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 ./seed.fasta (peptide)
	Last updated on Sat May 18 01:48:36 2013
	Database contains 8 sequences, 2487 residues

	MOTIFS ./meme.txt (peptide)
	MOTIF WIDTH BEST POSSIBLE MATCH
	----- ----- -------------------
	  1    18   VPVLFRPLHEMNGGWFWW
	  2    29   PEPCKQLWRIMYDRLTKHHGLHNLIWVWN
	  3    21   EEWYPGDDYVDIVGMDCYHQG

	PAIRWISE MOTIF CORRELATIONS:
	MOTIF     1     2
	----- ----- -----
	   2   0.13
	   3   0.13  0.08
	No overly similar pairs (correlation > 0.60) found.

	Random model letter frequencies (from non-redundant database):
	A 0.073 C 0.018 D 0.052 E 0.062 F 0.040 G 0.069 H 0.022 I 0.056 K 0.058 
	L 0.092 M 0.023 N 0.046 P 0.051 Q 0.041 R 0.052 S 0.074 T 0.059 V 0.064 
	W 0.013 Y 0.033 

• Each of the following 8 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 0.0001.
• 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

  • n

    occurrence of motif `n' with p-value less than 0.0001.

  • 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 0.0001 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,
  • the position p-value of the occurrence,
  • the best possible match to the motif, and
  • columns whose match to the motif has a positive score (indicated by a plus sign).

            [1]                   [2]                               [3]
            8.4e-19               2.0e-24                           4.7e-20
            VPVLFRPLHEMNGGWFWW    PEPCKQLWRIMYDRLTKHHGLHNLIWVWN     EEWYPGDDYVDI
            +++++++++++ ++++++    ++++++++++++++++ +++++++++++      ++++++++++++
151  QKFQQADIPVLWRPLHEAAGGWFWWGAKGPEPFKQLWRLLYERLVHHHGLHNLIWVYTHEPGAAEWYPGDAYVDI

     
     
     VGMDCYHQG
     ++ ++++++
226  VGRDVYADDPDALMRSDWNELQTLFGGRKLVALTETGTLPDVEVITDYGIWWSWFSIWTDPFLRDVDPDRLTRVY

       [1]                           [2]                                  [3]
       1.2e-23                       7.6e-22                              2.3e-1
       VPVLFRPLHEMNGGWFWW            PEPCKQLWRIMYDRLTKHHGLHNLIWVWN        EEWYPG
       +++++++++++++ ++++             + ++++++ +++++++++++++++++++        ++++++
151  QGVPVLFRPLHEMNGEWFWWGLTSYNQKDNERISLYKQLYKKIYHYMTDTRGLDHLIWVYSPDANRDFKTDFYPG

     
     7
     DDYVDIVGMDCYHQG
     + ++++++++ + ++
226  ASYVDIVGLDAYFQDAYSINGYDQLTALNKPFAFTEVGPQTANGSFDYSLFINAIKQKYPKTIYFLAWNDEWSAA

                                                                              [1
                                                                              2.
                                                                              VP
                                                                              ++
76   WNMGGIVQFQWHWNAPKGLYDTPGKEWWRGFYTNATSFDIEYALNHPESEDYKLIIRDIDAIAVQLKRLQEAKVP

     ]                   [2]                                 [3]
     5e-18               3.5e-23                             9.8e-14
     VLFRPLHEMNGGWFWW    PEPCKQLWRIMYDRLTKHHGLHNLIWVWN       EEWYPGDDYVDIVGMDCYH
     +++++++++++ ++++    +++++++++++++++++ ++++++++++        ++++++++++++++++++
151  ILWRPLHEAEGRWFWWGAKGPEACKKLWRLLFDRLVNYHKINNLIWVWTTTDSPDALKWYPGDEYVDIVGADIYL

     
     
