This directory contains reciprocal-best netted chains for mm39-oryCun2. - mm39.oryCun2.rbest.net.gz: mm39-referenced recip.best net to oryCun2. - mm39.oryCun2.rbest.chain.gz: chains extracted from the recip.best net. These can be passed to the liftOver program to translate coords from mm39 to oryCun2 through the recip.best net. - oryCun2.mm39.rbest.net.gz: oryCun2-referenced recip.best net. - oryCun2.mm39.rbest.chain.gz: recip.best "liftOver" chains. - axtRBestNet/*.mm39.oryCun2.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