A valid pair of fosmid end sequences must be at least 30 kb but no more than 50 kb away from each other. The orientation of the first fosmid end sequence must be "+" and the orientation of the second fosmid end sequence must be "-".
End sequences were trimmed at the NCBI using ssahaCLIP written by Jim Mullikin. Trimmed fosmid end sequences were placed on the assembled sequence using Jim Kent's blat program.
Sequencing of the fosmid ends was done at the Eli & Edythe L. Broad Institute of MIT and Harvard University. Clones are available through the BACPAC Resources Center at Children's Hospital Oakland Research Institute (CHORI).