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For the repeat composition analysis, we used reference based (RepeatMasker ver. 4.0.7 and RepBase (14,031) library; Institute for System Biology) and de novo based (RepeatModeler, ver. 1.0.8; Institute for System Biology) methods, and the results were combined.
It and other cat genomes were found to have similar repeat composition and an appreciably conserved synteny.
For fruit fly, a 7.54% repeat composition in large introns jumped to 26.75% in intergenic regions (large retroviruses such as the ROO element appear in intergenic regions).
The repeat composition for the predicted stems of beetle large intron fragments (data not shown) reveals that over 90% of the stems are not associated with any known repeats.
As shown in Figure 3, the repeat composition of C14MC approximated the expected situation of the whole genome, (equal amounts of LINE and SINE integrations on the plus and minus strand).
Substitutions affected the exome independent of repeat composition.
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Leishmania genomes are varying greatly in microsatellite repeat compositions, diversity and distribution.
It also shows that although the D. mojavensis and D. grimshawi F elements have similar total repeat densities, they have strikingly different repeat compositions.
However, the D. mojavensis and D. grimshawi F elements have different repeat compositions: most of the repeats in the D. mojavensis F element (~75%) are transposons whereas more of the repeats (~39%) in the D. grimshawi F element are simple and low complexity repeats.
We observed 7, 3, 2, 6 and 5 new alleles, respectively in DYS389 II, DYS390, DYS437, DYS448 and DYS635 due to the presence of sub-repeat composition differences, and a new allele in DYS438 because of nucleotide substitution.
Then, for every, where denotes the -times repeated composition of with itself.
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