********************************************************************************
MEME - Motif discovery tool
********************************************************************************
MEME version 3.0 (Release date: 2004/08/18 09:07:01)

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

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.sdsc.edu.
********************************************************************************


********************************************************************************
REFERENCE
********************************************************************************
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.
********************************************************************************


********************************************************************************
TRAINING SET
********************************************************************************
DATAFILE= farntrans5.s
ALPHABET= ACDEFGHIKLMNPQRSTVWY
Sequence name            Weight Length  Sequence name            Weight Length  
-------------            ------ ------  -------------            ------ ------  
RAM1_YEAST               1.0000    431  PFTB_RAT                 1.0000    437  
BET2_YEAST               1.0000    325  RATRABGERB               1.0000    331  
CAL1_YEAST               1.0000    376  
********************************************************************************

********************************************************************************
COMMAND LINE SUMMARY
********************************************************************************
This information can also be useful in the event you wish to report a
problem with the MEME software.

command: meme farntrans5.s -mod tcm -protein -nmotifs 2 

model:  mod=           tcm    nmotifs=         2    evt=           inf
object function=  E-value of product of p-values
width:  minw=            8    maxw=           50    minic=        0.00
width:  wg=             11    ws=              1    endgaps=       yes
nsites: minsites=        2    maxsites=       25    wnsites=       0.8
theta:  prob=            1    spmap=         pam    spfuzz=        120
em:     prior=       megap    b=            9500    maxiter=        50
        distance=    1e-05
data:   n=            1900    N=               5

sample: seed=            0    seqfrac=         1
Dirichlet mixture priors file: prior30.plib
Letter frequencies in dataset:
A 0.061 C 0.037 D 0.062 E 0.061 F 0.044 G 0.075 H 0.030 I 0.053 K 0.051 
L 0.114 M 0.021 N 0.034 P 0.041 Q 0.038 R 0.041 S 0.078 T 0.046 V 0.057 
W 0.018 Y 0.041 
Background letter frequencies (from dataset with add-one prior applied):
A 0.061 C 0.037 D 0.061 E 0.060 F 0.044 G 0.075 H 0.030 I 0.053 K 0.051 
L 0.113 M 0.021 N 0.034 P 0.041 Q 0.039 R 0.041 S 0.078 T 0.046 V 0.057 
W 0.018 Y 0.041 
********************************************************************************


********************************************************************************
MOTIF  1	width =   30   sites =  24   llr = 854   E-value = 2.2e-094
********************************************************************************
--------------------------------------------------------------------------------
	Motif 1 Description
--------------------------------------------------------------------------------
Simplified        A  :::2::::1:2:11:1:1413314:1:1::
pos.-specific     C  ::::1::::::::2::132::::1::::::
probability       D  ::::21::11:6::::::::::::::2:13
matrix            E  ::::::1114::::::::::::::::1111
                  F  :16:::::::::111:31::::::::::1:
                  G  861241:42:::221:::2:22::::3::1
                  H  ::::::::11:4::2::::::::::::::1
                  I  ::1:::1::::::::1:::1:1::42:11:
                  K  :::::1::3::::::::::::::::::2::
                  L  ::21:::::2::31::1::5::9:55::4:
                  M  ::::::::::::::::::::::::::::::
                  N  :1:1:::21:::::::::::1:::::1:::
                  P  ::::::5:::2:::::::::::::::::::
                  Q  :::1::::1:::::1:::::1:::::::::
                  R  :::::3:::::::2:::::::::::::1::
                  S  :1:2::::::2:::13:1::32:3::12::
                  T  ::::::::::::2::5:1:1:1:1:1:::1
                  V  :::::::1::3:2:::::12::::1:::::
                  W  ::::::::::::::::13::::::::::::
                  Y  :::::::::::::14:31:::::::1::::

         bits    5.8                               
                 5.2                               
                 4.6                               
                 4.0                               
Information      3.5            *                  
content          2.9 *          *          *       
(51.4 bits)      2.3 ***        *   * **   * *     
                 1.7 ***   ** ***  ***** * ****    
                 1.2 ******************************
                 0.6 ******************************
                 0.0 ------------------------------

Multilevel           GGFGGRPGKEVDLCYTFCALAALALLGSLD
consensus                     LAH  HSYWCVSS SI     
sequence                       P       G           
                                                   
