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XSTREME - Motif Discovery and Enrichment Analysis
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MEME version 5.4.0 (Mon Aug 16 16:18:19 2021 -0700)

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

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REFERENCE
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If you use this program in your research, please cite:

Charles E. Grant and Timothy L. Bailey, "XSTREME: comprehensive motif analysis of biological sequence datasets",
BioRxiv, 2021.
********************************************************************************


ALPHABET "DNA with covalent modifications" DNA-LIKE
A "Adenine" 8510A8 ~ T "Thymine" A89610
C "Cytosine" A50026 ~ G "Guanine" 313695
c "5-Carboxylcytosine" FEE090 ~ 4 "Guanine:5-Carboxylcytosine" E0F3F8
f "5-Formylcytosine" FDAE61 ~ 3 "Guanine:5-Formylcytosine" ABD9E9
h "5-Hydroxymethylcytosine" F46D43 ~ 2 "Guanine:5-Hydroxymethylcytosine" 74ADD1
m "5-Methylcytosine" D73027 ~ 1 "Guanine:5-Methylcytosine" 4575B4
? = ACGTcfhm1234
z = Ccfhm
9 = G1234
N = ACGT
V = ACG
H = ACT
D = AGT
B = CGT
y = Ccf
8 = G34
M = AC
R = AG
W = AT
S = CG
Y = CT
K = GT
x = hm
7 = 12
END ALPHABET

strands: + -

Background letter frequencies (from file `results/xstreme4/dna_with_covalent.bg'):
A 0.20700 C 0.27130 G 0.27130 T 0.20700 c 0.00000 f 0.00000 h 0.00024 m 0.02146 1 0.02146 2 0.00024 3 0.00000 4 0.00000 

MOTIF 1-Sm1BCMWS STREME-1

letter-probability matrix: alength= 12 w= 8 nsites= 1148 E= 2.8e-031
  0.187890	  0.389197	  0.223252	  0.157967	  0.000000	  0.000000	  0.000000	  0.000003	  0.041691	  0.000000	  0.000000	  0.000000	
  0.000030	  0.000039	  0.000039	  0.000030	  0.000000	  0.000000	  0.000000	  0.999860	  0.000003	  0.000000	  0.000000	  0.000000	
  0.000030	  0.000039	  0.000039	  0.000030	  0.000000	  0.000000	  0.000000	  0.000003	  0.999860	  0.000000	  0.000000	  0.000000	
  0.101752	  0.309668	  0.385436	  0.203137	  0.000000	  0.000000	  0.000000	  0.000003	  0.000003	  0.000000	  0.000000	  0.000000	
  0.164107	  0.554160	  0.212790	  0.068937	  0.000000	  0.000000	  0.000000	  0.000003	  0.000003	  0.000000	  0.000000	  0.000000	
  0.414204	  0.375006	  0.016936	  0.193848	  0.000000	  0.000000	  0.000000	  0.000003	  0.000003	  0.000000	  0.000000	  0.000000	
  0.411990	  0.090206	  0.193898	  0.303899	  0.000000	  0.000000	  0.000000	  0.000003	  0.000003	  0.000000	  0.000000	  0.000000	
  0.114201	  0.364815	  0.388962	  0.095300	  0.000000	  0.000000	  0.000000	  0.036720	  0.000003	  0.000000	  0.000000	  0.000000	

