MAST version 3.0 (Release date: 2001/03/03 13:05:22)

For further information on how to interpret these results or to get a copy of the MAST software please access http://meme.sdsc.edu.

If you use this program in your research, please cite:

Timothy L. Bailey and Michael Gribskov, "Combining evidence using p-values: application to sequence homology searches", Bioinformatics, 14(48-54), 1998.

	DATABASE S.cerevisiae_upstream (nucleotide)
	Last updated on Wed Dec 31 16:00:00 1969
	Database contains 6310 sequences, 6313243 residues

	Scores for positive and reverse complement strands are combined.

	MOTIFS MEME motifs from sequences in pasted sequences (nucleotide)
	MOTIF WIDTH BEST POSSIBLE MATCH
	----- ----- -------------------
	  1    13   CTCATCTCATCGC
	  2    11   TGAAAAATTTT

	PAIRWISE MOTIF CORRELATIONS:
	MOTIF     1
	----- -----
	   2   0.17
	No overly similar pairs (correlation > 0.60) found.

	Using random model based on each target sequence composition.

• Each of the following 317 sequences has E-value less than 20.
• The E-value of a sequence is the expected number of sequences in a random database of the same size that would match the motifs as well as the sequence does and is equal to the combined p-value of the sequence times the number of sequences in the database.
• The combined p-value of a sequence measures the strength of the match of the sequence to all the motifs and is calculated by
  • finding the score of the single best match of each motif to the sequence (best matches may overlap),
  • calculating the sequence p-value of each score,
  • forming the product of the p-values,
  • taking the p-value of the product.
• The sequence p-value of a score is defined as the probability of a random sequence of the same length containing some match with as good or better a score.
• The score for the match of a position in a sequence to a motif is computed by by summing the appropriate entry from each column of the position-dependent scoring matrix that represents the motif.
• Sequences shorter than one or more of the motifs are skipped.
• The table is sorted by increasing E-value.

• The ordering and spacing of all non-overlapping motif occurrences are shown for each high-scoring sequence listed in Section I.
• A motif occurrence is defined as a position in the sequence whose match to the motif has SEQUENCE p-value less than 0.01.
• The SEQUENCE p-value of a match is the probability of some random subsequence in a set of n, where n is the sequence length minus the motif width plus 1, scoring at least as well as the observed match.
• For each sequence, all motif occurrences are shown unless there are overlaps. In that case, a motif occurrence is shown only if its p-value is less than the product of the p-values of the other (lower-numbered) motif occurrences that it overlaps.
• The table also shows the E-value of each sequence.
• Spacers and motif occurences are indicated by

  • sn

    occurrence of motif `n' with p-value less than 0.01. A minus sign indicates that the occurrence is on the reverse complement strand.

  • 1

    Sequences longer than 1000 are not shown to scale and are indicated by thicker lines.