                                                   
--------------------------------------------------------------------------------

--------------------------------------------------------------------------------
	Motif 1 sites sorted by position p-value
--------------------------------------------------------------------------------
Sequence name             Start   P-value                         Site           
-------------             ----- ---------            ------------------------------
BET2_YEAST                  223  7.28e-22 WWLCERQLPE GGLNGRPSKLPDVCYSWWVLSSLAIIGRLD WINYEKLTEF
RATRABGERB                  227  6.18e-21 WWLCERQLPS GGLNGRPEKLPDVCYSWWVLASLKIIGRLH WIDREKLRSF
CAL1_YEAST                  275  9.17e-20 LNASYDQSDD GGFQGRENKFADTCYAFWCLNSLHLLTKDW KMLCQTELVT
PFTB_RAT                    237  1.15e-19 EWIARCQNWE GGIGGVPGMEAHGGYTFCGLAALVILKKER SLNLKSLLQW
PFTB_RAT                    138  4.30e-19 QFLELCQSPD GGFGGGPGQYPHLAPTYAAVNALCIIGTEE AYNVINREKL
RATRABGERB                  179  7.36e-19 EFVLSCMNFD GGFGCRPGSESHAGQIYCCTGFLAITSQLH QVNSDLLGWW
RATRABGERB                  131  8.19e-19 AYVQSLQKED GSFAGDIWGEIDTRFSFCAVATLALLGKLD AINVEKAIEF
BET2_YEAST                  172  2.10e-18 DFVLKCYNFD GGFGLCPNAESHAAQAFTCLGALAIANKLD MLSDDQLEEI
RATRABGERB                  276  1.43e-17 FILACQDEET GGFADRPGDMVDPFHTLFGIAGLSLLGEEQ IKPVSPVFCM
BET2_YEAST                  124  3.41e-17 SFIRGNQLED GSFQGDRFGEVDTRFVYTALSALSILGELT SEVVDPAVDF
RAM1_YEAST                  247  5.00e-17 YLKNCQNYEG GFGSCPHVDEAHGGYTFCATASLAILRSMD QINVEKLLEW
BET2_YEAST                  272  6.64e-17 FILKCQDEKK GGISDRPENEVDVFHTVFGVAGLSLMGYDN LVPIDPIYCM
RAM1_YEAST                  145  1.27e-16 VKLFTISPSG GPFGGGPGQLSHLASTYAAINALSLCDNID GCWDRIDRKG
PFTB_RAT                    286  3.17e-16 WVTSRQMRFE GGFQGRCNKLVDGCYSFWQAGLLPLLHRAL HAQGDPALSM
RAM1_YEAST                  296  3.47e-16 WSSARQLQEE RGFCGRSNKLVDGCYSFWVGGSAAILEAFG YGQCFNKHAL
PFTB_RAT                    348  4.30e-15 YILMCCQCPA GGLLDKPGKSRDFYHTCYCLSGLSIAQHFG SGAMLHDVVM
RATRABGERB                   83  2.40e-14 VFIKSCQHEC GGVSASIGHDPHLLYTLSAVQILTLYDSIH VINVDKVVAY
PFTB_RAT                    189  2.81e-14 QYLYSLKQPD GSFLMHVGGEVDVRSAYCAASVASLTNIIT PDLFEGTAEW
BET2_YEAST                   73  7.78e-14 FVLSCWDDKY GAFAPFPRHDAHLLTTLSAVQILATYDALD VLGKDRKVRL
CAL1_YEAST                  205  1.14e-13 LLGYIMSQQC YNGAFGAHNEPHSGYTSCALSTLALLSSLE KLSDKFKEDT
RAM1_YEAST                  198  1.33e-13 WLISLKEPNG GFKTCLEVGEVDTRGIYCALSIATLLNILT EELTEGVLNY
RAM1_YEAST                  349  3.52e-13 ILYCCQEKEQ PGLRDKPGAHSDFYHTNYCLLGLAVAESSY SCTPNDSPHN
CAL1_YEAST                  327  5.47e-13 LLDRTQKTLT GGFSKNDEEDADLYHSCLGSAALALIEGKF NGELCIPQEI
BET2_YEAST                   24  3.11e-10 RYIESLDTNK HNFEYWLTEHLRLNGIYWGLTALCVLDSPE TFVKEEVISF
--------------------------------------------------------------------------------

--------------------------------------------------------------------------------
	Motif 1 block diagrams
--------------------------------------------------------------------------------
SEQUENCE NAME            POSITION P-VALUE  MOTIF DIAGRAM
-------------            ----------------  -------------
BET2_YEAST                        3.1e-10  23_[1]_19_[1]_21_[1]_18_[1]_21_
                                           [1]_19_[1]_24
RATRABGERB                        2.4e-14  82_[1]_18_[1]_18_[1]_18_[1]_19_[1]_26
CAL1_YEAST                        1.1e-13  204_[1]_40_[1]_22_[1]_20
PFTB_RAT                          4.3e-15  137_[1]_21_[1]_18_[1]_19_[1]_32_
                                           [1]_60
RAM1_YEAST                        1.3e-13  144_[1]_23_[1]_19_[1]_19_[1]_23_
                                           [1]_53
--------------------------------------------------------------------------------

