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autosome
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MACRO-APE
Compare two motifs
Find similar motif
Description
PERFECTOS-APE
rSNP TFBS annotation
Description
ChIPMunk
Motif discovery
Dinucleotide motif discovery
Description
Databases
HOCOMOCO – collection of TFBS motifs
EpiFactors – database for epigenetic regulators
ADASTRA – database of allele-specific TF binding sites
Contacts
Ticket number:
Toy examples for the
simple
,
weighted
,
peak
data sets.
Mode:
Simple
Peak
Weighted
Single strand (RNA)
Paste a list of sequences in a textarea or select a file with sequences to scan
Sequence set in extended multi-fasta format:
> 1 example data: 48 Drosophila bicoid footprints CCGATCGAAGGGATTATAATTCC > 2 GTACTAATTAAGCATGGCTCAAG > 3 TGGGCGGATTTGCATATGG > 4 GCGTCGGATTTGCAGCCAT > 5 TGGCCAAAGGATTTGTCCGTGGG > 6 TTTCCTCCGGCTTATCGAAGAT > 7 ATTGCAAGCCGTTTTTCAGGGG > 8 GCCGTGTTAATCCGTTTGC > 9 TCAGCGAGATTATTAGTCA > 10 TGGACTATAATCGCACAAC > 11 TTGCTGGGATTAGCCAAGG > 12 ATGTCGAAGGGATTAGGGGCG > 13 CCTACCTTCAGAAACGGATTAAATTTTTTCAGAC > 14 AGACAAATAATCCAGCCTTAAGCATGGTGATTAAGCTTGATCCC > 15 ATATTGACGGATTTTCCTTAAATCCCTCTGTTAATCTCCGGCTTAGAGCGCGAC > 16 AACTGAACTAAATCCGGCTTAGGATTCTTGCGTCA > 17 AACCAGTCAATCTGGACTA > 18 CTATCAAGATTAAAAGATT > 19 GACTAATGATCAACTTTAA > 20 CCACCTTTAGCCTTGACAA > 21 CCTTGACAAATCGCCGTGG > 22 CTCTACTTAAGCCGAAAAA > 23 AAAGCAAGACTAATTTTTA > 24 GTTTTTTAAGCCTTTCT > 25 GGCAAAAGGCTTAAAAAACA > 26 CCAAAAAGTCAAATGCG > 27 CTAGGATAATCTGCAGCTTAGGTAAGCTGATCCCGCGATTAGGTAACG > 28 GTAACGAAATCGCTGGCTTAGGTACCC > 29 ACGCGTCAAGGGATTAGATGGGC > 30 CACGGATCGCGGATTGAGGATTGC > 31 ATCCATTCTGGATTAGAGCAGAAA > 32 ACAAAAAATTATGCGC > 33 GGATTTGGATGATCCGGGA > 34 CCGGGAGCTTAGCGGATGG > 35 TGGCCAGCTTAGCAGCGAG > 36 GGTTTTCTATGGGGATTACGTTGGT > 37 GAGTACTTGGGATTAAAGGTGATTATGACA > 38 ATCAGTCATCAGATTAGCATGAA > 39 TTGTATTTAAATCCGTTTTGATCCTC > 40 GTTTGTGGCTTAACTTTTGCCTCT > 41 TCTAAAATCCGTAATCTGCTTAAGC > 42 AGCGGCGAGCTTAAGTCGAGGAATC > 43 GGACCAAGCGAGATTAGAGGCACTG > 44 CACTTGAATCCTAAAGGCTCTCAAA > 45 AGGCAACGCCTAATCTGGCTCAGCC > 46 TACTTTAAAATAATTTTATTTATTA > 47 TTATAAAAATTATTATTAAAAACGCAATCTGAGCTCCGC > 48 CTAAGAAATGCAAATATTTGTTTTTTATTT
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Speed mode:
Fast
Precise
Minimal motif length:
Maximal motif length:
Occurences per sequence:
OOPS
ZOOPS
Motif shape prior:
flat
single
double
Background dinucleotide composition:
Uniform
Auto-detect
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De novo dinucleotide motif discovery in nucleotide sequences.
Click a field in the form on the left to get a hint