# DREME 5.3.3
#     command: dreme -oc ../result/final_prediction/K562/inference_raw/DREME/RankLinear0.3_10_RNF2/ -k 8 -m 5 -e 1000 -verbosity 1 -p ../result/final_prediction/K562/fasta/RankLinear0.3_10/RNF2.fasta
#   positives: 250 from ../result/final_prediction/K562/fasta/RankLinear0.3_10/RNF2.fasta (Sat Feb 12 18:00:25 EST 2022)
#   negatives: 250 from shuffled positives
#        host: c23n07.farnam.hpc.yale.internal
#        when: Sat Feb 12 18:27:52 EST 2022

MEME version 5.3.3

ALPHABET "DNA" DNA-LIKE
A "Adenine" CC0000 ~ T "Thymine" 008000
C "Cytosine" 0000CC ~ G "Guanine" FFB300
N "Any base" = ACGT
X = ACGT
. = ACGT
V "Not T" = ACG
H "Not G" = ACT
D "Not C" = AGT
B "Not A" = CGT
M "Amino" = AC
R "Purine" = AG
W "Weak" = AT
S "Strong" = CG
Y "Pyrimidine" = CT
K "Keto" = GT
U = T
END ALPHABET

strands: + -

Background letter frequencies (from dataset):
A 0.240 C 0.266 G 0.265 T 0.229


MOTIF AGATAAGA DREME-1

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    AGATAAGA   TCTTATCT          6          0   1.5e-002   4.5e+001

letter-probability matrix: alength= 4 w= 8 nsites= 6 E= 4.5e+001
1.000000 0.000000 0.000000 0.000000
0.000000 0.000000 1.000000 0.000000
1.000000 0.000000 0.000000 0.000000
0.000000 0.000000 0.000000 1.000000
1.000000 0.000000 0.000000 0.000000
1.000000 0.000000 0.000000 0.000000
0.000000 0.000000 1.000000 0.000000
1.000000 0.000000 0.000000 0.000000


MOTIF GTGAGTCA DREME-2

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    GTGAGTCA   TGACTCAC          5          0   3.1e-002   9.0e+001

letter-probability matrix: alength= 4 w= 8 nsites= 5 E= 9.0e+001
0.000000 0.000000 1.000000 0.000000
0.000000 0.000000 0.000000 1.000000
0.000000 0.000000 1.000000 0.000000
1.000000 0.000000 0.000000 0.000000
0.000000 0.000000 1.000000 0.000000
0.000000 0.000000 0.000000 1.000000
0.000000 1.000000 0.000000 0.000000
1.000000 0.000000 0.000000 0.000000


MOTIF CAGAAGGA DREME-3

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    CAGAAGGA   TCCTTCTG          4          0   6.2e-002   1.8e+002

letter-probability matrix: alength= 4 w= 8 nsites= 4 E= 1.8e+002
0.000000 1.000000 0.000000 0.000000
1.000000 0.000000 0.000000 0.000000
0.000000 0.000000 1.000000 0.000000
1.000000 0.000000 0.000000 0.000000
1.000000 0.000000 0.000000 0.000000
0.000000 0.000000 1.000000 0.000000
0.000000 0.000000 1.000000 0.000000
1.000000 0.000000 0.000000 0.000000


MOTIF ACGACCGT DREME-4

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    ACGACCGT   ACGGTCGT          3          0   1.2e-001   3.5e+002

letter-probability matrix: alength= 4 w= 8 nsites= 3 E= 3.5e+002
1.000000 0.000000 0.000000 0.000000
0.000000 1.000000 0.000000 0.000000
0.000000 0.000000 1.000000 0.000000
1.000000 0.000000 0.000000 0.000000
0.000000 1.000000 0.000000 0.000000
0.000000 1.000000 0.000000 0.000000
0.000000 0.000000 1.000000 0.000000
0.000000 0.000000 0.000000 1.000000


MOTIF ACTGAGAT DREME-5

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    ACTGAGAT   ATCTCAGT          3          0   1.2e-001   3.5e+002

letter-probability matrix: alength= 4 w= 8 nsites= 3 E= 3.5e+002
1.000000 0.000000 0.000000 0.000000
0.000000 1.000000 0.000000 0.000000
0.000000 0.000000 0.000000 1.000000
0.000000 0.000000 1.000000 0.000000
1.000000 0.000000 0.000000 0.000000
0.000000 0.000000 1.000000 0.000000
1.000000 0.000000 0.000000 0.000000
0.000000 0.000000 0.000000 1.000000


# Stopping reason: target motif count reached
#    Running time: 0.85 seconds