--------------------------------------------------------------------------------
	Motif 1 in BLOCKS format
--------------------------------------------------------------------------------
BL   MOTIF 1 width=30 seqs=24
BET2_YEAST               (  223) GGLNGRPSKLPDVCYSWWVLSSLAIIGRLD  1 
RATRABGERB               (  227) GGLNGRPEKLPDVCYSWWVLASLKIIGRLH  1 
CAL1_YEAST               (  275) GGFQGRENKFADTCYAFWCLNSLHLLTKDW  1 
PFTB_RAT                 (  237) GGIGGVPGMEAHGGYTFCGLAALVILKKER  1 
PFTB_RAT                 (  138) GGFGGGPGQYPHLAPTYAAVNALCIIGTEE  1 
RATRABGERB               (  179) GGFGCRPGSESHAGQIYCCTGFLAITSQLH  1 
RATRABGERB               (  131) GSFAGDIWGEIDTRFSFCAVATLALLGKLD  1 
BET2_YEAST               (  172) GGFGLCPNAESHAAQAFTCLGALAIANKLD  1 
RATRABGERB               (  276) GGFADRPGDMVDPFHTLFGIAGLSLLGEEQ  1 
BET2_YEAST               (  124) GSFQGDRFGEVDTRFVYTALSALSILGELT  1 
RAM1_YEAST               (  247) GFGSCPHVDEAHGGYTFCATASLAILRSMD  1 
BET2_YEAST               (  272) GGISDRPENEVDVFHTVFGVAGLSLMGYDN  1 
RAM1_YEAST               (  145) GPFGGGPGQLSHLASTYAAINALSLCDNID  1 
PFTB_RAT                 (  286) GGFQGRCNKLVDGCYSFWQAGLLPLLHRAL  1 
RAM1_YEAST               (  296) RGFCGRSNKLVDGCYSFWVGGSAAILEAFG  1 
PFTB_RAT                 (  348) GGLLDKPGKSRDFYHTCYCLSGLSIAQHFG  1 
RATRABGERB               (   83) GGVSASIGHDPHLLYTLSAVQILTLYDSIH  1 
PFTB_RAT                 (  189) GSFLMHVGGEVDVRSAYCAASVASLTNIIT  1 
BET2_YEAST               (   73) GAFAPFPRHDAHLLTTLSAVQILATYDALD  1 
CAL1_YEAST               (  205) YNGAFGAHNEPHSGYTSCALSTLALLSSLE  1 
RAM1_YEAST               (  198) GFKTCLEVGEVDTRGIYCALSIATLLNILT  1 
RAM1_YEAST               (  349) PGLRDKPGAHSDFYHTNYCLLGLAVAESSY  1 
CAL1_YEAST               (  327) GGFSKNDEEDADLYHSCLGSAALALIEGKF  1 
BET2_YEAST               (   24) HNFEYWLTEHLRLNGIYWGLTALCVLDSPE  1 
//

