# DREME 5.3.3
#     command: dreme -oc ../result/final_prediction/K562/inference_raw/DREME/RankLinear0.3_10_NKRF/ -k 8 -m 5 -e 1000 -verbosity 1 -p ../result/final_prediction/K562/fasta/RankLinear0.3_10/NKRF.fasta
#   positives: 250 from ../result/final_prediction/K562/fasta/RankLinear0.3_10/NKRF.fasta (Sat Feb 12 18:00:13 EST 2022)
#   negatives: 250 from shuffled positives
#        host: c28n02.farnam.hpc.yale.internal
#        when: Sat Feb 12 18:28:07 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 0.188 C 0.306 G 0.317 T 0.188


MOTIF AGCGGAGC DREME-1

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

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


MOTIF AGCTGGGA DREME-2

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

letter-probability matrix: alength= 4 w= 8 nsites= 4 E= 1.8e+002
1.000000 0.000000 0.000000 0.000000
0.000000 0.000000 1.000000 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
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 ACAGGAGA DREME-3

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    ACAGGAGA   TCTCCTGT          3          0   1.2e-001   3.6e+002

letter-probability matrix: alength= 4 w= 8 nsites= 3 E= 3.6e+002
1.000000 0.000000 0.000000 0.000000
0.000000 1.000000 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
0.000000 0.000000 1.000000 0.000000
1.000000 0.000000 0.000000 0.000000


MOTIF ACGTGGGC DREME-4

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    ACGTGGGC   GCCCACGT          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
0.000000 0.000000 0.000000 1.000000
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 1.000000 0.000000 0.000000


MOTIF CCAGAGGA DREME-5

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

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


# Stopping reason: target motif count reached
#    Running time: 0.72 seconds