Files and subdirectories in this directory:

curr/
   symbolic links to current versions of files in this directory

fpc/
   FPC results from two FPC runs of tomato BACs: an earlier
   one done at Arizona and a later one done at Sanger.

overgo/
   results from overgo hybridization analyses done in 2004.  See the
   readme file in that directory for details.

old/
   obsolete files

physical_mapping_summary.v<number>.tar.gz

   Tab-separated file summarizing currently known tomato BAC physical
   mapping data possessed by SGN.  Currently, only tomato BAC data is
   included in this file.  Each line represents a piece of physical
   mapping data about a tomato clone.  Note that each clone may have
   multiple lines, each being a result from a different physical
   mapping method.  Columns are:


   Clone ID   - the SGN clone serial number
   Clone Name - the text name of the tomato BAC or fosmid clone
   Method     - the experimental method by which this data point was
                generated
   Marker     - the genetic marker name associated with this data point,
                if applicable
   Map        - the genetic map name associated with this data point,
                if applicable
   Chromosome - the chromosome number associated with this data point,
                if applicable
   Position   - the position on the chromosome, if applicable


   Details of some of the methods:

   BLAST_vs_marker_seqs
     These are derived from BLAST alignments of SGN marker sequences
     to sequenced tomato BACs.  These results correspond to the 'SGN
     Markers' track in the tomato genome preliminary annotations
     browser:
     http://sgn.cornell.edu/gbrowse/gbrowse/tomato_bacs/?help=citations#GT_align_SGN_markers

   FISH
     These are results from fluorescent in-situ hybridization
     experiments conducted using fluorescently labeled BACs as probes,
     hybridizing to tomato pachytene chromatin.  All of the FISH
     results submitted to SGN so far are from the lab of Stephen
     Stack at Colorado University.

   IL mapping
     These are localizations of BACs to the Zamir tomato introgression
     lines, see http://sgn.cornell.edu/cview/map.pl?map_id=il6 .

   Overgo
     This is a series of oligo hybridization experiments conducted in
     2002 to associate BACs with markers.  See
     http://sgn.cornell.edu/maps/physical/overgo_process_explained.pl
     for details.

   Sanger FPC
     This is an FPC contig build conducted at the Wellcome Trust
     Sanger Institute, including the tomato HindIII, EcoRI, and MboI
     clone libraries.