# DREME 5.3.3
#     command: dreme -oc ../result/final_prediction/GM12878/inference_raw/DREME/RankLinear1.0_10_YBX1/ -k 8 -m 5 -e 1000 -verbosity 1 -p ../result/final_prediction/GM12878/fasta/RankLinear1.0_10/YBX1.fasta
#   positives: 250 from ../result/final_prediction/GM12878/fasta/RankLinear1.0_10/YBX1.fasta (Sat Feb 12 17:37:42 EST 2022)
#   negatives: 250 from shuffled positives
#        host: c22n10.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 0.265 C 0.253 G 0.205 T 0.278


MOTIF GGAAGGAA DREME-1

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    GGAAGGAA   TTCCTTCC         19          2   8.3e-005   1.7e-001
#         GGAAGGAA   TTCCTTCC         19          2   8.3e-005   1.7e-001

letter-probability matrix: alength= 4 w= 8 nsites= 24 E= 1.7e-001
0.000000 0.000000 1.000000 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
0.000000 0.000000 1.000000 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


MOTIF GGGAGGGA DREME-2

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    GGGAGGGA   TCCCTCCC         11          2   1.0e-002   2.1e+001

letter-probability matrix: alength= 4 w= 8 nsites= 11 E= 2.1e+001
0.000000 0.000000 1.000000 0.000000
0.000000 0.000000 1.000000 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 1.000000 0.000000
0.000000 0.000000 1.000000 0.000000
1.000000 0.000000 0.000000 0.000000


MOTIF AAAAAGAA DREME-3

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    AAAAAGAA   TTCTTTTT         11          3   2.7e-002   5.4e+001

letter-probability matrix: alength= 4 w= 8 nsites= 11 E= 5.4e+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
1.000000 0.000000 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 0.000000
1.000000 0.000000 0.000000 0.000000


MOTIF CAGCCTGG DREME-4

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    CAGCCTGG   CCAGGCTG          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
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 1.000000 0.000000


MOTIF GAGAAAGA DREME-5

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    GAGAAAGA   TCTTTCTC         12          4   3.6e-002   7.0e+001

letter-probability matrix: alength= 4 w= 8 nsites= 12 E= 7.0e+001
0.000000 0.000000 1.000000 0.000000
1.000000 0.000000 0.000000 0.000000
0.000000 0.000000 1.000000 0.000000
1.000000 0.000000 0.000000 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
1.000000 0.000000 0.000000 0.000000


# Stopping reason: target motif count reached
#    Running time: 0.61 seconds