MOTIF 2-KCWGCWGM STREME-2

letter-probability matrix: alength= 12 w= 8 nsites= 1171 E= 1.5e-017
  0.056738	  0.211426	  0.429815	  0.300472	  0.000000	  0.000000	  0.000000	  0.001544	  0.000005	  0.000000	  0.000000	  0.000000	
  0.060541	  0.762924	  0.171863	  0.000046	  0.000000	  0.000000	  0.000000	  0.000005	  0.000005	  0.004617	  0.000000	  0.000000	
  0.403301	  0.000060	  0.000060	  0.596569	  0.000000	  0.000000	  0.000000	  0.000005	  0.000005	  0.000000	  0.000000	  0.000000	
  0.000046	  0.052159	  0.946970	  0.000815	  0.000000	  0.000000	  0.000000	  0.000005	  0.000005	  0.000000	  0.000000	  0.000000	
  0.000815	  0.946970	  0.052159	  0.000046	  0.000000	  0.000000	  0.000000	  0.000005	  0.000005	  0.000000	  0.000000	  0.000000	
  0.596569	  0.000060	  0.000060	  0.403301	  0.000000	  0.000000	  0.000000	  0.000005	  0.000005	  0.000000	  0.000000	  0.000000	
  0.000046	  0.171863	  0.762924	  0.060541	  0.000000	  0.000000	  0.004617	  0.000005	  0.000005	  0.000000	  0.000000	  0.000000	
  0.300472	  0.429815	  0.211426	  0.056738	  0.000000	  0.000000	  0.000000	  0.000005	  0.001544	  0.000000	  0.000000	  0.000000	

MOTIF Gm7GCA TGCx1C

letter-probability matrix: alength= 12 w= 6 nsites= 357 E= 2.95e-090
  0.000103	  0.000136	  0.999636	  0.000103	  0.000000	  0.000000	  0.000000	  0.000011	  0.000011	  0.000000	  0.000000	  0.000000	
  0.000103	  0.000136	  0.000136	  0.000103	  0.000000	  0.000000	  0.000000	  0.999511	  0.000011	  0.000000	  0.000000	  0.000000	
  0.000103	  0.000136	  0.000136	  0.000103	  0.000000	  0.000000	  0.000000	  0.000011	  0.499761	  0.499750	  0.000000	  0.000000	
  0.000103	  0.000136	  0.999636	  0.000103	  0.000000	  0.000000	  0.000000	  0.000011	  0.000011	  0.000000	  0.000000	  0.000000	
  0.000103	  0.999636	  0.000136	  0.000103	  0.000000	  0.000000	  0.000000	  0.000011	  0.000011	  0.000000	  0.000000	  0.000000	
  0.999604	  0.000136	  0.000136	  0.000103	  0.000000	  0.000000	  0.000000	  0.000011	  0.000011	  0.000000	  0.000000	  0.000000	

MOTIF GCAm7C Gx1TGC

letter-probability matrix: alength= 12 w= 6 nsites= 325 E= 6.98e-083
  0.000103	  0.000136	  0.999636	  0.000103	  0.000000	  0.000000	  0.000000	  0.000011	  0.000011	  0.000000	  0.000000	  0.000000	
  0.000103	  0.999636	  0.000136	  0.000103	  0.000000	  0.000000	  0.000000	  0.000011	  0.000011	  0.000000	  0.000000	  0.000000	
  0.999604	  0.000136	  0.000136	  0.000103	  0.000000	  0.000000	  0.000000	  0.000011	  0.000011	  0.000000	  0.000000	  0.000000	
  0.000103	  0.000136	  0.000136	  0.000103	  0.000000	  0.000000	  0.000000	  0.999511	  0.000011	  0.000000	  0.000000	  0.000000	
  0.000103	  0.000136	  0.000136	  0.000103	  0.000000	  0.000000	  0.000000	  0.000011	  0.499761	  0.499750	  0.000000	  0.000000	
  0.000103	  0.999636	  0.000136	  0.000103	  0.000000	  0.000000	  0.000000	  0.000011	  0.000011	  0.000000	  0.000000	  0.000000	