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

--------------------------------------------------------------------------------
	Motif 1 position-specific scoring matrix
--------------------------------------------------------------------------------
log-odds matrix: alength= 20 w= 30 n= 1755 bayes= 6.12445 E= 2.2e-094 
  -218   -476   -324   -369   -492    351    -61   -474   -334   -558   -392   -225   -103   -392    -86   -303   -361   -418   -449   -109 
   -81   -470   -327   -377     -1    330   -398   -485   -347   -566   -404     54    -81   -396   -330     -9   -350   -421   -467   -482 
  -244   -349   -513   -434    367    -26   -384     59    -61     38   -123   -357   -404   -371   -364   -348   -238    -14   -322   -240 
   127    -17   -201     -5   -348    114   -187   -312    -81    -63   -205    120   -263    155     27     92      7   -262   -388   -304 
   -26    143    115   -207    -17    219   -252   -171     -9   -112     95   -186    -16   -179   -195   -235   -164   -152   -351    -13 
  -146    -17     33   -115    -32     45     38   -310     85   -143   -204     47    -13    -95    271    -53   -143    -50     83   -303 
   -47    -38    -90      6   -396   -374      0     15   -233   -169   -288   -259    375   -235    -26    -97   -231    -75   -473   -424 
  -148   -438   -204     99    -31    196     38   -302    -85   -335   -202    205   -266    -99     26    -54      6     33     83   -304 
    47   -444     33     57   -349     84    122   -315    209   -342     79    121   -263    109   -118    -53   -144   -265   -389   -305 
  -160   -416     82    250    -25   -316    123   -254   -111     61     85   -136   -283   -122   -146    -60   -156   -221   -375    -14 
   161   -320   -465   -373   -228   -392   -333     13   -325    -90   -101   -301    208   -309     -7     90   -181    221   -331   -288 
  -438   -650    318   -350   -594   -396    355   -672   -341   -686   -596   -158   -495   -373      4   -357   -386   -623   -637   -514 
    47   -316   -480   -387     82     91   -337   -111   -338    103    -98   -307    -15   -318   -312    -83    170    152   -328   -285 
    94    221   -398   -311     80     90   -301   -129   -266    -30   -111     21   -354   -263    179   -282   -178   -115   -329    139 
  -167   -305   -309   -259    149    -77    196   -221   -241   -249   -153   -216    -75     19   -217    -54    -68   -205   -133    341 
    71   -383   -460   -463   -428   -445   -427     86   -370   -442   -260   -234   -417   -351   -356    143    348    -55   -479   -484 
  -170     21   -317   -268    232   -354    -39   -217   -250    -54   -152    -36   -288   -261   -224   -116   -223    -78    132    328 
    46    272   -489   -397     84   -402   -334   -118   -347    -90   -105   -314   -378   -325   -320     -1     82   -106    351     88 
   277    240   -625   -594   -564    141   -583   -514   -585   -580   -446   -452   -451      4   -521   -277   -297    107   -614   -619 
    45   -317   -489   -395   -222    -96   -340     81   -346    184    -95   -313   -373   -323   -316    -85     81    179   -327   -285 
   211   -440   -247   -196   -412     97   -258   -374   -166   -146   -278    178   -325    106   -202    153      0   -314   -457   -377 
   213   -308   -476   -384     -5     88   -337    123   -337    -91    -99   -307   -372   -318   -311    118     79     12   -328   -287 
    87   -518   -675   -601   -320   -554   -562   -243   -564    290   -164   -543   -528   -491   -503   -489   -418   -296   -502   -500 
   317     38   -358   -284   -334   -229    -37   -276    -81   -332   -204   -260    -82   -270   -263     99     23    -47   -389   -383 
  -408   -489   -735   -670   -387   -688   -678    294   -638    194   -240   -597   -632   -619   -631   -623    -16     84   -602   -556 
    91      0   -492   -398   -220   -404   -343    158   -348    187    109   -317   -375   -324   -318   -313     78   -100   -329     80 
  -159   -454    121    100   -362    163     39   -329     20   -356   -221    172   -274     38     24     13      5   -279   -402   -316 
    47   -443   -200     57   -348    -88     38     37    160   -341   -205     47   -262     41    145    120      7   -264   -388    -19 
   -28   -364     22     86     69   -344   -250    108     -9    153     95   -185    -17   -174   -192    -72   -165   -153   -352   -294 
  -146   -443    171    100    -32     -6    175   -314    -80   -144   -205     47   -262     41     27   -178    126   -263     82    -19 
--------------------------------------------------------------------------------

