Xinxian Deng, Wenxiu Ma, Vijay Ramani, Andrew Hill, Fan Yang, Ferhat Ay, Joel B Berletch, Carl Anthony Blau, Jay Shendure, Zhijun Duan, William S Noble, Christine M DistecheGenome Biology 16(1):152, 2015
The gzipped L1.gz files contain 11 columns. Each row is for a mapped read pair. The columns are read-id, read1-strand, read1-chr, read1-pos, read1-allele, read1-seq, read2-strand, read2-chr, read2-pos, read2-allele, read2-seq. The ref allele is BL6; the alt allele is patski; and the both-ref allele is for ambiguous read.
|experiment||cell||biological replicate||raw sequencing|
We first obtained the structures at 1 Mb resolution using PASTIS. Then we refined the resolution using quadratic Bezier curve fitting. The following files are the resulting structures at 10Kb resolution:
In these files,
The pseudo-Spretus genome was built by substituting known SNPs (from the Sanger Institute) into the Black6/mm9 reference genome.