Dataset and Motifs High-scoring Sequences Motif Diagrams Annotated Sequences Debugging Information


MAST - Motif Alignment and Search Tool

MAST version 3.0 (Release date: 2004/07/16 05:53:30)

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


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 /home/meme/meme.3.0.6/tests/crp0.s (nucleotide)
	Last updated on Fri Jul 16 15:53:54 2004
	Database contains 18 sequences, 1890 residues

	Scores for positive and reverse complement strands are combined.

	MOTIFS meme.crp0.oops.4.Linuxx86_64.html (nucleotide)
	MOTIF WIDTH BEST POSSIBLE MATCH
	----- ----- -------------------
	  1    15   GTGACCCGGTTCACA
	  2    11   CGCATAACAAA

	PAIRWISE MOTIF CORRELATIONS:
	MOTIF     1
	----- -----
	   2   0.37
	No overly similar pairs (correlation > 0.60) found.

	Random model letter frequencies (from non-redundant database):
	A 0.281 C 0.222 G 0.229 T 0.267 

SECTION I: HIGH-SCORING SEQUENCES

LinksSequence NameDescriptionE-valueLength
D A ?
ara 0.00011 105
D A ?
lac 0.00027 105
D A ?
malt 0.00072 105
D A ?
gale 0.0012 105
D A ?
ompa 0.0044 105
D A ?
deop2 0.0052 105
D A ?
male 0.011 105
D A ?
ilv 0.012 105
D A ?
tnaa 0.013 105
D A ?
malk 0.014 105
D A ?
pbr322 0.015 105
D A ?
bglr1 0.026 105
D A ?
cya 0.029 105
D A ?
crp 0.034 105
D A ?
trn9cat 0.056 105
D A ?
tdc 0.065 105
D A ?
ce1cg 0.1 105
D A ?
uxu1 0.19 105

SECTION II: MOTIF DIAGRAMS


LinksNameExpect   Motifs
S A ?
ara 0.00011

+2
-1
-2
S A ?
lac 0.00027

-1
+2
S A ?
malt 0.00072

+1
+2
S A ?
gale 0.0012

+2
+1
-2
S A ?
ompa 0.0044

+1
S A ?
deop2 0.0052

-1
-2
S A ?
male 0.011

-1
+2
S A ?
ilv 0.012

-2
S A ?
tnaa 0.013

+1
S A ?
malk 0.014

+1
S A ?
pbr322 0.015

-1
S A ?
bglr1 0.026

-1
S A ?
cya 0.029

-1
S A ?
crp 0.034

-1
S A ?
trn9cat 0.056

+2
S A ?
tdc 0.065

+1
S A ?
ce1cg 0.1

+1
S A ?
uxu1 0.19

+1
SCALE
| | | | |
1 25 50 75 100

SECTION III: ANNOTATED SEQUENCES


ara
S D ?


LENGTH = 105 COMBINED P-VALUE = 6.02e-06 E-VALUE = 0.00011
DIAGRAM: 8-[+2]-38-[-1]-2-[-2]-20
             [+2]                                             [-1]             [
             3.0e-06                                          3.6e-06          8
             CGCATAACAAA                                      TGTGAACCGGGTCAC  T
             +++ +++++++                                      + ++ ++ +++++++  +
1    GACAAAAACGCGTAACAAAAGTGTCTATAATCACGGCAGAAAAGTCCACATTGATTATTTGCACGGCGTCACACT

     -2]
     .9e-05
     TTGTTATGCG
     +++ +++++
76   TTGCTATGCCATAGCATTTTTATCCATAAG



lac
S D ?


LENGTH = 105 COMBINED P-VALUE = 1.49e-05 E-VALUE = 0.00027
DIAGRAM: 11-[-1]-63-[+2]-5
                [-1]
                2.1e-06
                TGTGAACCGGGTCAC
                ++++++ +++ ++++
1    AACGCAATTAATGTGAGTTAGCTCACTCATTAGGCACCCCAGGCTTTACACTTTATGCTTCCGGCTCGTATGTTG

                   [+2]
                   1.4e-05
                   CGCATAACAAA
                   ++ +++++++
76   TGTGGAATTGTGAGCGGATAACAATTTCAC



malt
S D ?


