MAST - Motif Alignment and Search Tool
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.
REFERENCE
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 AND MOTIFS
DATABASE ./seed.fasta (peptide)
Last updated on Fri May 28 18:35:31 2010
Database contains 25 sequences, 2088 residues
MOTIFS ./memeout.txt (peptide)
MOTIF WIDTH BEST POSSIBLE MATCH
----- ----- -------------------
1 50 EITSTPNQDSPLMEGKTPILGLDVWEHAYYLKYQNRRPDYISAFWNVVNW
2 46 AYELPPLPYAYDALEPHIDKQTMEIHHDKHHNTYVTNLNAAIEGHP
3 41 PTGAVAQAIDSQFGSFDAFKEQFTKAATTRFGSGWAWLVVN
PAIRWISE MOTIF CORRELATIONS:
MOTIF 1 2
----- ----- -----
2 0.11
3 0.08 0.10
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
SECTION I: HIGH-SCORING SEQUENCES
- Each of the following 25 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.
| Links | Sequence Name | Description | E-value | Length
|
|---|
|
| SODF_METJ/1-88
|
| 5.4e-45
| 88
|
|
| SODM_BACCA/2-90
|
| 2.8e-42
| 89
|
|
| SODM_LISIV/2-90
|
| 5.5e-36
| 89
|
|
| SODM_ECOLI/2-90
|
| 4e-35
| 89
|
|
| SODM_THET8/4-92
|
| 1.8e-28
| 89
|
|
| SODF_ENTHI/2-83
|
| 2.2e-26
| 82
|
|
| SODF_PSEPU/2-82
|
| 3.3e-26
| 81
|
|
| SODF_LEGPH/2-82
|
| 7.3e-26
| 81
|
|
| SODF_BORPE/2-82
|
| 5.9e-24
| 81
|
|
| SODF_SYNE7/2-87
|
| 3.7e-23
| 86
|
|
| SODM_DROME/18-99
|
| 7e-23
| 82
|
|
| SODF_SHIFL/2-82
|
| 1.4e-22
| 81
|
|
| SODF_COXBU/2-82
|
| 2.4e-22
| 81
|
|
| SODF_PHOLE/1-81
|
| 2.5e-22
| 81
|
|
| SODM_HUMAN/25-106
|
| 4.9e-22
| 82
|
|
| SODF_METTH/8-89
|
| 7.6e-22
| 82
|
|
| SODM_MYCLE/3-84
|
| 5.2e-21
| 82
|
|
| SODM_PROFR/2-83
|
| 7e-20
| 82
|
|
| SODM_HEVBR/30-111
|
| 4.6e-19
| 82
|
|
| SODF_PORGI/2-82
|
| 2.6e-18
| 81
|
|
| SODM1_HALSA/3-84
|
| 1.3e-17
| 82
|
|
| SODM1_HALVO/3-84
|
| 2.1e-16
| 82
|
|
| SODM1_CAEEL/25-106
|
| 4.5e-16
| 82
|
|
| SODF_NICPL/1-86
|
| 3.3e-14
| 86
|
|
| SODF_SULAC/9-93
|
| 3.4e-10
| 85
|
SECTION II: MOTIF DIAGRAMS
- 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
- occurrence of motif `n' with p-value less than 0.0001.
- Sequences longer than 1000 are not shown to scale and are indicated by thicker lines.
