meme.farntrans5.oops

EM算法的改进

	Motif 1 in BLOCKS format
--------------------------------------------------------------------------------
BL   MOTIF 1 width=32 seqs=5
BET2_YEAST               (  219) QLPEGGLNGRPSKLPDVCYSWWVLSSLAIIGR  1 
RATRABGERB               (  223) QLPSGGLNGRPEKLPDVCYSWWVLASLKIIGR  1 
PFTB_RAT                 (  282) MRFEGGFQGRCNKLVDGCYSFWQAGLLPLLHR  1 
CAL1_YEAST               (  271) QSDDGGFQGRENKFADTCYAFWCLNSLHLLTK  1 
RAM1_YEAST               (  292) LQEERGFCGRSNKLVDGCYSFWVGGSAAILEA  1 
//

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--------------------------------------------------------------------------------
	Motif 1 position-specific scoring matrix
--------------------------------------------------------------------------------
log-odds matrix: alength= 20 w= 32 n= 1745 bayes= 8.44294 E= 2.1e-031 
  -200   -366   -346   -115   -278   -398    -55   -204   -204    -76    113   -179   -279    420   -150   -275   -216   -219   -307   -344 
   -65   -312   -142    -47   -216   -217    -93   -145     45    112    -67    -35   -180    179    174     68    -55   -121   -271   -200 
   -75   -366     85    113     89   -230   -152   -246    -61   -278   -167    -57    327    -57    -99   -126    -99   -198   -345   -228 
  -174   -549    101    341   -468   -299   -249   -379   -136   -418   -292   -106   -278    -80   -220     24   -207   -314   -499   -405 
  -158   -414   -264   -305   -433    350   -327   -412   -255   -492   -331   -163   -346   -318      8   -241   -294   -355   -392   -407 
  -175   -426   -285   -331   -447    358   -350   -432   -297   -511   -353   -187   -359   -350   -276   -260   -314   -374   -405   -425 
  -295   -345   -493   -448    386   -479   -353   -101   -421    103    -36   -379   -389   -380   -389   -375   -313   -158   -218    -95 
  -108    136   -102    -93   -295   -198    -86   -250    -50   -292   -163    312   -221    296    -75   -115    -99   -214   -329   -256 
  -175   -426   -285   -331   -447    358   -350   -432   -297   -511   -353   -187   -359   -350   -276   -260   -314   -374   -405   -425 
  -312   -371   -444   -421   -457   -408   -221   -383    -97   -421   -337   -266   -325   -212    447   -368   -327   -435   -330   -423 
   -63     97   -195     61   -293   -239   -194   -245   -109   -282   -181   -110    361   -114   -134     40   -104   -195   -363   -299 
  -188   -396    -77     72   -356   -208   -114   -319   -131   -392   -266    415   -261   -129   -175     45   -137   -306   -374   -308 
  -318   -452   -472   -400   -523   -459   -377   -378    416   -489   -351   -290   -406   -335     -3   -426   -332   -427   -439   -479 
  -275   -363   -497   -397    106   -473   -349    -47   -357    273     40   -362   -358   -288   -300   -390   -255   -107   -288   -248 
   110   -266   -305   -242   -261   -249   -272   -112   -216   -236   -144   -213    334   -208   -214   -157   -116    217   -357   -320 
  -290   -459    383    -92   -417   -370   -283   -389   -348   -461   -350    -36   -415   -318   -335   -325   -328   -361   -427   -393 
   -22   -223   -301   -251   -224    200   -264    -74   -217   -202    -97   -170   -249   -213   -211   -128    165    242   -314   -275 
  -344    470   -543   -486   -480   -544   -495   -404   -511   -506   -366   -443   -508   -491   -440   -470   -354   -443   -579   -559 
  -336   -418   -442   -427     -7   -429   -164   -330   -380   -335   -269   -308   -394   -350   -333   -374   -350   -324   -144    440 
   113   -235   -329   -333   -350   -220   -330   -332   -274   -391   -248   -138   -259   -279   -251    313     70   -257   -398   -367 
  -353   -384   -477   -454    367   -462   -176   -257   -400   -235   -194   -305   -405   -341   -343   -378   -346   -273    394     67 
  -365   -421   -423   -407   -136   -423   -374   -380   -369   -284   -257   -332   -414   -342   -312   -415   -356   -332    562   -180 
   -53     47   -338   -273   -214   -324   -266     26   -237   -176    -89   -237   -267     40   -210   -243    -90    346   -328   -301 
   123   -242   -334   -259   -171     57   -268    -76   -224    220    -22   -201   -254   -207   -210   -159   -113    -72   -293   -258 
   111   -316   -158   -185   -366    274   -220   -340   -167   -393   -255    166   -262   -180   -188     58   -141   -258   -383   -337 
   -97   -258   -305   -301   -282   -276   -295   -238   -223    -59   -185   -114   -266   -251   -213    312     99   -225   -355   -300 
    34   -327   -446   -350   -140   -393   -335    -50   -310    271     27   -314   -325   -264   -267   -309   -210    -87   -308   -291 
   189   -313   -107    -23   -238   -190    169   -197    149   -231   -103    -13    190      0     -2    -79    -47   -146   -284   -193 
  -251   -354   -464   -420   -167   -466   -418    341   -366    117      0   -343   -410   -355   -362   -380   -224     68   -345   -311 
  -257   -346   -516   -432   -126   -481   -398    250   -388    228     27   -379   -393   -331   -347   -405   -239    -17   -318   -306 
   -71   -348    -72    118   -274    203    177   -240    -18   -277   -145     22   -186    -31    -55    -90    133   -192   -315   -225 
    -8   -374   -345   -245   -419   -350   -178   -333    102   -360   -255   -180   -295   -111    415   -279   -230   -333   -325   -357 
--------------------------------------------------------------------------------

