# DREME 5.3.3
#     command: dreme -oc ../result/final_prediction/GM12878/inference_raw/DREME/RankLinear1.0_10_HCFC1/ -k 8 -m 5 -e 1000 -verbosity 1 -p ../result/final_prediction/GM12878/fasta/RankLinear1.0_10/HCFC1.fasta
#   positives: 250 from ../result/final_prediction/GM12878/fasta/RankLinear1.0_10/HCFC1.fasta (Sat Feb 12 17:36:27 EST 2022)
#   negatives: 250 from shuffled positives
#        host: c17n09.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 0.180 C 0.324 G 0.329 T 0.167


MOTIF GRACTACA DREME-1

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    GRACTACA   TGTAGTYC         27          1   5.4e-008   1.4e-004
#         GGACTACA   TGTAGTCC         13          0   1.0e-004   2.7e-001
#         GAACTACA   TGTAGTTC         14          1   4.2e-004   1.1e+000

letter-probability matrix: alength= 4 w= 8 nsites= 27 E= 1.4e-004
0.000000 0.000000 1.000000 0.000000
0.518519 0.000000 0.481481 0.000000
1.000000 0.000000 0.000000 0.000000
0.000000 1.000000 0.000000 0.000000
0.000000 0.000000 0.000000 1.000000
1.000000 0.000000 0.000000 0.000000
0.000000 1.000000 0.000000 0.000000
1.000000 0.000000 0.000000 0.000000


MOTIF CGCGGCGC DREME-2

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    CGCGGCGC   GCGCCGCG          6          0   1.5e-002   3.7e+001

letter-probability matrix: alength= 4 w= 8 nsites= 6 E= 3.7e+001
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 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 1.000000 0.000000 0.000000


MOTIF TCCCAGCA DREME-3

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    TCCCAGCA   TGCTGGGA          8          1   1.9e-002   4.5e+001

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


MOTIF AAACTACA DREME-4

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    AAACTACA   TGTAGTTT          5          0   3.1e-002   7.3e+001

letter-probability matrix: alength= 4 w= 8 nsites= 5 E= 7.3e+001
1.000000 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 0.000000 1.000000
1.000000 0.000000 0.000000 0.000000
0.000000 1.000000 0.000000 0.000000
1.000000 0.000000 0.000000 0.000000


MOTIF AGGGCGGC DREME-5

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    AGGGCGGC   GCCGCCCT          5          0   3.1e-002   7.2e+001

letter-probability matrix: alength= 4 w= 8 nsites= 5 E= 7.2e+001
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 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


# Stopping reason: target motif count reached
#    Running time: 0.67 seconds