# DREME 4.12.0
#     command: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--MOT1/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--MOT1/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--MOT1/seqs-shuffled
#   positives: 727 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--MOT1/seqs-centered (Sat Jan 18 08:09:57 PST 2020)
#   negatives: 727 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--MOT1/seqs-shuffled (Sat Jan 18 08:09:57 PST 2020)
#        host: kali.stanford.edu
#        when: Sat Jan 18 08:26:38 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 0.298 C 0.201 G 0.205 T 0.295


MOTIF GGTTCRA DREME-1

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST     GGTTCRA    TYGAACC         93         15   3.4e-016   1.2e-011
#          GGTTCGA    TCGAACC         53          6   4.0e-011   1.4e-006
#          GGTTCAA    TTGAACC         42          9   1.2e-006   4.0e-002

letter-probability matrix: alength= 4 w= 7 nsites= 96 E= 1.2e-011
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 0.000000 1.000000
0.000000 1.000000 0.000000 0.000000
0.447917 0.000000 0.552083 0.000000
1.000000 0.000000 0.000000 0.000000


MOTIF TGGYA DREME-2

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST       TGGYA      TRCCA        286        165   4.1e-012   1.4e-007
#            TGGTA      TACCA        172         90   1.3e-008   4.6e-004
#            TGGCA      TGCCA        147         87   1.2e-005   4.1e-001

letter-probability matrix: alength= 4 w= 5 nsites= 363 E= 1.4e-007
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 0.446281 0.000000 0.553719
1.000000 0.000000 0.000000 0.000000


MOTIF AAAAAAAT DREME-3

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    AAAAAAAT   ATTTTTTT         79         18   3.5e-011   1.2e-006
#         AAAAAAAT   ATTTTTTT         79         18   3.5e-011   1.2e-006

letter-probability matrix: alength= 4 w= 8 nsites= 84 E= 1.2e-006
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
1.000000 0.000000 0.000000 0.000000
1.000000 0.000000 0.000000 0.000000
0.000000 0.000000 0.000000 1.000000


MOTIF GAAGAARA DREME-4

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    GAAGAARA   TYTTCTTC         38          7   1.1e-006   3.8e-002
#         GAAGAAAA   TTTTCTTC         25          6   3.9e-004   1.3e+001
#         GAAGAAGA   TCTTCTTC         13          1   8.7e-004   2.9e+001

letter-probability matrix: alength= 4 w= 8 nsites= 39 E= 3.8e-002
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
1.000000 0.000000 0.000000 0.000000
1.000000 0.000000 0.000000 0.000000
0.666667 0.000000 0.333333 0.000000
1.000000 0.000000 0.000000 0.000000


# Stopping reason: E-value threshold exceeded
#    Running time: 23.57 seconds