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 ./PF01475_seed.fasta (peptide)
Last updated on Wed May 26 17:13:34 2010
Database contains 24 sequences, 2892 residues
MOTIFS ./memeout.txt (peptide)
MOTIF WIDTH BEST POSSIBLE MATCH
----- ----- -------------------
1 41 YKRLIDMFPNIGVATVYRVLNQFDDAGIVTRHNFEGGKSVF
2 41 CLDCGKVIEFSYPSIEERQREIAAMTGFRVTNHSMYIYGVC
3 29 LKKAGVRVTPPRLKILEVLQQPMNHPTSA
PAIRWISE MOTIF CORRELATIONS:
MOTIF 1 2
----- ----- -----
2 0.08
3 0.14 0.14
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 24 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
|
|---|
|
| FUR_ECOLI/10-130
|
| 1.2e-42
| 121
|
|
| PERR_BACSU/15-133
|
| 7.4e-36
| 119
|
|
| FUR_HAEIN/11-131
|
| 3.9e-21
| 121
|
|
| FUR_LEGPN/9-129
|
| 3.8e-18
| 121
|
|
| FUR_PSEAE/9-129
|
| 4.7e-16
| 121
|
|
| FUR_BORPE/9-129
|
| 5.3e-13
| 121
|
|
| FUR_NEIGO/12-132
|
| 1.6e-12
| 121
|
|
| FUR_HAEDU/11-133
|
| 2.2e-12
| 123
|
|
| FUR_RALME/9-129
|
| 1.4e-09
| 121
|
|
| FUR_BACSU/14-137
|
| 1.8e-07
| 124
|
|
| P72567_STRPY/22-141
|
| 2.1e-07
| 120
|
|
| FUR_RHILV/14-133
|
| 7.3e-06
| 120
|
|
| O05839_MYCTU/3-122
|
| 8.2e-06
| 120
|
|
| O51592_BORBU/30-150
|
| 1.1e-05
| 121
|
|
| O67261_AQUAE/17-132
|
| 3.2e-05
| 116
|
|
| P94697_DESVU/1-118
|
| 6.9e-05
| 118
|
|
| FUR_BRUAB/16-135
|
| 0.00081
| 120
|
|
| FUR_CAMJE/21-142
|
| 0.0011
| 122
|
|
| FUR_STAES/12-128
|
| 0.0017
| 117
|
|
| FURH_ARCFU/12-127
|
| 0.003
| 116
|
|
| FUR_SYNY3/14-137
|
| 0.019
| 124
|
|
| O67412_AQUAE/21-142
|
| 0.53
| 122
|
|
| FUR_SYNE7/14-136
|
| 0.72
| 123
|
|
| FUR_HELPY/20-139
|
| 5.9
| 120
|
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
|
|---|
|
| FUR_ECOLI/10-130
| 1.2e-42
|
|
|
| PERR_BACSU/15-133
| 7.4e-36
|
|
|
| FUR_HAEIN/11-131
| 3.9e-21
|
|
|
| FUR_LEGPN/9-129
| 3.8e-18
|
|
|
| FUR_PSEAE/9-129
| 4.7e-16
|
|
|
| FUR_BORPE/9-129
| 5.3e-13
|
|
|
| FUR_NEIGO/12-132
| 1.6e-12
|
|
|
| FUR_HAEDU/11-133
| 2.2e-12
|
|
|
| FUR_RALME/9-129
| 1.4e-09
|
|
|
| FUR_BACSU/14-137
| 1.8e-07
|
|
|
| P72567_STRPY/22-141
| 2.1e-07
|
|
|
| FUR_RHILV/14-133
| 7.3e-06
|
|
|
| O05839_MYCTU/3-122
| 8.2e-06
|
|
|
| O51592_BORBU/30-150
| 1.1e-05
|
|
|
| O67261_AQUAE/17-132
| 3.2e-05
|
|
|
| P94697_DESVU/1-118
| 6.9e-05
|
|
|
| FUR_BRUAB/16-135
| 0.00081
|
|
|
| FUR_CAMJE/21-142
| 0.0011
|
|
|
| FUR_STAES/12-128
| 0.0017
|
|
|
| FURH_ARCFU/12-127
| 0.003
|
|
|
| FUR_SYNY3/14-137
| 0.019
|
|
|
| O67412_AQUAE/21-142
| 0.53
|
|
|
| FUR_SYNE7/14-136
| 0.72
|
|
|
| FUR_HELPY/20-139
| 5.9
|
|
| 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).
