[Bioperl-l] help with parsing meme output
Nandita Mullapudi
nandita at uga.edu
Thu Jun 23 16:56:47 EDT 2005
thanks James,
this one gives the error
Can't use an undefined value as an ARRAY reference at
/usr/lib/perl5/site_perl/5.6.1/Bio/Matrix/PSM/IO/meme.pm line
159, <GEN0> line 43.
i've attached the text output i am trying to parse
-nandita
---- Original message ----
>Date: Thu, 23 Jun 2005 21:36:03 +0100
>From: James Wasmuth <james.wasmuth at ed.ac.uk>
>Subject: Re: [Bioperl-l] help with parsing meme output
>To: Nandita Mullapudi <nandita at uga.edu>
>Cc: bioperl-l at portal.open-bio.org
>
>Does this behave itself?
>
>while (my %header=$psmIO->header) {
> for (my $i=0; $i<=$#{$header{instances}};$i++) {
> print
$header{instances}->[$i],"\t",$header{lengths}->[$i],"\n";
> }
>}
>
>
>I don't use these modules but having looked at the docs this
should work. Although the notes in Bio::Matrix::PSM::IO for
this method say it should be obsolete.
>
>If you still get no joy then attach a copy of the output file
to an email. This should provide people with an example.
>
>
>
>
>
>
>
>
>
>Nandita Mullapudi wrote:
>
>>ok i've got to be missing something here.
>>
>>this is my code:
>>
>>use strict;
>>use warnings;
>>use Bio::Matrix::PSM::IO;
>>use Bio::Matrix::PSM::InstanceSite;
>>
>>my $psmIO = new Bio::Matrix::PSM::IO( -file => 'memeout.txt',
>> -format => 'meme');
>>
>>while (my %header=$psmIO->header) {
>> foreach my $seqid (@{$header{instances}}) {
>> print "$header->length";
>>
>>}
>>}
>>
>>
>>and the error i get is " Global symbol "$header" requires
>>explicit package name at parsememe2.pl line 15.
>>Execution of parsememe2.pl aborted due to compilation errors.
>>
>>
>>thanks for your help.
>>-n
>>
>>
>>
>>
>>---- Original message ----
>>
>>
>>>Date: Thu, 23 Jun 2005 20:51:48 +0100
>>>From: James Wasmuth <james.wasmuth at ed.ac.uk>
>>>Subject: Re: [Bioperl-l] help with parsing meme output
>>>To: Nandita Mullapudi <nandita at uga.edu>
>>>Cc: bioperl-l at bioperl.org
>>>
>>>Nandita
>>>
>>>The BioPerl module $header->length() comes from is
>>>
>>>
>>PSM/PsmHeader.pm
>>
>>
>>>This should be inherited when you "use Bio::Matrix::PSM::IO"
>>>
>>>have a look
>>>http://doc.bioperl.org/releases/bioperl-1.4/Bio/Matrix/PSM/IO.html
>>>
>>>What you want should be covered there. Otherwise shout and
>>>
>>>
>>someone will
>>
>>
>>>answer
>>>
>>>-james
>>>
>>>
>>>
>>>Nandita Mullapudi wrote:
>>>
>>>
>>>
>>>>thanks James,
>>>>
>>>>
>>>>
>>>>
>>>>
>>>>>Is it the length from the input sequence that you want?
>>>>>
>>>>>my %length= $header->length();
>>>>>Function: Returns the length of the input sequence or motifs
>>>>>
>>>>>
>>>>>
>>>>>
>>>>as a hash, indexed
>>>>
>>>>
>>>>
>>>>
>>>>>by a sequence ID (motif id or accession number)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>>yes, i want the length from the input sequence. I am not sure
>>>>i can use the above without specifying which module / package
>>>>it refers to?
>>>>
>>>>also , where can i find this info? :)
>>>>thanks,
>>>>-nandita
>>>>
>>>>
>>>>
>>>>
>>>>
>>>>
>>>>>james
>>>>>
>>>>>
>>>>>Nandita Mullapudi wrote:
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>>Hi,
>>>>>>I am trying to use Bio::Matrix::PSM::IO to parse meme
output.
>>>>>>I need to extract the values corresponding to length of the
>>>>>>sequence, seq id, and motif id, start and
significance/score.
>>>>>>I can get the last three using
>>>>>>
>>>>>>foreach my $instance (@{ $instances }) {
>>>>>> my $start = $instance -> start;
>>>>>> my $score = $instance -> score;
>>>>>>
>>>>>>But i cannot find out how to get the seq id and seq length.
>>>>>>any ideas?
>>>>>>thanks
>>>>>>-nandita
>>>>>>
>>>>>>***************************************************
>>>>>>Graduate Student, Kissinger Lab.
>>>>>>Dept. of Genetics
>>>>>>UGA, Athens GA 30602 USA
>>>>>>lab phone: 706-542-6563
>>>>>>cell phone: 706-254-2444
>>>>>>Lab add: C318 Life Sciences
>>>>>>****************************************************
>>>>>>_______________________________________________
>>>>>>Bioperl-l mailing list
>>>>>>Bioperl-l at portal.open-bio.org
>>>>>>http://portal.open-bio.org/mailman/listinfo/bioperl-l
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>--
>>>>>http://www.nematodes.org/~james
>>>>>
>>>>>"Until man duplicates a blade of grass, nature can laugh at
>>>>>
>>>>>
>>>>>
>>>>>
>>>>his so-called scientific knowledge...."
>>>>
>>>>
>>>>
>>>>
>>>>> --Thomas Edison
>>>>>
>>>>>Blaxter Nematode Genomics Group |
>>>>>Institute of Evolutionary Biology |
>>>>>Ashworth Laboratories, KB | tel: +44 131 650 7403
>>>>>University of Edinburgh | web: www.nematodes.org
>>>>>Edinburgh |
>>>>>EH9 3JT |
>>>>>UK |
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>>***************************************************
>>>>Graduate Student, Kissinger Lab.
>>>>Dept. of Genetics
>>>>UGA, Athens GA 30602 USA
>>>>lab phone: 706-542-6563
>>>>cell phone: 706-254-2444
>>>>Lab add: C318 Life Sciences
>>>>****************************************************
>>>>
>>>>
>>>>
>>>>
>>>--
>>>http://www.nematodes.org/~james
>>>
>>>"Until man duplicates a blade of grass, nature can laugh at
>>>
>>>
>>his so-called scientific knowledge...."
>>
>>
>>> --Thomas Edison
>>>
>>>Blaxter Nematode Genomics Group |
>>>Institute of Evolutionary Biology |
>>>Ashworth Laboratories, KB | tel: +44 131 650 7403
>>>University of Edinburgh | web: www.nematodes.org
>>>Edinburgh |
>>>EH9 3JT |
>>>UK |
>>>
>>>
>>>
>>>
>>
>>***************************************************
>>Graduate Student, Kissinger Lab.
>>Dept. of Genetics
>>UGA, Athens GA 30602 USA
>>lab phone: 706-542-6563
>>cell phone: 706-254-2444
>>Lab add: C318 Life Sciences
>>****************************************************
>>
>>
>
>--
>http://www.nematodes.org/~james
>
>"Until man duplicates a blade of grass, nature can laugh at
his so-called scientific knowledge...."
> --Thomas Edison
>
>Blaxter Nematode Genomics Group |
>Institute of Evolutionary Biology |
>Ashworth Laboratories, KB | tel: +44 131 650 7403
>University of Edinburgh | web: www.nematodes.org
>Edinburgh |
>EH9 3JT |
>UK |
>
>
***************************************************
Graduate Student, Kissinger Lab.
Dept. of Genetics
UGA, Athens GA 30602 USA
lab phone: 706-542-6563
cell phone: 706-254-2444
Lab add: C318 Life Sciences
****************************************************
-------------- next part --------------
********************************************************************************
MEME - Motif discovery tool
********************************************************************************
MEME version 3.0 (Release date: 2002/04/02 00:11:59)
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= /scratch/nandita/Sullivan/all14-trunc-uw
ALPHABET= ACGT
Sequence name Weight Length Sequence name Weight Length
------------- ------ ------ ------------- ------ ------
G6PD_TRUNC 1.0000 1500 GAPDH_TRUNC 1.0000 1500
PDIpro-trunc 1.0000 1500 Camp-kin-cat-trunc 1.0000 1450
cAMP_kinase_reg-trunc 1.0000 1500 PK4-TRUNC 1.0000 1500
Calmodulin-TRUNC 1.0000 1500 MIC2-TRUNC 1.0000 1500
MIC4-TRUNC 1.0000 1500 MIC5-TRUNC 1.0000 1500
MIC6-TRUNC 1.0000 1500 ROP9-TRUNC 1.0000 1500
GRA7-TRUNC 1.0000 1500 GRA2pre-TRUNC 1.0000 1500
RiboP-TRUNCATED 1.0000 1501 MIC11-PRO-TRUNC 1.0000 1500
********************************************************************************
********************************************************************************
COMMAND LINE SUMMARY
********************************************************************************
This information can also be useful in the event you wish to report a
problem with the MEME software.
command: meme /scratch/nandita/Sullivan/all14-trunc-uw -dna -minw 6 -maxw 20 -mod oops -nmotifs 20
model: mod= oops nmotifs= 20 evt= inf
object function= E-value of product of p-values
width: minw= 6 maxw= 20 minic= 0.00
width: wg= 11 ws= 1 endgaps= yes
nsites: minsites= 16 maxsites= 16 wnsites= 0.8
theta: prob= 1 spmap= uni spfuzz= 0.5
em: prior= dirichlet b= 0.01 maxiter= 50
distance= 1e-05
data: n= 23951 N= 16
strands: +
sample: seed= 0 seqfrac= 1
Letter frequencies in dataset:
A 0.218 C 0.269 G 0.246 T 0.267
Background letter frequencies (from dataset with add-one prior applied):
A 0.218 C 0.269 G 0.246 T 0.267
********************************************************************************
********************************************************************************
MOTIF 1 width = 11 sites = 16 llr = 159 E-value = 5.1e+001
********************************************************************************
--------------------------------------------------------------------------------
Motif 1 Description
--------------------------------------------------------------------------------
Simplified A 2:::9:8:611
pos.-specific C 1:381:1::9:
probability G 1131:a1a::8
matrix T 6951::::4:1
bits 2.2
2.0 * *
1.8 ** *
1.5 ** * *
Information 1.3 * **** *
content 1.1 * ********
(14.4 bits) 0.9 * ********
0.7 * ********
0.4 ***********
0.2 ***********
0.0 -----------
Multilevel TTTCAGAGACG
consensus C T
sequence G
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 1 sites sorted by position p-value
--------------------------------------------------------------------------------
Sequence name Start P-value Site
------------- ----- --------- -----------
GRA7-TRUNC 1203 2.13e-07 CTCACCGGGT TTTCAGAGACG CGCGAGATCC
MIC2-TRUNC 1282 2.13e-07 GCGACGTCGA TTTCAGAGACG ACGCCGCATG
ROP9-TRUNC 1092 1.06e-06 TCAGCGACGC ATTCAGAGACG AGTTTGTTGC
G6PD_TRUNC 908 1.30e-06 TGTCCAAAAG TTGCAGAGTCG ACTTCCATCT
PDIpro-trunc 357 1.56e-06 CCAGCAGTAG TTCCAGAGTCG TACAGCCGTA
MIC5-TRUNC 880 3.56e-06 GTCGCGGAAG GTTCAGAGACG CCCCAGTCGT
MIC4-TRUNC 445 4.81e-06 CCGCTTTCCG TTGGAGAGACG CCGGCTAGGG
PK4-TRUNC 36 4.81e-06 GCATCGCTAG ATCCAGAGTCG CTCTTTAACT
GAPDH_TRUNC 994 1.31e-05 CACTGTGTTT TTGCAGAGACT TGTTTCCACT
cAMP_kinase_reg-trunc 1211 1.65e-05 TCGCTCTCAT TTCCAGCGTCG ATCGCGCCTG
MIC6-TRUNC 1196 2.16e-05 CGCTAGTGTG TGTCAGCGACG CGGCAGTCGA
Calmodulin-TRUNC 368 2.55e-05 GGTCCCCCGT ATGCAGAGTCA AATAGCCAAC
GRA2pre-TRUNC 1324 2.74e-05 ACAGAGACGA CGCCAGAGACG CAAAATGAAC
RiboP-TRUNCATED 1042 5.17e-05 CAGGCGGTTT CTTCAGGGTCG AATGGGAGTC
MIC11-PRO-TRUNC 1068 7.72e-05 TGTTTTCCTT TTTTCGAGACG TCTGTCGAGA
Camp-kin-cat-trunc 237 1.11e-04 GCGGCGTTTC TTTGAGAGAAA CTTAAACAGG
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 1 block diagrams
--------------------------------------------------------------------------------
SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM
------------- ---------------- -------------
GRA7-TRUNC 2.1e-07 1202_[1]_287
MIC2-TRUNC 2.1e-07 1281_[1]_208
ROP9-TRUNC 1.1e-06 1091_[1]_398
G6PD_TRUNC 1.3e-06 907_[1]_582
PDIpro-trunc 1.6e-06 356_[1]_1133
MIC5-TRUNC 3.6e-06 879_[1]_610
MIC4-TRUNC 4.8e-06 444_[1]_1045
PK4-TRUNC 4.8e-06 35_[1]_1454
GAPDH_TRUNC 1.3e-05 993_[1]_496
cAMP_kinase_reg-trunc 1.6e-05 1210_[1]_279
MIC6-TRUNC 2.2e-05 1195_[1]_294
Calmodulin-TRUNC 2.6e-05 367_[1]_1122
GRA2pre-TRUNC 2.7e-05 1323_[1]_166
RiboP-TRUNCATED 5.2e-05 1041_[1]_449
MIC11-PRO-TRUNC 7.7e-05 1067_[1]_422
Camp-kin-cat-trunc 0.00011 236_[1]_1203
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 1 in BLOCKS format
--------------------------------------------------------------------------------
BL MOTIF 1 width=11 seqs=16
GRA7-TRUNC ( 1203) TTTCAGAGACG 1
MIC2-TRUNC ( 1282) TTTCAGAGACG 1
ROP9-TRUNC ( 1092) ATTCAGAGACG 1
G6PD_TRUNC ( 908) TTGCAGAGTCG 1
PDIpro-trunc ( 357) TTCCAGAGTCG 1
MIC5-TRUNC ( 880) GTTCAGAGACG 1
MIC4-TRUNC ( 445) TTGGAGAGACG 1
PK4-TRUNC ( 36) ATCCAGAGTCG 1
GAPDH_TRUNC ( 994) TTGCAGAGACT 1
cAMP_kinase_reg-trunc ( 1211) TTCCAGCGTCG 1
MIC6-TRUNC ( 1196) TGTCAGCGACG 1
Calmodulin-TRUNC ( 368) ATGCAGAGTCA 1
GRA2pre-TRUNC ( 1324) CGCCAGAGACG 1
RiboP-TRUNCATED ( 1042) CTTCAGGGTCG 1
MIC11-PRO-TRUNC ( 1068) TTTTCGAGACG 1
Camp-kin-cat-trunc ( 237) TTTGAGAGAAA 1
//
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 1 position-specific scoring matrix
--------------------------------------------------------------------------------
log-odds matrix: alength= 4 w= 11 n= 23791 bayes= 10.5372 E= 5.1e+001
-22 -110 -198 123
-1064 -1064 -98 171
-1064 -10 2 91
-1064 160 -98 -209
210 -210 -1064 -1064
-1064 -1064 202 -1064
189 -110 -198 -1064
-1064 -1064 202 -1064
152 -1064 -1064 49
-180 180 -1064 -1064
-80 -1064 172 -209
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 1 position-specific probability matrix
--------------------------------------------------------------------------------
letter-probability matrix: alength= 4 w= 11 n= 23791 E= 5.1e+001
0.187519 0.125090 0.062615 0.624776
0.000136 0.000168 0.125076 0.874620
0.000136 0.250012 0.249998 0.499854
0.000136 0.812160 0.125076 0.062628
0.937051 0.062629 0.000154 0.000167
0.000136 0.000168 0.999529 0.000167
0.812129 0.125090 0.062615 0.000167
0.000136 0.000168 0.999529 0.000167
0.624746 0.000168 0.000154 0.374932
0.062597 0.937082 0.000154 0.000167
0.125058 0.000168 0.812146 0.062628
--------------------------------------------------------------------------------
Time 41.39 secs.
