Matrix Alignment and COparison
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INPUT Consensus Sequence:
Warning: Please limit sequence length. Long sequences take time!
Choose format: Choose sequence format, raw sequence or in fasta format.

Paste sequence(s):

Load Consensus Sequence(s)

Paste sequence(s) here.

General Parameters
Scoring method: Choose scoring method. Must be above 3.0
Cutoff: Choose Cutoff value. PFM that scores lower than cutoff is discarded. Must be above 3
Min. Core Length: The minimum length of core overlap.
Min. Subcore Length: The minimum length of overlaps flanking the core overlap. Must be above 2.
Spacer Limit: The maxium shift of sub overlaps. Must be above 0.
Reverse Complement? If checked, perform reverse complement comparison.

Interface and CGI developed by G.Su. Email!