Fosmid End Pairs Track Settings
 
Fosmid End Pairs   (All Mapping and Sequencing tracks)

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Data coordinates converted via liftOver from: Mar. 2006 (NCBI36/hg18)
Data last updated at UCSC: 2010-12-28

Note: lifted from hg18

Description

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 "-".

Note: For hg19 and hg18 assemblies, the Fosmid End Pairs track is a main track under the "Mapping and Sequencing" track category.

On the hg38 assembly, the FOSMID End Pairs track is a subtrack within the Clone Ends track under the "Mapping and Sequencing" track category. Under the list of subtracks on the Clone Ends Track Settings page, the FOSMID End Pairs track is now named "WIBR-2 Fosmid library." With the WIBR-2 Fosmid library track setting on full, individual clone end mapping items are listed in the browser; click into any item to see details from NCBI.

Methods

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.

Credits

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).