ACGTN 500

The block diagram shows the motif matches comprising a motif cluster detected by MCAST.

A selected portion of the input sequence with the matching motifs displayed above it.

For each matching motif the strand of the match (+/-), the consensus sequence of the motif, the p-value of the individual motif match (see also help button for "Cluster Score") and the sequence logo of the motif is shown.

You can select the portion of the sequence to be displayed by sliding the two buttons below the sequence block diagram so that the portion you want to see is between the two needles attached to the buttons. By default the two buttons move together, but you can drag one individually by holding shift before you start the drag.

Motif1
p-value8.23e-7
Start23
End33
Cluster Start:
Cluster Stop:
Cluster Score:
p-value:
E-value:
q-value:
Annotated Sequence

Change the portion of annotated sequence by dragging the buttons; hold shift to drag them individually.

For further information on how to interpret these results please access http://meme-suite.org/doc/mcast-output-format.html.
To get a copy of the MEME software please access http://meme-suite.org.

If you use MCAST in your research please cite the following paper:
Timothy Bailey and William Stafford Noble, "Searching for statistically significant regulatory modules", Bioinformatics (Proceedings of the European Conference on Computational Biology), 19(Suppl. 2):ii16-ii25, 2003. [full text]

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Inputs & Settings

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Alphabet

Sequences

The following sequence databases were supplied to MCAST.

Database
PSP/Wig file
PSP Distribution file
Sequence Count
Letter Count

Motifs

The following motif databases were supplied to MCAST.

Database

Which contained the following motifs.

Other Settings

Alpha
Hard mask
Max Gap
Max Stored Scores
Motif p-value threshold
Output Threshold
Parse Genomic Coordinates
Synthetic Scores
Min Match Score
Cost Factor
Gap Open Cost
Gap Extend Cost
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MCAST version
(Release date: )
Reference
Timothy Bailey and William Stafford Noble, "Searching for statistically significant regulatory modules", Bioinformatics (Proceedings of the European Conference on Computational Biology), 19(Suppl. 2):ii16-ii25, 2003. [full text]
Command line summary
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