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MEME - Motif discovery tool
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MEME version 4.11.2 (Release date: Mon Oct 24 12:27:06 2016 -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= /data/project_roots/PlantAI-dev/.tmp_meme_parallel_test.fa
ALPHABET= ACDEFGHIKLMNPQRSTVWY
Sequence name            Weight Length  Sequence name            Weight Length  
-------------            ------ ------  -------------            ------ ------  
seq1                     1.0000     42  seq2                     1.0000     42  
seq3                     1.0000     42  seq4                     1.0000     42  
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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 /data/project_roots/PlantAI-dev/.tmp_meme_parallel_test.fa -mod anr -protein -nmotifs 1 -minw 6 -maxw 12 -oc /data/project_roots/PlantAI-dev/.tmp_meme_parallel_test_out -nostatus 

model:  mod=           anr    nmotifs=         1    evt=           inf
object function=  E-value of product of p-values
width:  minw=            6    maxw=           12
width:  wg=             11    ws=              1    endgaps=       yes
nsites: minsites=        2    maxsites=       20    wnsites=       0.8
theta:  spmap=         pam    spfuzz=        120
global: substring=     yes    branching=      no    wbranch=        no
em:     prior=       megap    b=             840    maxiter=        50
        distance=    1e-05
data:   n=             168    N=               4    shuffle=        -1

sample: seed=            0    ctfrac=         -1    maxwords=       -1
Dirichlet mixture priors file: prior30.plib
Letter frequencies in dataset:
A 0.048 C 0.000 D 0.071 E 0.000 F 0.071 G 0.024 H 0.048 I 0.095 K 0.071 
L 0.048 M 0.024 N 0.024 P 0.024 Q 0.119 R 0.048 S 0.071 T 0.048 V 0.024 
W 0.048 Y 0.095 
Background letter frequencies (from dataset with add-one prior applied):
A 0.048 C 0.005 D 0.069 E 0.005 F 0.069 G 0.027 H 0.048 I 0.090 K 0.069 
L 0.048 M 0.027 N 0.027 P 0.027 Q 0.112 R 0.048 S 0.069 T 0.048 V 0.027 
W 0.048 Y 0.090 
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MOTIF  1 MEME	width =  11  sites =  12  llr = 251  E-value = 5.1e-031
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--------------------------------------------------------------------------------
	Motif 1 Description
--------------------------------------------------------------------------------
Simplified        A  :::::::::::
pos.-specific     C  :::::::::::
probability       D  :::3::33:::
matrix            E  :::::::::::
                  F  :::::7::::3
                  G  :::3:::::::
                  H  3::::::::3:
                  I  :::33::::3:
                  K  :::::::3:::
                  L  :::::3:3:::
                  M  :::::::::::
                  N  ::::::::::3
                  P  ::::::3::::
                  Q  3:a::::::3:
                  R  :7:::::::::
                  S  3:::3:::3::
                  T  :3:::::::::
                  V  ::::::3::::
                  W  ::::::::7::
                  Y  ::::3:::::3

         bits    7.6            
                 6.8            
                 6.0            
                 5.3            
Relative         4.5            
Entropy          3.8  *         
(30.2 bits)      3.0  **  ** *  
                 2.3 ***********
                 1.5 ***********
                 0.8 ***********
                 0.0 -----------

Multilevel           HRQDIFDDWHF
consensus            QT GSLPKSIN
sequence             S  IY VL QY
                                
                                
--------------------------------------------------------------------------------

--------------------------------------------------------------------------------
	Motif 1 sites sorted by position p-value
--------------------------------------------------------------------------------
Sequence name             Start   P-value               Site  
-------------             ----- ---------            -----------
seq4                         31  8.89e-12 RQDILDLWIY HTQGYFPDWQN Y         
seq3                         31  8.89e-12 RQDILDLWIY HTQGYFPDWQN Y         
seq2                         31  8.89e-12 RQDILDLWIY HTQGYFPDWQN Y         
seq1                         31  8.89e-12 RQDILDLWIY HTQGYFPDWQN Y         
seq4                          9  5.96e-10   MKTAYIAK QRQISFVKSHF SRQDILDLWI
seq3                          9  5.96e-10   MKTAYIAK QRQISFVKSHF SRQDILDLWI
seq2                          9  5.96e-10   MKTAYIAK QRQISFVKSHF SRQDILDLWI
seq1                          9  5.96e-10   MKTAYIAK QRQISFVKSHF SRQDILDLWI
seq4                         20  7.58e-10 RQISFVKSHF SRQDILDLWIY HTQGYFPDWQ
seq3                         20  7.58e-10 RQISFVKSHF SRQDILDLWIY HTQGYFPDWQ
seq2                         20  7.58e-10 RQISFVKSHF SRQDILDLWIY HTQGYFPDWQ
seq1                         20  7.58e-10 RQISFVKSHF SRQDILDLWIY HTQGYFPDWQ
--------------------------------------------------------------------------------

--------------------------------------------------------------------------------
	Motif 1 block diagrams
--------------------------------------------------------------------------------
SEQUENCE NAME            POSITION P-VALUE  MOTIF DIAGRAM
-------------            ----------------  -------------
seq4                                6e-10  8_[1]_[1]_[1]_1
seq3                                6e-10  8_[1]_[1]_[1]_1
seq2                                6e-10  8_[1]_[1]_[1]_1
seq1                                6e-10  8_[1]_[1]_[1]_1
--------------------------------------------------------------------------------

