# DREME 5.3.3
#     command: dreme -oc ../result/final_prediction/GM12878/inference_raw/DREME/RankLinear1.0_10_USF2/ -k 8 -m 5 -e 1000 -verbosity 1 -p ../result/final_prediction/GM12878/fasta/RankLinear1.0_10/USF2.fasta
#   positives: 250 from ../result/final_prediction/GM12878/fasta/RankLinear1.0_10/USF2.fasta (Sat Feb 12 17:37:40 EST 2022)
#   negatives: 250 from shuffled positives
#        host: c23n03.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 0.178 C 0.324 G 0.316 T 0.181


MOTIF CACGTGRY DREME-1

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    CACGTGRY   RYCACGTG         70          2   2.7e-021   6.6e-018
#         CACGTGAC   GTCACGTG         47          0   6.5e-016   1.6e-012
#         CACGTGGC   GCCACGTG         15          1   2.1e-004   5.3e-001
#         CACGTGAT   ATCACGTG         13          1   8.0e-004   2.0e+000
#         CACGTGGT   ACCACGTG          9          0   1.8e-003   4.5e+000

letter-probability matrix: alength= 4 w= 8 nsites= 70 E= 6.6e-018
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
0.757143 0.000000 0.242857 0.000000
0.000000 0.757143 0.000000 0.242857


MOTIF CATGTGAC DREME-2

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    CATGTGAC   GTCACATG         10          1   5.4e-003   1.2e+001
#         CATGTGAC   GTCACATG         10          1   5.4e-003   1.2e+001

letter-probability matrix: alength= 4 w= 8 nsites= 10 E= 1.2e+001
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 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 1.000000 0.000000 0.000000


MOTIF CCCAGGCC DREME-3

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    CCCAGGCC   GGCCTGGG          5          0   3.1e-002   6.5e+001

letter-probability matrix: alength= 4 w= 8 nsites= 5 E= 6.5e+001
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 0.000000 1.000000 0.000000
0.000000 1.000000 0.000000 0.000000
0.000000 1.000000 0.000000 0.000000


MOTIF CGTGACCC DREME-4

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    CGTGACCC   GGGTCACG          5          0   3.1e-002   6.4e+001

letter-probability matrix: alength= 4 w= 8 nsites= 5 E= 6.4e+001
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 1.000000 0.000000 0.000000
0.000000 1.000000 0.000000 0.000000
0.000000 1.000000 0.000000 0.000000


MOTIF CGGGGCTC DREME-5

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    CGGGGCTC   GAGCCCCG          4          0   6.2e-002   1.3e+002

letter-probability matrix: alength= 4 w= 8 nsites= 4 E= 1.3e+002
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 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


# Stopping reason: target motif count reached
#    Running time: 0.64 seconds