--------------------------------------------------------------------------------
	Motif 1 position-specific probability matrix
--------------------------------------------------------------------------------
letter-probability matrix: alength= 20 w= 30 nsites= 24 E= 2.2e-094 
 0.000000  0.000000  0.000000  0.000000  0.000000  0.833333  0.041667  0.000000  0.000000  0.000000  0.000000  0.000000  0.041667  0.000000  0.041667  0.000000  0.000000  0.000000  0.000000  0.041667 
 0.041667  0.000000  0.000000  0.000000  0.083333  0.625000  0.000000  0.000000  0.000000  0.000000  0.000000  0.083333  0.041667  0.000000  0.000000  0.125000  0.000000  0.000000  0.000000  0.000000 
 0.000000  0.000000  0.000000  0.000000  0.583333  0.083333  0.000000  0.083333  0.041667  0.166667  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.041667  0.000000  0.000000 
 0.166667  0.041667  0.000000  0.041667  0.000000  0.208333  0.000000  0.000000  0.000000  0.083333  0.000000  0.083333  0.000000  0.125000  0.041667  0.166667  0.041667  0.000000  0.000000  0.000000 
 0.041667  0.125000  0.166667  0.000000  0.041667  0.416667  0.000000  0.000000  0.041667  0.041667  0.041667  0.000000  0.041667  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.041667 
 0.000000  0.041667  0.083333  0.000000  0.041667  0.125000  0.041667  0.000000  0.083333  0.041667  0.000000  0.041667  0.041667  0.000000  0.333333  0.041667  0.000000  0.041667  0.041667  0.000000 
 0.041667  0.041667  0.041667  0.083333  0.000000  0.000000  0.041667  0.083333  0.000000  0.041667  0.000000  0.000000  0.500000  0.000000  0.041667  0.041667  0.000000  0.041667  0.000000  0.000000 
 0.000000  0.000000  0.000000  0.125000  0.041667  0.375000  0.041667  0.000000  0.000000  0.000000  0.000000  0.166667  0.000000  0.000000  0.041667  0.041667  0.041667  0.083333  0.041667  0.000000 
 0.083333  0.000000  0.083333  0.083333  0.000000  0.166667  0.083333  0.000000  0.250000  0.000000  0.041667  0.083333  0.000000  0.083333  0.000000  0.041667  0.000000  0.000000  0.000000  0.000000 
 0.000000  0.000000  0.125000  0.416667  0.041667  0.000000  0.083333  0.000000  0.000000  0.208333  0.041667  0.000000  0.000000  0.000000  0.000000  0.041667  0.000000  0.000000  0.000000  0.041667 
 0.208333  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.041667  0.000000  0.041667  0.000000  0.000000  0.208333  0.000000  0.041667  0.166667  0.000000  0.291667  0.000000  0.000000 
 0.000000  0.000000  0.583333  0.000000  0.000000  0.000000  0.375000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.041667  0.000000  0.000000  0.000000  0.000000  0.000000 
 0.083333  0.000000  0.000000  0.000000  0.083333  0.166667  0.000000  0.000000  0.000000  0.250000  0.000000  0.000000  0.041667  0.000000  0.000000  0.041667  0.166667  0.166667  0.000000  0.000000 
 0.125000  0.208333  0.000000  0.000000  0.083333  0.166667  0.000000  0.000000  0.000000  0.083333  0.000000  0.041667  0.000000  0.000000  0.166667  0.000000  0.000000  0.000000  0.000000  0.125000 
 0.000000  0.000000  0.000000  0.000000  0.083333  0.083333  0.208333  0.000000  0.000000  0.000000  0.000000  0.000000  0.041667  0.083333  0.000000  0.083333  0.041667  0.000000  0.000000  0.375000 
 0.125000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.125000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.250000  0.458333  0.041667  0.000000  0.000000 
 0.000000  0.083333  0.000000  0.000000  0.291667  0.000000  0.000000  0.000000  0.000000  0.125000  0.000000  0.041667  0.000000  0.000000  0.000000  0.041667  0.000000  0.041667  0.083333  0.291667 
 0.083333  0.291667  0.000000  0.000000  0.083333  0.000000  0.000000  0.000000  0.000000  0.041667  0.000000  0.000000  0.000000  0.000000  0.000000  0.083333  0.083333  0.000000  0.250000  0.083333 
 0.416667  0.208333  0.000000  0.000000  0.000000  0.208333  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.041667  0.000000  0.000000  0.000000  0.125000  0.000000  0.000000 
 0.083333  0.000000  0.000000  0.000000  0.000000  0.041667  0.000000  0.083333  0.000000  0.458333  0.000000  0.000000  0.000000  0.000000  0.000000  0.041667  0.083333  0.208333  0.000000  0.000000 
 0.291667  0.000000  0.000000  0.000000  0.000000  0.166667  0.000000  0.000000  0.000000  0.041667  0.000000  0.125000  0.000000  0.083333  0.000000  0.250000  0.041667  0.000000  0.000000  0.000000 
 0.291667  0.000000  0.000000  0.000000  0.041667  0.166667  0.000000  0.125000  0.000000  0.041667  0.000000  0.000000  0.000000  0.000000  0.000000  0.208333  0.083333  0.041667  0.000000  0.000000 
 0.125000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.875000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000 
 0.416667  0.083333  0.000000  0.000000  0.000000  0.000000  0.041667  0.000000  0.041667  0.000000  0.000000  0.000000  0.041667  0.000000  0.000000  0.250000  0.083333  0.041667  0.000000  0.000000 
 0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.416667  0.000000  0.458333  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.041667  0.083333  0.000000  0.000000 
 0.125000  0.041667  0.000000  0.000000  0.000000  0.000000  0.000000  0.166667  0.000000  0.458333  0.041667  0.000000  0.000000  0.000000  0.000000  0.000000  0.083333  0.000000  0.000000  0.083333 
 0.000000  0.000000  0.166667  0.125000  0.000000  0.291667  0.041667  0.000000  0.041667  0.000000  0.000000  0.125000  0.000000  0.041667  0.041667  0.083333  0.041667  0.000000  0.000000  0.000000 
 0.083333  0.000000  0.000000  0.083333  0.000000  0.041667  0.041667  0.083333  0.166667  0.000000  0.000000  0.041667  0.000000  0.041667  0.125000  0.208333  0.041667  0.000000  0.000000  0.041667 
 0.041667  0.000000  0.083333  0.125000  0.083333  0.000000  0.000000  0.125000  0.041667  0.375000  0.041667  0.000000  0.041667  0.000000  0.000000  0.041667  0.000000  0.000000  0.000000  0.000000 
 0.000000  0.000000  0.250000  0.125000  0.041667  0.083333  0.125000  0.000000  0.000000  0.041667  0.000000  0.041667  0.000000  0.041667  0.041667  0.000000  0.125000  0.000000  0.041667  0.041667 
--------------------------------------------------------------------------------





Time 32.68 secs.