| Links | Name | Expect | Motifs
|
|---|
|
| SODF_METJ/1-88
| 5.4e-45
|
|
|
| SODM_BACCA/2-90
| 2.8e-42
|
|
|
| SODM_LISIV/2-90
| 5.5e-36
|
|
|
| SODM_ECOLI/2-90
| 4e-35
|
|
|
| SODM_THET8/4-92
| 1.8e-28
|
|
|
| SODF_ENTHI/2-83
| 2.2e-26
|
|
|
| SODF_PSEPU/2-82
| 3.3e-26
|
|
|
| SODF_LEGPH/2-82
| 7.3e-26
|
|
|
| SODF_BORPE/2-82
| 5.9e-24
|
|
|
| SODF_SYNE7/2-87
| 3.7e-23
|
|
|
| SODM_DROME/18-99
| 7e-23
|
|
|
| SODF_SHIFL/2-82
| 1.4e-22
|
|
|
| SODF_COXBU/2-82
| 2.4e-22
|
|
|
| SODF_PHOLE/1-81
| 2.5e-22
|
|
|
| SODM_HUMAN/25-106
| 4.9e-22
|
|
|
| SODF_METTH/8-89
| 7.6e-22
|
|
|
| SODM_MYCLE/3-84
| 5.2e-21
|
|
|
| SODM_PROFR/2-83
| 7e-20
|
|
|
| SODM_HEVBR/30-111
| 4.6e-19
|
|
|
| SODF_PORGI/2-82
| 2.6e-18
|
|
|
| SODM1_HALSA/3-84
| 1.3e-17
|
|
|
| SODM1_HALVO/3-84
| 2.1e-16
|
|
|
| SODM1_CAEEL/25-106
| 4.5e-16
|
|
|
| SODF_NICPL/1-86
| 3.3e-14
|
|
|
| SODF_SULAC/9-93
| 3.4e-10
|
|
| SCALE
|
|
|---|
SECTION III: ANNOTATED SEQUENCES
- 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).
SODF_METJ/1-88
LENGTH = 88 COMBINED P-VALUE = 2.15e-46 E-VALUE = 5.4e-45
DIAGRAM: [2]-42
[2]
3.0e-50
AYELPPLPYAYDALEPHIDKQTMEIHHDKHHNTYVTNLNAAIEGHP
++++++++++++++++++++++++++++++++++++++++++++++
1 AYTLPPLDYAYTALEPHIDAQTMEIHHTKHHQTYINNVNAALEGTSFANEPVEALLQKLDSLPENLRGPVRNNGG
SODM_BACCA/2-90
LENGTH = 89 COMBINED P-VALUE = 1.14e-43 E-VALUE = 2.8e-42
DIAGRAM: [2]-43
[2]
3.7e-46
AYELPPLPYAYDALEPHIDKQTMEIHHDKHHNTYVTNLNAAIEGHP
+++++++++ +++++++++++++ ++++++++++++++++++++++
1 PFELPALPYPYDALEPHIDKETMNIHHTKHHNTYVTNLNAALEGHPDLQNKSLEELLSNLEALPESIRTAVRNNG
SODM_LISIV/2-90
LENGTH = 89 COMBINED P-VALUE = 2.21e-37 E-VALUE = 5.5e-36
DIAGRAM: [2]-43
[2]
5.1e-42
AYELPPLPYAYDALEPHIDKQTMEIHHDKHHNTYVTNLNAAIEGHP
++++++++++++++++++++++++++++++++ +++++++++ ++
1 TYELPKLPYTYDALEPNFDKETMEIHYTKHHNIYVTKLNEAVSGHAELASKPGEELVANLDSVPEEIRGAVRNHG
SODM_ECOLI/2-90
LENGTH = 89 COMBINED P-VALUE = 1.62e-36 E-VALUE = 4e-35
DIAGRAM: [2]-43
[2]
9.3e-40
AYELPPLPYAYDALEPHIDKQTMEIHHDKHHNTYVTNLNAAIEGHP
++++ +++++++++++++++++++++++++++++++ +++++ +
