MAST version 4.3.0 (Release date: Sat Sep 26 01:51:56 PDT 2009)

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

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 out_meme_out/meme.fasta (nucleotide)
	Last updated on Tue May 12 19:01:53 2015
	Database contains 50 sequences, 1750 residues

	Scores for positive and reverse complement strands are combined.

	MOTIFS out_meme_out/meme.txt (nucleotide)
	MOTIF WIDTH BEST POSSIBLE MATCH
	----- ----- -------------------
	  1    14   ATTTTGTACGAAAA

	Random model letter frequencies (from non-redundant database):
	A 0.274 C 0.225 G 0.225 T 0.274 

• Each of the following 13 sequences has E-value less than 10.
• 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 POSITION p-value less than 0.001.
• The POSITION p-value of a match is the probability of a single random subsequence of the length of the motif 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
• Spacers and motif occurences are indicated by
• Spacers and motif occurences are indicated by

  • sn

    occurrence of motif `n' with p-value less than 0.001. 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.

• The positions and p-values of the non-overlapping motif occurrences are shown above the actual sequence for each of the high-scoring sequences from Section I.
• A motif occurrence is defined as a position in the sequence whose match to the motif has POSITION p-value less than 0.001 as defined in Section II.
• For each sequence, the first line specifies the name of the sequence.
• The second (and possibly more) lines give a description of the sequence.
• Following the description line(s) is a line giving the length, combined p-value, and E-value of the sequence as defined in Section I.
• The next line reproduces the motif diagram from Section II.
• The entire sequence is printed on the following lines.
• Motif occurrences are indicated directly above their positions in the sequence on lines showing
  • the motif number of the occurrence (a minus sign indicates that the occurrence is on the reverse complement strand),
  • the position p-value of the occurrence,
  • the best possible match to the motif (or its reverse complement), and
  • columns whose match to the motif has a positive score (indicated by a plus sign).

         [+1]
         2.1e-06
         ATTTTGTACGAAAA
         ++++++ ++++ ++
1    CCCTATTTTGGAAGGCAAGAAAAGGTTGTGATGTG


46
  
  LENGTH = 35  COMBINED P-VALUE = 1.84e-04  E-VALUE =   0.0092
  DIAGRAM: 5_[+1]_16

          [+1]
          4.2e-06
          ATTTTGTACGAAAA
          ++ +++++++++++
1    CCCTCATCTTGCACGAAAAAGGGAAAGGGACAGTC


32
  
  LENGTH = 35  COMBINED P-VALUE = 1.84e-04  E-VALUE =   0.0092
  DIAGRAM: 19_[+1]_2

                        [+1]
                        4.2e-06
                        ATTTTGTACGAAAA
                        ++++++ + +++++
1    GAATCTGACGGATTGGGACATTTTGGAGGAAAATG


5
  
  LENGTH = 35  COMBINED P-VALUE = 4.07e-04  E-VALUE =     0.02
  DIAGRAM: 14_[+1]_7

                   [+1]
                   9.3e-06
                   ATTTTGTACGAAAA
                   +++++ +++++ ++
1    AAGTGACTTCACCGATATTTTAAGAGGATGCAGCA


50
  
  LENGTH = 35  COMBINED P-VALUE = 4.90e-04  E-VALUE =    0.024
  DIAGRAM: 17_[+1]_4

                      [+1]
                      1.1e-05
                      ATTTTGTACGAAAA
                      +++ +++++++ ++
1    CTTGGCCCCGACCCGGGCTTCTGTAAGGTGACGCC


26
  
  LENGTH = 35  COMBINED P-VALUE = 9.33e-04  E-VALUE =    0.047
  DIAGRAM: 14_[+1]_7

                   [+1]
                   2.1e-05
                   ATTTTGTACGAAAA
                   +++++++++ + ++
1    TATCGGATACGATACTTTTGCACCGGGAGTGGTAC


8
  
  LENGTH = 35  COMBINED P-VALUE = 2.04e-03  E-VALUE =      0.1
  DIAGRAM: 15_[+1]_6

                    [+1]
                    4.7e-05
                    ATTTTGTACGAAAA
                    +++++++ +++  +
1    GCGATCTACACCCGGATATTGCGCGACTATTTCGC


44
  
  LENGTH = 35  COMBINED P-VALUE = 2.68e-03  E-VALUE =     0.13
  DIAGRAM: 5_[+1]_16

          [+1]
          6.1e-05
          ATTTTGTACGAAAA
          +++ +++ +++++
1    CTTGGCTTCTGTTCGGAGTTCAGGAGCACGACGAG


30
  
  LENGTH = 35  COMBINED P-VALUE = 1.07e-01  E-VALUE =      5.4
  DIAGRAM: 35



21
  
  LENGTH = 35  COMBINED P-VALUE = 1.13e-01  E-VALUE =      5.7
  DIAGRAM: 35



2
  
  LENGTH = 35  COMBINED P-VALUE = 1.15e-01  E-VALUE =      5.8
  DIAGRAM: 35



28
  
  LENGTH = 35  COMBINED P-VALUE = 1.21e-01  E-VALUE =      6.1
  DIAGRAM: 35



22
  
  LENGTH = 35  COMBINED P-VALUE = 1.57e-01  E-VALUE =      7.9
  DIAGRAM: 35

CPU: kodomo.fbb.msu.ru
Time 0.000000 secs.

mast out_meme_out/meme.txt -ev 10.000000 -mt 0.001000