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The first approach is straightforward and is based on comparing sequence data against a database of known TF motifs.
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The discovery of duplicons was based on comparing sequences of known SDs.
In preparation for the merger of the datasets, the CS tissue-specific sequences were analyzed for uniqueness based on comparing each sequence to every other sequence and discarding all shorter sequences for each exact match.
These analyses were based on comparing the sequence differences in a single region of ribosomal DNA; more recent molecular analyses typically combine the analysis of several genes to increase the validity of inferences drawn.
Using molecular analysis based on comparing DNA sequences of the internal transcribed spacer region, mycologist Else Vellinga determined that despite the lack of distinguishing micro-morphological characteristics, the two species were distinct.
Because the identification scheme used was based on comparing the sequences generated on the array to database entries, this information could be integrated into the final identification.
The method is based on comparing query sequences to homologs for which the position of the active site has been annotated.
Thus our 'claim' was based on comparing the Giardia sequence to 19 other sequences which have been previously cited in literature.
However, the initial filtering of annotated sequences was based on comparing the coordinates of the sequences as appears in GeneDB.
Although these two isolates are distinguished by numerous other synonymous and nonsynonymous polymorphisms (15 ), these organisms are closely related, which has implications for genetic variation based on comparing the two complete genome sequences (14, 29 ).
Phylogenetic analysis based on comparing the complete 18S rRNA gene sequence of EU1 derived from humans and ticks with other babesial parasites showed that EU1 is more closely related to B. odocoilei than B. divergens (4).
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