********************************************************************************


********************************************************************************
MOTIF  2	width =   14   sites =  21   llr = 376   E-value = 3.1e-019
********************************************************************************
--------------------------------------------------------------------------------
	Motif 2 Description
--------------------------------------------------------------------------------
Simplified        A  ::::111::::1::
pos.-specific     C  ::::::::::::61
probability       D  12:11::1::::::
matrix            E  1::61::2::::::
                  F  1:::::::5:::::
                  G  ::::1:::::::::
                  H  ::::::::::::::
                  I  5::::12::4::::
                  K  ::313:::::11:1
                  L  11:::53::24:1:
                  M  ::::::::::::::
                  N  :4::::::::::::
                  P  ::::::::::::::
                  Q  ::1::::2:::::6
                  R  ::1:::1::::11:
                  S  ::::1::1:114::
                  T  ::1::1::::::::
                  V  :12::21::3::::
                  W  ::::::::2:::::
                  Y  ::::::::3:::::

         bits    5.8               
                 5.2               
                 4.6               
                 4.0               
Information      3.5         *     
content          2.9         *   **
(25.8 bits)      2.3    *    **  **
                 1.7 **** *  **  **
                 1.2 **************
                 0.6 **************
                 0.0 --------------

Multilevel           INKEKLLEFILSCQ
consensus                    YV    
sequence                     WL    
                                   
                                   
--------------------------------------------------------------------------------

--------------------------------------------------------------------------------
	Motif 2 sites sorted by position p-value
--------------------------------------------------------------------------------
Sequence name             Start   P-value                 Site   
-------------             ----- ---------            --------------
BET2_YEAST                  254  2.24e-13 SLAIIGRLDW INYEKLTEFILKCQ DEKKGGISDR
RATRABGERB                  258  1.30e-12 SLKIIGRLHW IDREKLRSFILACQ DEETGGFADR
RATRABGERB                  162  4.20e-12 TLALLGKLDA INVEKAIEFVLSCM NFDGGFGCRP
RATRABGERB                   66  9.60e-12 VMDLMGQLHR MNKEEILVFIKSCQ HECGGVSASI
RAM1_YEAST                  278  5.08e-11 SLAILRSMDQ INVEKLLEWSSARQ LQEERGFCGR
CAL1_YEAST                  190  5.01e-10 CRSKEDFDEY IDTEKLLGYIMSQQ CYNGAFGAHN
BET2_YEAST                   55  6.90e-10 ALCVLDSPET FVKEEVISFVLSCW DDKYGAFAPF
RATRABGERB                  114  1.57e-09 ILTLYDSIHV INVDKVVAYVQSLQ KEDGSFAGDI
PFTB_RAT                    172  2.34e-09 IIGTEEAYNV INREKLLQYLYSLK QPDGSFLMHV
RAM1_YEAST                  330  4.59e-09 ILEAFGYGQC FNKHALRDYILYCC QEKEQPGLRD
CAL1_YEAST                  126  1.65e-08 LRDYEYFETI LDKRSLARFVSKCQ RPDRGSFVSC
PFTB_RAT                    268  1.65e-08 ALVILKKERS LNLKSLLQWVTSRQ MRFEGGFQGR
PFTB_RAT                    220  1.65e-08 VASLTNIITP DLFEGTAEWIARCQ NWEGGIGGVP
RAM1_YEAST                  229  2.54e-08 IATLLNILTE ELTEGVLNYLKNCQ NYEGGFGSCP
PFTB_RAT                    330  4.58e-08 DPALSMSHWM FHQQALQEYILMCC QCPAGGLLDK
CAL1_YEAST                  239  5.86e-08 LLSSLEKLSD KFKEDTITWLLHRQ VSSHGCMKFE
PFTB_RAT                    121  1.52e-07 LELLDEPIPQ IVATDVCQFLELCQ SPDGGFGGGP
CAL1_YEAST                  362  1.91e-07 IEGKFNGELC IPQEIFNDFSKRCC F         
BET2_YEAST                  107  4.34e-07 TYDALDVLGK DRKVRLISFIRGNQ LEDGSFQGDR
BET2_YEAST                  155  5.01e-07 ALSILGELTS EVVDPAVDFVLKCY NFDGGFGLCP
RAM1_YEAST                  180  5.78e-07 CDNIDGCWDR IDRKGIYQWLISLK EPNGGFKTCL
--------------------------------------------------------------------------------

--------------------------------------------------------------------------------
	Motif 2 block diagrams
--------------------------------------------------------------------------------
SEQUENCE NAME            POSITION P-VALUE  MOTIF DIAGRAM
-------------            ----------------  -------------
BET2_YEAST                        4.3e-07  54_[2]_38_[2]_34_[2]_85_[2]_58
RATRABGERB                        1.6e-09  65_[2]_34_[2]_34_[2]_82_[2]_60
RAM1_YEAST                        5.8e-07  179_[2]_35_[2]_35_[2]_38_[2]_88
CAL1_YEAST                        5.9e-08  125_[2]_50_[2]_35_[2]_109_[2]_1
PFTB_RAT                          2.3e-09  120_[2]_37_[2]_34_[2]_34_[2]_48_
                                           [2]_94
--------------------------------------------------------------------------------