********************************************************************************
********************************************************************************
MOTIF 2 width = 8 sites = 16 llr = 143 E-value = 9.3e+001
********************************************************************************
--------------------------------------------------------------------------------
Motif 2 Description
--------------------------------------------------------------------------------
Simplified A 869a9a81
pos.-specific C :4::::1:
probability G 211:1::9
matrix T ::::::1:
bits 2.2 * *
2.0 * *
1.8 ** *
1.5 * **** *
Information 1.3 * ******
content 1.1 * ******
(12.9 bits) 0.9 ********
0.7 ********
0.4 ********
0.2 ********
0.0 --------
Multilevel AAAAAAAG
consensus C
sequence
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 2 sites sorted by position p-value
--------------------------------------------------------------------------------
Sequence name Start P-value Site
------------- ----- --------- --------
GRA2pre-TRUNC 251 5.84e-06 GTGGAAACGA AAAAAAAG GGTTTCAGGA
MIC2-TRUNC 126 5.84e-06 GTACATGGTC AAAAAAAG CCGTAATGCA
PK4-TRUNC 476 5.84e-06 AGACGTTGGG AAAAAAAG TTATCGGCGT
cAMP_kinase_reg-trunc 429 5.84e-06 TATTCGTGTG AAAAAAAG TGGAAGTCCC
GRA7-TRUNC 490 1.30e-05 TAGGAGATTC ACAAAAAG TTCAGGAAAA
PDIpro-trunc 728 1.96e-05 GCTCGTCCAC GAAAAAAG TGTTTCGTGA
MIC5-TRUNC 813 3.85e-05 GATTCAAGGA AAAAAATG CATTGAACAA
G6PD_TRUNC 58 3.85e-05 AGGACCTCCG AAAAAATG TCACTCTTCG
MIC11-PRO-TRUNC 660 4.66e-05 ATCACCAAAT GCAAAAAG CGAGCCTTCA
GAPDH_TRUNC 783 5.32e-05 TTAGGAATGG AGAAAAAG GTAGTTTACA
RiboP-TRUNCATED 1117 5.96e-05 CAGGAGTCTG ACAAAAAA GTGAAGTTTT
Calmodulin-TRUNC 454 5.96e-05 CATCTACCAT ACAAAAAA ATCATGTGGG
ROP9-TRUNC 425 6.76e-05 GGAACAGCAA ACAAGAAG ACGGGCAATA
MIC6-TRUNC 1089 6.76e-05 AAACGCTGCA ACAAGAAG CACAGTCCAG
Camp-kin-cat-trunc 315 9.02e-05 TGGCGAGTGG AAGAAAAG CTGTTTCTCT
MIC4-TRUNC 881 2.11e-04 CACTAAAACC GAAAAACG GAAGTCAGTA
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 2 block diagrams
--------------------------------------------------------------------------------
SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM
------------- ---------------- -------------
GRA2pre-TRUNC 5.8e-06 250_[2]_1242
MIC2-TRUNC 5.8e-06 125_[2]_1367
PK4-TRUNC 5.8e-06 475_[2]_1017
cAMP_kinase_reg-trunc 5.8e-06 428_[2]_1064
GRA7-TRUNC 1.3e-05 489_[2]_1003
PDIpro-trunc 2e-05 727_[2]_765
MIC5-TRUNC 3.8e-05 812_[2]_680
G6PD_TRUNC 3.8e-05 57_[2]_1435
MIC11-PRO-TRUNC 4.7e-05 659_[2]_833
GAPDH_TRUNC 5.3e-05 782_[2]_710
RiboP-TRUNCATED 6e-05 1116_[2]_377
Calmodulin-TRUNC 6e-05 453_[2]_1039
ROP9-TRUNC 6.8e-05 424_[2]_1068
MIC6-TRUNC 6.8e-05 1088_[2]_404
Camp-kin-cat-trunc 9e-05 314_[2]_1128
MIC4-TRUNC 0.00021 880_[2]_612
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 2 in BLOCKS format
--------------------------------------------------------------------------------
BL MOTIF 2 width=8 seqs=16
GRA2pre-TRUNC ( 251) AAAAAAAG 1
MIC2-TRUNC ( 126) AAAAAAAG 1
PK4-TRUNC ( 476) AAAAAAAG 1
cAMP_kinase_reg-trunc ( 429) AAAAAAAG 1
GRA7-TRUNC ( 490) ACAAAAAG 1
PDIpro-trunc ( 728) GAAAAAAG 1
MIC5-TRUNC ( 813) AAAAAATG 1
G6PD_TRUNC ( 58) AAAAAATG 1
MIC11-PRO-TRUNC ( 660) GCAAAAAG 1
GAPDH_TRUNC ( 783) AGAAAAAG 1
RiboP-TRUNCATED ( 1117) ACAAAAAA 1
Calmodulin-TRUNC ( 454) ACAAAAAA 1
ROP9-TRUNC ( 425) ACAAGAAG 1
MIC6-TRUNC ( 1089) ACAAGAAG 1
Camp-kin-cat-trunc ( 315) AAGAAAAG 1
MIC4-TRUNC ( 881) GAAAAACG 1
//
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 2 position-specific scoring matrix
--------------------------------------------------------------------------------
log-odds matrix: alength= 4 w= 8 n= 23839 bayes= 10.5401 E= 9.3e+001
189 -1064 -39 -1064
136 48 -198 -1064
210 -1064 -198 -1064
219 -1064 -1064 -1064
200 -1064 -98 -1064
219 -1064 -1064 -1064
189 -210 -1064 -109
-80 -1064 183 -1064
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 2 position-specific probability matrix
--------------------------------------------------------------------------------
letter-probability matrix: alength= 4 w= 8 n= 23839 E= 9.3e+001
0.812129 0.000168 0.187537 0.000167
0.562285 0.374934 0.062615 0.000167
0.937051 0.000168 0.062615 0.000167
0.999512 0.000168 0.000154 0.000167
0.874590 0.000168 0.125076 0.000167
0.999512 0.000168 0.000154 0.000167
0.812129 0.062629 0.000154 0.125088
0.125058 0.000168 0.874607 0.000167
--------------------------------------------------------------------------------
Time 82.95 secs.
********************************************************************************
********************************************************************************
MOTIF 3 width = 11 sites = 16 llr = 157 E-value = 2.2e+002
********************************************************************************
--------------------------------------------------------------------------------
Motif 3 Description
--------------------------------------------------------------------------------
Simplified A ::1:1:::::8
pos.-specific C 3::31241:a:
probability G ::::4:4:a::
matrix T 8a974829::3
bits 2.2
2.0 * **
1.8 * **
1.5 ** **
Information 1.3 ** * ****
content 1.1 **** * ****
(14.1 bits) 0.9 **** * ****
0.7 **** * ****
0.4 **** ******
0.2 ***********
0.0 -----------
Multilevel TTTTTTCTGCA
consensus C CG G T
sequence
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 3 sites sorted by position p-value
--------------------------------------------------------------------------------
Sequence name Start P-value Site
------------- ----- --------- -----------
GRA7-TRUNC 347 3.72e-07 CTCTGCTCTG TTTTTTCTGCA CTGCACCGCC
MIC5-TRUNC 47 1.37e-06 GTGCAATTGC TTTTGTGTGCA ACCGACAGGC
PDIpro-trunc 100 3.47e-06 ATATTGTCGC TTTTGTTTGCA CTCCTGTACA
GAPDH_TRUNC 662 3.47e-06 CGTCTCTCTT TTTCGTGTGCA TCTCATTCTT
Camp-kin-cat-trunc 723 3.77e-06 GACGCGATTT TTTTATCTGCA CCACTCGCCG
RiboP-TRUNCATED 1344 8.86e-06 TCTTCTTGTT TTTTGCGTGCA GGTTAAAGTG
GRA2pre-TRUNC 1404 8.86e-06 CATTAAACGA TTTCTTTTGCA ATTCGCGTCG
MIC4-TRUNC 1157 1.44e-05 ACATCGACCA TTTTCTGTGCA TCTGTGCTGC
MIC6-TRUNC 924 1.64e-05 ATTAAACGGG TTTCGTCTGCT TTAGATGTTT
MIC2-TRUNC 1225 1.64e-05 GACCGTCCAG CTTTATCTGCA AGCAACGCCA
cAMP_kinase_reg-trunc 1451 2.10e-05 GGCGTGTCCC CTTTTTCTGCT TCTTTTTGCC
G6PD_TRUNC 11 2.10e-05 CCAGACCCCT CTTTTTCTGCT GCTTACACGG
Calmodulin-TRUNC 418 2.27e-05 ACAAGATCGG TTATTTGTGCA CCCATTTCTA
PK4-TRUNC 640 4.79e-05 AGGCCTTCCT CTTCGCCTGCA ACCTTCAGAG
ROP9-TRUNC 1470 5.09e-05 TTCAAACACG TTTTTCGCGCA GTGCTTCCCT
MIC11-PRO-TRUNC 759 1.06e-04 CAATAGCGGG TTTCTTTCGCT AGTTCGCGAC
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 3 block diagrams
--------------------------------------------------------------------------------
SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM
------------- ---------------- -------------
GRA7-TRUNC 3.7e-07 346_[3]_1143
MIC5-TRUNC 1.4e-06 46_[3]_1443
PDIpro-trunc 3.5e-06 99_[3]_1390
GAPDH_TRUNC 3.5e-06 661_[3]_828
Camp-kin-cat-trunc 3.8e-06 722_[3]_717
RiboP-TRUNCATED 8.9e-06 1343_[3]_147
GRA2pre-TRUNC 8.9e-06 1403_[3]_86
MIC4-TRUNC 1.4e-05 1156_[3]_333
MIC6-TRUNC 1.6e-05 923_[3]_566
MIC2-TRUNC 1.6e-05 1224_[3]_265
cAMP_kinase_reg-trunc 2.1e-05 1450_[3]_39
G6PD_TRUNC 2.1e-05 10_[3]_1479
Calmodulin-TRUNC 2.3e-05 417_[3]_1072
PK4-TRUNC 4.8e-05 639_[3]_850
ROP9-TRUNC 5.1e-05 1469_[3]_20
MIC11-PRO-TRUNC 0.00011 758_[3]_731
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 3 in BLOCKS format
--------------------------------------------------------------------------------
BL MOTIF 3 width=11 seqs=16
GRA7-TRUNC ( 347) TTTTTTCTGCA 1
MIC5-TRUNC ( 47) TTTTGTGTGCA 1
PDIpro-trunc ( 100) TTTTGTTTGCA 1
GAPDH_TRUNC ( 662) TTTCGTGTGCA 1
Camp-kin-cat-trunc ( 723) TTTTATCTGCA 1
RiboP-TRUNCATED ( 1344) TTTTGCGTGCA 1
GRA2pre-TRUNC ( 1404) TTTCTTTTGCA 1
MIC4-TRUNC ( 1157) TTTTCTGTGCA 1
MIC6-TRUNC ( 924) TTTCGTCTGCT 1
MIC2-TRUNC ( 1225) CTTTATCTGCA 1
cAMP_kinase_reg-trunc ( 1451) CTTTTTCTGCT 1
G6PD_TRUNC ( 11) CTTTTTCTGCT 1
Calmodulin-TRUNC ( 418) TTATTTGTGCA 1
PK4-TRUNC ( 640) CTTCGCCTGCA 1
ROP9-TRUNC ( 1470) TTTTTCGCGCA 1
MIC11-PRO-TRUNC ( 759) TTTCTTTCGCT 1
//
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 3 position-specific scoring matrix
--------------------------------------------------------------------------------
log-odds matrix: alength= 4 w= 11 n= 23791 bayes= 10.5372 E= 2.2e+002
-1064 -10 -1064 149
-1064 -1064 -1064 191
-180 -1064 -1064 181
-1064 22 -1064 137
-80 -210 61 71
-1064 -52 -1064 161
-1064 70 61 -51
-1064 -110 -1064 171
-1064 -1064 202 -1064
-1064 190 -1064 -1064
178 -1064 -1064 -9
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 3 position-specific probability matrix
--------------------------------------------------------------------------------
letter-probability matrix: alength= 4 w= 11 n= 23791 E= 2.2e+002
0.000136 0.250012 0.000154 0.749698
0.000136 0.000168 0.000154 0.999542
0.062597 0.000168 0.000154 0.937081
0.000136 0.312473 0.000154 0.687237
0.125058 0.062629 0.374920 0.437393
0.000136 0.187551 0.000154 0.812159
0.000136 0.437395 0.374920 0.187549
0.000136 0.125090 0.000154 0.874620
0.000136 0.000168 0.999529 0.000167
0.000136 0.999543 0.000154 0.000167
0.749668 0.000168 0.000154 0.250010
--------------------------------------------------------------------------------
Time 123.42 secs.
********************************************************************************
********************************************************************************
MOTIF 4 width = 11 sites = 16 llr = 158 E-value = 7.7e+001
********************************************************************************
--------------------------------------------------------------------------------
Motif 4 Description
--------------------------------------------------------------------------------
Simplified A ::::::1::2:
pos.-specific C :::::634::8
probability G 1a::::1:511
matrix T 9:aaa456582
bits 2.2
2.0 ****
1.8 ****
1.5 *****
Information 1.3 *****
content 1.1 *****
(14.3 bits) 0.9 ****** ****
0.7 ****** ****
0.4 ****** ****
0.2 ***********
0.0 -----------
Multilevel TGTTTCTTGTC
consensus TCCT
sequence
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 4 sites sorted by position p-value
--------------------------------------------------------------------------------
Sequence name Start P-value Site
------------- ----- --------- -----------
Calmodulin-TRUNC 1392 4.20e-07 TCACATTCGG TGTTTCTTGTC CGGGGGTGTT
MIC6-TRUNC 1443 1.74e-06 ATATATGATG TGTTTTTTTTC GATTGGATGA
GRA2pre-TRUNC 1436 3.05e-06 TATCGCACGT TGTTTCTCGTC CCACGAATAG
GAPDH_TRUNC 319 3.92e-06 TTGCCCTCTG TGTTTTCTGTC GCTGAGTGCA
cAMP_kinase_reg-trunc 1310 4.80e-06 AGCTCGCGTT TGTTTTCTTTC TGACAGTCCT
G6PD_TRUNC 1275 6.14e-06 TTTCGTTTCC TGTTTCCCTTC GATGACCGCT
MIC2-TRUNC 921 1.07e-05 ACGTCACAGT TGTTTTTTTAC GGGAAAATTC
PK4-TRUNC 1086 1.34e-05 CGTACGTCTC TGTTTCTCGAC CTTTTTCGAT
ROP9-TRUNC 1280 1.68e-05 GCCGGACTCT TGTTTCTCGTT AGCGCGTAGG
MIC4-TRUNC 1462 1.98e-05 GTTGTGGATG TGTTTTCTTTT GTGACCGCTC
Camp-kin-cat-trunc 133 1.98e-05 TGGCAGTTCC TGTTTCGTTTC AACGTCACTT
PDIpro-trunc 913 3.00e-05 TAAGCGAGCT TGTTTTATTAC CTGGCTTTCG
MIC11-PRO-TRUNC 1172 3.39e-05 CTTTTCGTAC GGTTTTTTGTC TAGCATAAAC
RiboP-TRUNCATED 658 3.76e-05 GACAGCGCGT TGTTTCCTTGC GGCTGCGCCT
MIC5-TRUNC 1410 3.76e-05 ATGTAGTTTC TGTTTCTCGTG AGACCGTGAA
GRA7-TRUNC 1273 4.06e-05 CTTTGGAACG TGTTTCACGTT TGAGTTGCAC
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 4 block diagrams
--------------------------------------------------------------------------------
SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM
------------- ---------------- -------------
Calmodulin-TRUNC 4.2e-07 1391_[4]_98
MIC6-TRUNC 1.7e-06 1442_[4]_47
GRA2pre-TRUNC 3e-06 1435_[4]_54
GAPDH_TRUNC 3.9e-06 318_[4]_1171
cAMP_kinase_reg-trunc 4.8e-06 1309_[4]_180
G6PD_TRUNC 6.1e-06 1274_[4]_215
MIC2-TRUNC 1.1e-05 920_[4]_569
PK4-TRUNC 1.3e-05 1085_[4]_404
ROP9-TRUNC 1.7e-05 1279_[4]_210
MIC4-TRUNC 2e-05 1461_[4]_28
Camp-kin-cat-trunc 2e-05 132_[4]_1307
PDIpro-trunc 3e-05 912_[4]_577
MIC11-PRO-TRUNC 3.4e-05 1171_[4]_318
RiboP-TRUNCATED 3.8e-05 657_[4]_833
MIC5-TRUNC 3.8e-05 1409_[4]_80
GRA7-TRUNC 4.1e-05 1272_[4]_217
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 4 in BLOCKS format
--------------------------------------------------------------------------------
BL MOTIF 4 width=11 seqs=16
Calmodulin-TRUNC ( 1392) TGTTTCTTGTC 1
MIC6-TRUNC ( 1443) TGTTTTTTTTC 1
GRA2pre-TRUNC ( 1436) TGTTTCTCGTC 1
GAPDH_TRUNC ( 319) TGTTTTCTGTC 1
cAMP_kinase_reg-trunc ( 1310) TGTTTTCTTTC 1
G6PD_TRUNC ( 1275) TGTTTCCCTTC 1
MIC2-TRUNC ( 921) TGTTTTTTTAC 1
PK4-TRUNC ( 1086) TGTTTCTCGAC 1
ROP9-TRUNC ( 1280) TGTTTCTCGTT 1
MIC4-TRUNC ( 1462) TGTTTTCTTTT 1
Camp-kin-cat-trunc ( 133) TGTTTCGTTTC 1
PDIpro-trunc ( 913) TGTTTTATTAC 1
MIC11-PRO-TRUNC ( 1172) GGTTTTTTGTC 1
RiboP-TRUNCATED ( 658) TGTTTCCTTGC 1
MIC5-TRUNC ( 1410) TGTTTCTCGTG 1
GRA7-TRUNC ( 1273) TGTTTCACGTT 1
//
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 4 position-specific scoring matrix
--------------------------------------------------------------------------------
log-odds matrix: alength= 4 w= 11 n= 23791 bayes= 10.5372 E= 7.7e+001
-1064 -1064 -198 181
-1064 -1064 202 -1064
-1064 -1064 -1064 191
-1064 -1064 -1064 191
-1064 -1064 -1064 191
-1064 107 -1064 71
-80 22 -198 91
-1064 48 -1064 123
-1064 -1064 102 91
-22 -1064 -198 149
-1064 148 -198 -51
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 4 position-specific probability matrix
--------------------------------------------------------------------------------
letter-probability matrix: alength= 4 w= 11 n= 23791 E= 7.7e+001
0.000136 0.000168 0.062615 0.937081
0.000136 0.000168 0.999529 0.000167
0.000136 0.000168 0.000154 0.999542
0.000136 0.000168 0.000154 0.999542
0.000136 0.000168 0.000154 0.999542
0.000136 0.562316 0.000154 0.437393
0.125058 0.312473 0.062615 0.499854
0.000136 0.374934 0.000154 0.624776
0.000136 0.000168 0.499842 0.499854
0.187519 0.000168 0.062615 0.749698
0.000136 0.749699 0.062615 0.187549
--------------------------------------------------------------------------------
Time 163.67 secs.
