# DREME 5.3.3
#     command: dreme -oc ../result/final_prediction/GM12878/inference_raw/DREME/RankLinear1.0_10_USF1/ -k 8 -m 5 -e 1000 -verbosity 1 -p ../result/final_prediction/GM12878/fasta/RankLinear1.0_10/USF1.fasta
#   positives: 250 from ../result/final_prediction/GM12878/fasta/RankLinear1.0_10/USF1.fasta (Sat Feb 12 17:37:40 EST 2022)
#   negatives: 250 from shuffled positives
#        host: c23n01.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 0.148 C 0.357 G 0.350 T 0.145


MOTIF CACGTGAY DREME-1

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    CACGTGAY   RTCACGTG         58          0   8.2e-020   1.9e-016
#         CACGTGAC   GTCACGTG         52          0   1.1e-017   2.7e-014
#         CACGTGAT   ATCACGTG          9          0   1.8e-003   4.2e+000

letter-probability matrix: alength= 4 w= 8 nsites= 58 E= 1.9e-016
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 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 0.879310 0.000000 0.120690


MOTIF GCCCCGCC DREME-2

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    GCCCCGCC   GGCGGGGC         11          1   2.9e-003   6.0e+000
#         GCCCCGCC   GGCGGGGC         11          1   2.9e-003   6.0e+000

letter-probability matrix: alength= 4 w= 8 nsites= 11 E= 6.0e+000
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
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


MOTIF CACGTGGG DREME-3

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    CACGTGGG   CCCACGTG          6          0   1.5e-002   3.1e+001

letter-probability matrix: alength= 4 w= 8 nsites= 6 E= 3.1e+001
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 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


MOTIF CCATTGGC DREME-4

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    CCATTGGC   GCCAATGG          5          0   3.1e-002   6.2e+001

letter-probability matrix: alength= 4 w= 8 nsites= 5 E= 6.2e+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 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 1.000000 0.000000
0.000000 1.000000 0.000000 0.000000


MOTIF CCGCCCGC DREME-5

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    CCGCCCGC   GCGGGCGG          5          0   3.1e-002   6.1e+001

letter-probability matrix: alength= 4 w= 8 nsites= 5 E= 6.1e+001
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 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 1.000000 0.000000 0.000000


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