--------------------------------------------------------------------------------
	Motif 2 in BLOCKS format
--------------------------------------------------------------------------------
BL   MOTIF 2 width=14 seqs=21
BET2_YEAST               (  254) INYEKLTEFILKCQ  1 
RATRABGERB               (  258) IDREKLRSFILACQ  1 
RATRABGERB               (  162) INVEKAIEFVLSCM  1 
RATRABGERB               (   66) MNKEEILVFIKSCQ  1 
RAM1_YEAST               (  278) INVEKLLEWSSARQ  1 
CAL1_YEAST               (  190) IDTEKLLGYIMSQQ  1 
BET2_YEAST               (   55) FVKEEVISFVLSCW  1 
RATRABGERB               (  114) INVDKVVAYVQSLQ  1 
PFTB_RAT                 (  172) INREKLLQYLYSLK  1 
RAM1_YEAST               (  330) FNKHALRDYILYCC  1 
CAL1_YEAST               (  126) LDKRSLARFVSKCQ  1 
PFTB_RAT                 (  268) LNLKSLLQWVTSRQ  1 
PFTB_RAT                 (  220) DLFEGTAEWIARCQ  1 
RAM1_YEAST               (  229) ELTEGVLNYLKNCQ  1 
PFTB_RAT                 (  330) FHQQALQEYILMCC  1 
CAL1_YEAST               (  239) KFKEDTITWLLHRQ  1 
PFTB_RAT                 (  121) IVATDVCQFLELCQ  1 
CAL1_YEAST               (  362) IPQEIFNDFSKRCC  1 
BET2_YEAST               (  107) DRKVRLISFIRGNQ  1 
BET2_YEAST               (  155) EVVDPAVDFVLKCY  1 
RAM1_YEAST               (  180) IDRKGIYQWLISLK  1 
//

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

--------------------------------------------------------------------------------
	Motif 2 position-specific scoring matrix
--------------------------------------------------------------------------------
log-odds matrix: alength= 20 w= 14 n= 1835 bayes= 7.42721 E= 3.1e-019 
  -180   -316     28     36    140   -376   -308    299    -24    -14    117   -265   -348   -268   -271   -280   -167    -65   -321   -275 
  -149   -393    133   -139    -11   -301     50   -227   -104    -40   -165    317      0   -117     32   -189   -143    106   -363   -290 
    -9   -383   -234   -146     -8   -309   -205   -210    224   -111   -154   -135   -277    119    160   -196     94    147   -356      0 
  -174   -491     57    300   -396   -328     51   -351     95   -378   -243   -145   -289     50     33   -217     12    -38   -433   -348 
    61   -430     48     71   -335     60   -173    -37    243   -328   -192    -95      2    -80     41     27   -130   -250   -375   -291 
    55   -332   -507   -413     10   -422   -361     96   -365    194    -94   -334   -390   -340   -334   -331     92    167   -344   -304 
    61     19   -456   -363   -205   -378   -316    176   -315    118    -79     32   -352     14     98   -285     19     91   -309     10 
    -6   -431     96    174   -336    -74   -174   -302    -67   -329   -193     61   -249    205     41     72     21    -37   -376   -291 
  -585   -591   -675   -658    339   -654   -303   -494   -585   -478   -424   -461   -604   -498   -508   -576   -538   -496    362    282 
  -333   -431   -610   -551   -351   -574   -548    290   -506     94   -192   -471   -535   -506   -502      6   -316    227   -516   -458 
    -7   -410   -200      4   -314   -290   -182    -28    139    137     97   -106   -256     51     38     25     20   -221   -366     -4 
    61   -428   -188   -102   -334    -74     52   -298    141   -130     93     61   -249    -81    112    195   -129   -248   -374     -5 
  -318    386   -431   -324   -470   -438   -297   -372    -61     20   -304     47   -439     41    186   -360   -300   -347   -474   -424 
  -264     97   -402   -180   -325   -446   -118   -335     29   -335     49   -229   -343    411   -155   -328   -274   -317     47    -50 
--------------------------------------------------------------------------------