********************************************************************************
********************************************************************************
MOTIF 5 width = 8 sites = 16 llr = 142 E-value = 4.8e+002
********************************************************************************
--------------------------------------------------------------------------------
Motif 5 Description
--------------------------------------------------------------------------------
Simplified A 3:8:aaa3
pos.-specific C :9:1:::7
probability G 81:9::::
matrix T :12::::1
bits 2.2 ***
2.0 ***
1.8 ***
1.5 *****
Information 1.3 *******
content 1.1 *******
(12.8 bits) 0.9 ********
0.7 ********
0.4 ********
0.2 ********
0.0 --------
Multilevel GCAGAAAC
consensus A A
sequence
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 5 sites sorted by position p-value
--------------------------------------------------------------------------------
Sequence name Start P-value Site
------------- ----- --------- --------
RiboP-TRUNCATED 1 9.96e-06 . GCAGAAAC TGCGGGGAAT
GRA7-TRUNC 949 9.96e-06 GTTCGCGCCT GCAGAAAC CCACGAGCCC
ROP9-TRUNC 449 9.96e-06 AATATATCTG GCAGAAAC ATCTAAGCAC
MIC5-TRUNC 1112 9.96e-06 CTGGAGAGAC GCAGAAAC TTAGATCCAG
MIC2-TRUNC 613 9.96e-06 CCTTTGTAAC GCAGAAAC TGAAAATAAC
Camp-kin-cat-trunc 1397 1.81e-05 TTGTTCGACG GCAGAAAA GGCTTCTTGT
G6PD_TRUNC 376 2.69e-05 TCGCCGACTT ACAGAAAC CATTGACGAC
GRA2pre-TRUNC 315 3.91e-05 GACAGATCCC GCTGAAAC CTCTAAACAC
cAMP_kinase_reg-trunc 123 3.91e-05 AGATGCTTCC GCTGAAAC CTACGAATCT
PDIpro-trunc 453 4.62e-05 ACCGCAATCC ACAGAAAA CCACACAACA
MIC11-PRO-TRUNC 1140 5.71e-05 GGGCAACGTG GCACAAAC GCAGTCGTTA
MIC4-TRUNC 993 6.70e-05 ATCCTGACTA GCAGAAAT TCGTTCACCC
PK4-TRUNC 1469 8.60e-05 GTTGTTTGTT GGAGAAAC AGCTTTTCTA
GAPDH_TRUNC 1018 8.60e-05 TTCCACTGTC GCTGAAAA GGGAGAGTAT
Calmodulin-TRUNC 1097 1.25e-04 TTGTTGTAAC ACACAAAC CGCTAGTGCT
MIC6-TRUNC 549 2.56e-04 ATTGTTTTCC ATAGAAAA CACTACTGGA
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 5 block diagrams
--------------------------------------------------------------------------------
SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM
------------- ---------------- -------------
RiboP-TRUNCATED 1e-05 [5]_1493
GRA7-TRUNC 1e-05 948_[5]_544
ROP9-TRUNC 1e-05 448_[5]_1044
MIC5-TRUNC 1e-05 1111_[5]_381
MIC2-TRUNC 1e-05 612_[5]_880
Camp-kin-cat-trunc 1.8e-05 1396_[5]_46
G6PD_TRUNC 2.7e-05 375_[5]_1117
GRA2pre-TRUNC 3.9e-05 314_[5]_1178
cAMP_kinase_reg-trunc 3.9e-05 122_[5]_1370
PDIpro-trunc 4.6e-05 452_[5]_1040
MIC11-PRO-TRUNC 5.7e-05 1139_[5]_353
MIC4-TRUNC 6.7e-05 992_[5]_500
PK4-TRUNC 8.6e-05 1468_[5]_24
GAPDH_TRUNC 8.6e-05 1017_[5]_475
Calmodulin-TRUNC 0.00013 1096_[5]_396
MIC6-TRUNC 0.00026 548_[5]_944
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 5 in BLOCKS format
--------------------------------------------------------------------------------
BL MOTIF 5 width=8 seqs=16
RiboP-TRUNCATED ( 1) GCAGAAAC 1
GRA7-TRUNC ( 949) GCAGAAAC 1
ROP9-TRUNC ( 449) GCAGAAAC 1
MIC5-TRUNC ( 1112) GCAGAAAC 1
MIC2-TRUNC ( 613) GCAGAAAC 1
Camp-kin-cat-trunc ( 1397) GCAGAAAA 1
G6PD_TRUNC ( 376) ACAGAAAC 1
GRA2pre-TRUNC ( 315) GCTGAAAC 1
cAMP_kinase_reg-trunc ( 123) GCTGAAAC 1
PDIpro-trunc ( 453) ACAGAAAA 1
MIC11-PRO-TRUNC ( 1140) GCACAAAC 1
MIC4-TRUNC ( 993) GCAGAAAT 1
PK4-TRUNC ( 1469) GGAGAAAC 1
GAPDH_TRUNC ( 1018) GCTGAAAA 1
Calmodulin-TRUNC ( 1097) ACACAAAC 1
MIC6-TRUNC ( 549) ATAGAAAA 1
//
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 5 position-specific scoring matrix
--------------------------------------------------------------------------------
log-odds matrix: alength= 4 w= 8 n= 23839 bayes= 10.5401 E= 4.8e+002
19 -1064 161 -1064
-1064 170 -198 -209
189 -1064 -1064 -51
-1064 -110 183 -1064
219 -1064 -1064 -1064
219 -1064 -1064 -1064
219 -1064 -1064 -1064
19 136 -1064 -209
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 5 position-specific probability matrix
--------------------------------------------------------------------------------
letter-probability matrix: alength= 4 w= 8 n= 23839 E= 4.8e+002
0.249980 0.000168 0.749685 0.000167
0.000136 0.874621 0.062615 0.062628
0.812129 0.000168 0.000154 0.187549
0.000136 0.125090 0.874607 0.000167
0.999512 0.000168 0.000154 0.000167
0.999512 0.000168 0.000154 0.000167
0.999512 0.000168 0.000154 0.000167
0.249980 0.687238 0.000154 0.062628
--------------------------------------------------------------------------------
Time 204.07 secs.
********************************************************************************
********************************************************************************
MOTIF 6 width = 11 sites = 16 llr = 152 E-value = 8.1e+004
********************************************************************************
--------------------------------------------------------------------------------
Motif 6 Description
--------------------------------------------------------------------------------
Simplified A ::::::::::1
pos.-specific C 33:8::a2a:2
probability G 65a:81:1:17
matrix T 12:239:7:91
bits 2.2
2.0 * * *
1.8 * * *
1.5 * * **
Information 1.3 * ** **
content 1.1 ***** **
(13.7 bits) 0.9 ***** **
0.7 * *********
0.4 ***********
0.2 ***********
0.0 -----------
Multilevel GGGCGTCTCTG
consensus CC T
sequence
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 6 sites sorted by position p-value
--------------------------------------------------------------------------------
Sequence name Start P-value Site
------------- ----- --------- -----------
MIC11-PRO-TRUNC 1307 3.33e-07 CAGCGCACAA GGGCGTCTCTG GTTGCCAGAC
MIC6-TRUNC 1488 6.97e-07 GCTTCCTGCC GCGCGTCTCTG CT
GAPDH_TRUNC 220 1.78e-06 CGCGACAACT GGGCTTCTCTG TAAGCCAAGT
MIC5-TRUNC 1042 1.01e-05 ACGCCGATCC GGGCGTCTCTT TGTTTTCCTT
RiboP-TRUNCATED 1408 1.12e-05 AGCTTCCCCT CGGTGTCTCTG CGTTTTCCTG
PDIpro-trunc 1128 1.19e-05 AGTGTCGAGC GGGCGTCTCGG TGTCGCCGTC
GRA7-TRUNC 1129 1.48e-05 ACGAGGAGAC GCGCGTCTCTA GAGAGACCCG
MIC4-TRUNC 633 1.77e-05 TCCATTGACG GTGCGGCTCTG CAGAATATGT
MIC2-TRUNC 1414 2.10e-05 GCCCGCCCTT TGGCGTCTCTC ATTTTGGGTG
Calmodulin-TRUNC 597 2.46e-05 GAGCAATAAA GCGTGTCCCTG TTTCTCCGTT
PK4-TRUNC 546 3.46e-05 CCGACGCGCA CGGCTTCTCTC CGCAATCGCT
cAMP_kinase_reg-trunc 292 3.46e-05 GAATTTCCAT GCGCTGCTCTG CGAGGTGCCT
GRA2pre-TRUNC 1353 3.80e-05 ACAGCGGAAC CTGCGTCGCTG TCTGTCCTGC
Camp-kin-cat-trunc 472 3.97e-05 GACCGCGAGA CGGTGTCCCTG AATAGTTCGC
G6PD_TRUNC 538 4.33e-05 CCCACATGTG TCGCGTCGCTG TTGCTTGACA
ROP9-TRUNC 1481 9.32e-05 TTTTCGCGCA GTGCTTCCCTC GTTTCTCGG
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 6 block diagrams
--------------------------------------------------------------------------------
SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM
------------- ---------------- -------------
MIC11-PRO-TRUNC 3.3e-07 1306_[6]_183
MIC6-TRUNC 7e-07 1487_[6]_2
GAPDH_TRUNC 1.8e-06 219_[6]_1270
MIC5-TRUNC 1e-05 1041_[6]_448
RiboP-TRUNCATED 1.1e-05 1407_[6]_83
PDIpro-trunc 1.2e-05 1127_[6]_362
GRA7-TRUNC 1.5e-05 1128_[6]_361
MIC4-TRUNC 1.8e-05 632_[6]_857
MIC2-TRUNC 2.1e-05 1413_[6]_76
Calmodulin-TRUNC 2.5e-05 596_[6]_893
PK4-TRUNC 3.5e-05 545_[6]_944
cAMP_kinase_reg-trunc 3.5e-05 291_[6]_1198
GRA2pre-TRUNC 3.8e-05 1352_[6]_137
Camp-kin-cat-trunc 4e-05 471_[6]_968
G6PD_TRUNC 4.3e-05 537_[6]_952
ROP9-TRUNC 9.3e-05 1480_[6]_9
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 6 in BLOCKS format
--------------------------------------------------------------------------------
BL MOTIF 6 width=11 seqs=16
MIC11-PRO-TRUNC ( 1307) GGGCGTCTCTG 1
MIC6-TRUNC ( 1488) GCGCGTCTCTG 1
GAPDH_TRUNC ( 220) GGGCTTCTCTG 1
MIC5-TRUNC ( 1042) GGGCGTCTCTT 1
RiboP-TRUNCATED ( 1408) CGGTGTCTCTG 1
PDIpro-trunc ( 1128) GGGCGTCTCGG 1
GRA7-TRUNC ( 1129) GCGCGTCTCTA 1
MIC4-TRUNC ( 633) GTGCGGCTCTG 1
MIC2-TRUNC ( 1414) TGGCGTCTCTC 1
Calmodulin-TRUNC ( 597) GCGTGTCCCTG 1
PK4-TRUNC ( 546) CGGCTTCTCTC 1
cAMP_kinase_reg-trunc ( 292) GCGCTGCTCTG 1
GRA2pre-TRUNC ( 1353) CTGCGTCGCTG 1
Camp-kin-cat-trunc ( 472) CGGTGTCCCTG 1
G6PD_TRUNC ( 538) TCGCGTCGCTG 1
ROP9-TRUNC ( 1481) GTGCTTCCCTC 1
//
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 6 position-specific scoring matrix
--------------------------------------------------------------------------------
log-odds matrix: alength= 4 w= 11 n= 23791 bayes= 10.5372 E= 8.1e+004
-1064 -10 134 -109
-1064 22 102 -51
-1064 -1064 202 -1064
-1064 160 -1064 -51
-1064 -1064 161 -9
-1064 -1064 -98 171
-1064 190 -1064 -1064
-1064 -52 -98 137
-1064 190 -1064 -1064
-1064 -1064 -198 181
-180 -52 148 -209
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 6 position-specific probability matrix
--------------------------------------------------------------------------------
letter-probability matrix: alength= 4 w= 11 n= 23791 E= 8.1e+004
0.000136 0.250012 0.624763 0.125088
0.000136 0.312473 0.499842 0.187549
0.000136 0.000168 0.999529 0.000167
0.000136 0.812160 0.000154 0.187549
0.000136 0.000168 0.749685 0.250010
0.000136 0.000168 0.125076 0.874620
0.000136 0.999543 0.000154 0.000167
0.000136 0.187551 0.125076 0.687237
0.000136 0.999543 0.000154 0.000167
0.000136 0.000168 0.062615 0.937081
0.062597 0.187551 0.687224 0.062628
--------------------------------------------------------------------------------
Time 244.55 secs.
********************************************************************************
********************************************************************************
MOTIF 7 width = 11 sites = 16 llr = 157 E-value = 3.5e+002
********************************************************************************
--------------------------------------------------------------------------------
Motif 7 Description
--------------------------------------------------------------------------------
Simplified A 6889:49::::
pos.-specific C 1::1a118::4
probability G 332::3:3:36
matrix T :::::31:a7:
bits 2.2
2.0 * *
1.8 ** *
1.5 *** * *
Information 1.3 **** * *
content 1.1 **** ****
(14.2 bits) 0.9 ***** *****
0.7 ***** *****
0.4 ***** *****
0.2 ***********
0.0 -----------
Multilevel AAAACAACTTG
consensus GG G G GC
sequence T
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 7 sites sorted by position p-value
--------------------------------------------------------------------------------
Sequence name Start P-value Site
------------- ----- --------- -----------
MIC6-TRUNC 485 7.36e-07 CAGCCGATCC AAAACTACTTG CCCACTTCCG
PDIpro-trunc 75 1.18e-06 CACAGGAGGC AAAACGACTTC CACAATATTG
GRA2pre-TRUNC 1075 2.11e-06 AGGCTTGCGA AAAACAAGTTC GTCGCAAAAG
G6PD_TRUNC 502 3.66e-06 GATCTGTGTA GAAACAACTGG TGAATAGCTG
PK4-TRUNC 116 5.16e-06 CGTTGGTGAA AAAACGAGTTC CACCCGGCGG
ROP9-TRUNC 781 7.99e-06 CCTGCTCGAA GAAACGACTGG ATTTTACTTC
MIC11-PRO-TRUNC 429 1.04e-05 TACACATTAC AGAACTACTGG AATGCTCCAG
MIC2-TRUNC 318 1.14e-05 GACATGCAGA AAGACAACTGC TGAAGGAATC
GRA7-TRUNC 1393 1.44e-05 TTGCAGCGGC AAAACATCTTG TGTAAAATTC
MIC5-TRUNC 156 1.44e-05 CGGAAAATAT GGAACTACTTG GAACAAAATG
Camp-kin-cat-trunc 651 1.56e-05 GCGCTCCAGA AAGACAAGTTC AACTGCTGTA
GAPDH_TRUNC 1043 1.56e-05 TATGCAAAAT AGAACTACTGC GCTTATCGGA
Calmodulin-TRUNC 890 2.18e-05 GCTGCGATGG CAGACAACTTG GTTTTGATCC
MIC4-TRUNC 471 2.62e-05 TAGGGATTGT CGAACGACTTG CGAAGCGACC
cAMP_kinase_reg-trunc 731 6.40e-05 TTCCTCGGCC GAAACACGTTG AGGCGGCTTG
RiboP-TRUNCATED 625 9.30e-05 TAATCGCTGG AAACCCACTTC TGAAGCTGCA
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 7 block diagrams
--------------------------------------------------------------------------------
SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM
------------- ---------------- -------------
MIC6-TRUNC 7.4e-07 484_[7]_1005
PDIpro-trunc 1.2e-06 74_[7]_1415
GRA2pre-TRUNC 2.1e-06 1074_[7]_415
G6PD_TRUNC 3.7e-06 501_[7]_988
PK4-TRUNC 5.2e-06 115_[7]_1374
ROP9-TRUNC 8e-06 780_[7]_709
MIC11-PRO-TRUNC 1e-05 428_[7]_1061
MIC2-TRUNC 1.1e-05 317_[7]_1172
GRA7-TRUNC 1.4e-05 1392_[7]_97
MIC5-TRUNC 1.4e-05 155_[7]_1334
Camp-kin-cat-trunc 1.6e-05 650_[7]_789
GAPDH_TRUNC 1.6e-05 1042_[7]_447
Calmodulin-TRUNC 2.2e-05 889_[7]_600
MIC4-TRUNC 2.6e-05 470_[7]_1019
cAMP_kinase_reg-trunc 6.4e-05 730_[7]_759
RiboP-TRUNCATED 9.3e-05 624_[7]_866
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 7 in BLOCKS format
--------------------------------------------------------------------------------
BL MOTIF 7 width=11 seqs=16
MIC6-TRUNC ( 485) AAAACTACTTG 1
PDIpro-trunc ( 75) AAAACGACTTC 1
GRA2pre-TRUNC ( 1075) AAAACAAGTTC 1
G6PD_TRUNC ( 502) GAAACAACTGG 1
PK4-TRUNC ( 116) AAAACGAGTTC 1
ROP9-TRUNC ( 781) GAAACGACTGG 1
MIC11-PRO-TRUNC ( 429) AGAACTACTGG 1
MIC2-TRUNC ( 318) AAGACAACTGC 1
GRA7-TRUNC ( 1393) AAAACATCTTG 1
MIC5-TRUNC ( 156) GGAACTACTTG 1
Camp-kin-cat-trunc ( 651) AAGACAAGTTC 1
GAPDH_TRUNC ( 1043) AGAACTACTGC 1
Calmodulin-TRUNC ( 890) CAGACAACTTG 1
MIC4-TRUNC ( 471) CGAACGACTTG 1
cAMP_kinase_reg-trunc ( 731) GAAACACGTTG 1
RiboP-TRUNCATED ( 625) AAACCCACTTC 1
//
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 7 position-specific scoring matrix
--------------------------------------------------------------------------------
log-odds matrix: alength= 4 w= 11 n= 23791 bayes= 10.5372 E= 3.5e+002
152 -110 2 -1064
178 -1064 2 -1064
189 -1064 -39 -1064
210 -210 -1064 -1064
-1064 190 -1064 -1064
100 -210 2 -9
200 -210 -1064 -209
-1064 148 2 -1064
-1064 -1064 -1064 191
-1064 -1064 34 137
-1064 70 119 -1064
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 7 position-specific probability matrix
--------------------------------------------------------------------------------
letter-probability matrix: alength= 4 w= 11 n= 23791 E= 3.5e+002
0.624746 0.125090 0.249998 0.000167
0.749668 0.000168 0.249998 0.000167
0.812129 0.000168 0.187537 0.000167
0.937051 0.062629 0.000154 0.000167
0.000136 0.999543 0.000154 0.000167
0.437363 0.062629 0.249998 0.250010
0.874590 0.062629 0.000154 0.062628
0.000136 0.749699 0.249998 0.000167
0.000136 0.000168 0.000154 0.999542
0.000136 0.000168 0.312459 0.687237
0.000136 0.437395 0.562302 0.000167
--------------------------------------------------------------------------------
Time 284.02 secs.
