# DREME 5.3.3
#     command: dreme -oc ../result/final_prediction/GM12878/inference_raw/DREME/RankLinear1.0_10_SMC3/ -k 8 -m 5 -e 1000 -verbosity 1 -p ../result/final_prediction/GM12878/fasta/RankLinear1.0_10/SMC3.fasta
#   positives: 250 from ../result/final_prediction/GM12878/fasta/RankLinear1.0_10/SMC3.fasta (Sat Feb 12 17:37:28 EST 2022)
#   negatives: 250 from shuffled positives
#        host: c23n02.farnam.hpc.yale.internal
#        when: Sat Feb 12 18:29:51 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 0.201 C 0.317 G 0.296 T 0.185


MOTIF AGRKGGCR DREME-1

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    AGRKGGCR   YGCCMYCT         95          3   1.4e-029   3.1e-026
#         AGGGGGCA   TGCCCCCT         14          0   5.1e-005   1.1e-001
#         AGAGGGCG   CGCCCTCT         12          0   2.1e-004   4.8e-001
#         AGGTGGCA   TGCCACCT         12          0   2.1e-004   4.8e-001
#         AGAGGGCA   TGCCCTCT         15          1   2.1e-004   4.8e-001
#         AGGTGGCG   CGCCACCT         11          0   4.4e-004   9.8e-001
#         AGATGGCA   TGCCATCT         13          1   8.0e-004   1.8e+000
#         AGGGGGCG   CGCCCCCT         11          1   2.9e-003   6.5e+000
#         AGATGGCG   CGCCATCT          8          0   3.7e-003   8.3e+000

letter-probability matrix: alength= 4 w= 8 nsites= 95 E= 3.1e-026
1.000000 0.000000 0.000000 0.000000
0.000000 0.000000 1.000000 0.000000
0.494737 0.000000 0.505263 0.000000
0.000000 0.000000 0.536842 0.463158
0.000000 0.000000 1.000000 0.000000
0.000000 0.000000 1.000000 0.000000
0.000000 1.000000 0.000000 0.000000
0.568421 0.000000 0.431579 0.000000


MOTIF AGGGGGWG DREME-2

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    AGGGGGWG   CWCCCCCT         16          0   1.2e-005   2.2e-002
#         AGGGGGAG   CTCCCCCT          8          0   3.7e-003   6.7e+000
#         AGGGGGTG   CACCCCCT          8          0   3.7e-003   6.7e+000

letter-probability matrix: alength= 4 w= 8 nsites= 16 E= 2.2e-002
1.000000 0.000000 0.000000 0.000000
0.000000 0.000000 1.000000 0.000000
0.000000 0.000000 1.000000 0.000000
0.000000 0.000000 1.000000 0.000000
0.000000 0.000000 1.000000 0.000000
0.000000 0.000000 1.000000 0.000000
0.500000 0.000000 0.000000 0.500000
0.000000 0.000000 1.000000 0.000000


MOTIF CCACCAGA DREME-3

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    CCACCAGA   TCTGGTGG          5          0   3.1e-002   5.4e+001

letter-probability matrix: alength= 4 w= 8 nsites= 5 E= 5.4e+001
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 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


MOTIF CAGCAGAG DREME-4

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    CAGCAGAG   CTCTGCTG          9          2   3.1e-002   5.4e+001

letter-probability matrix: alength= 4 w= 8 nsites= 9 E= 5.4e+001
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
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


MOTIF CCACCAGG DREME-5

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    CCACCAGG   CCTGGTGG          6          1   6.1e-002   1.0e+002

letter-probability matrix: alength= 4 w= 8 nsites= 6 E= 1.0e+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 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
0.000000 0.000000 1.000000 0.000000


# Stopping reason: target motif count reached
#    Running time: 0.65 seconds