Exact(1)
RASE is the method most specifically designed for AS analysis, but its web interface only works with human genes and requires time-consuming manual input of sequences.
Similar(7)
The input of sequence requires FASTA manner entry where the first line starts with ">" followed by "AT" and accession ID or numeric digits to identify the sequence, without any gap, followed by next line having the sequence.
MEME uses the method of Bailey and Elkan to identify likely motifs within the input set of sequences [6].
The occurrences of each selected motif in the input set of sequences were picked using the 'locator' program.
The input set of sequences was divided into 4 groups (IPCS, SMS, SPL and SPT) containing 34, 20, 40 and 78 sequences respectively.
This reflects the consistency criterion built into the binding matrix definition; a larger input set of sequences generally tended to reduce the stringency of the classifier.
The settings of PUZZLEBOOT were the same as those used for PROML, except that no global rearrangements and randomized input order of sequences are available in this program.
In [ 54], an algorithm to extract a certain kind of local matching patterns all along the input pair of sequences is proposed.
Related(1)
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