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Comparison of the determined sequence with those in the GenBank/EMBL database was made using the online tool BLAST programme [29].
In addition, N-terminal sequences of the purified protein were determined by Edman degradation from the first residue to position 15 which found the determined sequence to be identical to the designed sequence.
In several cases, the determination of a cell (lysate from certain well in a 96-well plate) yielded a sequence different from the aggregate sequence of single cells from the same sample by many homoplasmic mutations, and the sequence variation of this mtDNA type was directly read from the determined sequence.
Undetermined nucleotides (designated N) in either the determined sequence or the reference sequence were counted as matches.
The determined sequence motif is identical with the bacterial consensus sequence AGGAGG [ 57] and was found in 21.9% of the upstream regions.
In order to better define the genomic structure of the sheep TRA/TRD locus, the determined sequence of the chromosome 7 genomic scaffold was aligned with the human counterpart, using the PipMaker program, and the alignment expressed as a dot-plot sequence comparison graph (Fig. 5).
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The determined sequences were accumulated, trimmed, aligned, and assembled using the Phred-Phrap (Phil Green, University of Washington, Seattle, WA, USA) and Consed programs [52].
From the determined sequences, the occurrence of 189 species of zooplankton was estimated.
The determined sequences were compared with the sequences of other Gram-negative species available in the GenBank database, by using the FASTA program (http://www.ebi.ac.uk/fasta33).ac.uk/fasta33
The amino acid sequences of three fragments were analyzed and the determined sequences were as follows: L1, LFPNTDIPGNDFLNLPAASPEHXQTMXFAHPLXTYVSFD; L2, QANVVSGFFQNAQITQFFN and L3, FSWAIP MIP TVLK.
These regions were then sequenced, and the sequences were compiled with the previously determined sequences.
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