# DREME 4.12.0
#     command: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--NOT3/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--NOT3/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--NOT3/seqs-shuffled
#   positives: 447 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--NOT3/seqs-centered (Sat Jan 18 15:02:00 PST 2020)
#   negatives: 447 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--NOT3/seqs-shuffled (Sat Jan 18 15:02:00 PST 2020)
#        host: kali.stanford.edu
#        when: Sat Jan 18 15:11:09 PST 2020

MEME version 4.12.0

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 0.312 C 0.191 G 0.189 T 0.308


MOTIF GGWTCGA DREME-1

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST     GGWTCGA    TCGAWCC         53          5   4.5e-012   1.3e-007
#          GGTTCGA    TCGAACC         41          3   3.5e-010   1.0e-005
#          GGATCGA    TCGATCC         14          2   1.9e-003   5.5e+001

letter-probability matrix: alength= 4 w= 7 nsites= 53 E= 1.3e-007
0.000000 0.000000 1.000000 0.000000
0.000000 0.000000 1.000000 0.000000
0.245283 0.000000 0.000000 0.754717
0.000000 0.000000 0.000000 1.000000
0.000000 1.000000 0.000000 0.000000
0.000000 0.000000 1.000000 0.000000
1.000000 0.000000 0.000000 0.000000


MOTIF AAAAARAA DREME-2

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    AAAAARAA   TTYTTTTT         63         22   1.7e-006   5.0e-002
#         AAAAAGAA   TTCTTTTT         33          7   1.4e-005   4.1e-001
#         AAAAAAAA   TTTTTTTT         36         16   3.1e-003   8.7e+001

letter-probability matrix: alength= 4 w= 8 nsites= 71 E= 5.0e-002
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
0.549296 0.000000 0.450704 0.000000
1.000000 0.000000 0.000000 0.000000
1.000000 0.000000 0.000000 0.000000


# Stopping reason: E-value threshold exceeded
#    Running time: 9.29 seconds