caeSp111 to caePb3 through the recip.best net.

 - caePb3.caeSp111.rbest.net.gz: caePb3-referenced recip.best net.
 - caePb3.caeSp111.rbest.chain.gz: recip.best "liftOver" chains.

 - axtRBestNet/caeSp111.caePb3.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