********************************************************************************
********************************************************************************
MOTIF 8 width = 19 sites = 16 llr = 191 E-value = 3.7e+001
********************************************************************************
--------------------------------------------------------------------------------
Motif 8 Description
--------------------------------------------------------------------------------
Simplified A 39:51:::1::32312:33
pos.-specific C 718::11a:13432:3117
probability G 1:21934:918:537184:
matrix T :::4:65::9:3:324211
bits 2.2
2.0 *
1.8 * * *
1.5 * * **
Information 1.3 ** * ***
content 1.1 ** * ****
(17.2 bits) 0.9 *** * **** * * *
0.7 ****** **** * * *
0.4 ************* * * *
0.2 ************* * ***
0.0 -------------------
Multilevel CACAGTTCGTGCGTGTGGC
consensus A T GG CACA C AA
sequence T G
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 8 sites sorted by position p-value
--------------------------------------------------------------------------------
Sequence name Start P-value Site
------------- ----- --------- -------------------
Calmodulin-TRUNC 1279 1.16e-09 GCGGTATACC CACTGTGCGTGCGTGCGGC TCTTTTCTGA
MIC5-TRUNC 573 1.03e-08 GCTATAATCA CACAGTTCGTCCCTGTGAC GCATTTGCTA
GAPDH_TRUNC 821 4.22e-08 AGTCCCCATG CACAGTGCGTGAGTACGGA CTCTAGCGTC
MIC2-TRUNC 157 1.97e-07 TTACACCAGG AACGGGTCGTGTGGGAGGC CGTCAGCGCT
RiboP-TRUNCATED 712 3.46e-07 AGGAGACAGA CACAGCTCGTCCGGGAGAA GAATCTACCT
PK4-TRUNC 503 5.23e-07 TAGTTCTCCA CACAGGCCGTGCGGGGGTC CTCAAGCGTC
G6PD_TRUNC 610 7.05e-07 CCGACCGTGC CAGAGGGCGTCAGAGTGTC GCAACGCGAC
MIC4-TRUNC 329 1.13e-06 ACGAGAAGCT CAGTGTTCGTGTACATGAC CAATGCCGAC
ROP9-TRUNC 81 1.47e-06 CCTGCAGACG AACTGTTCGTGACTTGTGC TGCTTATGTG
GRA7-TRUNC 522 2.64e-06 GTTTCCGAAC AACGGTTCGTCCCCGCTGC ACTGGCCGGC
GRA2pre-TRUNC 815 2.85e-06 CGAGTACGAC CACTGTGCGTGTACTTCGC CAAAAGGAAA
Camp-kin-cat-trunc 213 4.50e-06 CTGAACGGGC AACAGTCCACGAGAGCGGC GTTTCTTTGA
MIC11-PRO-TRUNC 1087 4.84e-06 CGTCTGTCGA GAGAGTTCGTGTCAGTTAA ACTTGAAGCT
cAMP_kinase_reg-trunc 604 5.98e-06 GGCTCCTTCC CACAAGGCGTGAAGGAGCA GAGAAACACC
PDIpro-trunc 168 1.15e-05 CTTCTCGGCA CACTGCTCGGGCCTGCGAT CTCACGTGCC
MIC6-TRUNC 17 1.46e-05 GACCGGGGTG CCCTGTGCATGTGATTGCC GTTTCCAGTT
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 8 block diagrams
--------------------------------------------------------------------------------
SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM
------------- ---------------- -------------
Calmodulin-TRUNC 1.2e-09 1278_[8]_203
MIC5-TRUNC 1e-08 572_[8]_909
GAPDH_TRUNC 4.2e-08 820_[8]_661
MIC2-TRUNC 2e-07 156_[8]_1325
RiboP-TRUNCATED 3.5e-07 711_[8]_771
PK4-TRUNC 5.2e-07 502_[8]_979
G6PD_TRUNC 7e-07 609_[8]_872
MIC4-TRUNC 1.1e-06 328_[8]_1153
ROP9-TRUNC 1.5e-06 80_[8]_1401
GRA7-TRUNC 2.6e-06 521_[8]_960
GRA2pre-TRUNC 2.9e-06 814_[8]_667
Camp-kin-cat-trunc 4.5e-06 212_[8]_1219
MIC11-PRO-TRUNC 4.8e-06 1086_[8]_395
cAMP_kinase_reg-trunc 6e-06 603_[8]_878
PDIpro-trunc 1.1e-05 167_[8]_1314
MIC6-TRUNC 1.5e-05 16_[8]_1465
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 8 in BLOCKS format
--------------------------------------------------------------------------------
BL MOTIF 8 width=19 seqs=16
Calmodulin-TRUNC ( 1279) CACTGTGCGTGCGTGCGGC 1
MIC5-TRUNC ( 573) CACAGTTCGTCCCTGTGAC 1
GAPDH_TRUNC ( 821) CACAGTGCGTGAGTACGGA 1
MIC2-TRUNC ( 157) AACGGGTCGTGTGGGAGGC 1
RiboP-TRUNCATED ( 712) CACAGCTCGTCCGGGAGAA 1
PK4-TRUNC ( 503) CACAGGCCGTGCGGGGGTC 1
G6PD_TRUNC ( 610) CAGAGGGCGTCAGAGTGTC 1
MIC4-TRUNC ( 329) CAGTGTTCGTGTACATGAC 1
ROP9-TRUNC ( 81) AACTGTTCGTGACTTGTGC 1
GRA7-TRUNC ( 522) AACGGTTCGTCCCCGCTGC 1
GRA2pre-TRUNC ( 815) CACTGTGCGTGTACTTCGC 1
Camp-kin-cat-trunc ( 213) AACAGTCCACGAGAGCGGC 1
MIC11-PRO-TRUNC ( 1087) GAGAGTTCGTGTCAGTTAA 1
cAMP_kinase_reg-trunc ( 604) CACAAGGCGTGAAGGAGCA 1
PDIpro-trunc ( 168) CACTGCTCGGGCCTGCGAT 1
MIC6-TRUNC ( 17) CCCTGTGCATGTGATTGCC 1
//
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 8 position-specific scoring matrix
--------------------------------------------------------------------------------
log-odds matrix: alength= 4 w= 19 n= 23663 bayes= 10.5294 E= 3.7e+001
19 136 -198 -1064
210 -210 -1064 -1064
-1064 160 -39 -1064
119 -1064 -98 49
-180 -1064 193 -1064
-1064 -110 2 123
-1064 -110 61 91
-1064 190 -1064 -1064
-80 -1064 183 -1064
-1064 -210 -198 171
-1064 -10 161 -1064
52 48 -1064 23
-22 22 102 -1064
19 -52 2 23
-80 -1064 148 -51
-22 22 -98 49
-1064 -210 161 -51
52 -110 83 -109
19 136 -1064 -209
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 8 position-specific probability matrix
--------------------------------------------------------------------------------
letter-probability matrix: alength= 4 w= 19 n= 23663 E= 3.7e+001
0.249980 0.687238 0.062615 0.000167
0.937051 0.062629 0.000154 0.000167
0.000136 0.812160 0.187537 0.000167
0.499824 0.000168 0.125076 0.374932
0.062597 0.000168 0.937068 0.000167
0.000136 0.125090 0.249998 0.624776
0.000136 0.125090 0.374920 0.499854
0.000136 0.999543 0.000154 0.000167
0.125058 0.000168 0.874607 0.000167
0.000136 0.062629 0.062615 0.874620
0.000136 0.250012 0.749685 0.000167
0.312441 0.374934 0.000154 0.312471
0.187519 0.312473 0.499842 0.000167
0.249980 0.187551 0.249998 0.312471
0.125058 0.000168 0.687224 0.187549
0.187519 0.312473 0.125076 0.374932
0.000136 0.062629 0.749685 0.187549
0.312441 0.125090 0.437381 0.125088
0.249980 0.687238 0.000154 0.062628
--------------------------------------------------------------------------------
Time 323.49 secs.
********************************************************************************
********************************************************************************
MOTIF 9 width = 11 sites = 16 llr = 158 E-value = 1.2e+002
********************************************************************************
--------------------------------------------------------------------------------
Motif 9 Description
--------------------------------------------------------------------------------
Simplified A 58136a8a:3:
pos.-specific C 5:7:3:1:a35
probability G :238::1::45
matrix T ::::1::::1:
bits 2.2 * *
2.0 * **
1.8 * **
1.5 * * **
Information 1.3 * * ****
content 1.1 ** * ****
(14.3 bits) 0.9 ********* *
0.7 ********* *
0.4 ********* *
0.2 ***********
0.0 -----------
Multilevel AACGAAAACGC
consensus C GAC AG
sequence C
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 9 sites sorted by position p-value
--------------------------------------------------------------------------------
Sequence name Start P-value Site
------------- ----- --------- -----------
MIC6-TRUNC 883 5.46e-07 AGTATTCCGC CACGAAAACGC GCACCGCAAG
GRA2pre-TRUNC 1117 2.25e-06 ACGCACCACG AAGGAAAACGC GTATCACGTC
ROP9-TRUNC 1125 2.25e-06 CGTAGCAGGC AACGCAAACGC CAGGCATTGT
MIC5-TRUNC 681 3.14e-06 CTGTAGCAAG CACGCAAACGC AGCCCCGTTT
GRA7-TRUNC 500 4.49e-06 ACAAAAAGTT CAGGAAAACAG TGTTTCCGAA
PK4-TRUNC 432 5.44e-06 GTCCACTTCC AGCGAAAACGG AGTTCACCCT
MIC2-TRUNC 878 6.97e-06 CATCGCACCC CACAAAAACCG TTGCCAAGAA
RiboP-TRUNCATED 962 7.67e-06 GAAGAAGCGA AAGAAAAACGG AGTAGAGAGG
MIC11-PRO-TRUNC 1026 1.25e-05 CACAAACTAA AACACAAACAC TTCCATTTAT
cAMP_kinase_reg-trunc 266 1.69e-05 ACAACACTCC AAAGAAAACAC AACTCGAATT
GAPDH_TRUNC 1276 1.69e-05 GGACAGGGTG CACACAAACCG CACACGCGTG
MIC4-TRUNC 1482 2.34e-05 TGTGACCGCT CACGAACACCC CACGCAAA
Camp-kin-cat-trunc 1146 3.21e-05 CAGCCACATC AACGAAGACCC CTTTTCGGTC
Calmodulin-TRUNC 1199 4.17e-05 CTACGCTGCT CGCGAAAACTG TGGTGGTTTT
G6PD_TRUNC 935 4.44e-05 ATCTCTGGAT AAGGTAAACAG CAGCACTGTG
PDIpro-trunc 1174 8.13e-05 CCACACCATT CGCGCACACGG CACACAACAG
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 9 block diagrams
--------------------------------------------------------------------------------
SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM
------------- ---------------- -------------
MIC6-TRUNC 5.5e-07 882_[9]_607
GRA2pre-TRUNC 2.3e-06 1116_[9]_373
ROP9-TRUNC 2.3e-06 1124_[9]_365
MIC5-TRUNC 3.1e-06 680_[9]_809
GRA7-TRUNC 4.5e-06 499_[9]_990
PK4-TRUNC 5.4e-06 431_[9]_1058
MIC2-TRUNC 7e-06 877_[9]_612
RiboP-TRUNCATED 7.7e-06 961_[9]_529
MIC11-PRO-TRUNC 1.2e-05 1025_[9]_464
cAMP_kinase_reg-trunc 1.7e-05 265_[9]_1224
GAPDH_TRUNC 1.7e-05 1275_[9]_214
MIC4-TRUNC 2.3e-05 1481_[9]_8
Camp-kin-cat-trunc 3.2e-05 1145_[9]_294
Calmodulin-TRUNC 4.2e-05 1198_[9]_291
G6PD_TRUNC 4.4e-05 934_[9]_555
PDIpro-trunc 8.1e-05 1173_[9]_316
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 9 in BLOCKS format
--------------------------------------------------------------------------------
BL MOTIF 9 width=11 seqs=16
MIC6-TRUNC ( 883) CACGAAAACGC 1
GRA2pre-TRUNC ( 1117) AAGGAAAACGC 1
ROP9-TRUNC ( 1125) AACGCAAACGC 1
MIC5-TRUNC ( 681) CACGCAAACGC 1
GRA7-TRUNC ( 500) CAGGAAAACAG 1
PK4-TRUNC ( 432) AGCGAAAACGG 1
MIC2-TRUNC ( 878) CACAAAAACCG 1
RiboP-TRUNCATED ( 962) AAGAAAAACGG 1
MIC11-PRO-TRUNC ( 1026) AACACAAACAC 1
cAMP_kinase_reg-trunc ( 266) AAAGAAAACAC 1
GAPDH_TRUNC ( 1276) CACACAAACCG 1
MIC4-TRUNC ( 1482) CACGAACACCC 1
Camp-kin-cat-trunc ( 1146) AACGAAGACCC 1
Calmodulin-TRUNC ( 1199) CGCGAAAACTG 1
G6PD_TRUNC ( 935) AAGGTAAACAG 1
PDIpro-trunc ( 1174) CGCGCACACGG 1
//
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 9 position-specific scoring matrix
--------------------------------------------------------------------------------
log-odds matrix: alength= 4 w= 11 n= 23791 bayes= 10.5372 E= 1.2e+002
119 90 -1064 -1064
189 -1064 -39 -1064
-180 136 2 -1064
19 -1064 161 -1064
152 22 -1064 -209
219 -1064 -1064 -1064
189 -110 -198 -1064
219 -1064 -1064 -1064
-1064 190 -1064 -1064
19 -10 83 -209
-1064 90 102 -1064
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 9 position-specific probability matrix
--------------------------------------------------------------------------------
letter-probability matrix: alength= 4 w= 11 n= 23791 E= 1.2e+002
0.499824 0.499855 0.000154 0.000167
0.812129 0.000168 0.187537 0.000167
0.062597 0.687238 0.249998 0.000167
0.249980 0.000168 0.749685 0.000167
0.624746 0.312473 0.000154 0.062628
0.999512 0.000168 0.000154 0.000167
0.812129 0.125090 0.062615 0.000167
0.999512 0.000168 0.000154 0.000167
0.000136 0.999543 0.000154 0.000167
0.249980 0.250012 0.437381 0.062628
0.000136 0.499855 0.499842 0.000167
--------------------------------------------------------------------------------
Time 362.92 secs.
********************************************************************************
********************************************************************************
MOTIF 10 width = 11 sites = 16 llr = 151 E-value = 5.8e+004
********************************************************************************
--------------------------------------------------------------------------------
Motif 10 Description
--------------------------------------------------------------------------------
Simplified A 21:1:a2246:
pos.-specific C 19:2a::8:12
probability G 1:13::8:638
matrix T 6:94:::::::
bits 2.2 *
2.0 **
1.8 **
1.5 * **
Information 1.3 ** **** *
content 1.1 ** ***** *
(13.6 bits) 0.9 ** *******
0.7 ** *******
0.4 *** *******
0.2 ***********
0.0 -----------
Multilevel TCTTCAGCGAG
consensus G AG
sequence
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 10 sites sorted by position p-value
--------------------------------------------------------------------------------
Sequence name Start P-value Site
------------- ----- --------- -----------
cAMP_kinase_reg-trunc 1127 2.62e-07 TTTTCGACTC TCTTCAGCGAG CGAGAAAAGG
G6PD_TRUNC 726 4.94e-07 CGAGATTATA TCTTCAGCAAG TCACTAAGCC
GRA2pre-TRUNC 798 1.51e-06 GTGGAACAGA TCTCCAGCGAG TACGACCACT
MIC5-TRUNC 312 1.51e-06 GGTACTACCT TCTGCAGCAAG TGTTCCGTTC
RiboP-TRUNCATED 942 2.92e-06 TCGACTTCAT TCTGCAGCGGG AAGAAGCGAA
Calmodulin-TRUNC 26 1.74e-05 CGTTCTCCCC ACTTCAGAAAG TTCACAGTAT
PK4-TRUNC 680 1.92e-05 GCGAACGTGT TCGCCAGCGAG GAGCTGCGAA
Camp-kin-cat-trunc 107 1.92e-05 GTCAAACTGT TCTTCAGCAGC AGGATTGGCA
MIC11-PRO-TRUNC 736 2.06e-05 CCCCTCTAGA ACTACAGCGGG GTCAATAGCG
GRA7-TRUNC 1032 3.80e-05 CGCGGTTCCA TCGTCAGCGAC GAGGTTCGAC
PDIpro-trunc 942 4.16e-05 CGGTTTTCTC GCTTCAACGAG TCTGGCAGCG
ROP9-TRUNC 38 5.15e-05 ACAGGTGATC TCTTCAAAAGG GAGCGAAATT
GAPDH_TRUNC 493 5.91e-05 AATGACGGAT AATGCAGCGAG TCTGACAGCT
MIC4-TRUNC 513 6.75e-05 AAGGGAGGAA CCTACAGCGAC TACCACAAAT
MIC6-TRUNC 1223 9.17e-05 TCGATCCGAT CCTGCAACAGG CAGAGGTGTG
MIC2-TRUNC 1068 9.17e-05 ATTAGTGTCC TCTCCAGAGCG ACCTTAAATC
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 10 block diagrams
--------------------------------------------------------------------------------
SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM
------------- ---------------- -------------
cAMP_kinase_reg-trunc 2.6e-07 1126_[10]_363
G6PD_TRUNC 4.9e-07 725_[10]_764
GRA2pre-TRUNC 1.5e-06 797_[10]_692
MIC5-TRUNC 1.5e-06 311_[10]_1178
RiboP-TRUNCATED 2.9e-06 941_[10]_549
Calmodulin-TRUNC 1.7e-05 25_[10]_1464
PK4-TRUNC 1.9e-05 679_[10]_810
Camp-kin-cat-trunc 1.9e-05 106_[10]_1333
MIC11-PRO-TRUNC 2.1e-05 735_[10]_754
GRA7-TRUNC 3.8e-05 1031_[10]_458
PDIpro-trunc 4.2e-05 941_[10]_548
ROP9-TRUNC 5.1e-05 37_[10]_1452
GAPDH_TRUNC 5.9e-05 492_[10]_997
MIC4-TRUNC 6.7e-05 512_[10]_977
MIC6-TRUNC 9.2e-05 1222_[10]_267
MIC2-TRUNC 9.2e-05 1067_[10]_422
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 10 in BLOCKS format
--------------------------------------------------------------------------------
BL MOTIF 10 width=11 seqs=16
cAMP_kinase_reg-trunc ( 1127) TCTTCAGCGAG 1
G6PD_TRUNC ( 726) TCTTCAGCAAG 1
GRA2pre-TRUNC ( 798) TCTCCAGCGAG 1
MIC5-TRUNC ( 312) TCTGCAGCAAG 1
RiboP-TRUNCATED ( 942) TCTGCAGCGGG 1
Calmodulin-TRUNC ( 26) ACTTCAGAAAG 1
PK4-TRUNC ( 680) TCGCCAGCGAG 1
Camp-kin-cat-trunc ( 107) TCTTCAGCAGC 1
MIC11-PRO-TRUNC ( 736) ACTACAGCGGG 1
GRA7-TRUNC ( 1032) TCGTCAGCGAC 1
PDIpro-trunc ( 942) GCTTCAACGAG 1
ROP9-TRUNC ( 38) TCTTCAAAAGG 1
GAPDH_TRUNC ( 493) AATGCAGCGAG 1
MIC4-TRUNC ( 513) CCTACAGCGAC 1
MIC6-TRUNC ( 1223) CCTGCAACAGG 1
MIC2-TRUNC ( 1068) TCTCCAGAGCG 1
//
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 10 position-specific scoring matrix
--------------------------------------------------------------------------------
log-odds matrix: alength= 4 w= 11 n= 23791 bayes= 10.5372 E= 5.8e+004
-22 -110 -198 123
-180 180 -1064 -1064
-1064 -1064 -98 171
-80 -52 2 71
-1064 190 -1064 -1064
219 -1064 -1064 -1064
-22 -1064 172 -1064
-22 160 -1064 -1064
78 -1064 134 -1064
152 -210 34 -1064
-1064 -52 172 -1064
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 10 position-specific probability matrix
--------------------------------------------------------------------------------
letter-probability matrix: alength= 4 w= 11 n= 23791 E= 5.8e+004
0.187519 0.125090 0.062615 0.624776
0.062597 0.937082 0.000154 0.000167
0.000136 0.000168 0.125076 0.874620
0.125058 0.187551 0.249998 0.437393
0.000136 0.999543 0.000154 0.000167
0.999512 0.000168 0.000154 0.000167
0.187519 0.000168 0.812146 0.000167
0.187519 0.812160 0.000154 0.000167
0.374902 0.000168 0.624763 0.000167
0.624746 0.062629 0.312459 0.000167
0.000136 0.187551 0.812146 0.000167
--------------------------------------------------------------------------------
Time 401.80 secs.