--------------------------------------------------------------------------------
	Motif 1 in BLOCKS format
--------------------------------------------------------------------------------
BL   MOTIF 1 width=11 seqs=12
seq4                     (   31) HTQGYFPDWQN  1 
seq3                     (   31) HTQGYFPDWQN  1 
seq2                     (   31) HTQGYFPDWQN  1 
seq1                     (   31) HTQGYFPDWQN  1 
seq4                     (    9) QRQISFVKSHF  1 
seq3                     (    9) QRQISFVKSHF  1 
seq2                     (    9) QRQISFVKSHF  1 
seq1                     (    9) QRQISFVKSHF  1 
seq4                     (   20) SRQDILDLWIY  1 
seq3                     (   20) SRQDILDLWIY  1 
seq2                     (   20) SRQDILDLWIY  1 
seq1                     (   20) SRQDILDLWIY  1 
//

--------------------------------------------------------------------------------

--------------------------------------------------------------------------------
	Motif 1 position-specific scoring matrix
--------------------------------------------------------------------------------
log-odds matrix: alength= 20 w= 11 n= 128 bayes= 4.9542 E= 5.1e-031 
  -180   -169   -198    145   -461   -128    258   -507   -175   -328   -368    -28   -278    132   -178    204   -224   -259   -580   -435 
  -270   -225   -495    -44   -606   -278   -423   -563   -180   -386   -438   -277   -387   -416    371   -351    265   -323   -650   -597 
  -311   -224   -491    112   -576   -354   -237   -540   -405   -298   -296   -274   -332    305   -308   -398   -379   -334   -581   -622 
  -205   -170    213    120   -516    349   -370    169   -337   -326   -394    -55   -319   -439   -362   -230   -263   -181   -664   -544 
  -226   -115   -510   -107   -170   -281   -334    170   -442   -165   -243   -290   -371   -521   -389    206   -288    -81   -355    178 
  -377   -179   -645   -233    319   -450   -500   -241   -597    263   -125   -465   -443   -625   -523   -501   -424   -128   -446   -306 
  -171   -152    203    172   -495   -190   -420   -351   -341   -283   -355   -154    361   -428   -358   -256   -265    341   -653   -558 
  -212   -220    201    232   -496   -183   -306   -438    211    251   -315    -87   -284   -292   -104   -245   -239   -217   -589   -490 
  -269   -221   -585   -253   -436   -293   -549   -658   -599   -457   -542   -412   -435   -680   -533    221   -413   -382    375   -441 
  -222   -148   -357     92   -296   -238    256    162   -147   -160   -233   -171   -321    132   -139   -291   -252   -115   -462   -314 
  -452   -230   -587   -209    222   -415   -290   -491   -540   -276   -379    346   -456   -571   -449   -468   -457   -302   -299    190 
--------------------------------------------------------------------------------

--------------------------------------------------------------------------------
	Motif 1 position-specific probability matrix
--------------------------------------------------------------------------------
letter-probability matrix: alength= 20 w= 11 nsites= 12 E= 5.1e-031 
 0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.333333  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.333333  0.000000  0.333333  0.000000  0.000000  0.000000  0.000000 
 0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.666667  0.000000  0.333333  0.000000  0.000000  0.000000 
 0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  1.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000 
 0.000000  0.000000  0.333333  0.000000  0.000000  0.333333  0.000000  0.333333  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000 
 0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.333333  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.333333  0.000000  0.000000  0.000000  0.333333 
 0.000000  0.000000  0.000000  0.000000  0.666667  0.000000  0.000000  0.000000  0.000000  0.333333  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000 
 0.000000  0.000000  0.333333  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.333333  0.000000  0.000000  0.000000  0.000000  0.333333  0.000000  0.000000 
 0.000000  0.000000  0.333333  0.000000  0.000000  0.000000  0.000000  0.000000  0.333333  0.333333  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000 
 0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.333333  0.000000  0.000000  0.666667  0.000000 
 0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.333333  0.333333  0.000000  0.000000  0.000000  0.000000  0.000000  0.333333  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000 
 0.000000  0.000000  0.000000  0.000000  0.333333  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.333333  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.333333 
--------------------------------------------------------------------------------

--------------------------------------------------------------------------------
	Motif 1 regular expression
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[HQS][RT]Q[DGI][ISY][FL][DPV][DKL][WS][HIQ][FNY]
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Time  0.02 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                             2.84e-10  8_[1(5.96e-10)]_[1(7.58e-10)]_\
    [1(8.89e-12)]_1
seq2                             2.84e-10  8_[1(5.96e-10)]_[1(7.58e-10)]_\
    [1(8.89e-12)]_1
seq3                             2.84e-10  8_[1(5.96e-10)]_[1(7.58e-10)]_\
    [1(8.89e-12)]_1
seq4                             2.84e-10  8_[1(5.96e-10)]_[1(7.58e-10)]_\
    [1(8.89e-12)]_1
--------------------------------------------------------------------------------

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Stopped because requested number of motifs (1) found.
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CPU: xialab-System-Product-Name

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