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.tcm.4.Linuxx86_64.html (nucleotide)
	MOTIF WIDTH BEST POSSIBLE MATCH
	----- ----- -------------------
	  1    19   TGTGAGCGAGGTCACACTT
	  2    11   GTGGAATTGTT

	PAIRWISE MOTIF CORRELATIONS:
	MOTIF     1
	----- -----
	   2   0.28
	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 ?
gale 1.3e-05 105
D A ?
lac 5.9e-05 105
D A ?
tnaa 0.00021 105
D A ?
malt 0.00027 105
D A ?
ara 0.00038 105
D A ?
ce1cg 0.0018 105
D A ?
uxu1 0.0045 105
D A ?
deop2 0.015 105
D A ?
ompa 0.017 105
D A ?
cya 0.017 105
D A ?
tdc 0.026 105
D A ?
male 0.027 105
D A ?
bglr1 0.032 105
D A ?
crp 0.045 105
D A ?
pbr322 0.097 105
D A ?
malk 0.12 105
D A ?
ilv 0.22 105
D A ?
trn9cat 5 105

SECTION II: MOTIF DIAGRAMS


LinksNameExpect   Motifs
S A ?
gale 1.3e-05

-2
+1
S A ?
lac 5.9e-05

+1
+2
-2
S A ?
tnaa 0.00021

+1
-2
S A ?
malt 0.00027

-1
S A ?
ara 0.00038

+1
S A ?
ce1cg 0.0018

-1
+1
S A ?
uxu1 0.0045

+2
S A ?
deop2 0.015

+1
-1
S A ?
ompa 0.017

+1
S A ?
cya 0.017

-1
S A ?
tdc 0.026

+1
S A ?
male 0.027

+1
S A ?
bglr1 0.032

+1
S A ?
crp 0.045

+1
S A ?
pbr322 0.097

-1
S A ?
malk 0.12

-1
S A ?
ilv 0.22

+1
S A ?
trn9cat 5

SCALE
| | | | |
1 25 50 75 100

SECTION III: ANNOTATED SEQUENCES


gale
S D ?


LENGTH = 105 COMBINED P-VALUE = 6.98e-07 E-VALUE = 1.3e-05
DIAGRAM: 30-[-2]-3-[+1]-42
                                   [-2]          [+1]
                                   1.8e-06       6.6e-07
                                   AACAATTCCAC   TGTGAGCGAGGTCACACTT
                                   +++++++++++   +++  ++++++++++++++
1    GCGCATAAAAAACGGCTAAATTCTTGTGTAAACGATTCCACTAATTTATTCCATGTCACACTTTTCGCATCTTTG



lac
S D ?


LENGTH = 105 COMBINED P-VALUE = 3.29e-06 E-VALUE = 5.9e-05
DIAGRAM: 11-[+1]-46-[+2]-7-[-2]
                [+1]
                9.2e-06
                TGTGAGCGAGGTCACACTT
                ++++++  ++ ++++ +++
1    AACGCAATTAATGTGAGTTAGCTCACTCATTAGGCACCCCAGGCTTTACACTTTATGCTTCCGGCTCGTATGTTG

      [+2]              [-2]
      1.8e-06           6.6e-07
      GTGGAATTGTT       AACAATTCCAC
      +++++++++++       +++++++++++
76   TGTGGAATTGTGAGCGGATAACAATTTCAC



tnaa
S D ?


LENGTH = 105 COMBINED P-VALUE = 1.19e-05 E-VALUE = 0.00021
DIAGRAM: 73-[+1]-1-[-2]-1
                                                                              [+
                                                                              1.
                                                                              TG
                                                                              ++
1    TTTTTTAAACATTAAAATTCTTACGTAATTTATAATCTTTAAAAAAAGCATTTAATATTGCTCCCCGAACGATTG

     1]                [-2]
     0e-05             2.4e-06
     TGAGCGAGGTCACACTT AACAATTCCAC
     ++++ +   +++++ ++ +++++++++++
76   TGATTCGATTCACATTTAAACAATTTCAGA



malt
S D ?


LENGTH = 105 COMBINED P-VALUE = 1.49e-05 E-VALUE = 0.00027
DIAGRAM: 40-[-1]-46
                                             [-1]
                                             6.6e-07
                                             AAGTGTGACCTCGCTCACA
                                             ++++++++++  + +++++
1    GATCAGCGTCGTTTTAGGTGAGTTGTTAATAAAGATTTGGAATTGTGACACAGTGCAAATTCAGACACATAAAAA



ara
S D ?


LENGTH = 105 COMBINED P-VALUE = 2.10e-05 E-VALUE = 0.00038
DIAGRAM: 57-[+1]-29
                                                              [+1]
                                                              2.4e-08
                                                              TGTGAGCGAGGTCACACT
                                                              +++++ ++ +++++++++
1    GACAAAAACGCGTAACAAAAGTGTCTATAATCACGGCAGAAAAGTCCACATTGATTATTTGCACGGCGTCACACT

     
     
     T
     +
76   TTGCTATGCCATAGCATTTTTATCCATAAG



ce1cg
S D ?


LENGTH = 105 COMBINED P-VALUE = 1.01e-04 E-VALUE = 0.0018
DIAGRAM: 16-[-1]-28-[+1]-23
                     [-1]                                           [+1]
                     5.2e-06                                        5.3e-07
                     AAGTGTGACCTCGCTCACA                            TGTGAGCGAGGT
                     +++++++ +++++ +++++                            ++++++++ + +
1    TAATGTTTGTGCTGGTTTTTGTGGCATCGGGCGAGAATAGCGCGTGGTGTGAAAGACTGTTTTTTTGATCGTTTT

     
     
     CACACTT
     +++++++
76   CACAAAAATGGAAGTCCACAGTCTTGACAG



uxu1
S D ?


