Porcine Genome Sequencing Project
---------------------------------

This release features the preliminary assemblies for the chromosomes
4, 7, 14 and 17 of the pig genome, Sus scrofa.  Using the integrated
highly contiguous physical map of the pig genome (Humphray et al under
review) as a template for sequencing, the International Swine Genome
Sequencing Consortium (http://www.piggenome.org/index.php
/http://www.sanger.ac.uk/Projects/S_scrofa/) has secured first phase
funding from the USDA
(http://www.sanger.ac.uk/Info/Press/2006/060116.shtml) to achieve a
draft 4x sequence depth across the genome through a minimal tilepath
BAC by BAC approach.  The map is localised to the genome through the
integration of the UIUC RH markers, the tilepath is being selected
from the CH-242 library generated from a single Duroc sow
(http://www.sanger.ac.uk/Projects/S_scrofa/library_details.shtml#CHORI242).

For more details visit the pre-ensembl pages (http://pre.ensembl.org/S_scrofa).

This directory contains the files:

- sus_scrofa_chr_4_7_14_17.pgp

  AGP file with details of the placement for each clone contig in the
  released assembled sequence. The name for every contig consists of
  the accession number followed by the fragment name as appeared in the
  EMBL/Genbank entry. For example

    CT956081.2_00496

    CT956081.2 is the accession and version, and 00496 contig name.

- Sus_scrofa.Sscrofa2.43.dna.chromosome.14.fa.gz
- Sus_scrofa.Sscrofa2.43.dna.chromosome.17.fa.gz
- Sus_scrofa.Sscrofa2.43.dna.chromosome.4.fa.gz
- Sus_scrofa.Sscrofa2.43.dna.chromosome.7.fa.gz

  Chromosome DNA sequence.

- Sus_scrofa.Sscrofa2.43.dna.seqlevel.fa.gz

  Contig by contig DNA sequence

- Sus_scrofa.Sscrofa2.43.dna_rm.seqlevel.fa.gz

  Repeat masked Contig by contig DNA sequence