LENGTH = 105 COMBINED P-VALUE = 3.99e-05 E-VALUE = 0.00072
DIAGRAM: 44-[+1]-6-[+2]-29
                                                 [+1]                 [+2]
                                                 1.5e-05              5.8e-06
                                                 GTGACCCGGTTCACA      CGCATAACAA
                                                 +++++ ++++ ++ +      ++++++++++
1    GATCAGCGTCGTTTTAGGTGAGTTGTTAATAAAGATTTGGAATTGTGACACAGTGCAAATTCAGACACATAAAAA

     
     
     A
     +
76   AACGTCATCGCTTGCATTAGAAAGGTTTCT



gale
S D ?


LENGTH = 105 COMBINED P-VALUE = 6.54e-05 E-VALUE = 0.0012
DIAGRAM: 1-[+2]-42-[+1]-2-[-2]-23
      [+2]                                                 [+1]             [-2]
      2.0e-06                                              7.1e-05          1.7e
      CGCATAACAAA                                          GTGACCCGGTTCACA  TTTG
      +++++++++++                                          ++ ++ + ++++ ++  ++++
1    GCGCATAAAAAACGGCTAAATTCTTGTGTAAACGATTCCACTAATTTATTCCATGTCACACTTTTCGCATCTTTG

     
     -05
     TTATGCG
     ++++++
76   TTATGCTATGGTTATTTCATACCATAAGCC



ompa
S D ?


LENGTH = 105 COMBINED P-VALUE = 2.44e-04 E-VALUE = 0.0044
DIAGRAM: 51-[+1]-39
                                                        [+1]
                                                        2.9e-06
                                                        GTGACCCGGTTCACA
                                                         +++++ ++++++++
1    GCTGACAAAAAAGATTAAACATACCTTATACAAGACTTTTTTTTCATATGCCTGACGGAGTTCACACTTGTAAGT



deop2
S D ?


LENGTH = 105 COMBINED P-VALUE = 2.86e-04 E-VALUE = 0.0052
DIAGRAM: 9-[-1]-36-[-2]-34
              [-1]                                               [-2]
              1.2e-05                                            5.9e-05
              TGTGAACCGGGTCAC                                    TTTGTTATGCG
              + +++++++++++ +                                     ++++ +++++
1    AGTGAATTATTTGAACCAGATCGCATTACAGTGATGCAAACTTGTAAGTAGATTTCCTTAATTGTGATGTGTATC



male
S D ?


LENGTH = 105 COMBINED P-VALUE = 6.24e-04 E-VALUE = 0.011
DIAGRAM: 16-[-1]-48-[+2]-15
                     [-1]
                     1.9e-05
                     TGTGAACCGGGTCAC
                     +++ + + +++++++
1    ACATTACCGCCAATTCTGTAACAGAGATCACACAAAGCGACGGTGGGGCGTAGGGGCAAGGAGGATGGAAAGAGG

         [+2]
         8.9e-05
         CGCATAACAAA
         ++ +++++ ++
76   TTGCCGTATAAAGAAACTAGAGTCCGTTTA



ilv
S D ?


LENGTH = 105 COMBINED P-VALUE = 6.54e-04 E-VALUE = 0.012
DIAGRAM: 15-[-2]-79
                    [-2]
                    9.5e-06
                    TTTGTTATGCG
                    ++++++++ ++
1    GCTCCGGCGGGGTTTTTTGTTATCTGCAATTCAGTACAAAACGTGATCAACCCCTCAATTTTCCCTTTGCTGAAA



tnaa
S D ?


LENGTH = 105 COMBINED P-VALUE = 7.08e-04 E-VALUE = 0.013
DIAGRAM: 74-[+1]-16
                                                                               [
                                                                               5
                                                                               G
                                                                               +
1    TTTTTTAAACATTAAAATTCTTACGTAATTTATAATCTTTAAAAAAAGCATTTAATATTGCTCCCCGAACGATTG

     +1]
     .0e-06
     TGACCCGGTTCACA
     ++++ ++ ++++++
76   TGATTCGATTCACATTTAAACAATTTCAGA



malk
S D ?


LENGTH = 105 COMBINED P-VALUE = 7.58e-04 E-VALUE = 0.014
DIAGRAM: 64-[+1]-26
                                                                     [+1]
                                                                     6.8e-06
                                                                     GTGACCCGGTT
                                                                     +++++++ +++
1    GGAGGAGGCGGGAGGATGAGAACACGGCTTCTGTGAACTAAACCGAGGTCATGTAAGGAATTTCGTGATGTTGCT

     
     
     CACA
       ++
76   TGCAAAAATCGTGGCGATTTTATGTGCGCA



pbr322
S D ?


