# DREME 5.3.3
#     command: dreme -oc ../result/final_prediction/GM12878/inference_raw/DREME/RankLinear1.0_10_PBX3/ -k 8 -m 5 -e 1000 -verbosity 1 -p ../result/final_prediction/GM12878/fasta/RankLinear1.0_10/PBX3.fasta
#   positives: 250 from ../result/final_prediction/GM12878/fasta/RankLinear1.0_10/PBX3.fasta (Sat Feb 12 17:37:12 EST 2022)
#   negatives: 250 from shuffled positives
#        host: c22n10.farnam.hpc.yale.internal
#        when: Sat Feb 12 18:28:55 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 0.197 C 0.304 G 0.297 T 0.202


MOTIF GTCAMTCA DREME-1

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    GTCAMTCA   TGAKTGAC         31          1   3.0e-009   7.9e-006
#         GTCAATCA   TGATTGAC         14          0   5.1e-005   1.3e-001
#         GTCACTCA   TGAGTGAC         17          1   5.6e-005   1.5e-001

letter-probability matrix: alength= 4 w= 8 nsites= 31 E= 7.9e-006
0.000000 0.000000 1.000000 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
0.451613 0.548387 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


MOTIF ACTGACAG DREME-2

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

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


MOTIF AGAGTGGC DREME-3

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    AGAGTGGC   GCCACTCT          5          0   3.1e-002   7.4e+001

letter-probability matrix: alength= 4 w= 8 nsites= 5 E= 7.4e+001
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
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 AGCCTGTC DREME-4

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    AGCCTGTC   GACAGGCT          5          0   3.1e-002   7.4e+001

letter-probability matrix: alength= 4 w= 8 nsites= 5 E= 7.4e+001
1.000000 0.000000 0.000000 0.000000
0.000000 0.000000 1.000000 0.000000
0.000000 1.000000 0.000000 0.000000
0.000000 1.000000 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 1.000000 0.000000 0.000000


MOTIF CCAATCAG DREME-5

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

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


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