MOTIF MA0079.2 SP1

letter-probability matrix: alength= 12 w= 10 nsites= 1363 E= 1.68e-031
  0.000059	  0.914102	  0.028640	  0.057186	  0.000000	  0.000000	  0.000000	  0.000006	  0.000006	  0.000000	  0.000000	  0.000000	
  0.000059	  0.856976	  0.028640	  0.114312	  0.000000	  0.000000	  0.000000	  0.000006	  0.000006	  0.000000	  0.000000	  0.000000	
  0.000059	  0.999792	  0.000077	  0.000059	  0.000000	  0.000000	  0.000000	  0.000006	  0.000006	  0.000000	  0.000000	  0.000000	
  0.114312	  0.771285	  0.000077	  0.114312	  0.000000	  0.000000	  0.000000	  0.000006	  0.000006	  0.000000	  0.000000	  0.000000	
  0.057186	  0.142894	  0.428526	  0.371382	  0.000000	  0.000000	  0.000000	  0.000006	  0.000006	  0.000000	  0.000000	  0.000000	
  0.000059	  0.799849	  0.028640	  0.171439	  0.000000	  0.000000	  0.000000	  0.000006	  0.000006	  0.000000	  0.000000	  0.000000	
  0.028622	  0.885539	  0.000077	  0.085749	  0.000000	  0.000000	  0.000000	  0.000006	  0.000006	  0.000000	  0.000000	  0.000000	
  0.000059	  0.685596	  0.085767	  0.228565	  0.000000	  0.000000	  0.000000	  0.000006	  0.000006	  0.000000	  0.000000	  0.000000	
  0.171439	  0.714159	  0.000077	  0.114312	  0.000000	  0.000000	  0.000000	  0.000006	  0.000006	  0.000000	  0.000000	  0.000000	
  0.085749	  0.742723	  0.085767	  0.085749	  0.000000	  0.000000	  0.000000	  0.000006	  0.000006	  0.000000	  0.000000	  0.000000	

URL http://jaspar.genereg.net/cgi-bin/jaspar_db.pl?ID=MA0079.2&rm=present&collection=CORE

MOTIF MA0091.1 TAL1::TCF3

letter-probability matrix: alength= 12 w= 12 nsites= 238 E= 5.61e-027
  0.295435	  0.318171	  0.181838	  0.204546	  0.000000	  0.000000	  0.000000	  0.000005	  0.000005	  0.000000	  0.000000	  0.000000	
  0.204546	  0.227283	  0.454504	  0.113657	  0.000000	  0.000000	  0.000000	  0.000005	  0.000005	  0.000000	  0.000000	  0.000000	
  0.886209	  0.000062	  0.068228	  0.045492	  0.000000	  0.000000	  0.000000	  0.000005	  0.000005	  0.000000	  0.000000	  0.000000	
  0.454489	  0.545393	  0.000062	  0.000047	  0.000000	  0.000000	  0.000000	  0.000005	  0.000005	  0.000000	  0.000000	  0.000000	
  0.000047	  0.977113	  0.022784	  0.000047	  0.000000	  0.000000	  0.000000	  0.000005	  0.000005	  0.000000	  0.000000	  0.000000	
  0.999820	  0.000062	  0.000062	  0.000047	  0.000000	  0.000000	  0.000000	  0.000005	  0.000005	  0.000000	  0.000000	  0.000000	
  0.000047	  0.022784	  0.250005	  0.727155	  0.000000	  0.000000	  0.000000	  0.000005	  0.000005	  0.000000	  0.000000	  0.000000	
  0.272712	  0.727169	  0.000062	  0.000047	  0.000000	  0.000000	  0.000000	  0.000005	  0.000005	  0.000000	  0.000000	  0.000000	
  0.000047	  0.000062	  0.000062	  0.999820	  0.000000	  0.000000	  0.000000	  0.000005	  0.000005	  0.000000	  0.000000	  0.000000	
  0.000047	  0.000062	  0.977113	  0.022769	  0.000000	  0.000000	  0.000000	  0.000005	  0.000005	  0.000000	  0.000000	  0.000000	
  0.000047	  0.068228	  0.454503	  0.477212	  0.000000	  0.000000	  0.000000	  0.000005	  0.000005	  0.000000	  0.000000	  0.000000	
  0.090935	  0.090950	  0.045506	  0.772598	  0.000000	  0.000000	  0.000000	  0.000005	  0.000005	  0.000000	  0.000000	  0.000000	

URL http://jaspar.genereg.net/cgi-bin/jaspar_db.pl?ID=MA0091.1&rm=present&collection=CORE

