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That so many sequences contained sequencing errors in the primers (n = 377) was surprising, and warranted further investigation.
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Both dementia patients contained numerous intra-tissue recombinants with many sequences containing multiple breakpoints along gp120.
Many sequences containing GGCCCA in the center of an octamer were found in REG group of both Arabidopsis and rice (Table 4).
However, many of these putative PhoP-binding sites are likely to be false positives because many sequences containing the putative binding sites did not bind PhoP when they were assayed by ITC (Table S1 of the Supporting Information).
Furthermore, the short lifespan of LTR retrotransposons might explain why many sequences containing non-collinear genes might have lost the sequence motifs associated with retroelements from their flanking regions.
It is stated on the DMT Pfam entry (CL0184) that many sequences contain a characteristic glycine-rich motif in the C-terminal sequence, but we have reported a more detailed characterization of this feature.
Since many test sequences contained multiple overlapping exons, one exon was chosen at random and used as input.
Many of the sequences contained multiple breakpoints so that the number of breakpoints on each graph is typically larger than the number of recombinant sequences listed in Tables 1 7.
Because many of these sequences contained domains other than the identifying domain, the final RPD2 library contains 1837 families ranging in membership from 7063 examples of the domain to 1.
Manual inspection revealed that many of these sequences contained the putative UGUAA poly(A) signal, and indeed we detected the UGUAA motif between -10 and -30 from the CS in about 50% of the sequences.
A BLASTn search for human expressed sequence tags (ESTs) (in the EST database, dbEST, Sept 2007 release) using an artificial composite transcript sequence (exons 8-9-10-11b-12-13-14-15) revealed, surprisingly, many more sequences containing exon 11b than containing exon 12 and/or 13.
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