--------------------------------------------------------------------------------
	Motif 2 position-specific probability matrix
--------------------------------------------------------------------------------
letter-probability matrix: alength= 20 w= 14 nsites= 21 E= 3.1e-019 
 0.000000  0.000000  0.095238  0.095238  0.142857  0.000000  0.000000  0.476190  0.047619  0.095238  0.047619  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000 
 0.000000  0.000000  0.190476  0.000000  0.047619  0.000000  0.047619  0.000000  0.000000  0.095238  0.000000  0.380952  0.047619  0.000000  0.047619  0.000000  0.000000  0.142857  0.000000  0.000000 
 0.047619  0.000000  0.000000  0.000000  0.047619  0.000000  0.000000  0.000000  0.285714  0.047619  0.000000  0.000000  0.000000  0.095238  0.142857  0.000000  0.095238  0.190476  0.000000  0.047619 
 0.000000  0.000000  0.095238  0.571429  0.000000  0.000000  0.047619  0.000000  0.095238  0.000000  0.000000  0.000000  0.000000  0.047619  0.047619  0.000000  0.047619  0.047619  0.000000  0.000000 
 0.095238  0.000000  0.095238  0.095238  0.000000  0.142857  0.000000  0.047619  0.333333  0.000000  0.000000  0.000000  0.047619  0.000000  0.047619  0.095238  0.000000  0.000000  0.000000  0.000000 
 0.095238  0.000000  0.000000  0.000000  0.047619  0.000000  0.000000  0.095238  0.000000  0.476190  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.095238  0.190476  0.000000  0.000000 
 0.095238  0.047619  0.000000  0.000000  0.000000  0.000000  0.000000  0.190476  0.000000  0.285714  0.000000  0.047619  0.000000  0.047619  0.095238  0.000000  0.047619  0.095238  0.000000  0.047619 
 0.047619  0.000000  0.142857  0.238095  0.000000  0.047619  0.000000  0.000000  0.000000  0.000000  0.000000  0.047619  0.000000  0.190476  0.047619  0.142857  0.047619  0.047619  0.000000  0.000000 
 0.000000  0.000000  0.000000  0.000000  0.476190  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  0.238095  0.285714 
 0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.380952  0.000000  0.238095  0.000000  0.000000  0.000000  0.000000  0.000000  0.095238  0.000000  0.285714  0.000000  0.000000 
 0.047619  0.000000  0.000000  0.047619  0.000000  0.000000  0.000000  0.047619  0.142857  0.380952  0.047619  0.000000  0.000000  0.047619  0.047619  0.095238  0.047619  0.000000  0.000000  0.047619 
 0.095238  0.000000  0.000000  0.000000  0.000000  0.047619  0.047619  0.000000  0.142857  0.047619  0.047619  0.047619  0.000000  0.000000  0.095238  0.380952  0.000000  0.000000  0.000000  0.047619 
 0.000000  0.619048  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.142857  0.000000  0.047619  0.000000  0.047619  0.142857  0.000000  0.000000  0.000000  0.000000  0.000000 
 0.000000  0.142857  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.095238  0.000000  0.047619  0.000000  0.000000  0.619048  0.000000  0.000000  0.000000  0.000000  0.047619  0.047619 
--------------------------------------------------------------------------------





Time 51.86 secs.

********************************************************************************


********************************************************************************
SUMMARY OF MOTIFS
********************************************************************************

--------------------------------------------------------------------------------
	Combined block diagrams: non-overlapping sites with p-value < 0.0001
--------------------------------------------------------------------------------
SEQUENCE NAME            COMBINED P-VALUE  MOTIF DIAGRAM
-------------            ----------------  -------------
RAM1_YEAST                       2.14e-20  144_[1(1.27e-16)]_5_[2(5.78e-07)]_4_[1(1.33e-13)]_1_[2(2.54e-08)]_4_[1(5.00e-17)]_1_[2(5.08e-11)]_4_[1(3.47e-16)]_4_[2(4.59e-09)]_5_[1(3.52e-13)]_35_[2(9.16e-05)]_4
PFTB_RAT                         2.44e-21  120_[2(1.52e-07)]_3_[1(4.30e-19)]_4_[2(2.34e-09)]_3_[1(2.81e-14)]_1_[2(1.65e-08)]_3_[1(1.15e-19)]_1_[2(1.65e-08)]_4_[1(3.17e-16)]_14_[2(4.58e-08)]_4_[1(4.30e-15)]_60
BET2_YEAST                       1.02e-27  6_[2(5.17e-05)]_3_[1(3.11e-10)]_1_[2(6.90e-10)]_4_[1(7.78e-14)]_4_[2(4.34e-07)]_3_[1(3.41e-17)]_1_[2(5.01e-07)]_3_[1(2.10e-18)]_21_[1(7.28e-22)]_1_[2(2.24e-13)]_4_[1(6.64e-17)]_24
RATRABGERB                       4.90e-26  65_[2(9.60e-12)]_3_[1(2.40e-14)]_1_[2(1.57e-09)]_3_[1(8.19e-19)]_1_[2(4.20e-12)]_3_[1(7.36e-19)]_18_[1(6.18e-21)]_1_[2(1.30e-12)]_4_[1(1.43e-17)]_26
CAL1_YEAST                       3.16e-22  125_[2(1.65e-08)]_50_[2(5.01e-10)]_1_[1(1.14e-13)]_4_[2(5.86e-08)]_22_[1(9.17e-20)]_22_[1(5.47e-13)]_5_[2(1.91e-07)]_1
--------------------------------------------------------------------------------

********************************************************************************


********************************************************************************
Stopped because nmotifs = 2 reached.
********************************************************************************

CPU: pmgm2

********************************************************************************
