Perlegen Mouse SNP Browser


Mouse Ancestry Mapper

The ancestral origins of 12 classical inbred strains were mapped to four wild derived strains - WSB/EiJ, PWD/PhJ, CAST/EiJ, and MOLF/EiJ - each representing domesticus, musculus, castaneus, and molossinus strains using Hidden Markov Models (HMM). Please contact Hyun Min Kang (hmkang at cs dot ucla dot edu) for the questions.

Select the color of strains you want to visualize for each ancestral strains



Mouse Haplotype Block Viewer

Haplotype blocks of 16 inbred mouse strains (including wild-derived strains) were predicted by mering the results from pairwise Hidden Markov Models (HMM) with stringent threshold of being IBD regions. The IBD regions will be greedily visualized with respect to the priorities of strains. Click here to see the summary of the block paritions

Select the strains you want to visualize in the order of priority

Strain 1
Strain 2
Strain 3
Strain 4
Strain 5
Strain 6
Strain 7
Strain 8
Strain 9
Strain 10
Strain 11
Strain 12
Strain 13
Strain 14
Strain 15
Strain 16