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  • Searching unkwown consensus sequences

    Hello guys!

    I’m looking for a software that can find unknown consensus sequences between some promoters regulated from the same transcriptional factor.
    I’ll try to explain my problem in details:
    We are studying a transcriptional factor and we know that the deletion of this gene causes the deregulation of some other genes.
    We think that this transcriptional factor binds a common consensus sequence on the promoters of the deregulated genes but we don’t know anything about this consesus. We just know that, probably, there is a common consensus sequence in these promoters.
    Now what we want to do is to allineate our promoters sequences to find some short (6-12 bp) common sequences that could be the transcriptional factor consensus.

    Thanks in advance!

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