FUR_ECOLI/10-130
LENGTH = 121 COMBINED P-VALUE = 5.15e-44 E-VALUE = 1.2e-42
DIAGRAM: 30-[1]-50
[1]
6.1e-49
YKRLIDMFPNIGVATVYRVLNQFDDAGIVTRHNFEGGKSVF
+++++++++++++++++++++++++++++++++++++++++
1 KAGLKVTLPRLKILEVLQEPDNHHVSAEDLYKRLIDMGEEIGLATVYRVLNQFDDAGIVTRHNFEGGKSVFELTQ
PERR_BACSU/15-133
LENGTH = 119 COMBINED P-VALUE = 3.09e-37 E-VALUE = 7.4e-36
DIAGRAM: 29-[1]-49
[1]
5.6e-40
YKRLIDMFPNIGVATVYRVLNQFDDAGIVTRHNFEGGKSVF
+++++++++++++++++++++++++++++++++++++++++
1 ETGVRITPQRHAILEYLVNSMAHPTADDIYKALEGKFPNMSVATVYNNLRVFRESGLVKELTYGDASSRFDFVTS
FUR_HAEIN/11-131
LENGTH = 121 COMBINED P-VALUE = 1.60e-22 E-VALUE = 3.9e-21
DIAGRAM: 30-[1]-50
[1]
5.8e-26
YKRLIDMFPNIGVATVYRVLNQFDDAGIVTRHNFEGGKSVF
++ + +++++++++++++++++ ++ ++++++ ++++
1 KVGLKITEPRLTILALMQNHKNEHFSAEDVYKIFLEQGCEIGLATVYRVLNQFDEAHIVIRHNFEGNKSVFELAP
FUR_LEGPN/9-129
LENGTH = 121 COMBINED P-VALUE = 1.57e-19 E-VALUE = 3.8e-18
DIAGRAM: 30-[1]-50
[1]
2.5e-24
YKRLIDMFPNIGVATVYRVLNQFDDAGIVTRHNFEGGKSVF
++++ ++ +++++++++ ++ ++++ +++++++ +++
1 DAGLKITLPRIKVLQILEQSRNHHLSAEAVYKALLESGEDVGLATVYRVLTQFEAAGLVSRHNFEGGHSVFELSQ
FUR_PSEAE/9-129
LENGTH = 121 COMBINED P-VALUE = 1.95e-17 E-VALUE = 4.7e-16
DIAGRAM: 30-[1]-50
[1]
2.1e-21
YKRLIDMFPNIGVATVYRVLNQFDDAGIVTRHNFEGGKSVF
++++ ++ +++++++++ ++ ++++ ++++ ++ ++
1 KAGLKVTLPRVKILQMLDSAEQRHMSAEDVYKALMEAGEDVGLATVYRVLTQFEAAGLVVRHNFDGGHAVFELAD
FUR_BORPE/9-129
LENGTH = 121 COMBINED P-VALUE = 2.22e-14 E-VALUE = 5.3e-13
DIAGRAM: 30-[1]-50
[1]
5.7e-19
YKRLIDMFPNIGVATVYRVLNQFDDAGIVTRHNFEGGKSVF
+ +++ +++++++++++ ++ +++ ++ + ++ ++
1 NMGLKATFPRLKILDIFRKSDLRHLSAEDVYRALIAENVEIGLATVYRVLTQFEQAGILTRSQFDTGKAVFELND
FUR_NEIGO/12-132
LENGTH = 121 COMBINED P-VALUE = 6.56e-14 E-VALUE = 1.6e-12
DIAGRAM: 30-[1]-50
[1]
2.0e-18
YKRLIDMFPNIGVATVYRVLNQFDDAGIVTRHNFEGGKSVF
+ + + +++++++++++ ++ +++ +++++ ++ +
1 DSGLKVTGPRLKILDLFEKHAEEHLSAEDVYRILLEEGVEIGVATIYRVLTQFEQAGILQRHHFETGKAVYELDK
FUR_HAEDU/11-133
LENGTH = 123 COMBINED P-VALUE = 9.33e-14 E-VALUE = 2.2e-12
DIAGRAM: 32-[1]-50
[1]
1.3e-17
YKRLIDMFPNIGVATVYRVLNQFDDAGIVTRHNFEGGKSVF