LENGTH = 105 COMBINED P-VALUE = 8.13e-04 E-VALUE = 0.015
DIAGRAM: 55-[-1]-35
                                                            [-1]
                                                            6.8e-06
                                                            TGTGAACCGGGTCAC
                                                            ++++++++++  +++
1    CTGGCTTAACTATGCGGCATCAGAGCAGATTGTACTGAGAGTGCACCATATGCGGTGTGAAATACCGCACAGATG



bglr1
S D ?


LENGTH = 105 COMBINED P-VALUE = 1.47e-03 E-VALUE = 0.026
DIAGRAM: 78-[-1]-12

        [-1]
        1.2e-05
        TGTGAACCGGGTCAC
        +++++++  +++++
76   AACTGTGAGCATGGTCATATTTTTATCAAT



cya
S D ?


LENGTH = 105 COMBINED P-VALUE = 1.59e-03 E-VALUE = 0.029
DIAGRAM: 52-[-1]-38
                                                         [-1]
                                                         6.2e-06
                                                         TGTGAACCGGGTCAC
                                                         +++ ++++ ++++++
1    ACGGTGCTACACTTGTATGTAGCGCATCTTTCTTTACGGTCAATCAGCAAGGTGTTAAATTGATCACGTTTTAGA



crp
S D ?


LENGTH = 105 COMBINED P-VALUE = 1.88e-03 E-VALUE = 0.034
DIAGRAM: 65-[-1]-25
                                                                      [-1]
                                                                      1.6e-05
                                                                      TGTGAACCGG
                                                                      ++  ++  ++
1    CACAAAGCGAAAGCTATGCTAAAACAGTCAGGATGCTACAGTAATACATTGATGTACTGCATGTATGCAAAGGAC

     
     
     GTCAC
     +++++
76   GTCACATTACCGTGCAGTACAGTTGATAGC



trn9cat
S D ?


LENGTH = 105 COMBINED P-VALUE = 3.11e-03 E-VALUE = 0.056
DIAGRAM: 19-[+2]-75
                        [+2]
                        3.7e-05
                        CGCATAACAAA
                        ++++ ++ +++
1    CTGTGACGGAAGATCACTTCGCAGAATAAATAAATCCTGGTGTCCCTGTTGATACCGGGAAGCCCTGGGCCAACT



tdc
S D ?


LENGTH = 105 COMBINED P-VALUE = 3.62e-03 E-VALUE = 0.065
DIAGRAM: 81-[+1]-9

           [+1]
           2.3e-05
           GTGACCCGGTTCACA
           ++++   +++ ++++
76   TAATTTGTGAGTGGTCGCACATATCCTGTT



ce1cg
S D ?


LENGTH = 105 COMBINED P-VALUE = 5.62e-03 E-VALUE = 0.1
DIAGRAM: 64-[+1]-26
                                                                     [+1]
                                                                     1.3e-05
                                                                     GTGACCCGGTT
                                                                      +++++  +++
1    TAATGTTTGTGCTGGTTTTTGTGGCATCGGGCGAGAATAGCGCGTGGTGTGAAAGACTGTTTTTTTGATCGTTTT

     
     
     CACA
     ++++
76   CACAAAAATGGAAGTCCACAGTCTTGACAG



uxu1
S D ?


LENGTH = 105 COMBINED P-VALUE = 1.04e-02 E-VALUE = 0.19
DIAGRAM: 20-[+1]-70
                         [+1]
                         1.9e-05
                         GTGACCCGGTTCACA
                         +++++++++++ ++
1    CCCATGAGAGTGAAATTGTTGTGATGTGGTTAACCCAATTAGAATTCGGGATTGACATGTCTTACCAAAAGGTAG

Debugging Information




CPU: chromo
Time 0.010000 secs.

mast meme.crp0.oops.4.Linuxx86_64.html -stdout

Button Help


E
Links to Entrez database at NCBI
S
Links to sequence scores (section I)
D
Links to motif diagrams (section II)
A
Links to sequence/motif annotated alignments (section III)
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