Nonrandom distribution of repeated DNA sequences with respect to supercoiled loops and the nuclear matrix.

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Abstract
The DNA in a eukaryotic nucleus is arranged into a series of supercoiled loops anchored at their bases to the nuclear matrix. The DNA sequences that are closest to the matrix attachment points were analyzed for their relative content of specific repeated sequences. Sequences were enriched (mouse satellite, human Alu family) or depleted (mouse EcoRI repeat, monkey .alpha. component), depending on the specific sequence and species examined. These results can be understood in terms of a nonrandom arrangement of DNA sequences with respect to nuclear DNA loops.