********************************************************************************
********************************************************************************
MOTIF 11 width = 8 sites = 16 llr = 133 E-value = 1.0e+007
********************************************************************************
--------------------------------------------------------------------------------
Motif 11 Description
--------------------------------------------------------------------------------
Simplified A ::::::::
pos.-specific C 2:1:1:98
probability G :9::::::
matrix T 819a9a12
bits 2.2
2.0 * *
1.8 * *
1.5 * ***
Information 1.3 *******
content 1.1 ********
(12.0 bits) 0.9 ********
0.7 ********
0.4 ********
0.2 ********
0.0 --------
Multilevel TGTTTTCC
consensus
sequence
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 11 sites sorted by position p-value
--------------------------------------------------------------------------------
Sequence name Start P-value Site
------------- ----- --------- --------
MIC11-PRO-TRUNC 1058 2.40e-05 TATCATATTA TGTTTTCC TTTTTTCGAG
RiboP-TRUNCATED 372 2.40e-05 ATTTCTGGTT TGTTTTCC GGGTGTTGAA
MIC6-TRUNC 541 2.40e-05 AGGCATTCAT TGTTTTCC ATAGAAAACA
MIC5-TRUNC 1053 2.40e-05 GGCGTCTCTT TGTTTTCC TTGGAGTTCC
G6PD_TRUNC 873 2.40e-05 TGAGGAACCG TGTTTTCC CCACATTTTC
GRA7-TRUNC 136 7.19e-05 TCTTTCGATT TGTTTTCT ATTCCTTCCG
ROP9-TRUNC 1315 7.19e-05 GTTGTGCGAC TGTTTTCT TCCGCCTCTT
cAMP_kinase_reg-trunc 1005 7.19e-05 TTCAGTCGCG CGTTTTCC ACCCTCCGGT
PDIpro-trunc 1224 7.19e-05 GCTAGCGATG CGTTTTCC CAAGAAAATT
PK4-TRUNC 783 1.20e-04 CCCAGGGGTC TGTTTTTC CGGCTCTGTG
Camp-kin-cat-trunc 424 1.20e-04 CGAGGTAGGG TGCTTTCC GTCCAAGGTG
GRA2pre-TRUNC 131 1.46e-04 GTCGAAAACA TTTTTTCC GTTAAGCGTA
MIC2-TRUNC 1395 1.46e-04 TTATCATTTG TTTTTTCC GGCCCGCCCT
Calmodulin-TRUNC 1409 1.70e-04 TGTCCGGGGG TGTTCTCC TGGCCCCGAT
MIC4-TRUNC 436 2.90e-04 CAGATAGACC CGCTTTCC GTTGGAGAGA
GAPDH_TRUNC 1357 2.90e-04 CCTCGGCGTT TGTTTTTT AGTTATTTTT
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 11 block diagrams
--------------------------------------------------------------------------------
SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM
------------- ---------------- -------------
MIC11-PRO-TRUNC 2.4e-05 1057_[11]_435
RiboP-TRUNCATED 2.4e-05 371_[11]_1122
MIC6-TRUNC 2.4e-05 540_[11]_952
MIC5-TRUNC 2.4e-05 1052_[11]_440
G6PD_TRUNC 2.4e-05 872_[11]_620
GRA7-TRUNC 7.2e-05 135_[11]_1357
ROP9-TRUNC 7.2e-05 1314_[11]_178
cAMP_kinase_reg-trunc 7.2e-05 1004_[11]_488
PDIpro-trunc 7.2e-05 1223_[11]_269
PK4-TRUNC 0.00012 782_[11]_710
Camp-kin-cat-trunc 0.00012 423_[11]_1019
GRA2pre-TRUNC 0.00015 130_[11]_1362
MIC2-TRUNC 0.00015 1394_[11]_98
Calmodulin-TRUNC 0.00017 1408_[11]_84
MIC4-TRUNC 0.00029 435_[11]_1057
GAPDH_TRUNC 0.00029 1356_[11]_136
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 11 in BLOCKS format
--------------------------------------------------------------------------------
BL MOTIF 11 width=8 seqs=16
MIC11-PRO-TRUNC ( 1058) TGTTTTCC 1
RiboP-TRUNCATED ( 372) TGTTTTCC 1
MIC6-TRUNC ( 541) TGTTTTCC 1
MIC5-TRUNC ( 1053) TGTTTTCC 1
G6PD_TRUNC ( 873) TGTTTTCC 1
GRA7-TRUNC ( 136) TGTTTTCT 1
ROP9-TRUNC ( 1315) TGTTTTCT 1
cAMP_kinase_reg-trunc ( 1005) CGTTTTCC 1
PDIpro-trunc ( 1224) CGTTTTCC 1
PK4-TRUNC ( 783) TGTTTTTC 1
Camp-kin-cat-trunc ( 424) TGCTTTCC 1
GRA2pre-TRUNC ( 131) TTTTTTCC 1
MIC2-TRUNC ( 1395) TTTTTTCC 1
Calmodulin-TRUNC ( 1409) TGTTCTCC 1
MIC4-TRUNC ( 436) CGCTTTCC 1
GAPDH_TRUNC ( 1357) TGTTTTTT 1
//
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 11 position-specific scoring matrix
--------------------------------------------------------------------------------
log-odds matrix: alength= 4 w= 8 n= 23839 bayes= 10.5401 E= 1.0e+007
-1064 -52 -1064 161
-1064 -1064 183 -109
-1064 -110 -1064 171
-1064 -1064 -1064 191
-1064 -210 -1064 181
-1064 -1064 -1064 191
-1064 170 -1064 -109
-1064 160 -1064 -51
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 11 position-specific probability matrix
--------------------------------------------------------------------------------
letter-probability matrix: alength= 4 w= 8 n= 23839 E= 1.0e+007
0.000136 0.187551 0.000154 0.812159
0.000136 0.000168 0.874607 0.125088
0.000136 0.125090 0.000154 0.874620
0.000136 0.000168 0.000154 0.999542
0.000136 0.062629 0.000154 0.937081
0.000136 0.000168 0.000154 0.999542
0.000136 0.874621 0.000154 0.125088
0.000136 0.812160 0.000154 0.187549
--------------------------------------------------------------------------------
Time 440.66 secs.
********************************************************************************
********************************************************************************
MOTIF 12 width = 8 sites = 16 llr = 135 E-value = 1.6e+006
********************************************************************************
--------------------------------------------------------------------------------
Motif 12 Description
--------------------------------------------------------------------------------
Simplified A :::::::1
pos.-specific C :38:1::6
probability G :::a:::3
matrix T a83:9aa:
bits 2.2
2.0 * * **
1.8 * * **
1.5 * ****
Information 1.3 * ****
content 1.1 *******
(12.2 bits) 0.9 *******
0.7 ********
0.4 ********
0.2 ********
0.0 --------
Multilevel TTCGTTTC
consensus CT G
sequence
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 12 sites sorted by position p-value
--------------------------------------------------------------------------------
Sequence name Start P-value Site
------------- ----- --------- --------
RiboP-TRUNCATED 1181 2.40e-05 GAAGACCTCG TTCGTTTC TCCCCCCCAC
MIC5-TRUNC 1151 2.40e-05 GTGATTGCAG TTCGTTTC CTCAATTTAC
PK4-TRUNC 731 2.40e-05 CCTGCTACGC TTCGTTTC CCGAGAGTCG
cAMP_kinase_reg-trunc 1069 2.40e-05 AGTTCTTCGC TTCGTTTC GCCCGGCAGC
G6PD_TRUNC 1266 2.40e-05 TTTTAAGATT TTCGTTTC CTGTTTCCCT
MIC2-TRUNC 1344 4.59e-05 GCTCATGAGT TTCGTTTG TCAGGTGCAA
PDIpro-trunc 874 4.59e-05 TAGAGGCTTC TTCGTTTG TCGCGAGAGA
MIC11-PRO-TRUNC 631 9.39e-05 GCCTTTTTCT TCCGTTTC GCAAAACTTG
MIC6-TRUNC 693 9.39e-05 GTAAGCATCC TTTGTTTC CGTTTAAAAT
Calmodulin-TRUNC 612 9.39e-05 TCCCTGTTTC TCCGTTTC ATAGTCAATT
GRA7-TRUNC 1229 1.13e-04 GATCCCTGAT TTCGTTTA CCATTGACGC
GRA2pre-TRUNC 201 1.57e-04 GAATACATCT TTTGTTTG CGTCCTGCAC
Camp-kin-cat-trunc 82 1.57e-04 CCGTAACGCA TCCGTTTG TGCCCGCGTC
GAPDH_TRUNC 622 1.81e-04 GAAGCTCGTG TCTGTTTC CTATGGTTTT
ROP9-TRUNC 1197 2.20e-04 ATGTCAAATG TTTGTTTA ATTTATTGTC
MIC4-TRUNC 1283 2.44e-04 AGTACAATCA TTCGCTTC TGACAATCGC
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 12 block diagrams
--------------------------------------------------------------------------------
SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM
------------- ---------------- -------------
RiboP-TRUNCATED 2.4e-05 1180_[12]_313
MIC5-TRUNC 2.4e-05 1150_[12]_342
PK4-TRUNC 2.4e-05 730_[12]_762
cAMP_kinase_reg-trunc 2.4e-05 1068_[12]_424
G6PD_TRUNC 2.4e-05 1265_[12]_227
MIC2-TRUNC 4.6e-05 1343_[12]_149
PDIpro-trunc 4.6e-05 873_[12]_619
MIC11-PRO-TRUNC 9.4e-05 630_[12]_862
MIC6-TRUNC 9.4e-05 692_[12]_800
Calmodulin-TRUNC 9.4e-05 611_[12]_881
GRA7-TRUNC 0.00011 1228_[12]_264
GRA2pre-TRUNC 0.00016 200_[12]_1292
Camp-kin-cat-trunc 0.00016 81_[12]_1361
GAPDH_TRUNC 0.00018 621_[12]_871
ROP9-TRUNC 0.00022 1196_[12]_296
MIC4-TRUNC 0.00024 1282_[12]_210
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 12 in BLOCKS format
--------------------------------------------------------------------------------
BL MOTIF 12 width=8 seqs=16
RiboP-TRUNCATED ( 1181) TTCGTTTC 1
MIC5-TRUNC ( 1151) TTCGTTTC 1
PK4-TRUNC ( 731) TTCGTTTC 1
cAMP_kinase_reg-trunc ( 1069) TTCGTTTC 1
G6PD_TRUNC ( 1266) TTCGTTTC 1
MIC2-TRUNC ( 1344) TTCGTTTG 1
PDIpro-trunc ( 874) TTCGTTTG 1
MIC11-PRO-TRUNC ( 631) TCCGTTTC 1
MIC6-TRUNC ( 693) TTTGTTTC 1
Calmodulin-TRUNC ( 612) TCCGTTTC 1
GRA7-TRUNC ( 1229) TTCGTTTA 1
GRA2pre-TRUNC ( 201) TTTGTTTG 1
Camp-kin-cat-trunc ( 82) TCCGTTTG 1
GAPDH_TRUNC ( 622) TCTGTTTC 1
ROP9-TRUNC ( 1197) TTTGTTTA 1
MIC4-TRUNC ( 1283) TTCGCTTC 1
//
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 12 position-specific scoring matrix
--------------------------------------------------------------------------------
log-odds matrix: alength= 4 w= 8 n= 23839 bayes= 10.5401 E= 1.6e+006
-1064 -1064 -1064 191
-1064 -10 -1064 149
-1064 148 -1064 -9
-1064 -1064 202 -1064
-1064 -210 -1064 181
-1064 -1064 -1064 191
-1064 -1064 -1064 191
-80 122 2 -1064
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 12 position-specific probability matrix
--------------------------------------------------------------------------------
letter-probability matrix: alength= 4 w= 8 n= 23839 E= 1.6e+006
0.000136 0.000168 0.000154 0.999542
0.000136 0.250012 0.000154 0.749698
0.000136 0.749699 0.000154 0.250010
0.000136 0.000168 0.999529 0.000167
0.000136 0.062629 0.000154 0.937081
0.000136 0.000168 0.000154 0.999542
0.000136 0.000168 0.000154 0.999542
0.125058 0.624777 0.249998 0.000167
--------------------------------------------------------------------------------
Time 479.31 secs.
********************************************************************************
********************************************************************************
MOTIF 13 width = 6 sites = 16 llr = 123 E-value = 1.4e+007
********************************************************************************
--------------------------------------------------------------------------------
Motif 13 Description
--------------------------------------------------------------------------------
Simplified A :1a:::
pos.-specific C a::a:9
probability G :9::a1
matrix T ::::::
bits 2.2 *
2.0 * ***
1.8 * ***
1.5 ******
Information 1.3 ******
content 1.1 ******
(11.1 bits) 0.9 ******
0.7 ******
0.4 ******
0.2 ******
0.0 ------
Multilevel CGACGC
consensus
sequence
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 13 sites sorted by position p-value
--------------------------------------------------------------------------------
Sequence name Start P-value Site
------------- ----- --------- ------
MIC11-PRO-TRUNC 776 2.57e-04 CGCTAGTTCG CGACGC TCAACCGAGT
RiboP-TRUNCATED 19 2.57e-04 TGCGGGGAAT CGACGC TGAGACTCCG
GRA7-TRUNC 784 2.57e-04 CGGTGTCACT CGACGC GTTGAGAACG
ROP9-TRUNC 1086 2.57e-04 CAGCAGTCAG CGACGC ATTCAGAGAC
MIC6-TRUNC 726 2.57e-04 CCAGATGGCA CGACGC CGTCTGGTTT
MIC5-TRUNC 947 2.57e-04 ACGTGTTATT CGACGC AGTCTGTTGA
MIC4-TRUNC 1311 2.57e-04 ATCGACTGAG CGACGC GTTGATCGTC
MIC2-TRUNC 284 2.57e-04 TGGTGAATAA CGACGC AGCCAGCACG
PK4-TRUNC 537 2.57e-04 GCGTCCGAGC CGACGC GCACGGCTTC
Camp-kin-cat-trunc 1068 2.57e-04 GTAAGGACTG CGACGC CGCTCTCACG
PDIpro-trunc 1063 2.57e-04 GGTCCAAAAG CGACGC CGTTATTCTC
GAPDH_TRUNC 540 2.57e-04 GATTCTCAAC CGACGC TTCTTAGGGA
G6PD_TRUNC 595 2.57e-04 CTGAGAGTCG CGACGC CGACCGTGCC
GRA2pre-TRUNC 55 4.85e-04 GCAGAATGCT CAACGC GGGCAGCACT
cAMP_kinase_reg-trunc 1046 4.85e-04 GTAGCAGCTG CAACGC GAGTCCAAGT
Calmodulin-TRUNC 200 7.20e-04 TGCGTTCCCA CGACGG GGATACGGAC
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 13 block diagrams
--------------------------------------------------------------------------------
SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM
------------- ---------------- -------------
MIC11-PRO-TRUNC 0.00026 775_[13]_719
RiboP-TRUNCATED 0.00026 18_[13]_1477
GRA7-TRUNC 0.00026 783_[13]_711
ROP9-TRUNC 0.00026 1085_[13]_409
MIC6-TRUNC 0.00026 725_[13]_769
MIC5-TRUNC 0.00026 946_[13]_548
MIC4-TRUNC 0.00026 1310_[13]_184
MIC2-TRUNC 0.00026 283_[13]_1211
PK4-TRUNC 0.00026 536_[13]_958
Camp-kin-cat-trunc 0.00026 1067_[13]_377
PDIpro-trunc 0.00026 1062_[13]_432
GAPDH_TRUNC 0.00026 539_[13]_955
G6PD_TRUNC 0.00026 594_[13]_900
GRA2pre-TRUNC 0.00048 54_[13]_1440
cAMP_kinase_reg-trunc 0.00048 1045_[13]_449
Calmodulin-TRUNC 0.00072 199_[13]_1295
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 13 in BLOCKS format
--------------------------------------------------------------------------------
BL MOTIF 13 width=6 seqs=16
MIC11-PRO-TRUNC ( 776) CGACGC 1
RiboP-TRUNCATED ( 19) CGACGC 1
GRA7-TRUNC ( 784) CGACGC 1
ROP9-TRUNC ( 1086) CGACGC 1
MIC6-TRUNC ( 726) CGACGC 1
MIC5-TRUNC ( 947) CGACGC 1
MIC4-TRUNC ( 1311) CGACGC 1
MIC2-TRUNC ( 284) CGACGC 1
PK4-TRUNC ( 537) CGACGC 1
Camp-kin-cat-trunc ( 1068) CGACGC 1
PDIpro-trunc ( 1063) CGACGC 1
GAPDH_TRUNC ( 540) CGACGC 1
G6PD_TRUNC ( 595) CGACGC 1
GRA2pre-TRUNC ( 55) CAACGC 1
cAMP_kinase_reg-trunc ( 1046) CAACGC 1
Calmodulin-TRUNC ( 200) CGACGG 1
//
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 13 position-specific scoring matrix
--------------------------------------------------------------------------------
log-odds matrix: alength= 4 w= 6 n= 23871 bayes= 10.542 E= 1.4e+007
-1064 190 -1064 -1064
-80 -1064 183 -1064
219 -1064 -1064 -1064
-1064 190 -1064 -1064
-1064 -1064 202 -1064
-1064 180 -198 -1064
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 13 position-specific probability matrix
--------------------------------------------------------------------------------
letter-probability matrix: alength= 4 w= 6 n= 23871 E= 1.4e+007
0.000136 0.999543 0.000154 0.000167
0.125058 0.000168 0.874607 0.000167
0.999512 0.000168 0.000154 0.000167
0.000136 0.999543 0.000154 0.000167
0.000136 0.000168 0.999529 0.000167
0.000136 0.937082 0.062615 0.000167
--------------------------------------------------------------------------------
Time 517.63 secs.