     QG
      +
226  KDKDYSPSTGMFYNIVKLFGGKKLVALTENGIIPDPDLMKEQKAYWVWFMTWSGFENDPNKNEISHIKKVFNHPF

      [1]                   [2]                             [3]
      2.2e-22               1.1e-20                         9.7e-10
      VPVLFRPLHEMNGGWFWW    PEPCKQLWRIMYDRLTKHHGLHNLIWVWN   EEWYPGDDYVDIVGMDCYHQ
      +++++++++++ ++++++    ++++ ++++++++++++ +++++++++++   + +++++ ++++++ +++
151  GVPVLFRPLHEASGGWFWWGAKGPEPYIKLWKLMFDRLVNYHKLNNLIWVWNGQDAAWYPGDNYVDIIGEDIYEE

     
     
     G
     
226  KAQYSPYADRFAKALKYTNARKMIALTECGTIPDPAVLKQEGISWSWFSVWAGNFVMTGSKYNDEWNDNHMLRKI

       [1]                           [2]                                  [3]
       1.4e-21                       5.0e-17                              2.7e-1
       VPVLFRPLHEMNGGWFWW            PEPCKQLWRIMYDRLTKHHGLHNLIWVWN        EEWYPG
       + +++++++++++ ++++             + ++ +++ ++ ++++++++++++++++        ++++++
151  QGVTVLFRPLHEMNGEWFWWGLTGYNQKDNERISLYKELYKKIYRYMTETRGLDNLLWVYSPDANRDFKTDFYPG

     
     3
     DDYVDIVGMDCYHQG
       ++++ +++ +  +
226  SSYVDITGLDAYFTDPYAISGYDEMLSLKKPFAFAETGPSGNIGSFDYAAFINAIRQKYPQTTYFLTWDEQLSPA

      [1]                           [2]                                  [3]
      1.4e-21                       1.9e-12                              1.5e-14
      VPVLFRPLHEMNGGWFWW            PEPCKQLWRIMYDRLTKHHGLHNLIWVWN        EEWYPGD
      + +++++++++++ ++++              ++ + ++ ++ +++  +++++++++++        +++++++
151  GVTVLFRPLHEMNGEWFWWGAEGYNQFDQTRANAYISAWRDMYQYFTHERKLNNLIWVYSPDVYRDHVTSYYPGA

     
     
     DYVDIVGMDCYHQG
      ++++++++ ++++
226  NYVDIVALDSYHPDPHSLTDQYNRMIALDKPFAFAEIGPPESMAGSFDYSNYIQAIKQKYPRTVYFLAWNDKWSP

        [1]                     [2]                                      [3]
        5.9e-17                 4.0e-15                                  4.8e-14
        VPVLFRPLHEMNGGWFWW      PEPCKQLWRIMYDRLTKHHGLHNLIWVWN            EEWYPGD
        ++++++ +++ +++++++      +++++++ +  +++++++++++++++ ++            +++++++
151  GRLIPVIFRLYHENTGSWFWWGDKQSTPEQYKQLFRYSVEYLRDVKGVRNFLYAYSPNNFWDVTEANYLERYPGD

     
     
     DYVDIVGMDCYHQG
     +++++++++ +++
226  EWVDVLGFDTYGPVADNADWFRNVVANAALVARMAEARGKIPVISEIGIRAPDIEAGLYDNQWYRKLISGLKADP

      [1]                  [2]                            [3]
      9.5e-14              4.7e-16                        2.8e-07
      VPVLFRPLHEMNGGWFWW   PEPCKQLWRIMYDRLTKHHGLHNLIWVWN  EEWYPGDDYVDIVGMDCYHQG
       + +++++++ +++++++   + ++ ++++++++++++ ++++++++ ++   +     ++++++++++++ +
151  NMPLIWRPLHENNGDWFWWGNNPKACAKLWKILYERMVNYHGLNNLIWLWNGNNDANTPVDYIDIIGVDIYANDH

CPU: kodomo.fbb.msu.ru
Time 0.004000 secs.

mast ./meme.txt -d ./seed.fasta -ev 10.000000 -mt 0.000100