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.zoops.4.Linuxx86_64.html (nucleotide)
	MOTIF WIDTH BEST POSSIBLE MATCH
	----- ----- -------------------
	  1    19   TGTGAGCGAGGTCACACTT
	  2     8   CGGCGGGG

	PAIRWISE MOTIF CORRELATIONS:
	MOTIF     1
	----- -----
	   2   0.33
	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 ?
male 0.00048 105
D A ?
ilv 0.0014 105
D A ?
ara 0.0014 105
D A ?
ompa 0.014 105
D A ?
ce1cg 0.026 105
D A ?
malt 0.037 105
D A ?
gale 0.038 105
D A ?
bglr1 0.046 105
D A ?
crp 0.054 105
D A ?
deop2 0.06 105
D A ?
pbr322 0.075 105
D A ?
cya 0.077 105
D A ?
tnaa 0.081 105
D A ?
lac 0.12 105
D A ?
tdc 0.24 105
D A ?
uxu1 0.34 105
D A ?
malk 0.35 105
D A ?
trn9cat 0.48 105

SECTION II: MOTIF DIAGRAMS


LinksNameExpect   Motifs
S A ?
male 0.00048

+1
+2
S A ?
ilv 0.0014

+2
+1
S A ?
ara 0.0014

+1
S A ?
ompa 0.014

+1
S A ?
ce1cg 0.026

-1
+1
S A ?
malt 0.037

-1
S A ?
gale 0.038

+1
S A ?
bglr1 0.046

+1
S A ?
crp 0.054

+1
S A ?
deop2 0.06

+1
-1
S A ?
pbr322 0.075

-1
S A ?
cya 0.077

-1
S A ?
tnaa 0.081

+1
S A ?
lac 0.12

+1
S A ?
tdc 0.24

+1
S A ?
uxu1 0.34

+1
S A ?
malk 0.35

-1
S A ?
trn9cat 0.48

-1
SCALE
| | | | |
1 25 50 75 100

SECTION III: ANNOTATED SEQUENCES


male
S D ?


LENGTH = 105 COMBINED P-VALUE = 2.66e-05 E-VALUE = 0.00048
DIAGRAM: 16-[+1]-5-[+2]-57
                     [+1]                    [+2]
                     3.6e-06                 1.5e-05
                     TGTGAGCGAGGTCACACTT     CGGCGGGG
                     +++ +  +++ ++++++++     ++++++++
1    ACATTACCGCCAATTCTGTAACAGAGATCACACAAAGCGACGGTGGGGCGTAGGGGCAAGGAGGATGGAAAGAGG



ilv
S D ?


LENGTH = 105 COMBINED P-VALUE = 7.52e-05 E-VALUE = 0.0014
DIAGRAM: 4-[+2]-29-[+1]-45
         [+2]                                 [+1]
         7.0e-06                              2.4e-05
         CGGCGGGG                             TGTGAGCGAGGTCACACTT
         ++++++++                              ++++++ ++  + ++ ++
1    GCTCCGGCGGGGTTTTTTGTTATCTGCAATTCAGTACAAAACGTGATCAACCCCTCAATTTTCCCTTTGCTGAAA



ara
S D ?


LENGTH = 105 COMBINED P-VALUE = 7.91e-05 E-VALUE = 0.0014
DIAGRAM: 57-[+1]-29
                                                              [+1]
                                                              3.6e-08
                                                              TGTGAGCGAGGTCACACT
                                                              ++++  ++++++++++++
1    GACAAAAACGCGTAACAAAAGTGTCTATAATCACGGCAGAAAAGTCCACATTGATTATTTGCACGGCGTCACACT

     
     
     T
     +
76   TTGCTATGCCATAGCATTTTTATCCATAAG



ompa
S D ?


LENGTH = 105 COMBINED P-VALUE = 7.52e-04 E-VALUE = 0.014
DIAGRAM: 50-[+1]-36
                                                       [+1]
                                                       4.2e-07
                                                       TGTGAGCGAGGTCACACTT
                                                         +++ +++++++++++++
1    GCTGACAAAAAAGATTAAACATACCTTATACAAGACTTTTTTTTCATATGCCTGACGGAGTTCACACTTGTAAGT



ce1cg
S D ?


LENGTH = 105 COMBINED P-VALUE = 1.46e-03 E-VALUE = 0.026
DIAGRAM: 16-[-1]-28-[+1]-23
                     [-1]                                           [+1]
                     7.0e-05                                        1.1e-06
                     AAGTGTGACCTCGCTCACA                            TGTGAGCGAGGT
                     ++ ++++ + +++  + +                             ++++++++  ++
1    TAATGTTTGTGCTGGTTTTTGTGGCATCGGGCGAGAATAGCGCGTGGTGTGAAAGACTGTTTTTTTGATCGTTTT

     
     
     CACACTT
     ++++ ++
76   CACAAAAATGGAAGTCCACAGTCTTGACAG



malt
S D ?


LENGTH = 105 COMBINED P-VALUE = 2.08e-03 E-VALUE = 0.037
DIAGRAM: 40-[-1]-46
                                             [-1]
                                             1.3e-06
                                             AAGTGTGACCTCGCTCACA
                                             ++ ++++++ + +  ++++
1    GATCAGCGTCGTTTTAGGTGAGTTGTTAATAAAGATTTGGAATTGTGACACAGTGCAAATTCAGACACATAAAAA



gale
S D ?


LENGTH = 105 COMBINED P-VALUE = 2.13e-03 E-VALUE = 0.038
DIAGRAM: 44-[+1]-42
                                                 [+1]
                                                 1.3e-06
                                                 TGTGAGCGAGGTCACACTT
                                                 +++  ++ + +++++++++
1    GCGCATAAAAAACGGCTAAATTCTTGTGTAAACGATTCCACTAATTTATTCCATGTCACACTTTTCGCATCTTTG



bglr1
S D ?