********************************************************************************
********************************************************************************
MOTIF 14 width = 11 sites = 16 llr = 155 E-value = 4.4e+003
********************************************************************************
--------------------------------------------------------------------------------
Motif 14 Description
--------------------------------------------------------------------------------
Simplified A :9:::1494:1
pos.-specific C 9:::1:6::a:
probability G :16749:13:9
matrix T 114351::3::
bits 2.2
2.0 *
1.8 * **
1.5 * * **
Information 1.3 ** * * **
content 1.1 **** *** **
(14.0 bits) 0.9 **** *** **
0.7 ******** **
0.4 ***********
0.2 ***********
0.0 -----------
Multilevel CAGGTGCAACG
consensus TTG A G
sequence T
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 14 sites sorted by position p-value
--------------------------------------------------------------------------------
Sequence name Start P-value Site
------------- ----- --------- -----------
MIC2-TRUNC 1353 1.98e-07 TTTCGTTTGT CAGGTGCAACG TCGTCTACTC
ROP9-TRUNC 1338 5.42e-07 CTCTTCAGCG CAGGTGAAACG AGCACGCTGT
cAMP_kinase_reg-trunc 794 9.15e-07 GCTTCTTTTT CAGGTGCAGCG CCCGGAATGT
MIC4-TRUNC 370 1.69e-06 CTTTAGACGT CAGGGGAAGCG AGCGTTCTGT
MIC11-PRO-TRUNC 1127 2.30e-06 TCGATGATCT CATGGGCAACG TGGCACAAAC
G6PD_TRUNC 216 2.30e-06 GGTGAGGTCA CATGTGAAACG AGGCGAACGG
GRA2pre-TRUNC 239 4.05e-06 GAGGCGGCTA CAGTGGAAACG AAAAAAAAGG
MIC5-TRUNC 974 1.04e-05 CGGTCGAGCG CATTTGCATCG ACGTCCGCTC
PDIpro-trunc 995 1.13e-05 ATCTTCTGTG CATTGGAATCG ACATGTTGAG
GAPDH_TRUNC 643 1.25e-05 TGGTTTTTCA CAGGCGCAGCG TCTCTCTTTT
PK4-TRUNC 144 2.98e-05 CGGGCGACGA CAGGGGCGGCG AGCGCACGAA
RiboP-TRUNCATED 644 5.38e-05 TCTGAAGCTG CAGTGACAGCG CGTTGTTTCC
Camp-kin-cat-trunc 865 5.38e-05 TGCCAACGCC CATGTGCATCA GGGACAGGCC
GRA7-TRUNC 57 7.48e-05 TTGCTTACTA CAGTGTCATCG AGATCCATAT
Calmodulin-TRUNC 468 8.56e-05 AAAAATCATG TGGGTGAAACG AAACAGTACA
MIC6-TRUNC 399 1.21e-04 TACGTGTCAT TTTGTGAAACG ACACAGCACA
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 14 block diagrams
--------------------------------------------------------------------------------
SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM
------------- ---------------- -------------
MIC2-TRUNC 2e-07 1352_[14]_137
ROP9-TRUNC 5.4e-07 1337_[14]_152
cAMP_kinase_reg-trunc 9.1e-07 793_[14]_696
MIC4-TRUNC 1.7e-06 369_[14]_1120
MIC11-PRO-TRUNC 2.3e-06 1126_[14]_363
G6PD_TRUNC 2.3e-06 215_[14]_1274
GRA2pre-TRUNC 4.1e-06 238_[14]_1251
MIC5-TRUNC 1e-05 973_[14]_516
PDIpro-trunc 1.1e-05 994_[14]_495
GAPDH_TRUNC 1.2e-05 642_[14]_847
PK4-TRUNC 3e-05 143_[14]_1346
RiboP-TRUNCATED 5.4e-05 643_[14]_847
Camp-kin-cat-trunc 5.4e-05 864_[14]_575
GRA7-TRUNC 7.5e-05 56_[14]_1433
Calmodulin-TRUNC 8.6e-05 467_[14]_1022
MIC6-TRUNC 0.00012 398_[14]_1091
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 14 in BLOCKS format
--------------------------------------------------------------------------------
BL MOTIF 14 width=11 seqs=16
MIC2-TRUNC ( 1353) CAGGTGCAACG 1
ROP9-TRUNC ( 1338) CAGGTGAAACG 1
cAMP_kinase_reg-trunc ( 794) CAGGTGCAGCG 1
MIC4-TRUNC ( 370) CAGGGGAAGCG 1
MIC11-PRO-TRUNC ( 1127) CATGGGCAACG 1
G6PD_TRUNC ( 216) CATGTGAAACG 1
GRA2pre-TRUNC ( 239) CAGTGGAAACG 1
MIC5-TRUNC ( 974) CATTTGCATCG 1
PDIpro-trunc ( 995) CATTGGAATCG 1
GAPDH_TRUNC ( 643) CAGGCGCAGCG 1
PK4-TRUNC ( 144) CAGGGGCGGCG 1
RiboP-TRUNCATED ( 644) CAGTGACAGCG 1
Camp-kin-cat-trunc ( 865) CATGTGCATCA 1
GRA7-TRUNC ( 57) CAGTGTCATCG 1
Calmodulin-TRUNC ( 468) TGGGTGAAACG 1
MIC6-TRUNC ( 399) TTTGTGAAACG 1
//
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 14 position-specific scoring matrix
--------------------------------------------------------------------------------
log-odds matrix: alength= 4 w= 11 n= 23791 bayes= 10.5372 E= 4.4e+003
-1064 170 -1064 -109
200 -1064 -198 -209
-1064 -1064 134 49
-1064 -1064 148 23
-1064 -210 83 91
-180 -1064 183 -209
100 107 -1064 -1064
210 -1064 -198 -1064
100 -1064 34 -9
-1064 190 -1064 -1064
-180 -1064 193 -1064
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 14 position-specific probability matrix
--------------------------------------------------------------------------------
letter-probability matrix: alength= 4 w= 11 n= 23791 E= 4.4e+003
0.000136 0.874621 0.000154 0.125088
0.874590 0.000168 0.062615 0.062628
0.000136 0.000168 0.624763 0.374932
0.000136 0.000168 0.687224 0.312471
0.000136 0.062629 0.437381 0.499854
0.062597 0.000168 0.874607 0.062628
0.437363 0.562316 0.000154 0.000167
0.937051 0.000168 0.062615 0.000167
0.437363 0.000168 0.312459 0.250010
0.000136 0.999543 0.000154 0.000167
0.062597 0.000168 0.937068 0.000167
--------------------------------------------------------------------------------
Time 556.43 secs.
********************************************************************************
********************************************************************************
MOTIF 15 width = 6 sites = 16 llr = 127 E-value = 1.5e+005
********************************************************************************
--------------------------------------------------------------------------------
Motif 15 Description
--------------------------------------------------------------------------------
Simplified A :a:2a:
pos.-specific C a::8:a
probability G ::a:::
matrix T ::::::
bits 2.2 * *
2.0 *** **
1.8 *** **
1.5 *** **
Information 1.3 ******
content 1.1 ******
(11.5 bits) 0.9 ******
0.7 ******
0.4 ******
0.2 ******
0.0 ------
Multilevel CAGCAC
consensus
sequence
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 15 sites sorted by position p-value
--------------------------------------------------------------------------------
Sequence name Start P-value Site
------------- ----- --------- ------
MIC11-PRO-TRUNC 174 2.28e-04 CAAGCGCCTC CAGCAC GGTTTCAAGC
RiboP-TRUNCATED 1459 2.28e-04 CCCTCCGTTC CAGCAC CTTTCTGCTC
GRA2pre-TRUNC 64 2.28e-04 TCAACGCGGG CAGCAC TTTTCCTCCC
ROP9-TRUNC 1264 2.28e-04 ATGGCACTGG CAGCAC GCCGGACTCT
MIC6-TRUNC 413 2.28e-04 TGAAACGACA CAGCAC ATAACCACTC
MIC4-TRUNC 1143 2.28e-04 CTGATGTTTG CAGCAC ATCGACCATT
MIC2-TRUNC 293 2.28e-04 ACGACGCAGC CAGCAC GGTTATTGCG
Calmodulin-TRUNC 526 2.28e-04 GACGGGCAGC CAGCAC CGTCGCATAC
PK4-TRUNC 354 2.28e-04 AAGGAGCGAA CAGCAC ACAGCCAAGC
cAMP_kinase_reg-trunc 23 2.28e-04 AGACCGTCAG CAGCAC GGGTGCTAGC
PDIpro-trunc 797 2.28e-04 CAAACTTAGA CAGCAC TTCAATTACT
GAPDH_TRUNC 1 2.28e-04 . CAGCAC GTTCTCATGG
G6PD_TRUNC 946 2.28e-04 AGGTAAACAG CAGCAC TGTGGGCAGC
GRA7-TRUNC 217 4.13e-04 TTCGTGCATC CAGAAC CTTCTGTCCT
MIC5-TRUNC 1127 4.13e-04 AACTTAGATC CAGAAC ATCACATAGT
Camp-kin-cat-trunc 634 4.13e-04 GGTTTTTGTA CAGAAC GGCGCTCCAG
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 15 block diagrams
--------------------------------------------------------------------------------
SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM
------------- ---------------- -------------
MIC11-PRO-TRUNC 0.00023 173_[15]_1321
RiboP-TRUNCATED 0.00023 1458_[15]_37
GRA2pre-TRUNC 0.00023 63_[15]_1431
ROP9-TRUNC 0.00023 1263_[15]_231
MIC6-TRUNC 0.00023 412_[15]_1082
MIC4-TRUNC 0.00023 1142_[15]_352
MIC2-TRUNC 0.00023 292_[15]_1202
Calmodulin-TRUNC 0.00023 525_[15]_969
PK4-TRUNC 0.00023 353_[15]_1141
cAMP_kinase_reg-trunc 0.00023 22_[15]_1472
PDIpro-trunc 0.00023 796_[15]_698
GAPDH_TRUNC 0.00023 [15]_1494
G6PD_TRUNC 0.00023 945_[15]_549
GRA7-TRUNC 0.00041 216_[15]_1278
MIC5-TRUNC 0.00041 1126_[15]_368
Camp-kin-cat-trunc 0.00041 633_[15]_811
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 15 in BLOCKS format
--------------------------------------------------------------------------------
BL MOTIF 15 width=6 seqs=16
MIC11-PRO-TRUNC ( 174) CAGCAC 1
RiboP-TRUNCATED ( 1459) CAGCAC 1
GRA2pre-TRUNC ( 64) CAGCAC 1
ROP9-TRUNC ( 1264) CAGCAC 1
MIC6-TRUNC ( 413) CAGCAC 1
MIC4-TRUNC ( 1143) CAGCAC 1
MIC2-TRUNC ( 293) CAGCAC 1
Calmodulin-TRUNC ( 526) CAGCAC 1
PK4-TRUNC ( 354) CAGCAC 1
cAMP_kinase_reg-trunc ( 23) CAGCAC 1
PDIpro-trunc ( 797) CAGCAC 1
GAPDH_TRUNC ( 1) CAGCAC 1
G6PD_TRUNC ( 946) CAGCAC 1
GRA7-TRUNC ( 217) CAGAAC 1
MIC5-TRUNC ( 1127) CAGAAC 1
Camp-kin-cat-trunc ( 634) CAGAAC 1
//
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 15 position-specific scoring matrix
--------------------------------------------------------------------------------
log-odds matrix: alength= 4 w= 6 n= 23871 bayes= 10.542 E= 1.5e+005
-1064 190 -1064 -1064
219 -1064 -1064 -1064
-1064 -1064 202 -1064
-22 160 -1064 -1064
219 -1064 -1064 -1064
-1064 190 -1064 -1064
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 15 position-specific probability matrix
--------------------------------------------------------------------------------
letter-probability matrix: alength= 4 w= 6 n= 23871 E= 1.5e+005
0.000136 0.999543 0.000154 0.000167
0.999512 0.000168 0.000154 0.000167
0.000136 0.000168 0.999529 0.000167
0.187519 0.812160 0.000154 0.000167
0.999512 0.000168 0.000154 0.000167
0.000136 0.999543 0.000154 0.000167
--------------------------------------------------------------------------------
Time 594.62 secs.
