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MClip

Find motifs in unaligned sequences based on cliques of profile-profile matches. short help , Mclip download , Mmatch download , further information

Parameters
Paste FASTA sequences (minimum of 2, maximum of 50.000 charachters):
Or upload a file (max: 50.000 characters):
Search both strands: Allow end-gaps in motif matching: E-value cutoff:	Min. motif length: Min. motif number: Min. motif coverage:
Sequence-Sequence alignment parameters
Residue alignment scores: Estimate from input: User defined: Gap open penalty: Gap extend penalty: Min. alignment length: Min. alignment score:	User defined: A C G T A C G T Frequencies:
Profile-Profile alignment parameters
Min. profile-profile score: Iterate: Min. profile number: Pseudocounts: