MAST version 4.1.1 (Release date: Tue Apr 21 15:00:06 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 Mon May 31 17:37:23 2010
	Database contains 71 sequences, 8874 residues

	MOTIFS ./memeout.txt (peptide)
	MOTIF WIDTH BEST POSSIBLE MATCH
	----- ----- -------------------
	  1    50   TIESSGIAPAVMTGLEMGVPVIFARKHKSLTLTDNMYTASVYSYTKQTEN
	  2    50   MEALKRKIREYGIVLSDQVLKVDAFLNHQIDPQLMQQIGQEFARRFRNTG
	  3    50   DDFLANGQAAHGLISIIHQAGATVAGIGIVIEKSFQPGRDELREQGYRVE

	PAIRWISE MOTIF CORRELATIONS:
	MOTIF     1     2
	----- ----- -----
	   2   0.10
	   3   0.10  0.11
	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 39 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]
                                    5.6e-09
                                    TIESSGIAPAVMTGLEMGVPVIFARKHKSLTLTDNMYTASVYSY
                                       +      +       ++++++ +  ++ +  + +   + ++
1    LNHQMDIKFLNEVGKEFRKRFEGEKVDKILTIEASGIAIAGIASQYFDYVPVVFAKKTESLNLDKDVYESNVHSF

     
     
     TKQTEN
     +++
76   TKKKDYKVRVGKQFLNKGERVLIIDDFLAQGCATKGMIDLVEQAGAELVGIGIVI

                                    [1]
                                    6.5e-07
                                    TIESSGIAPAVMTGLEMGVPVIFARKHKSLTLTDNMYTASVYSY
                                     + + ++  ++  +  +  +++   +++  +  +        +
1    SNLLFYPNLLKTFLELYLIKLNKVSDVTKIVGIASNGIPFATIVASILEKPLIISKKHKDSTQIQYIEENIRESN

     
     
     TKQTEN
         +
76   GVISTLYIRGDYISKKDKILIVDDVIRSGKTLLSLYNLIGKANASVVGALIIA

                                      [1]
                                      1.0e-06
                                      TIESSGIAPAVMTGLEMGVPVIFARKHKSLTLTDNMYTASVY
                                       +++ +       +++++++++ +   +    +
1    SSITENPPLFRKVIHFLAQRYRDMGDAGPTHVLCVESRGYLVGSPLALELGVPLVLASATKRFPSTFLPEGQGPM

     
     
     SYTKQTEN
        +  +
76   VLPKSYSVRNGSISSDSRVLIVDDFIATGRSLVSVLRLMAIVGAKVIEAVALC

                                   [1]
                                   4.4e-06
                                   TIESSGIAPAVMTGLEMGVPVIFARKHKSLTLTDNMYTASVYSYT
                                   + ++ ++      + +++  ++ + + +            + +
1    MPALSDTALMSLIAEEVASKYMDKDIDKVLTAETDGIVLGAHIARELGADLIYAKKKKEVGVEKFYEVNYVPSAS

     
     
     KQTEN
       +
76   GSVMTLYLPQWALKKGETVLIVDDVIRSGETQRALVELAHQAGAKPVGMFFLI

       [2]
       6.4e-05
       MEALKRKIREYGIVLSDQVLKVDAFLNHQIDPQLMQQIGQEFARRFRNTG
        ++  +      +      +  +     +   ++ +++ +  +   +++
76   NSQKLYLNNQDVNKIKGKRVALIDDVISTGQSLKALERLVEKAGANVVAKAAIL

                                   [1]
                                   6.8e-06
                                   TIESSGIAPAVMTGLEMGVPVIFARKHKSLTLTDNMYTASVYSYT
                                     +++++  ++   + ++ +   ++ +    +
1    SVVLTDPLYLTLASLYYLERLRDIEPTRILVPEASGIPLATSLSLLLGAPFTVARRYMGYGLCSSSEPRFCIRPG

     
     
     KQTEN
         +
76   QLGRSDRVLIVDDIVETGMTLRALEEIADSIGARVEAVAALV

                                  [1]
                                  3.6e-06
                                  TIESSGIAPAVMTGLEMGVPVIFARKHKSLTLTDNMYTASVYSYTK
                                  + +++ +      +  ++++ + ++ ++     +
1    VEFLGDPEFTRAAAEALRPLVPKEAEILFTTETSPIPLTHVLAEALGLPYVVARRRRRPYMEDPIIQEVQTLTLG

     
     