********************************************************************************
********************************************************************************
MOTIF 16 width = 15 sites = 16 llr = 165 E-value = 2.5e+006
********************************************************************************
--------------------------------------------------------------------------------
Motif 16 Description
--------------------------------------------------------------------------------
Simplified A 3::321:::13::::
pos.-specific C ::61::::21412:7
probability G 18:5:41983::1a1
matrix T 63418591:5397:2
bits 2.2
2.0 *
1.8 *
1.5 * * *
Information 1.3 * *** * *
content 1.1 * * *** * *
(14.9 bits) 0.9 ** * *** * *
0.7 *** ***** ****
0.4 *** ***** *****
0.2 ***************
0.0 ---------------
Multilevel TGCGTTTGGTCTTGC
consensus ATTA G GA
sequence T
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 16 sites sorted by position p-value
--------------------------------------------------------------------------------
Sequence name Start P-value Site
------------- ----- --------- ---------------
GAPDH_TRUNC 858 2.79e-08 TCAGTTGTTG TGTGTTTGGTATTGC GAGTCTGGAG
PDIpro-trunc 680 4.93e-07 CAAGCCCTAA TGCGTTTGGTTTTGG CACTCTGATT
MIC5-TRUNC 32 1.19e-06 TCTGTGTAAA TGCGTGTGCAATTGC TTTTGTGTGC
MIC2-TRUNC 199 1.34e-06 CGAGTCCTGC TGTGAGTGGACTTGC ATCCGCAGTT
cAMP_kinase_reg-trunc 898 1.91e-06 AGCAGCCCGC TTTTTTTGGTCTTGC TGTCGCGCTT
MIC11-PRO-TRUNC 1440 2.99e-06 AAACGTATGC ATCGTGTGGGCTTGT GGTTTGCAGA
GRA2pre-TRUNC 704 2.99e-06 CACCTGCCAG TGCATATGGGTTTGC ATATTTTTGC
GRA7-TRUNC 1440 2.99e-06 TGAAGTACCC TGTATTGGGGCTTGC TAACGTTTTG
RiboP-TRUNCATED 782 3.31e-06 GGTAGCTGGT GGTCTGTGGTATTGC TCACGTCTTC
Camp-kin-cat-trunc 541 1.10e-05 GGAAAGCGGT AGCGAGTGGCCTGGC GGTTGGTTTG
MIC6-TRUNC 1397 1.19e-05 GACATCTGTG GGCGTTTGGGATCGT GATGACATCG
ROP9-TRUNC 746 2.36e-05 GACCAAGCTG TGCCATTGCTCTCGC GAAGCAAGCT
G6PD_TRUNC 812 2.70e-05 GCAGACATAC ATCGTGGGGTTTTGG CCCGCTAGGT
Calmodulin-TRUNC 754 2.89e-05 CAAATTCTGG AGCATTTGGCTTGGT GAGTGGGAGA
MIC4-TRUNC 179 5.99e-05 GTGCGTGAAC ATTTTGTTGTCTCGC TTTGAGTGGC
PK4-TRUNC 178 5.99e-05 GCTCTGTTCT TGCATTTTCTACTGC TCTTGTGGTC
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 16 block diagrams
--------------------------------------------------------------------------------
SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM
------------- ---------------- -------------
GAPDH_TRUNC 2.8e-08 857_[16]_628
PDIpro-trunc 4.9e-07 679_[16]_806
MIC5-TRUNC 1.2e-06 31_[16]_1454
MIC2-TRUNC 1.3e-06 198_[16]_1287
cAMP_kinase_reg-trunc 1.9e-06 897_[16]_588
MIC11-PRO-TRUNC 3e-06 1439_[16]_46
GRA2pre-TRUNC 3e-06 703_[16]_782
GRA7-TRUNC 3e-06 1439_[16]_46
RiboP-TRUNCATED 3.3e-06 781_[16]_705
Camp-kin-cat-trunc 1.1e-05 540_[16]_895
MIC6-TRUNC 1.2e-05 1396_[16]_89
ROP9-TRUNC 2.4e-05 745_[16]_740
G6PD_TRUNC 2.7e-05 811_[16]_674
Calmodulin-TRUNC 2.9e-05 753_[16]_732
MIC4-TRUNC 6e-05 178_[16]_1307
PK4-TRUNC 6e-05 177_[16]_1308
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 16 in BLOCKS format
--------------------------------------------------------------------------------
BL MOTIF 16 width=15 seqs=16
GAPDH_TRUNC ( 858) TGTGTTTGGTATTGC 1
PDIpro-trunc ( 680) TGCGTTTGGTTTTGG 1
MIC5-TRUNC ( 32) TGCGTGTGCAATTGC 1
MIC2-TRUNC ( 199) TGTGAGTGGACTTGC 1
cAMP_kinase_reg-trunc ( 898) TTTTTTTGGTCTTGC 1
MIC11-PRO-TRUNC ( 1440) ATCGTGTGGGCTTGT 1
GRA2pre-TRUNC ( 704) TGCATATGGGTTTGC 1
GRA7-TRUNC ( 1440) TGTATTGGGGCTTGC 1
RiboP-TRUNCATED ( 782) GGTCTGTGGTATTGC 1
Camp-kin-cat-trunc ( 541) AGCGAGTGGCCTGGC 1
MIC6-TRUNC ( 1397) GGCGTTTGGGATCGT 1
ROP9-TRUNC ( 746) TGCCATTGCTCTCGC 1
G6PD_TRUNC ( 812) ATCGTGGGGTTTTGG 1
Calmodulin-TRUNC ( 754) AGCATTTGGCTTGGT 1
MIC4-TRUNC ( 179) ATTTTGTTGTCTCGC 1
PK4-TRUNC ( 178) TGCATTTTCTACTGC 1
//
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 16 position-specific scoring matrix
--------------------------------------------------------------------------------
log-odds matrix: alength= 4 w= 15 n= 23727 bayes= 10.5333 E= 2.5e+006
52 -1064 -98 108
-1064 -1064 161 -9
-1064 122 -1064 49
19 -110 102 -109
-22 -1064 -1064 161
-180 -1064 83 91
-1064 -1064 -98 171
-1064 -1064 183 -109
-1064 -52 172 -1064
-80 -110 2 91
52 70 -1064 -9
-1064 -210 -1064 181
-1064 -52 -98 137
-1064 -1064 202 -1064
-1064 136 -98 -51
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 16 position-specific probability matrix
--------------------------------------------------------------------------------
letter-probability matrix: alength= 4 w= 15 n= 23727 E= 2.5e+006
0.312441 0.000168 0.125076 0.562315
0.000136 0.000168 0.749685 0.250010
0.000136 0.624777 0.000154 0.374932
0.249980 0.125090 0.499842 0.125088
0.187519 0.000168 0.000154 0.812159
0.062597 0.000168 0.437381 0.499854
0.000136 0.000168 0.125076 0.874620
0.000136 0.000168 0.874607 0.125088
0.000136 0.187551 0.812146 0.000167
0.125058 0.125090 0.249998 0.499854
0.312441 0.437395 0.000154 0.250010
0.000136 0.062629 0.000154 0.937081
0.000136 0.187551 0.125076 0.687237
0.000136 0.000168 0.999529 0.000167
0.000136 0.687238 0.125076 0.187549
--------------------------------------------------------------------------------
Time 632.49 secs.
********************************************************************************
********************************************************************************
MOTIF 17 width = 6 sites = 16 llr = 123 E-value = 8.9e+006
********************************************************************************
--------------------------------------------------------------------------------
Motif 17 Description
--------------------------------------------------------------------------------
Simplified A :aaaa:
pos.-specific C 7::::1
probability G 3::::9
matrix T 1:::::
bits 2.2 ****
2.0 ****
1.8 ****
1.5 *****
Information 1.3 *****
content 1.1 *****
(11.0 bits) 0.9 ******
0.7 ******
0.4 ******
0.2 ******
0.0 ------
Multilevel CAAAAG
consensus G
sequence
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 17 sites sorted by position p-value
--------------------------------------------------------------------------------
Sequence name Start P-value Site
------------- ----- --------- ------
MIC11-PRO-TRUNC 96 1.51e-04 GGTCCTAGGC CAAAAG AGAGCATTGA
GRA2pre-TRUNC 834 1.51e-04 TGTACTTCGC CAAAAG GAAAATACAC
MIC6-TRUNC 329 1.51e-04 TCAAGCATGC CAAAAG CCGACATACT
MIC5-TRUNC 1433 1.51e-04 ACCGTGAAAC CAAAAG CGCAGTTTCA
MIC2-TRUNC 520 1.51e-04 TTCGTTATGT CAAAAG AGCGCTCGCT
cAMP_kinase_reg-trunc 658 1.51e-04 CCCCAACCGT CAAAAG TGTGAACGTG
Camp-kin-cat-trunc 680 1.51e-04 TATCTTTGTT CAAAAG GTAACATAAA
PDIpro-trunc 1057 1.51e-04 TAAGGCGGTC CAAAAG CGACGCCGTT
GAPDH_TRUNC 1440 1.51e-04 CACGGTGTAG CAAAAG GCGCATTTCT
G6PD_TRUNC 902 1.51e-04 TGATTTTGTC CAAAAG TTGCAGAGTC
RiboP-TRUNCATED 442 2.89e-04 TTTCAGGGCA GAAAAG GAGGGAAACT
ROP9-TRUNC 315 2.89e-04 AAAACGGTGG GAAAAG ATGAATATCG
PK4-TRUNC 268 2.89e-04 AAACGCAACG GAAAAG CACGTCGATA
MIC4-TRUNC 1177 4.53e-04 ATCTGTGCTG CAAAAC GGGCCTCTGT
GRA7-TRUNC 891 6.02e-04 TATAATATCT TAAAAG CAGTTGGGTA
Calmodulin-TRUNC 680 7.53e-04 CACTCGCCCG GAAAAC TTTGTAGATC
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 17 block diagrams
--------------------------------------------------------------------------------
SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM
------------- ---------------- -------------
MIC11-PRO-TRUNC 0.00015 95_[17]_1399
GRA2pre-TRUNC 0.00015 833_[17]_661
MIC6-TRUNC 0.00015 328_[17]_1166
MIC5-TRUNC 0.00015 1432_[17]_62
MIC2-TRUNC 0.00015 519_[17]_975
cAMP_kinase_reg-trunc 0.00015 657_[17]_837
Camp-kin-cat-trunc 0.00015 679_[17]_765
PDIpro-trunc 0.00015 1056_[17]_438
GAPDH_TRUNC 0.00015 1439_[17]_55
G6PD_TRUNC 0.00015 901_[17]_593
RiboP-TRUNCATED 0.00029 441_[17]_1054
ROP9-TRUNC 0.00029 314_[17]_1180
PK4-TRUNC 0.00029 267_[17]_1227
MIC4-TRUNC 0.00045 1176_[17]_318
GRA7-TRUNC 0.0006 890_[17]_604
Calmodulin-TRUNC 0.00075 679_[17]_815
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 17 in BLOCKS format
--------------------------------------------------------------------------------
BL MOTIF 17 width=6 seqs=16
MIC11-PRO-TRUNC ( 96) CAAAAG 1
GRA2pre-TRUNC ( 834) CAAAAG 1
MIC6-TRUNC ( 329) CAAAAG 1
MIC5-TRUNC ( 1433) CAAAAG 1
MIC2-TRUNC ( 520) CAAAAG 1
cAMP_kinase_reg-trunc ( 658) CAAAAG 1
Camp-kin-cat-trunc ( 680) CAAAAG 1
PDIpro-trunc ( 1057) CAAAAG 1
GAPDH_TRUNC ( 1440) CAAAAG 1
G6PD_TRUNC ( 902) CAAAAG 1
RiboP-TRUNCATED ( 442) GAAAAG 1
ROP9-TRUNC ( 315) GAAAAG 1
PK4-TRUNC ( 268) GAAAAG 1
MIC4-TRUNC ( 1177) CAAAAC 1
GRA7-TRUNC ( 891) TAAAAG 1
Calmodulin-TRUNC ( 680) GAAAAC 1
//
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 17 position-specific scoring matrix
--------------------------------------------------------------------------------
log-odds matrix: alength= 4 w= 6 n= 23871 bayes= 10.542 E= 8.9e+006
-1064 136 2 -209
219 -1064 -1064 -1064
219 -1064 -1064 -1064
219 -1064 -1064 -1064
219 -1064 -1064 -1064
-1064 -110 183 -1064
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 17 position-specific probability matrix
--------------------------------------------------------------------------------
letter-probability matrix: alength= 4 w= 6 n= 23871 E= 8.9e+006
0.000136 0.687238 0.249998 0.062628
0.999512 0.000168 0.000154 0.000167
0.999512 0.000168 0.000154 0.000167
0.999512 0.000168 0.000154 0.000167
0.999512 0.000168 0.000154 0.000167
0.000136 0.125090 0.874607 0.000167
--------------------------------------------------------------------------------
Time 670.90 secs.
********************************************************************************
********************************************************************************
MOTIF 18 width = 6 sites = 16 llr = 122 E-value = 2.6e+007
********************************************************************************
--------------------------------------------------------------------------------
Motif 18 Description
--------------------------------------------------------------------------------
Simplified A 3:aa8a
pos.-specific C ::::1:
probability G :a::::
matrix T 7:::1:
bits 2.2 ** *
2.0 *** *
1.8 *** *
1.5 *** *
Information 1.3 *****
content 1.1 ******
(11.0 bits) 0.9 ******
0.7 ******
0.4 ******
0.2 ******
0.0 ------
Multilevel TGAAAA
consensus A
sequence
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 18 sites sorted by position p-value
--------------------------------------------------------------------------------
Sequence name Start P-value Site
------------- ----- --------- ------
MIC11-PRO-TRUNC 517 1.49e-04 CCCTACGTTT TGAAAA GACTGCCAGT
GRA2pre-TRUNC 535 1.49e-04 GTTATGTTAC TGAAAA GTATAGTCAA
GRA7-TRUNC 979 1.49e-04 CAGGCGTGGC TGAAAA TCCTCAGCCA
ROP9-TRUNC 303 1.49e-04 CTCTCTCCCC TGAAAA CGGTGGGAAA
MIC5-TRUNC 1206 1.49e-04 GCTAACTGTG TGAAAA TTCAGTGACC
MIC2-TRUNC 621 1.49e-04 ACGCAGAAAC TGAAAA TAACAAGTTT
Calmodulin-TRUNC 1305 1.49e-04 GGCTCTTTTC TGAAAA ATTCACATGA
PK4-TRUNC 255 1.49e-04 CCGCGTTCTC TGAAAA CGCAACGGAA
RiboP-TRUNCATED 172 2.72e-04 ACGGCACCCA AGAAAA ATACCGCTCT
cAMP_kinase_reg-trunc 1140 2.72e-04 TCAGCGAGCG AGAAAA GGCTGGTCGA
PDIpro-trunc 1234 2.72e-04 CGTTTTCCCA AGAAAA TTCGCGGGCG
GAPDH_TRUNC 416 2.72e-04 TGAATTCATT AGAAAA CTAGTACTAC
G6PD_TRUNC 326 2.72e-04 AACGAACACC AGAAAA GACGGGCAAG
MIC4-TRUNC 957 4.56e-04 CGATGCCGCG TGAACA TGGCGTCCCC
Camp-kin-cat-trunc 1188 4.56e-04 TTCTTCTTCT TGAACA GCGGCTCGTC
MIC6-TRUNC 620 7.89e-04 CCTCATCACG TGAATA CACGCTGCGT
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 18 block diagrams
--------------------------------------------------------------------------------
SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM
------------- ---------------- -------------
MIC11-PRO-TRUNC 0.00015 516_[18]_978
GRA2pre-TRUNC 0.00015 534_[18]_960
GRA7-TRUNC 0.00015 978_[18]_516
ROP9-TRUNC 0.00015 302_[18]_1192
MIC5-TRUNC 0.00015 1205_[18]_289
MIC2-TRUNC 0.00015 620_[18]_874
Calmodulin-TRUNC 0.00015 1304_[18]_190
PK4-TRUNC 0.00015 254_[18]_1240
RiboP-TRUNCATED 0.00027 171_[18]_1324
cAMP_kinase_reg-trunc 0.00027 1139_[18]_355
PDIpro-trunc 0.00027 1233_[18]_261
GAPDH_TRUNC 0.00027 415_[18]_1079
G6PD_TRUNC 0.00027 325_[18]_1169
MIC4-TRUNC 0.00046 956_[18]_538
Camp-kin-cat-trunc 0.00046 1187_[18]_257
MIC6-TRUNC 0.00079 619_[18]_875
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 18 in BLOCKS format
--------------------------------------------------------------------------------
BL MOTIF 18 width=6 seqs=16
MIC11-PRO-TRUNC ( 517) TGAAAA 1
GRA2pre-TRUNC ( 535) TGAAAA 1
GRA7-TRUNC ( 979) TGAAAA 1
ROP9-TRUNC ( 303) TGAAAA 1
MIC5-TRUNC ( 1206) TGAAAA 1
MIC2-TRUNC ( 621) TGAAAA 1
Calmodulin-TRUNC ( 1305) TGAAAA 1
PK4-TRUNC ( 255) TGAAAA 1
RiboP-TRUNCATED ( 172) AGAAAA 1
cAMP_kinase_reg-trunc ( 1140) AGAAAA 1
PDIpro-trunc ( 1234) AGAAAA 1
GAPDH_TRUNC ( 416) AGAAAA 1
G6PD_TRUNC ( 326) AGAAAA 1
MIC4-TRUNC ( 957) TGAACA 1
Camp-kin-cat-trunc ( 1188) TGAACA 1
MIC6-TRUNC ( 620) TGAATA 1
//
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 18 position-specific scoring matrix
--------------------------------------------------------------------------------
log-odds matrix: alength= 4 w= 6 n= 23871 bayes= 10.542 E= 2.6e+007
52 -1064 -1064 137
-1064 -1064 202 -1064
219 -1064 -1064 -1064
219 -1064 -1064 -1064
189 -110 -1064 -209
219 -1064 -1064 -1064
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 18 position-specific probability matrix
--------------------------------------------------------------------------------
letter-probability matrix: alength= 4 w= 6 n= 23871 E= 2.6e+007
0.312441 0.000168 0.000154 0.687237
0.000136 0.000168 0.999529 0.000167
0.999512 0.000168 0.000154 0.000167
0.999512 0.000168 0.000154 0.000167
0.812129 0.125090 0.000154 0.062628
0.999512 0.000168 0.000154 0.000167
--------------------------------------------------------------------------------
Time 708.81 secs.