MOTIF MA0140.1 Tal1::Gata1

letter-probability matrix: alength= 12 w= 18 nsites= 943 E= 1.51e-011
  0.135962	  0.451733	  0.210061	  0.202243	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	
  0.088715	  0.150918	  0.176751	  0.583615	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	
  0.044498	  0.061822	  0.652513	  0.241168	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	
  0.089983	  0.253311	  0.416978	  0.239728	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	
  0.227165	  0.215620	  0.263158	  0.294057	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	
  0.238031	  0.233277	  0.306621	  0.222071	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	
  0.225390	  0.252885	  0.318398	  0.203327	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	
  0.241941	  0.237190	  0.302341	  0.218527	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	
  0.248898	  0.224483	  0.292302	  0.234317	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	
  0.338086	  0.138153	  0.319077	  0.204684	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	
  0.178947	  0.397963	  0.305942	  0.117148	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	
  0.664742	  0.010520	  0.012556	  0.312182	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	
  0.001019	  0.002377	  0.996604	  0.000001	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	
  0.993550	  0.002376	  0.000680	  0.003394	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	
  0.005434	  0.008830	  0.010188	  0.975548	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	
  0.941214	  0.002040	  0.007816	  0.048931	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	
  0.809376	  0.017330	  0.127761	  0.045532	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	
  0.186054	  0.187075	  0.544557	  0.082313	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	  0.000000	

URL http://jaspar.genereg.net/cgi-bin/jaspar_db.pl?ID=MA0140.1&rm=present&collection=CORE

MOTIF CCTTCC GGAAGG

letter-probability matrix: alength= 12 w= 6 nsites= 127 E= 6.55e-004
  0.000103	  0.999636	  0.000136	  0.000103	  0.000000	  0.000000	  0.000000	  0.000011	  0.000011	  0.000000	  0.000000	  0.000000	
  0.000103	  0.999636	  0.000136	  0.000103	  0.000000	  0.000000	  0.000000	  0.000011	  0.000011	  0.000000	  0.000000	  0.000000	
  0.000103	  0.000136	  0.000136	  0.999604	  0.000000	  0.000000	  0.000000	  0.000011	  0.000011	  0.000000	  0.000000	  0.000000	
  0.000103	  0.000136	  0.000136	  0.999604	  0.000000	  0.000000	  0.000000	  0.000011	  0.000011	  0.000000	  0.000000	  0.000000	
  0.000103	  0.999636	  0.000136	  0.000103	  0.000000	  0.000000	  0.000000	  0.000011	  0.000011	  0.000000	  0.000000	  0.000000	
  0.000103	  0.999636	  0.000136	  0.000103	  0.000000	  0.000000	  0.000000	  0.000011	  0.000011	  0.000000	  0.000000	  0.000000	

MOTIF MA0270.1 AFT2

letter-probability matrix: alength= 12 w= 8 nsites= 36 E= 7.66e-004
  0.080013	  0.449982	  0.270000	  0.200001	  0.000000	  0.000000	  0.000000	  0.000002	  0.000002	  0.000000	  0.000000	  0.000000	
  0.699951	  0.000027	  0.299997	  0.000021	  0.000000	  0.000000	  0.000000	  0.000002	  0.000002	  0.000000	  0.000000	  0.000000	
  0.000021	  0.999927	  0.000027	  0.000021	  0.000000	  0.000000	  0.000000	  0.000002	  0.000002	  0.000000	  0.000000	  0.000000	
  0.999921	  0.000027	  0.000027	  0.000021	  0.000000	  0.000000	  0.000000	  0.000002	  0.000002	  0.000000	  0.000000	  0.000000	
  0.000021	  0.999927	  0.000027	  0.000021	  0.000000	  0.000000	  0.000000	  0.000002	  0.000002	  0.000000	  0.000000	  0.000000	
  0.000021	  0.999927	  0.000027	  0.000021	  0.000000	  0.000000	  0.000000	  0.000002	  0.000002	  0.000000	  0.000000	  0.000000	
  0.000021	  0.999927	  0.000027	  0.000021	  0.000000	  0.000000	  0.000000	  0.000002	  0.000002	  0.000000	  0.000000	  0.000000	
  0.090921	  0.424227	  0.272727	  0.212121	  0.000000	  0.000000	  0.000000	  0.000002	  0.000002	  0.000000	  0.000000	  0.000000	

URL http://jaspar.genereg.net/cgi-bin/jaspar_db.pl?ID=MA0270.1&rm=present&collection=CORE

