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Figure 4 | Genome Biology

Figure 4

From: Species-wide distribution of highly polymorphic minisatellite markers suggests past and present genetic exchanges among house mouse subspecies

Figure 4

Maps of the internal structure of variant repeats for mouse minisatellite MMS30. For this locus, the alignments of domesticus haplotypes also comprise 4 CAS/CEN haplotypes. These castaneus and central haplotypes are clearly more similar to the domesticus alleles than to the group of CAS/CEN alleles in the top multiple alignment. The sequence motifs shared between these introgressed CAS/CEN haplotypes and the domesticus and/or the musculus haplotypes are shown in bold in a few maps. Groups of similar haplotypes were chosen arbitrarily for the purpose of illustrating the maps' complexity. The groups correspond to clades in the trees of Figure 7. Their maps were aligned with the multiple alignment procedure MS_Alimul (E Rivals, unpublished) and the alignments edited manually. Under an alignment column, an asterisk indicates a complete conservation, while a period means that 60% of the variants in the column are identical. The alignments show which type of mutations occur between alleles, and where corresponding differences are located in the maps. For comparison, we also display for each locus one of the shortest and one of the longest or most complex alleles. Color code: spretus, orange; domesticus, blue; castaneus/cen, red; musculus, green.

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