LENGTH = 105 COMBINED P-VALUE = 2.52e-04 E-VALUE = 0.0045
DIAGRAM: 9-[+2]-85
              [+2]
              6.6e-07
              GTGGAATTGTT
              +++++++++++
1    CCCATGAGAGTGAAATTGTTGTGATGTGGTTAACCCAATTAGAATTCGGGATTGACATGTCTTACCAAAAGGTAG



deop2
S D ?


LENGTH = 105 COMBINED P-VALUE = 8.16e-04 E-VALUE = 0.015
DIAGRAM: 9-[+1]-31-[-1]-27
              [+1]                                              [-1]
              1.9e-06                                           1.3e-06
              TGTGAGCGAGGTCACACTT                               AAGTGTGACCTCGCTC
              +++++ ++++ ++ ++ ++                               ++++++++ +++ +++
1    AGTGAATTATTTGAACCAGATCGCATTACAGTGATGCAAACTTGTAAGTAGATTTCCTTAATTGTGATGTGTATC

     
     
     ACA
     +++
76   GAAGTGTGTTGCGGAGTAGATGTTAGAATA



ompa
S D ?


LENGTH = 105 COMBINED P-VALUE = 9.18e-04 E-VALUE = 0.017
DIAGRAM: 50-[+1]-36
                                                       [+1]
                                                       8.3e-07
                                                       TGTGAGCGAGGTCACACTT
                                                       + +++  +++ ++++++++
1    GCTGACAAAAAAGATTAAACATACCTTATACAAGACTTTTTTTTCATATGCCTGACGGAGTTCACACTTGTAAGT



cya
S D ?


LENGTH = 105 COMBINED P-VALUE = 9.34e-04 E-VALUE = 0.017
DIAGRAM: 49-[-1]-37
                                                      [-1]
                                                      8.5e-06
                                                      AAGTGTGACCTCGCTCACA
                                                      + ++++ + ++ +++++++
1    ACGGTGCTACACTTGTATGTAGCGCATCTTTCTTTACGGTCAATCAGCAAGGTGTTAAATTGATCACGTTTTAGA



tdc
S D ?


LENGTH = 105 COMBINED P-VALUE = 1.46e-03 E-VALUE = 0.026
DIAGRAM: 78-[+1]-8

        [+1]
        6.7e-06
        TGTGAGCGAGGTCACACTT
        ++++ + + ++++ +++++
76   TAATTTGTGAGTGGTCGCACATATCCTGTT



male
S D ?


LENGTH = 105 COMBINED P-VALUE = 1.48e-03 E-VALUE = 0.027
DIAGRAM: 16-[+1]-70
                     [+1]
                     1.4e-06
                     TGTGAGCGAGGTCACACTT
                     +++ +  +++ ++++++++
1    ACATTACCGCCAATTCTGTAACAGAGATCACACAAAGCGACGGTGGGGCGTAGGGGCAAGGAGGATGGAAAGAGG



bglr1
S D ?


LENGTH = 105 COMBINED P-VALUE = 1.79e-03 E-VALUE = 0.032
DIAGRAM: 78-[+1]-8

        [+1]
        4.0e-06
        TGTGAGCGAGGTCACACTT
        +++++++  +++++ + ++
76   AACTGTGAGCATGGTCATATTTTTATCAAT



crp
S D ?


LENGTH = 105 COMBINED P-VALUE = 2.51e-03 E-VALUE = 0.045
DIAGRAM: 65-[+1]-21
                                                                      [+1]
                                                                      2.5e-06
                                                                      TGTGAGCGAG
                                                                      +++ +  +++
1    CACAAAGCGAAAGCTATGCTAAAACAGTCAGGATGCTACAGTAATACATTGATGTACTGCATGTATGCAAAGGAC

     
     
     GTCACACTT
     ++++++ ++
76   GTCACATTACCGTGCAGTACAGTTGATAGC



pbr322
S D ?


LENGTH = 105 COMBINED P-VALUE = 5.41e-03 E-VALUE = 0.097
DIAGRAM: 52-[-1]-34
                                                         [-1]
                                                         6.7e-06
                                                         AAGTGTGACCTCGCTCACA
                                                           ++++++ ++  ++++++
1    CTGGCTTAACTATGCGGCATCAGAGCAGATTGTACTGAGAGTGCACCATATGCGGTGTGAAATACCGCACAGATG



malk
S D ?


LENGTH = 105 COMBINED P-VALUE = 6.64e-03 E-VALUE = 0.12
DIAGRAM: 60-[-1]-26
                                                                 [-1]
                                                                 2.2e-05
                                                                 AAGTGTGACCTCGCT
                                                                 +++ ++++ ++ +++
1    GGAGGAGGCGGGAGGATGAGAACACGGCTTCTGTGAACTAAACCGAGGTCATGTAAGGAATTTCGTGATGTTGCT

     
     
     CACA
      +++
76   TGCAAAAATCGTGGCGATTTTATGTGCGCA



ilv
S D ?


LENGTH = 105 COMBINED P-VALUE = 1.22e-02 E-VALUE = 0.22
DIAGRAM: 41-[+1]-45
                                              [+1]
                                              1.9e-05
                                              TGTGAGCGAGGTCACACTT
                                              +++++++ ++  + +++++
1    GCTCCGGCGGGGTTTTTTGTTATCTGCAATTCAGTACAAAACGTGATCAACCCCTCAATTTTCCCTTTGCTGAAA



trn9cat
S D ?


LENGTH = 105 COMBINED P-VALUE = 2.77e-01 E-VALUE = 5
DIAGRAM: 105



Debugging Information




CPU: chromo
Time 0.010000 secs.

mast meme.crp0.tcm.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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