1 SYTLPSLPYAYDALEPHFDKQTMEIHHTKHHQTYVNNANAALESLPEFANLPVEELITKLDQLPADKKTVLRNNA
SODM_THET8/4-92
LENGTH = 89 COMBINED P-VALUE = 7.13e-30 E-VALUE = 1.8e-28
DIAGRAM: [2]-43
[2]
2.0e-34
AYELPPLPYAYDALEPHIDKQTMEIHHDKHHNTYVTNLNAAIEGHP
++ ++ + + + +++++++++++++++ +++ ++++++++++++++
1 PFKLPDLGYPYEALEPHIDAKTMEIHHQKHHGAYVTNLNAALEKYPYLHGVEVEVLLRHLAALPQDIQTAVRNNG
SODF_ENTHI/2-83
LENGTH = 82 COMBINED P-VALUE = 8.65e-28 E-VALUE = 2.2e-26
DIAGRAM: [2]-36
[2]
6.0e-32
AYELPPLPYAYDALEPHIDKQTMEIHHDKHHNTYVTNLNAAIEGHP
+ ++++++++ ++++++ +++ + ++++++++++++++ + +++
1 SFQLPQLPYAYNALEPHISKETLEFHHDKHHATYVNKLNGLVKGTEQEHKTLEELIKQKPTQAIYNNAAQAWNHA
SODF_PSEPU/2-82
LENGTH = 81 COMBINED P-VALUE = 1.31e-27 E-VALUE = 3.3e-26
DIAGRAM: [2]-35
[2]
3.0e-32
AYELPPLPYAYDALEPHIDKQTMEIHHDKHHNTYVTNLNAAIEGHP
++++++++++ +++ +++ +++ + ++++++++++ +++ + +++
1 AFELPPLPYAHDALQPHISKETLEFHHDKHHNTYVVNLNNLVPGTEFEGKTLEEIVKTSSGGIFNNAAQVWNHTF
SODF_LEGPH/2-82
LENGTH = 81 COMBINED P-VALUE = 2.93e-27 E-VALUE = 7.3e-26
DIAGRAM: [2]-35
[2]
2.8e-31
AYELPPLPYAYDALEPHIDKQTMEIHHDKHHNTYVTNLNAAIEGHP
++++++++++ +++ ++ +++ + ++ ++++++++++++ + +++
1 TFTLPQLPYALDALAPHVSKETLEYHYGKHHNTYVTNLNKLIPGTEFESMTLEEIIMKAKGGIFNNAAQVWNHTF
SODF_BORPE/2-82
LENGTH = 81 COMBINED P-VALUE = 2.35e-25 E-VALUE = 5.9e-24
DIAGRAM: [2]-35
[2]
6.4e-30
AYELPPLPYAYDALEPHIDKQTMEIHHDKHHNTYVTNLNAAIEGHP
++++++++++ +++ + + +++ + ++ +++++++++++ + +++
1 AHTLPPLPYALDALAPRISKETLEFHYGKHHQTYVTNLNNLIPGTEFENLSLEEIVKKSSGGVFNNAAQVWNHTF
SODF_SYNE7/2-87
LENGTH = 86 COMBINED P-VALUE = 1.46e-24 E-VALUE = 3.7e-23
DIAGRAM: [2]-40
[2]
2.0e-27
AYELPPLPYAYDALEPHIDKQTMEIHHDKHHNTYVTNLNAAIEGHP
+++++++ ++++ +++ +++ + ++++++++++++ + ++ ++
1 SYELPALPFDYTALAPYITKETLEFHHDKHHAAYVNNYNNAVKDTDLDGQPIEAVIKAIAGDASKAGLFNNAAQA
SODM_DROME/18-99
LENGTH = 82 COMBINED P-VALUE = 2.80e-24 E-VALUE = 7e-23
DIAGRAM: [2]-36
[2]
4.3e-28
AYELPPLPYAYDALEPHIDKQTMEIHHDKHHNTYVTNLNAAIEGHP
++++++++ + ++++ + + +++++ +++++++++++++ + +
1 KHTLPKLPYDYAALEPIICREIMELHHQKHHQTYVNNLNAAEEQLEEAKSKSDTTKLIQLAPALRFNGGGHINHT
SODF_SHIFL/2-82
LENGTH = 81 COMBINED P-VALUE = 5.77e-24 E-VALUE = 1.4e-22
