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Finding de-novo DNA motif sequences

This tool will help you detect new unknown DNA motifs that may be present in your input sequences.

Information about your data
  • Please enter your DNA sequences in FASTA format *(required).
    The number of sequences must be between 5 and 5000. The length of each sequence must be between 15 and 1000 DNA letters. Click here for an example. If your data is protein sequences, please submit to the protein motif form at Finding de-novo protein motif sequences. If your data is DNA sequneses, you can easily copy and paste your data into the following text box.

  • The percentage of DNA sequences containing motifs *(required):

  • Please let us know about the form of motifs *(required):
    Single-box binding site
    • The length of the binding site:
    Double-box binding site
    • The length of the first binding site:
    • The length of the gap between the two binding sites:
    • The length of the second binding site:

  • Do you want to add the reverse complement sequences? *(required): Yes     No

  • Description of your DNA sequences (optional):
Computational preferences
  • Would you like Quick Search or Full Search?
    Quick Search. With this option, it will take about 10 minutes but you may miss some motifs.
    Full Search. With this option, it can take up to about 4 hours but you will find most of motifs.

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