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SNPs were discovered in the Monodelphis domestica genome sequence (monDom4 - Jan 2006) as a standard part of the genome assembly process. Such SNPs represent cases where the sequenced individual I1438 (SFBR Population 1) was heterozygous. Assembly SNPs were only called within certified sequences, and if each allele was observed at least twice, implying that ≥4 separate shotgun reads aligned to the base containing the putative SNP.

Additional SNPs were discovered by low-coverage shotgun sequencing of three stocks frequently used in laboratory research: B5539 (SFBR Population 1; 104,042 passing reads), D3508 (SFBR Population 2; 100,000 reads), and C5181 (SFBR Population 5; 99,212 reads). Reads were placed on the MonDom4 assembly and SNPs were discovered using SSAHA-SNP.

The files provided include 1,284,726 SNPs in total distributed across chromosomes 1-8 and X. Numbers in the file names denote position on this assembly.

http://www.broad.mit.edu/pub/monodelphis_snp_release/