DIAGRAM: [2]-35
[2]
1.5e-28
AYELPPLPYAYDALEPHIDKQTMEIHHDKHHNTYVTNLNAAIEGHP
+++++++++ +++ +++ +++ + ++ +++++++++++ + ++
1 SFELPALPYAKDALAPHISAETIEYHYGKHHQTYVTNLNNLIKGTAFEGKSLEEIIRSSEGGVFNNAAQVWNHTF
SODF_COXBU/2-82
LENGTH = 81 COMBINED P-VALUE = 9.44e-24 E-VALUE = 2.4e-22
DIAGRAM: [2]-35
[2]
2.8e-28
AYELPPLPYAYDALEPHIDKQTMEIHHDKHHNTYVTNLNAAIEGHP
+++++ +++ ++++++ ++ + ++ +++ ++++++++ +++++
1 AFELPDLPYKLNALEPHISQETLEYHHGKHHRAYVNKLNKLIEGTPFEKEPLEEIIRKSDGGIFNNAAQHWNHTF
SODF_PHOLE/1-81
LENGTH = 81 COMBINED P-VALUE = 9.84e-24 E-VALUE = 2.5e-22
DIAGRAM: [2]-35
[2]
5.2e-28
AYELPPLPYAYDALEPHIDKQTMEIHHDKHHNTYVTNLNAAIEGHP
++++++++ + ++++++ ++ + ++ +++++++ +++ +++++
1 AFELPALPFAMNALEPHISQETLEYHYGKHHNTYVVKLNGLVEGTELAEKSLEEIIKTSTGGVFNNAAQVWNHTF
SODM_HUMAN/25-106
LENGTH = 82 COMBINED P-VALUE = 1.95e-23 E-VALUE = 4.9e-22
DIAGRAM: [2]-36
[2]
2.7e-27
AYELPPLPYAYDALEPHIDKQTMEIHHDKHHNTYVTNLNAAIEGHP
+ ++ +++ + ++++++ ++ +++++++++++++++++ +++
1 KHSLPDLPYDYGALEPHINAQIMQLHHSKHHAAYVNNLNVTEEKYQEALAKGDVTAQIALQPALKFNGGGHINHS
SODF_METTH/8-89
LENGTH = 82 COMBINED P-VALUE = 3.04e-23 E-VALUE = 7.6e-22
DIAGRAM: [2]-36
[2]
1.3e-26
AYELPPLPYAYDALEPHIDKQTMEIHHDKHHNTYVTNLNAAIEGHP
++++++++ ++++++++ + ++++ +++++++ + ++ + + +
1 FYELPELPYPYDALEPHISREQLTIHHQKHHQAYVDGANALLRKLDEARESDTDVDIKAALKELSFHVGGYVLHL
SODM_MYCLE/3-84
LENGTH = 82 COMBINED P-VALUE = 2.10e-22 E-VALUE = 5.2e-21
DIAGRAM: [2]-36
[2]
2.4e-25
AYELPPLPYAYDALEPHIDKQTMEIHHDKHHNTYVTNLNAAIEGHP
++++ ++ + ++++++ + ++++++++++++ +++ ++++ +
1 EYTLPDLDWDYAALEPHISGEINEIHHTKHHAAYVKGVNDALAKLDEARAKDDHSAIFLNEKNLAFHLGGHVNHS
SODM_PROFR/2-83
LENGTH = 82 COMBINED P-VALUE = 2.80e-21 E-VALUE = 7e-20
DIAGRAM: [2]-36
[2]
1.7e-24
AYELPPLPYAYDALEPHIDKQTMEIHHDKHHNTYVTNLNAAIEGHP
++++++++ + ++++++ + +++++++++ +++ + + ++ +
1 VYTLPELPYDYSALEPYISGEIMELHHDKHHKAYVDGANTALDKLAEARDKADFGAINKLEKDLAFNLAGHVNHS
SODM_HEVBR/30-111
LENGTH = 82 COMBINED P-VALUE = 1.84e-20 E-VALUE = 4.6e-19
DIAGRAM: [2]-36
[2]
1.0e-24
AYELPPLPYAYDALEPHIDKQTMEIHHDKHHNTYVTNLNAAIEGHP
++ ++ +++ + ++++ + + +++++ +++++++++ +++++
