# DREME 5.3.3
#     command: dreme -oc ../result/final_prediction/GM12878/inference_raw/DREME/RankLinear1.0_10_RFX5/ -k 8 -m 5 -e 1000 -verbosity 1 -p ../result/final_prediction/GM12878/fasta/RankLinear1.0_10/RFX5.fasta
#   positives: 250 from ../result/final_prediction/GM12878/fasta/RankLinear1.0_10/RFX5.fasta (Sat Feb 12 17:37:22 EST 2022)
#   negatives: 250 from shuffled positives
#        host: c22n09.farnam.hpc.yale.internal
#        when: Sat Feb 12 18:29:50 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 0.257 C 0.252 G 0.241 T 0.250


MOTIF ACWGATGA DREME-1

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    ACWGATGA   TCATCWGT         21          0   3.1e-007   7.9e-004
#         ACAGATGA   TCATCTGT         14          0   5.1e-005   1.3e-001
#         ACTGATGA   TCATCAGT          7          0   7.5e-003   1.9e+001

letter-probability matrix: alength= 4 w= 8 nsites= 21 E= 7.9e-004
1.000000 0.000000 0.000000 0.000000
0.000000 1.000000 0.000000 0.000000
0.666667 0.000000 0.000000 0.333333
0.000000 0.000000 1.000000 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
1.000000 0.000000 0.000000 0.000000


MOTIF TAGCAACW DREME-2

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    TAGCAACW   WGTTGCTA         18          0   2.8e-006   6.9e-003
#         TAGCAACA   TGTTGCTA         10          0   8.9e-004   2.2e+000
#         TAGCAACT   AGTTGCTA          8          0   3.7e-003   9.1e+000

letter-probability matrix: alength= 4 w= 8 nsites= 18 E= 6.9e-003
0.000000 0.000000 0.000000 1.000000
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
1.000000 0.000000 0.000000 0.000000
0.000000 1.000000 0.000000 0.000000
0.555556 0.000000 0.000000 0.444444


MOTIF CAGGTGAC DREME-3

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    CAGGTGAC   GTCACCTG          7          0   7.5e-003   1.8e+001
#         CAGGTGAC   GTCACCTG          7          0   7.5e-003   1.8e+001

letter-probability matrix: alength= 4 w= 8 nsites= 7 E= 1.8e+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 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 CCCAGCAA DREME-4

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    CCCAGCAA   TTGCTGGG          7          0   7.5e-003   1.8e+001
#         CCCAGCAA   TTGCTGGG          7          0   7.5e-003   1.8e+001

letter-probability matrix: alength= 4 w= 8 nsites= 7 E= 1.8e+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 1.000000 0.000000 0.000000
1.000000 0.000000 0.000000 0.000000
1.000000 0.000000 0.000000 0.000000


MOTIF TGACATCA DREME-5

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    TGACATCA   TGATGTCA          7          0   7.5e-003   1.7e+001
#         TGACATCA   TGATGTCA          7          0   7.5e-003   1.7e+001

letter-probability matrix: alength= 4 w= 8 nsites= 7 E= 1.7e+001
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
1.000000 0.000000 0.000000 0.000000
0.000000 0.000000 0.000000 1.000000
0.000000 1.000000 0.000000 0.000000
1.000000 0.000000 0.000000 0.000000


# Stopping reason: target motif count reached
#    Running time: 0.66 seconds