     QTEN
       +
76   VGEVLWLDRRFAEKLLNQRVVLVSDVVASGETMRAMEKMVLRAGGHVVARLAVF

         [3]
         2.6e-05
         DDFLANGQAAHGLISIIHQAGATVAGIGIVIEKSFQPGRDELREQGYRVE
          +       + +++++++    ++  +      +    + + + ++
1    RVTLSDPQTRDLIADGLASLVRTNFHQVDVVAGTATAGIAHAALAADRLGAPMAYVRSVPKDHGRGNQIEGRIPA

         [3]
         5.5e-05
         DDFLANGQAAHGLISIIHQAGATVAGIGIVIEKSFQPGRDELREQGYRVE
               + +   ++  +   + +   +  +   +  + +++  + ++
1    TKEILTWEGFGIANRELAQQIVDSNYTPDIIVAVARGGLVPAGALSYSMGIKLSDAINVEFYTDVNETLPDPVLL

                                      [1]
                                      6.3e-06
                                      TIESSGIAPAVMTGLEMGVPVIFARKHKSLTLTDNMYTASVY
                                       + + +   +   + ++++       +      ++ + + +
1    ASLLINQASIDVVDELSSFLSEKVAPFNPDVIIGLPTLGLTLAPIVARKLGLKRYIPLGYSRKFWYDDALSAAVS

     
     
     SYTKQTEN
     + +
76   SITSPELGLKNTYLDPHLLPLLIGKKCVIIDDAVSSGTTLKTTWDLLERIGCEIVGCGVVM

                             [1]
                             6.7e-05
                             TIESSGIAPAVMTGLEMGVPVIFARKHKSLTLTDNMYTASVYSYTKQTEN
                              +    +  +    ++  + ++   +   +  + +  + +   +
1    DILLEEKEVRTWIGNKRFNYLNEEEIVFVPILRAGLSFLEGALQVVPNAKVGFLGIKRNEETLESHIYYSRLPEL

                                                                   [2]
                                                                   2.9e-05
                                                                   MEALKRKIREYGI
                                                                    ++ +   +
1    SGVLTDCESFDLMTDLMIAKLVESKVEFDAFHGCPYKAIPLVSTLCLKYYKLTGKKVYFGYHRKEVKDHGEGKLF

     
     
     VLSDQVLKVDAFLNHQIDPQLMQQIGQEFARRFRNTG
     + +  +    + +    + + +     +  ++ + +
76   VGSPKVFEENSRLVVVDDILTMGTSVSESLSLLKTTPAKVVCVLILL

                        [1]
                        2.7e-05
                        TIESSGIAPAVMTGLEMGVPVIFARKHKSLTLTDNMYTASVYSYTKQTEN
                         +       ++  +   +   + +     + +  +++  +       +++
1    RNKLYVFKDRREAGKLLSQQLVGHKNTDAIVLGIPSGGVPVAAEIANALVLPLDLLIVRKVQIPYNTESGFGAVS

         [3]
         9.1e-05
         DDFLANGQAAHGLISIIHQAGATVAGIGIVIEKSFQPGRDELREQGYRVE
         +        +    +++    +++  +  + + +     ++ + ++
1    DNVIDGVEVAETRAKLAEALAEKTRAEVDVAIGVPETGMFYASALARRLGVWSPLAFVATARGRSALLDEVKERL

                                                                          [3]
                                                                          7.1e-0
                                                                          DDFLAN
                                                                             +
1    GSLLTYEATADLETEKVTIEGWNGPVEIDQIKGKKITVVPILRAGLGMMEGVLENVPSARISVVGMYRNEETLEP

     
     5
     GQAAHGLISIIHQAGATVAGIGIVIEKSFQPGRDELREQGYRVE
         + +++ ++   + ++        +     +++++ +
76   VPYFQKLVSNIDERMALIVDPMLATGGSVIATIDLLKKAGCSSIKVLVLV

                                  [1]
                                  6.3e-05
                                  TIESSGIAPAVMTGLEMGVPVIFARKHKSLTLTDNMYTASVYSYTK
                                  + ++ ++   +      + + +  +++  +   +     +
1    GVPLVEPELLRDVSTRVIKMIDTDVDKIVTAEAMGIPIVTAVSIATDIPYVIMRKREYLLEGEIPVHQETGYSKG

     
     
     QTEN
     
76   ELYLNGINKGDKVIILDDVISTGGTLVAIINALKRAGADIKDVLCII

CPU: kodomo-count
Time 0.096006 secs.

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