++ + +++++++++++++ + ++ ++++ + ++
1 SVGLKVTEPRLTILALMQQYREEMQHFSAEDIYKLLLEQSSDIGLATVYRVLNQFEEVGILLRHNFDSNKAVFEL
FUR_RALME/9-129
LENGTH = 121 COMBINED P-VALUE = 5.77e-11 E-VALUE = 1.4e-09
DIAGRAM: 30-[1]-50
[1]
5.0e-15
YKRLIDMFPNIGVATVYRVLNQFDDAGIVTRHNFEGGKSVF
+ + ++++++++++ ++ +++ + +++ ++ +
1 NIGLKATVPRLKILEIFQTSEQRHLSAEDVYRILLNEHMDIGLATVYRVLTQFEQAGLLSRNNFESGKAIFELNE
FUR_BACSU/14-137
LENGTH = 124 COMBINED P-VALUE = 7.59e-09 E-VALUE = 1.8e-07
DIAGRAM: 30-[1]-53
[1]
2.0e-12
YKRLIDMFPNIGVATVYRVLNQFDDAGIVTRHNFEGGKSVF
+ + ++++++++++ + + + +++++ ++
1 SSSYKLTPQREATVRVLLENEEDHLSAEDVYLLVKEKSPEIGLATVYRTLELLTELKVVDKINFGDGVSRYDLRK
P72567_STRPY/22-141
LENGTH = 120 COMBINED P-VALUE = 8.79e-09 E-VALUE = 2.1e-07
DIAGRAM: 29-[1]-50
[1]
1.8e-12
YKRLIDMFPNIGVATVYRVLNQFDDAGIVTRHNFEGGKSVF
+ + + +++++++++++++ + + + + ++
1 EKHIRITETRKAIISYMIQSTEHPSADKIYRDLQPNFPNMSLATVYNNLKVLVDEGFVSELKISNDLTTYYDFMG
FUR_RHILV/14-133
LENGTH = 120 COMBINED P-VALUE = 3.02e-07 E-VALUE = 7.3e-06
DIAGRAM: 29-[1]-50
[1]
8.3e-11
YKRLIDMFPNIGVATVYRVLNQFDDAGIVTRHNFEGGKSVF
+ + ++ ++++ + ++++ ++ + ++ ++
1 ERGMRMTEQRRVIARILEDSEDHPDVEELYRRSVKVDAKISISTVYRTVKLFEDAGIIARHDFRDGRSRYETVPE
O05839_MYCTU/3-122
LENGTH = 120 COMBINED P-VALUE = 3.40e-07 E-VALUE = 8.2e-06
DIAGRAM: 29-[1]-50
[1]
4.2e-11
YKRLIDMFPNIGVATVYRVLNQFDDAGIVTRHNFEGGKSVF
+ ++++++ ++++ + ++++ ++ + ++
1 AAGVRSTRQRAAISTLLETLDDFRSAQELHDELRRRGENIGLTTVYRTLQSMASSGLVDTLHTDTGESVYRRCSE
O51592_BORBU/30-150
LENGTH = 121 COMBINED P-VALUE = 4.66e-07 E-VALUE = 1.1e-05
DIAGRAM: 30-[1]-50
[1]
2.7e-09
YKRLIDMFPNIGVATVYRVLNQFDDAGIVTRHNFEGGKSVF
+ +++ + + +++++ ++ ++ + + + +
1 ELGMKASHSRNRIILYIASNPKEYFTAKEVYNKLIKEIPSLSKATVYNTLNILKERNILKDIKTTDQKETKFYLS
O67261_AQUAE/17-132
LENGTH = 116 COMBINED P-VALUE = 1.33e-06 E-VALUE = 3.2e-05
DIAGRAM: 29-[1]-46
[1]
2.6e-10
YKRLIDMFPNIGVATVYRVLNQFDDAGIVTRHNFEGGKSVF
+ + + +++++++ + +++++ + + + +
1 ETGLKITPQRMAVYEVLLKSDNHPTVEEIYEEVKKLYPYVSLATVYRTLETLENIGLVKKVCFWGNSARYDANLE
P94697_DESVU/1-118
LENGTH = 118 COMBINED P-VALUE = 2.86e-06 E-VALUE = 6.9e-05
