# ../scripts/dreme -p ../doc/examples/sample-dna-Klf1-200-100.fa -n None -mink 3 -maxk 8 -e 0.05 -g 100
# ( ../scripts/dreme -v 1 -p ../doc/examples/sample-dna-Klf1-200-100.fa )

MEME version 4.5

ALPHABET= ACGT

strands: + -

Background letter frequencies (from
A 0.244  C 0.253  G 0.250  T 0.253  

# VALUES AFTER ERASING BEST WORD
# WORD RC_WORD 	p 	P 	n 	N   p-value   E-value
BEST ACRCCC GGGYGT     63    169     11    169 1.7e-012 2.9e-008 2.9e-008 
	ACGCCC GGGCGT     23    169      2    169 4.9e-006 8.7e-002
	ACACCC GGGTGT     42    169      9    169 2.6e-007 4.6e-003

MOTIF ACRCCC 2.9e-008
letter-probability matrix: alength= 4 w= 6 nsites= 71 E= 2.9e-008
1.000000 0.000000 0.000000 0.000000 
0.000000 1.000000 0.000000 0.000000 
0.661972 0.000000 0.338028 0.000000 
0.000000 1.000000 0.000000 0.000000 
0.000000 1.000000 0.000000 0.000000 
0.000000 1.000000 0.000000 0.000000 

log-odds matrix: alength= 4 w= 6 n= 71 bayes= 0 E= 2.9e-008
1.976614 -4.246584 -4.228915 -4.245821 
-4.193311 1.923341 -4.228915 -4.245821 
1.391652 -4.246584 0.414941 -4.245821 
-4.193311 1.923341 -4.228915 -4.245821 
-4.193311 1.923341 -4.228915 -4.245821 
-4.193311 1.923341 -4.228915 -4.245821 

BEST TTATCW WGATAA     51    169      7    169 4.0e-011 6.8e-007 6.8e-007 
	TTATCA TGATAA     20    169      3    169 1.6e-004 2.7e+000
	TTATCT AGATAA     34    169      4    169 7.0e-008 1.2e-003

MOTIF TTATCW 6.8e-007
letter-probability matrix: alength= 4 w= 6 nsites= 56 E= 6.8e-007
0.000000 0.000000 0.000000 1.000000 
0.000000 0.000000 0.000000 1.000000 
1.000000 0.000000 0.000000 0.000000 
0.000000 0.000000 0.000000 1.000000 
0.000000 1.000000 0.000000 0.000000 
0.357143 0.000000 0.000000 0.642857 

log-odds matrix: alength= 4 w= 6 n= 56 bayes= 0 E= 6.8e-007
-3.871383 -3.924656 -3.906987 1.908998 
-3.871383 -3.924656 -3.906987 1.908998 
1.961507 -3.924656 -3.906987 -3.923892 
-3.871383 -3.924656 -3.906987 1.908998 
-3.871383 1.908234 -3.906987 -3.923892 
0.520935 -3.924656 -3.906987 1.285561 


# 2 motifs with E-value < 0.05 found.