LENGTH = 105 COMBINED P-VALUE = 2.57e-03 E-VALUE = 0.046
DIAGRAM: 78-[+1]-8

        [+1]
        1.6e-06
        TGTGAGCGAGGTCACACTT
        +++++++  +++++ + ++
76   AACTGTGAGCATGGTCATATTTTTATCAAT



crp
S D ?


LENGTH = 105 COMBINED P-VALUE = 3.01e-03 E-VALUE = 0.054
DIAGRAM: 65-[+1]-21
                                                                      [+1]
                                                                      2.0e-06
                                                                      TGTGAGCGAG
                                                                      ++  + ++++
1    CACAAAGCGAAAGCTATGCTAAAACAGTCAGGATGCTACAGTAATACATTGATGTACTGCATGTATGCAAAGGAC

     
     
     GTCACACTT
     ++++++ ++
76   GTCACATTACCGTGCAGTACAGTTGATAGC



deop2
S D ?


LENGTH = 105 COMBINED P-VALUE = 3.35e-03 E-VALUE = 0.06
DIAGRAM: 9-[+1]-31-[-1]-27
              [+1]                                              [-1]
              2.7e-06                                           8.7e-06
              TGTGAGCGAGGTCACACTT                               AAGTGTGACCTCGCTC
              +++++ + ++ ++ ++ ++                               ++ +++++ ++  +++
1    AGTGAATTATTTGAACCAGATCGCATTACAGTGATGCAAACTTGTAAGTAGATTTCCTTAATTGTGATGTGTATC

     
     
     ACA
      ++
76   GAAGTGTGTTGCGGAGTAGATGTTAGAATA



pbr322
S D ?


LENGTH = 105 COMBINED P-VALUE = 4.16e-03 E-VALUE = 0.075
DIAGRAM: 52-[-1]-34
                                                         [-1]
                                                         4.7e-06
                                                         AAGTGTGACCTCGCTCACA
                                                           +++++++ + ++ ++++
1    CTGGCTTAACTATGCGGCATCAGAGCAGATTGTACTGAGAGTGCACCATATGCGGTGTGAAATACCGCACAGATG



cya
S D ?


LENGTH = 105 COMBINED P-VALUE = 4.28e-03 E-VALUE = 0.077
DIAGRAM: 49-[-1]-37
                                                      [-1]
                                                      2.9e-06
                                                      AAGTGTGACCTCGCTCACA
                                                      + ++++ ++ + ++++++
1    ACGGTGCTACACTTGTATGTAGCGCATCTTTCTTTACGGTCAATCAGCAAGGTGTTAAATTGATCACGTTTTAGA



tnaa
S D ?


LENGTH = 105 COMBINED P-VALUE = 4.51e-03 E-VALUE = 0.081
DIAGRAM: 73-[+1]-13
                                                                              [+
                                                                              5.
                                                                              TG
                                                                              ++
1    TTTTTTAAACATTAAAATTCTTACGTAATTTATAATCTTTAAAAAAAGCATTTAATATTGCTCCCCGAACGATTG

     1]
     1e-06
     TGAGCGAGGTCACACTT
     ++++  + ++++++ ++
76   TGATTCGATTCACATTTAAACAATTTCAGA



lac
S D ?


LENGTH = 105 COMBINED P-VALUE = 6.48e-03 E-VALUE = 0.12
DIAGRAM: 11-[+1]-75
                [+1]
                5.6e-06
                TGTGAGCGAGGTCACACTT
                ++++++  ++ ++++ +++
1    AACGCAATTAATGTGAGTTAGCTCACTCATTAGGCACCCCAGGCTTTACACTTTATGCTTCCGGCTCGTATGTTG



tdc
S D ?


LENGTH = 105 COMBINED P-VALUE = 1.31e-02 E-VALUE = 0.24
DIAGRAM: 78-[+1]-8

        [+1]
        1.0e-05
        TGTGAGCGAGGTCACACTT
        ++++ + + ++++ +++++
76   TAATTTGTGAGTGGTCGCACATATCCTGTT



uxu1
S D ?


LENGTH = 105 COMBINED P-VALUE = 1.88e-02 E-VALUE = 0.34
DIAGRAM: 19-[+1]-67
                        [+1]
                        1.9e-05
                        TGTGAGCGAGGTCACACTT
                        +++++++ ++++ ++ +++
1    CCCATGAGAGTGAAATTGTTGTGATGTGGTTAACCCAATTAGAATTCGGGATTGACATGTCTTACCAAAAGGTAG



malk
S D ?


LENGTH = 105 COMBINED P-VALUE = 1.94e-02 E-VALUE = 0.35
DIAGRAM: 60-[-1]-26
                                                                 [-1]
                                                                 4.2e-05
                                                                 AAGTGTGACCTCGCT
                                                                 ++  ++++ ++ +++
1    GGAGGAGGCGGGAGGATGAGAACACGGCTTCTGTGAACTAAACCGAGGTCATGTAAGGAATTTCGTGATGTTGCT

     
     
     CACA
       ++
76   TGCAAAAATCGTGGCGATTTTATGTGCGCA



trn9cat
S D ?


LENGTH = 105 COMBINED P-VALUE = 2.64e-02 E-VALUE = 0.48
DIAGRAM: 83-[-1]-3

             [-1]
             2.4e-05
             AAGTGTGACCTCGCTCACA
             ++ ++ +++++ ++++
76   TTTGGCGAAAATGAGACGTTGATCGGCACG

Debugging Information




CPU: chromo
Time 0.010000 secs.

mast meme.crp0.zoops.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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