DIAGRAM: 29-[1]-48
[1]
1.8e-09
YKRLIDMFPNIGVATVYRVLNQFDDAGIVTRHNFEGGKSVF
+ + +++ ++++++ +++ ++ + ++
1 MSQTRMTKQRMVILEELRKVDTHPTADEIYAMVRSRIPRISLGTVYRNLDLLAESGEILRLEAAGTQKRFDGNTM
FUR_BRUAB/16-135
LENGTH = 120 COMBINED P-VALUE = 3.39e-05 E-VALUE = 0.00081
DIAGRAM: 29-[1]-50
[1]
1.1e-08
YKRLIDMFPNIGVATVYRVLNQFDDAGIVTRHNFEGGKSVF
+ +++ ++++ + + ++ + ++ +++
1 RAGVRITRPRRIILNILNETEDHPDALEIFRRAVEEDDSISLSTVYRTMKLLEERGAIHRHAFAGGPSRFEQASG
FUR_CAMJE/21-142
LENGTH = 122 COMBINED P-VALUE = 4.63e-05 E-VALUE = 0.0011
DIAGRAM: 31-[1]-50
[1]
1.2e-07
YKRLIDMFPNIGVATVYRVLNQFDDAGIVTRHNFEGGKSVF
+ + + +++++ ++ ++ ++ ++ +
1 QGGLKYTKQREVLLKTLYHSDTHYTPESLYMEIKQAEPDLNVGIATVYRTLNLLEEAEMVTSISFGSAGKKYELA
FUR_STAES/12-128
LENGTH = 117 COMBINED P-VALUE = 7.27e-05 E-VALUE = 0.0017
DIAGRAM: 29-[1]-47
[1]
9.4e-08
YKRLIDMFPNIGVATVYRVLNQFDDAGIVTRHNFEGGKSVF
+ + + ++ ++++++ +++ ++ +
1 ENGLKYTDKRKDMLDIFVKEDKYLNAKHIQQQMDKDYPGISFDTVYRNLHLFKDLGIIESTELDGEMKFRIACTN
FURH_ARCFU/12-127
LENGTH = 116 COMBINED P-VALUE = 1.27e-04 E-VALUE = 0.003
DIAGRAM: 30-[1]-45
[1]
9.6e-08
YKRLIDMFPNIGVATVYRVLNQFDDAGIVTRHNFEGGKSVF
+ ++ ++ + + ++ ++ ++ + ++ +
1 KAGLRLTPQRLKLIEVIEKIGGRHPTLKEVYEEVVKEFPTMSFSTLYSNLLIFRGLGLLDFFTLEGETRVEVNCE
FUR_SYNY3/14-137
LENGTH = 124 COMBINED P-VALUE = 7.82e-04 E-VALUE = 0.019
DIAGRAM: 31-[1]-52
[1]
1.0e-06
YKRLIDMFPNIGVATVYRVLNQFDDAGIVTRHNFEGGKSVF
+++ + +++ ++++ ++ ++ +
1 ARGWRLTPQREKILTIFQNLPEGEHLSAEELHHRLEEEREKISLSTVYRSVKLMSRMGILRELELAEGHKHYELQ
O67412_AQUAE/21-142
LENGTH = 122 COMBINED P-VALUE = 2.22e-02 E-VALUE = 0.53
DIAGRAM: 122
FUR_SYNE7/14-136
LENGTH = 123 COMBINED P-VALUE = 2.99e-02 E-VALUE = 0.72
DIAGRAM: 31-[1]-51
[1]
3.4e-05
YKRLIDMFPNIGVATVYRVLNQFDDAGIVTRHNFEGGKSVF
+ + +++ ++++ + ++ ++
1 ERGWRLTPQREEILRVFQNLPAGEHLSAEDLYNHLLSRNSPISLSTIYRTLKLMARMGLLRELDLAEDHKHYELN
FUR_HELPY/20-139
LENGTH = 120 COMBINED P-VALUE = 2.45e-01 E-VALUE = 5.9
DIAGRAM: 120
Debugging Information
CPU: kodomo-count
Time 0.076004 secs.
mast ./memeout.txt -d ./PF01475_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