********************************************************************************
********************************************************************************
MOTIF 19 width = 8 sites = 16 llr = 133 E-value = 5.4e+006
********************************************************************************
--------------------------------------------------------------------------------
Motif 19 Description
--------------------------------------------------------------------------------
Simplified A 823:8a:9
pos.-specific C 17:1::a:
probability G 1::91::1
matrix T :17:1:::
bits 2.2 *
2.0 **
1.8 * ***
1.5 * ***
Information 1.3 * *****
content 1.1 * ******
(12.0 bits) 0.9 * ******
0.7 ********
0.4 ********
0.2 ********
0.0 --------
Multilevel ACTGAACA
consensus A
sequence
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 19 sites sorted by position p-value
--------------------------------------------------------------------------------
Sequence name Start P-value Site
------------- ----- --------- --------
cAMP_kinase_reg-trunc 394 1.08e-05 CGTGGCGTTC ACTGAACA CCGACTTGCG
PK4-TRUNC 765 1.96e-05 CCCTGGGGAA ACAGAACA CCCAGGGGTC
G6PD_TRUNC 1420 1.96e-05 TCCGATTTAA ACAGAACA TTTTGACGCC
GRA2pre-TRUNC 1338 2.84e-05 AGAGACGCAA AATGAACA GCGGAACCTG
GAPDH_TRUNC 447 2.84e-05 GAGCTGTAAA AATGAACA ACATTCTGTG
GRA7-TRUNC 634 4.63e-05 ATCGATCTCT ATTGAACA ACTTCTGAGT
MIC5-TRUNC 822 4.63e-05 AAAAAAATGC ATTGAACA AGAGCCGCTT
Camp-kin-cat-trunc 1013 4.63e-05 AATAGACGGG AAAGAACA GGCTCACTGA
MIC11-PRO-TRUNC 610 5.84e-05 TGCTCGAGGT GCTGAACA CTCGCCTTTT
RiboP-TRUNCATED 1099 5.84e-05 CTATCTCCTC GCTGAACA CAGGAGTCTG
MIC2-TRUNC 488 7.16e-05 TCTAAATGAG ACTGTACA AGCTGACGAC
MIC6-TRUNC 561 1.02e-04 AGAAAACACT ACTGGACA ACCATTCGGT
ROP9-TRUNC 662 1.50e-04 GGTATTGAAA CCTGAACA GGAAAATGAG
MIC4-TRUNC 718 1.50e-04 GCGACCATTA ACTGAACG ACTAAGCAGG
Calmodulin-TRUNC 481 1.50e-04 GTGAAACGAA ACAGTACA GTGTGTGTCC
PDIpro-trunc 463 2.11e-04 ACAGAAAACC ACACAACA AGGCGTACAT
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 19 block diagrams
--------------------------------------------------------------------------------
SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM
------------- ---------------- -------------
cAMP_kinase_reg-trunc 1.1e-05 393_[19]_1099
PK4-TRUNC 2e-05 764_[19]_728
G6PD_TRUNC 2e-05 1419_[19]_73
GRA2pre-TRUNC 2.8e-05 1337_[19]_155
GAPDH_TRUNC 2.8e-05 446_[19]_1046
GRA7-TRUNC 4.6e-05 633_[19]_859
MIC5-TRUNC 4.6e-05 821_[19]_671
Camp-kin-cat-trunc 4.6e-05 1012_[19]_430
MIC11-PRO-TRUNC 5.8e-05 609_[19]_883
RiboP-TRUNCATED 5.8e-05 1098_[19]_395
MIC2-TRUNC 7.2e-05 487_[19]_1005
MIC6-TRUNC 0.0001 560_[19]_932
ROP9-TRUNC 0.00015 661_[19]_831
MIC4-TRUNC 0.00015 717_[19]_775
Calmodulin-TRUNC 0.00015 480_[19]_1012
PDIpro-trunc 0.00021 462_[19]_1030
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 19 in BLOCKS format
--------------------------------------------------------------------------------
BL MOTIF 19 width=8 seqs=16
cAMP_kinase_reg-trunc ( 394) ACTGAACA 1
PK4-TRUNC ( 765) ACAGAACA 1
G6PD_TRUNC ( 1420) ACAGAACA 1
GRA2pre-TRUNC ( 1338) AATGAACA 1
GAPDH_TRUNC ( 447) AATGAACA 1
GRA7-TRUNC ( 634) ATTGAACA 1
MIC5-TRUNC ( 822) ATTGAACA 1
Camp-kin-cat-trunc ( 1013) AAAGAACA 1
MIC11-PRO-TRUNC ( 610) GCTGAACA 1
RiboP-TRUNCATED ( 1099) GCTGAACA 1
MIC2-TRUNC ( 488) ACTGTACA 1
MIC6-TRUNC ( 561) ACTGGACA 1
ROP9-TRUNC ( 662) CCTGAACA 1
MIC4-TRUNC ( 718) ACTGAACG 1
Calmodulin-TRUNC ( 481) ACAGTACA 1
PDIpro-trunc ( 463) ACACAACA 1
//
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 19 position-specific scoring matrix
--------------------------------------------------------------------------------
log-odds matrix: alength= 4 w= 8 n= 23839 bayes= 10.5401 E= 5.4e+006
189 -210 -98 -1064
-22 136 -1064 -109
52 -1064 -1064 137
-1064 -210 193 -1064
189 -1064 -198 -109
219 -1064 -1064 -1064
-1064 190 -1064 -1064
210 -1064 -198 -1064
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 19 position-specific probability matrix
--------------------------------------------------------------------------------
letter-probability matrix: alength= 4 w= 8 n= 23839 E= 5.4e+006
0.812129 0.062629 0.125076 0.000167
0.187519 0.687238 0.000154 0.125088
0.312441 0.000168 0.000154 0.687237
0.000136 0.062629 0.937068 0.000167
0.812129 0.000168 0.062615 0.125088
0.999512 0.000168 0.000154 0.000167
0.000136 0.999543 0.000154 0.000167
0.937051 0.000168 0.062615 0.000167
--------------------------------------------------------------------------------
Time 745.93 secs.
********************************************************************************
********************************************************************************
MOTIF 20 width = 6 sites = 16 llr = 121 E-value = 8.9e+007
********************************************************************************
--------------------------------------------------------------------------------
Motif 20 Description
--------------------------------------------------------------------------------
Simplified A :::8:a
pos.-specific C a:::a:
probability G :a1:::
matrix T ::93::
bits 2.2 *
2.0 ** **
1.8 ** **
1.5 *** **
Information 1.3 ******
content 1.1 ******
(10.9 bits) 0.9 ******
0.7 ******
0.4 ******
0.2 ******
0.0 ------
Multilevel CGTACA
consensus T
sequence
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 20 sites sorted by position p-value
--------------------------------------------------------------------------------
Sequence name Start P-value Site
------------- ----- --------- ------
MIC11-PRO-TRUNC 958 2.26e-04 GAGCACCGCA CGTACA GCTCGACGTG
RiboP-TRUNCATED 115 2.26e-04 GAGGCGACAA CGTACA GAGCGTCTCA
GRA2pre-TRUNC 297 2.26e-04 TAGCTGATTT CGTACA CAGACAGATC
ROP9-TRUNC 697 2.26e-04 TTGTCTCTCA CGTACA TCTGTGCGTT
MIC6-TRUNC 511 2.26e-04 TTCCGGTGTA CGTACA TCGCGCGACA
MIC4-TRUNC 860 2.26e-04 TTCGCCGCTT CGTACA ACGTACACTA
MIC2-TRUNC 399 2.26e-04 CACTGTTACT CGTACA CTAGCTTCAT
Calmodulin-TRUNC 1442 2.26e-04 TGGTGGTTAG CGTACA CATACACTTC
cAMP_kinase_reg-trunc 1026 2.26e-04 CTCCGGTCTA CGTACA CCCCGTAGCA
Camp-kin-cat-trunc 1100 2.26e-04 TATGCCGTTG CGTACA ATGTCGGTGA
PDIpro-trunc 474 2.26e-04 CACAACAAGG CGTACA TTCCTTCCGC
MIC5-TRUNC 328 5.02e-04 GCAAGTGTTC CGTTCA CTTTCCTTTA
PK4-TRUNC 1167 5.02e-04 CCACTGCGCA CGTTCA TCTTTGACGT
GAPDH_TRUNC 745 5.02e-04 AAGTTCTTTG CGTTCA GGCCGTCCCT
G6PD_TRUNC 1397 5.02e-04 GCAGTTGCCT CGTTCA TCGTGTGTCC
GRA7-TRUNC 834 7.11e-04 GGTAGAATTT CGGACA GTGAACCATT
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 20 block diagrams
--------------------------------------------------------------------------------
SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM
------------- ---------------- -------------
MIC11-PRO-TRUNC 0.00023 957_[20]_537
RiboP-TRUNCATED 0.00023 114_[20]_1381
GRA2pre-TRUNC 0.00023 296_[20]_1198
ROP9-TRUNC 0.00023 696_[20]_798
MIC6-TRUNC 0.00023 510_[20]_984
MIC4-TRUNC 0.00023 859_[20]_635
MIC2-TRUNC 0.00023 398_[20]_1096
Calmodulin-TRUNC 0.00023 1441_[20]_53
cAMP_kinase_reg-trunc 0.00023 1025_[20]_469
Camp-kin-cat-trunc 0.00023 1099_[20]_345
PDIpro-trunc 0.00023 473_[20]_1021
MIC5-TRUNC 0.0005 327_[20]_1167
PK4-TRUNC 0.0005 1166_[20]_328
GAPDH_TRUNC 0.0005 744_[20]_750
G6PD_TRUNC 0.0005 1396_[20]_98
GRA7-TRUNC 0.00071 833_[20]_661
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 20 in BLOCKS format
--------------------------------------------------------------------------------
BL MOTIF 20 width=6 seqs=16
MIC11-PRO-TRUNC ( 958) CGTACA 1
RiboP-TRUNCATED ( 115) CGTACA 1
GRA2pre-TRUNC ( 297) CGTACA 1
ROP9-TRUNC ( 697) CGTACA 1
MIC6-TRUNC ( 511) CGTACA 1
MIC4-TRUNC ( 860) CGTACA 1
MIC2-TRUNC ( 399) CGTACA 1
Calmodulin-TRUNC ( 1442) CGTACA 1
cAMP_kinase_reg-trunc ( 1026) CGTACA 1
Camp-kin-cat-trunc ( 1100) CGTACA 1
PDIpro-trunc ( 474) CGTACA 1
MIC5-TRUNC ( 328) CGTTCA 1
PK4-TRUNC ( 1167) CGTTCA 1
GAPDH_TRUNC ( 745) CGTTCA 1
G6PD_TRUNC ( 1397) CGTTCA 1
GRA7-TRUNC ( 834) CGGACA 1
//
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 20 position-specific scoring matrix
--------------------------------------------------------------------------------
log-odds matrix: alength= 4 w= 6 n= 23871 bayes= 10.542 E= 8.9e+007
-1064 190 -1064 -1064
-1064 -1064 202 -1064
-1064 -1064 -198 181
178 -1064 -1064 -9
-1064 190 -1064 -1064
219 -1064 -1064 -1064
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
Motif 20 position-specific probability matrix
--------------------------------------------------------------------------------
letter-probability matrix: alength= 4 w= 6 n= 23871 E= 8.9e+007
0.000136 0.999543 0.000154 0.000167
0.000136 0.000168 0.999529 0.000167
0.000136 0.000168 0.062615 0.937081
0.749668 0.000168 0.000154 0.250010
0.000136 0.999543 0.000154 0.000167
0.999512 0.000168 0.000154 0.000167
--------------------------------------------------------------------------------
Time 783.41 secs.
********************************************************************************
********************************************************************************
SUMMARY OF MOTIFS
********************************************************************************
--------------------------------------------------------------------------------
Combined block diagrams: non-overlapping sites with p-value < 0.0001
--------------------------------------------------------------------------------
SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM
------------- ---------------- -------------
G6PD_TRUNC 4.27e-13 10_[3(2.10e-05)]_36_[2(3.85e-05)]_150_[14(2.30e-06)]_149_[5(2.69e-05)]_118_[7(3.66e-06)]_25_[6(4.33e-05)]_61_[8(7.05e-07)]_97_[10(4.94e-07)]_75_[16(2.70e-05)]_46_[11(2.40e-05)]_27_[1(1.30e-06)]_16_[9(4.44e-05)]_320_[12(2.40e-05)]_1_[4(6.14e-06)]_134_[19(1.96e-05)]_73
GAPDH_TRUNC 1.20e-13 58_[4(3.00e-05)]_150_[6(1.78e-06)]_88_[4(3.92e-06)]_117_[19(2.84e-05)]_38_[10(5.91e-05)]_139_[14(1.25e-05)]_8_[3(3.47e-06)]_110_[2(5.32e-05)]_30_[8(4.22e-08)]_18_[16(2.79e-08)]_85_[9(6.59e-05)]_25_[1(1.31e-05)]_13_[5(8.60e-05)]_17_[7(1.56e-05)]_222_[9(1.69e-05)]_214
PDIpro-trunc 3.57e-11 74_[7(1.18e-06)]_14_[3(3.47e-06)]_57_[8(1.15e-05)]_139_[12(9.39e-05)]_23_[1(1.56e-06)]_85_[5(4.62e-05)]_219_[16(4.93e-07)]_33_[2(1.96e-05)]_138_[12(4.59e-05)]_31_[4(3.00e-05)]_18_[10(4.16e-05)]_42_[14(1.13e-05)]_122_[6(1.19e-05)]_35_[9(8.13e-05)]_39_[11(7.19e-05)]_269
Camp-kin-cat-trunc 1.24e-08 106_[10(1.92e-05)]_15_[4(1.98e-05)]_69_[8(4.50e-06)]_83_[2(9.02e-05)]_149_[6(3.97e-05)]_58_[16(1.10e-05)]_95_[7(1.56e-05)]_61_[3(3.77e-06)]_131_[14(5.38e-05)]_137_[19(4.63e-05)]_125_[9(3.21e-05)]_240_[5(1.81e-05)]_46
cAMP_kinase_reg-trunc 5.01e-13 122_[5(3.91e-05)]_135_[9(1.69e-05)]_15_[6(3.46e-05)]_91_[19(1.08e-05)]_27_[2(5.84e-06)]_167_[8(5.98e-06)]_108_[7(6.40e-05)]_52_[14(9.15e-07)]_93_[16(1.91e-06)]_92_[11(7.19e-05)]_56_[12(2.40e-05)]_50_[10(2.62e-07)]_73_[1(1.65e-05)]_88_[4(4.80e-06)]_93_[11(7.19e-05)]_29_[3(2.10e-05)]_39
PK4-TRUNC 1.82e-10 6_[10(4.80e-05)]_18_[1(4.81e-06)]_69_[7(5.16e-06)]_17_[14(2.98e-05)]_23_[16(5.99e-05)]_239_[9(5.44e-06)]_33_[2(5.84e-06)]_19_[8(5.23e-07)]_24_[6(3.46e-05)]_23_[1(4.76e-05)]_49_[3(4.79e-05)]_29_[10(1.92e-05)]_40_[12(2.40e-05)]_26_[19(1.96e-05)]_236_[12(9.39e-05)]_69_[4(1.34e-05)]_372_[5(8.60e-05)]_24
Calmodulin-TRUNC 3.11e-10 25_[10(1.74e-05)]_331_[1(2.55e-05)]_39_[3(2.27e-05)]_25_[2(5.96e-05)]_6_[14(8.56e-05)]_118_[6(2.46e-05)]_4_[12(9.39e-05)]_134_[16(2.89e-05)]_121_[7(2.18e-05)]_195_[9(1.69e-05)]_92_[9(4.17e-05)]_69_[8(1.16e-09)]_94_[4(4.20e-07)]_98
MIC2-TRUNC 1.20e-14 63_[16(5.36e-05)]_47_[2(5.84e-06)]_23_[8(1.97e-07)]_23_[16(1.34e-06)]_104_[7(1.14e-05)]_159_[19(7.16e-05)]_117_[5(9.96e-06)]_257_[9(6.97e-06)]_32_[4(1.07e-05)]_136_[10(9.17e-05)]_45_[5(8.60e-05)]_93_[3(1.64e-05)]_46_[1(2.13e-07)]_51_[12(4.59e-05)]_1_[14(1.98e-07)]_50_[6(2.10e-05)]_76
MIC4-TRUNC 3.12e-08 178_[16(5.99e-05)]_135_[8(1.13e-06)]_22_[14(1.69e-06)]_64_[1(4.81e-06)]_15_[7(2.62e-05)]_31_[10(6.75e-05)]_109_[6(1.77e-05)]_114_[4(5.36e-05)]_224_[5(6.70e-05)]_156_[3(1.44e-05)]_294_[4(1.98e-05)]_9_[9(2.34e-05)]_8
MIC5-TRUNC 1.56e-15 31_[16(1.19e-06)]_[3(1.37e-06)]_98_[7(1.44e-05)]_2_[2(9.02e-05)]_135_[10(1.51e-06)]_250_[8(1.03e-08)]_89_[9(3.14e-06)]_121_[2(3.85e-05)]_1_[19(4.63e-05)]_26_[7(8.78e-05)]_13_[1(3.56e-06)]_9_[12(9.39e-05)]_66_[14(1.04e-05)]_57_[6(1.01e-05)]_[11(2.40e-05)]_51_[5(9.96e-06)]_31_[12(2.40e-05)]_192_[11(7.19e-05)]_51_[4(3.76e-05)]_23_[3(9.51e-06)]_46
MIC6-TRUNC 7.79e-11 16_[8(1.46e-05)]_449_[7(7.36e-07)]_45_[11(2.40e-05)]_144_[12(9.39e-05)]_182_[9(5.46e-07)]_30_[3(1.64e-05)]_154_[2(6.76e-05)]_99_[1(2.16e-05)]_16_[10(9.17e-05)]_163_[16(1.19e-05)]_31_[4(1.74e-06)]_34_[6(6.97e-07)]_2
ROP9-TRUNC 9.45e-11 37_[10(5.15e-05)]_32_[8(1.47e-06)]_325_[2(6.76e-05)]_16_[5(9.96e-06)]_181_[7(7.97e-05)]_97_[16(2.36e-05)]_20_[7(7.99e-06)]_288_[1(4.76e-05)]_1_[1(1.06e-06)]_22_[9(2.25e-06)]_144_[4(1.68e-05)]_24_[11(7.19e-05)]_15_[14(5.42e-07)]_121_[3(5.09e-05)]_[6(9.32e-05)]_9
GRA7-TRUNC 4.94e-12 56_[14(7.48e-05)]_68_[11(7.19e-05)]_203_[3(3.72e-07)]_132_[2(1.30e-05)]_2_[9(4.49e-06)]_11_[8(2.64e-06)]_70_[8(8.65e-05)]_4_[19(4.63e-05)]_307_[5(9.96e-06)]_20_[5(8.60e-05)]_47_[10(3.80e-05)]_86_[6(1.48e-05)]_63_[1(2.13e-07)]_59_[4(4.06e-05)]_109_[7(1.44e-05)]_36_[16(2.99e-06)]_46
GRA2pre-TRUNC 4.22e-13 238_[14(4.05e-06)]_1_[2(5.84e-06)]_56_[5(3.91e-05)]_381_[16(2.99e-06)]_79_[10(1.51e-06)]_6_[8(2.85e-06)]_241_[7(2.11e-06)]_31_[9(2.25e-06)]_196_[1(2.74e-05)]_3_[19(2.84e-05)]_7_[6(3.80e-05)]_40_[3(8.86e-06)]_21_[4(3.05e-06)]_54
RiboP-TRUNCATED 7.88e-11 [5(9.96e-06)]_178_[16(6.66e-05)]_74_[11(7.19e-05)]_88_[11(2.40e-05)]_59_[5(1.81e-05)]_178_[7(9.30e-05)]_8_[14(5.38e-05)]_3_[4(3.76e-05)]_43_[8(3.46e-07)]_51_[16(3.31e-06)]_145_[10(2.92e-06)]_9_[9(7.67e-06)]_69_[1(5.17e-05)]_46_[19(5.84e-05)]_10_[2(5.96e-05)]_56_[12(2.40e-05)]_155_[3(8.86e-06)]_53_[6(1.12e-05)]_[11(7.19e-05)]_75
MIC11-PRO-TRUNC 1.11e-10 428_[7(1.04e-05)]_170_[19(5.84e-05)]_13_[12(9.39e-05)]_21_[2(4.66e-05)]_68_[10(2.06e-05)]_279_[9(1.25e-05)]_21_[11(2.40e-05)]_21_[8(4.84e-06)]_21_[14(2.30e-06)]_2_[5(5.71e-05)]_24_[4(3.39e-05)]_13_[11(7.19e-05)]_103_[6(3.33e-07)]_56_[9(2.34e-05)]_55_[16(2.99e-06)]_46
--------------------------------------------------------------------------------
********************************************************************************
********************************************************************************
Stopped because nmotifs = 20 reached.
********************************************************************************
CPU: mnode012
********************************************************************************
More information about the Bioperl-l
mailing list