1 TFSLPDLPYDYGALEPAISGEIMQLHHQKHHQTYITNYNKALEQLNDAIEKGDSAAVVKLQSAIKFNGGGHVNHS
SODF_PORGI/2-82
LENGTH = 81 COMBINED P-VALUE = 1.06e-19 E-VALUE = 2.6e-18
DIAGRAM: [2]-35
[2]
1.1e-23
AYELPPLPYAYDALEPHIDKQTMEIHHDKHHNTYVTNLNAAIEGHP
++++ ++++ +++ + + +++ + ++ ++ +++ ++++ + +++
1 THELISLPYAVDALAPVISKETVEFHHGKHLKTYVDNLNKLIIGTEFENADLNTIVQKSEGGIFNNAGQTLNHNL
SODM1_HALSA/3-84
LENGTH = 82 COMBINED P-VALUE = 5.09e-19 E-VALUE = 1.3e-17
DIAGRAM: [2]-36
[2]
7.9e-23
AYELPPLPYAYDALEPHIDKQTMEIHHDKHHNTYVTNLNAAIEGHP
++++++++ ++++++++ + + +++ +++ ++++ + + +
1 EYELPPLPYDYDALEPHISEQVLTWHHDTHHQGYVNGWNDAEETLAENRETGDHASTAGALGDVTHNGSGHILHT
SODM1_HALVO/3-84
LENGTH = 82 COMBINED P-VALUE = 8.33e-18 E-VALUE = 2.1e-16
DIAGRAM: [2]-36
[2]
2.5e-21
AYELPPLPYAYDALEPHIDKQTMEIHHDKHHNTYVTNLNAAIEGHP
+++ ++++ ++++++++ + + +++ +++ ++++ ++ +
1 DYELDPLPYEYDALEPHISEQVLTWHHDTHHQGYVNGWNADDETLAENREAGEFGSSAGAVRNVTHNGSGHILHD
SODM1_CAEEL/25-106
LENGTH = 82 COMBINED P-VALUE = 1.80e-17 E-VALUE = 4.5e-16
DIAGRAM: [2]-36
[2]
7.0e-21
AYELPPLPYAYDALEPHIDKQTMEIHHDKHHNTYVTNLNAAIEGHP
+ ++ +++ + +++ + + +++++ +++++++++++ ++
1 KHSLPDLPYDYADLEPVISHEIMQLHHQKHHATYVNNLNQIEEKLHEAVSKGNVKEAIALQPALKFNGGGHINHS
SODF_NICPL/1-86
LENGTH = 86 COMBINED P-VALUE = 1.31e-15 E-VALUE = 3.3e-14
DIAGRAM: [2]-40
[2]
1.9e-19
AYELPPLPYAYDALEPHIDKQTMEIHHDKHHNTYVTNLNAAIEGHP
+++ + ++ ++++++ + + + +++ +++ ++++ + +++
1 KFELQPPPYPMDALEPHMSSRTFEFHWGKHHRAYVDNLNKQIDGTELDGKTLEDIILVTYNKGAPLPAFNNAAQA
SODF_SULAC/9-93
LENGTH = 85 COMBINED P-VALUE = 1.36e-11 E-VALUE = 3.4e-10
DIAGRAM: [2]-39
[2]
1.2e-15
AYELPPLPYAYDALEPHIDKQTMEIHHDKHHNTYVTNLNAAIEGHP
++ +++++ +++++++ + ++ ++ ++++ + + +
1 RYEFPQLPYKVDALEPYISKDIIDVHYNGHHKGYVNGANSLLDRLEKLIKGDLPQGQYDLQGILRGLTFNINGHK
Debugging Information
CPU: kodomo-count
Time 0.104006 secs.
mast ./memeout.txt -d ./seed.fasta -ev 10.000000 -mt 0.000100
Button Help
Links to Entrez database at NCBI
Links to sequence scores (section I)
Links to motif diagrams (section II)
Links to sequence/motif annotated alignments (section III)
This information