# DREME 4.12.0
#     command: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--INO80/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--INO80/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--INO80/seqs-shuffled
#   positives: 457 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--INO80/seqs-centered (Sun Jan 19 04:55:31 PST 2020)
#   negatives: 457 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--INO80/seqs-shuffled (Sun Jan 19 04:55:31 PST 2020)
#        host: kali.stanford.edu
#        when: Sun Jan 19 05:04:51 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 0.306 C 0.193 G 0.193 T 0.307


MOTIF GGWTCGA DREME-1

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST     GGWTCGA    TCGAWCC         62          5   1.1e-014   3.1e-010
#          GGTTCGA    TCGAACC         51          5   1.7e-011   5.0e-007
#          GGATCGA    TCGATCC         16          0   1.3e-005   3.8e-001

letter-probability matrix: alength= 4 w= 7 nsites= 62 E= 3.1e-010
0.000000 0.000000 1.000000 0.000000
0.000000 0.000000 1.000000 0.000000
0.258065 0.000000 0.000000 0.741935
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 AAAAAKA DREME-2

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST     AAAAAKA    TMTTTTT        117         55   9.6e-008   2.7e-003
#          AAAAATA    TATTTTT         65         29   5.9e-005   1.7e+000
#          AAAAAGA    TCTTTTT         57         29   1.0e-003   3.0e+001

letter-probability matrix: alength= 4 w= 7 nsites= 132 E= 2.7e-003
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 0.462121 0.537879
1.000000 0.000000 0.000000 0.000000


MOTIF CGCSTTA DREME-3

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST     CGCSTTA    TAASGCG         31          4   1.2e-006   3.3e-002
#          CGCCTTA    TAAGGCG         24          4   7.2e-005   2.1e+000
#          CGCGTTA    TAACGCG          7          0   7.6e-003   2.2e+002

letter-probability matrix: alength= 4 w= 7 nsites= 31 E= 3.3e-002
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 0.774194 0.225806 0.000000
0.000000 0.000000 0.000000 1.000000
0.000000 0.000000 0.000000 1.000000
1.000000 0.000000 0.000000 0.000000


# Stopping reason: E-value threshold exceeded
#    Running time: 12.39 seconds