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MEME - Motif discovery tool
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MEME version 4.11.4 (Release date: Thu May 18 17:37:13 2017 -0700)

For further information on how to interpret these results or to get
a copy of the MEME software please access http://meme-suite.org .

This file may be used as input to the MAST algorithm for searching
sequence databases for matches to groups of motifs.  MAST is available
for interactive use and downloading at http://meme-suite.org .
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REFERENCE
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If you use this program in your research, please cite:

Timothy L. Bailey and Charles Elkan,
"Fitting a mixture model by expectation maximization to discover
motifs in biopolymers", Proceedings of the Second International
Conference on Intelligent Systems for Molecular Biology, pp. 28-36,
AAAI Press, Menlo Park, California, 1994.
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TRAINING SET
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DATAFILE= example.fasta
ALPHABET= ACGT
Sequence name            Weight Length  Sequence name            Weight Length  
-------------            ------ ------  -------------            ------ ------  
SEQ1;                    1.0000     10  SEQ2;                    1.0000     10  
SEQ3;                    1.0000     10  SEQ4;                    1.0000     10  
SEQ5;                    1.0000     10  SEQ6;                    1.0000     10  
SEQ7;                    1.0000     10  SEQ8;                    1.0000     10  
SEQ9;                    1.0000     10  SEQ10;                   1.0000     10  
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COMMAND LINE SUMMARY
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This information can also be useful in the event you wish to report a
problem with the MEME software.

command: meme -dna example.fasta 

model:  mod=         zoops    nmotifs=         1    evt=           inf
object function=  E-value of product of p-values
width:  minw=            8    maxw=           10
width:  wg=             11    ws=              1    endgaps=       yes
nsites: minsites=        2    maxsites=       10    wnsites=       0.8
theta:  spmap=         uni    spfuzz=        0.5
global: substring=     yes    branching=      no    wbranch=        no
em:     prior=   dirichlet    b=            0.01    maxiter=        50
        distance=    1e-05
data:   n=             100    N=              10    shuffle=        -1
strands: +
sample: seed=            0    ctfrac=         -1    maxwords=       -1
Letter frequencies in dataset:
A 0.300 C 0.300 G 0.100 T 0.300 
Background letter frequencies (from dataset with add-one prior applied):
A 0.298 C 0.298 G 0.106 T 0.298 
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MOTIF CTCAATCGTA MEME-1	width =  10  sites =  10  llr = 131  E-value = 7.0e-040
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	Motif CTCAATCGTA MEME-1 Description
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Simplified        A  :::aa::::a
pos.-specific     C  a:a:::a:::
probability       G  :::::::a::
matrix            T  :a:::a::a:

         bits    3.2        *  
                 2.9        *  
                 2.6        *  
                 2.3        *  
Relative         1.9        *  
Entropy          1.6 **********
(19.0 bits)      1.3 **********
                 1.0 **********
                 0.6 **********
                 0.3 **********
                 0.0 ----------

Multilevel           CTCAATCGTA
consensus                      
sequence                       
                               
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	Motif CTCAATCGTA MEME-1 sites sorted by position p-value
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Sequence name             Start   P-value               Site 
-------------             ----- ---------            ----------
SEQ10;                        1  1.96e-06          . CTCAATCGTA           
SEQ9;                         1  1.96e-06          . CTCAATCGTA           
SEQ8;                         1  1.96e-06          . CTCAATCGTA           
SEQ7;                         1  1.96e-06          . CTCAATCGTA           
SEQ6;                         1  1.96e-06          . CTCAATCGTA           
SEQ5;                         1  1.96e-06          . CTCAATCGTA           
SEQ4;                         1  1.96e-06          . CTCAATCGTA           
SEQ3;                         1  1.96e-06          . CTCAATCGTA           
SEQ2;                         1  1.96e-06          . CTCAATCGTA           
SEQ1;                         1  1.96e-06          . CTCAATCGTA           
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	Motif CTCAATCGTA MEME-1 block diagrams
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SEQUENCE NAME            POSITION P-VALUE  MOTIF DIAGRAM
-------------            ----------------  -------------
SEQ10;                              2e-06  [+1]
SEQ9;                               2e-06  [+1]
SEQ8;                               2e-06  [+1]
SEQ7;                               2e-06  [+1]
SEQ6;                               2e-06  [+1]
SEQ5;                               2e-06  [+1]
SEQ4;                               2e-06  [+1]
SEQ3;                               2e-06  [+1]
SEQ2;                               2e-06  [+1]
SEQ1;                               2e-06  [+1]
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	Motif CTCAATCGTA MEME-1 in BLOCKS format
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BL   MOTIF CTCAATCGTA width=10 seqs=10
SEQ10;                   (    1) CTCAATCGTA  1 
SEQ9;                    (    1) CTCAATCGTA  1 
SEQ8;                    (    1) CTCAATCGTA  1 
SEQ7;                    (    1) CTCAATCGTA  1 
SEQ6;                    (    1) CTCAATCGTA  1 
SEQ5;                    (    1) CTCAATCGTA  1 
SEQ4;                    (    1) CTCAATCGTA  1 
SEQ3;                    (    1) CTCAATCGTA  1 
SEQ2;                    (    1) CTCAATCGTA  1 
SEQ1;                    (    1) CTCAATCGTA  1 
//

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	Motif CTCAATCGTA MEME-1 position-specific scoring matrix
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log-odds matrix: alength= 4 w= 10 n= 10 bayes= 0.830075 E= 7.0e-040 
  -997    175   -997   -997 
  -997   -997   -997    175 
  -997    175   -997   -997 
   175   -997   -997   -997 
   175   -997   -997   -997 
  -997   -997   -997    175 
  -997    175   -997   -997 
  -997   -997    324   -997 
  -997   -997   -997    175 
   175   -997   -997   -997 
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	Motif CTCAATCGTA MEME-1 position-specific probability matrix
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letter-probability matrix: alength= 4 w= 10 nsites= 10 E= 7.0e-040 
 0.000000  1.000000  0.000000  0.000000 
 0.000000  0.000000  0.000000  1.000000 
 0.000000  1.000000  0.000000  0.000000 
 1.000000  0.000000  0.000000  0.000000 
 1.000000  0.000000  0.000000  0.000000 
 0.000000  0.000000  0.000000  1.000000 
 0.000000  1.000000  0.000000  0.000000 
 0.000000  0.000000  1.000000  0.000000 
 0.000000  0.000000  0.000000  1.000000 
 1.000000  0.000000  0.000000  0.000000 
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	Motif CTCAATCGTA MEME-1 regular expression
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CTCAATCGTA
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Time  0.01 secs.

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SUMMARY OF MOTIFS
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	Combined block diagrams: non-overlapping sites with p-value < 0.0001
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SEQUENCE NAME            COMBINED P-VALUE  MOTIF DIAGRAM
-------------            ----------------  -------------
SEQ1;                            1.96e-06  [+1(1.96e-06)]
SEQ2;                            1.96e-06  [+1(1.96e-06)]
SEQ3;                            1.96e-06  [+1(1.96e-06)]
SEQ4;                            1.96e-06  [+1(1.96e-06)]
SEQ5;                            1.96e-06  [+1(1.96e-06)]
SEQ6;                            1.96e-06  [+1(1.96e-06)]
SEQ7;                            1.96e-06  [+1(1.96e-06)]
SEQ8;                            1.96e-06  [+1(1.96e-06)]
SEQ9;                            1.96e-06  [+1(1.96e-06)]
SEQ10;                           1.96e-06  [+1(1.96e-06)]
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Stopped because requested number of motifs (1) found.
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CPU: ariel-cjolita

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