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Example sentences for: tsd

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In addition, the algorithm for TSD recognition allowed detection of both 'standard' insertion events (in which the 3' TSD immediately follows the poly(A) tract associated with the retrotransposon) and putative 3' transduction events (in which the 3' TSD follows a poly(A) tail further downstream from the 3' end of the retrotransposon) (Figure 1b).
The longest TSD found was 60 nucleotides even after we relaxed and extended the TSDfinder parameters to enable the identification of long TSDs.
The classification of an L1 insertion as an L1-TD was only allowed when a 3' TSD closer to the L1, indicating a standard insertion event, could not be found (see [ 23 37 38 ] ). The coordinates of the candidate transduced regions (the gi record and the begin and end coordinates) were stored for later analysis.
One of the families was eliminated because both L1 elements were full length, yet one of them had a 131-nucleotide insertion in its 5' UTR and the other did not, indicating that these L1s were not directly related [ 23 56 ] . Finally, for nine families, although alignment of 3'-transduced sequence with a family member was clearly delineated by the 3' TSD, we found sequence duplication in the 5' flank of the L1s.
Monte Carlo simulation of TSD nucleotide composition was carried out using an array of 100 nucleotides with the same composition as the human genome (41% GC, 59% AT) [ 1] to generate 1,800 15-nucleotide random sequences.