The Gibbs Motif Sampler

(for DNA)

Due to current server restrictions, total number of sequences is restricted to 1000. The maximum length of an individual sequence is limited to 10000.

Please enter the requested information. Items marked with an * are required. Your results will be mailed to you.

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    How to enter data?
    Email Address:
    Please enter the data sequence: (FASTA format) *
    Prokaryotic Defaults Eukaryotic Defaults
    No. of different motifs (patterns): Max sites per seq: (recursive sampler)
    Motif Width(s):* Est. total sites for each motif type:
    Palindromic pos:
    (motif,start,end...
    ex: 1,1,8)
    Collapsed Alphabet:
    (motif,start,end...
    ex: 1,1,8)
    Concentrated positions:
    (motif,start,end,pal...
    ex: 1,1,8,1)
    Direct repeat pos:
    (motif,start,end...
    ex: 1,1,8)
    Reverse complement: Background Model:
    Fragmentation: Max Frag. Width:
    Frag. from center: Wilcoxon signed-rank test:
    Sample Motif Width(s): Frequency Soln.:
    Output for dscan: MAP maximization:
    Aligned Seqs:

    Please enter Prior information: (optional, leave blank for uninformed priors)

    Please enter the Spacing Model: (optional, leave blank for a uniform spacing model)
    Pseudosite wt.(%): Pseudocount wt.(%):
    Plateau period: Adjustment period:
    Max iterations: Number of seeds:
    Near opt. cutoff(%): Random number seed:
    Calc. default pseudocounts:
    Browse the Gibbs Motif Sampler Manual

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