--------------------------------------------------------------------------------
	Motif 1 position-specific probability matrix
--------------------------------------------------------------------------------
letter-probability matrix: alength= 20 w= 32 nsites= 5 E= 2.1e-031 
 0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.200000  0.200000  0.000000  0.000000  0.600000  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  0.400000  0.000000  0.000000  0.000000  0.200000  0.200000  0.200000  0.000000  0.000000  0.000000  0.000000 
 0.000000  0.000000  0.200000  0.200000  0.200000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.400000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000 
 0.000000  0.000000  0.200000  0.600000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.200000  0.000000  0.000000  0.000000  0.000000 
 0.000000  0.000000  0.000000  0.000000  0.000000  0.800000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.200000  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  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000 
 0.000000  0.000000  0.000000  0.000000  0.600000  0.000000  0.000000  0.000000  0.000000  0.400000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000 
 0.000000  0.200000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.400000  0.000000  0.400000  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  0.000000  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  1.000000  0.000000  0.000000  0.000000  0.000000  0.000000 
 0.000000  0.200000  0.000000  0.200000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.400000  0.000000  0.000000  0.200000  0.000000  0.000000  0.000000  0.000000 
 0.000000  0.000000  0.000000  0.200000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.600000  0.000000  0.000000  0.000000  0.200000  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  0.000000  0.000000  0.000000 
 0.000000  0.000000  0.000000  0.000000  0.200000  0.000000  0.000000  0.000000  0.000000  0.800000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000 
 0.200000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.400000  0.000000  0.000000  0.000000  0.000000  0.400000  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  0.000000  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  0.400000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.200000  0.400000  0.000000  0.000000 
 0.000000  1.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  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  0.000000  0.000000  0.000000  0.000000  1.000000 
 0.200000  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  0.800000  0.000000  0.000000  0.000000  0.000000 
 0.000000  0.000000  0.000000  0.000000  0.600000  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  0.400000  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  1.000000  0.000000 
 0.000000  0.200000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.200000  0.000000  0.000000  0.000000  0.600000  0.000000  0.000000 
 0.200000  0.000000  0.000000  0.000000  0.000000  0.200000  0.000000  0.000000  0.000000  0.600000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000 
 0.200000  0.000000  0.000000  0.000000  0.000000  0.400000  0.000000  0.000000  0.000000  0.000000  0.000000  0.200000  0.000000  0.000000  0.000000  0.200000  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  0.200000  0.000000  0.000000  0.000000  0.000000  0.000000  0.800000  0.000000  0.000000  0.000000  0.000000 
 0.200000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.800000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000 
 0.400000  0.000000  0.000000  0.000000  0.000000  0.000000  0.200000  0.000000  0.200000  0.000000  0.000000  0.000000  0.200000  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  0.600000  0.000000  0.400000  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  0.400000  0.000000  0.600000  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  0.200000  0.000000  0.400000  0.200000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.200000  0.000000  0.000000  0.000000 
 0.200000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.000000  0.200000  0.000000  0.000000  0.000000  0.000000  0.000000  0.600000  0.000000  0.000000  0.000000  0.000000  0.000000 
--------------------------------------------------------------------------------

--------------------------------------------------------------------------------
	Motif 1 regular expression
--------------------------------------------------------------------------------
[QLM][LQRS][PDEF][EDS][GR]G[FL][NQC]GR[PCES][NES]K[LF][PVA]D[GVT]CY[SA][FW]W[VCQ][LAG][GANS][SL][LA][AHKP][IL][LI][GEHT][RAK]
--------------------------------------------------------------------------------




Time  0.66 secs.

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


********************************************************************************
MOTIF  2	width =   22   sites =   5   llr = 230   E-value = 4.4e-013
********************************************************************************
--------------------------------------------------------------------------------
	Motif 2 Description
--------------------------------------------------------------------------------
Simplified        A  :::::2:::2::::2:2:::::
pos.-specific     C  82:2::::::::::::::::::
probability       D  ::4:::::::8:2:22:a::::
matrix            E  ::244::::::::422::::::
                  F  ::::::::4:::::::::44::
                  G  ::::::8a:::::6::::::::
                  H  :::::::::::::::2::::a:
                  I  ::::::::2:::::::::::::
                  K  ::2222::::24::2:::::::
                  L  ::::2:::42::::::::2:::
                  M  :::::::::::::::2::::::
                  N  :::::::::::2::2:::::::
                  P  ::::2:2:::::8:::::2:::
                  Q  :82::2::::::::::::::::
                  R  :::::::::2:4::::2:::::
                  S  :::::::::4:::::22::::2
                  T  2::2:4:::::::::::::::8
                  V  ::::::::::::::::4:2:::
                  W  ::::::::::::::::::::::
                  Y  :::::::::::::::::::6::

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