Short interspersed elements (SINEs) are a major source of canine genomic diversity

Each SINE is defined by a dog breed, a sequence ID, and the start and end coordinates of the core SINE consensus sequence within the sequence ID. For boxer, the sequence IDs and coordinates refer to CanFam1 (http://genome.ucsc.edu). For poodle, they refer to GenBank accessions (http://www.ncbi.nih.gov/Genbank/); for other breeds, they refer to sequences that are available from the NCBI Trace Archive (http://www.ncbi.nlm.nih.gov/Traces/). For boxer SINEs that are absent from the poodle genome, the table lists a homologous poodle sequence ID, and the coordinate where the SINE insertion would be expected. For all SINEs, the coordinates of the insertion and the orientation of the SINE are mapped relative to CanFam1. The complete table of 11,265 SINEs is provided as Supplemental Table S1.