# DREME 4.12.0
#     command: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--NRG1/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--NRG1/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--NRG1/seqs-shuffled
#   positives: 698 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--NRG1/seqs-centered (Sat Jan 18 00:49:28 PST 2020)
#   negatives: 698 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--NRG1/seqs-shuffled (Sat Jan 18 00:49:28 PST 2020)
#        host: kali.stanford.edu
#        when: Sat Jan 18 01:05:54 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 0.297 C 0.204 G 0.204 T 0.295


MOTIF RGTTCGA DREME-1

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST     RGTTCGA    TCGAACY         89          7   1.3e-020   4.4e-016
#          GGTTCGA    TCGAACC         74          4   7.9e-019   2.8e-014
#          AGTTCGA    TCGAACT         24          4   7.8e-005   2.7e+000

letter-probability matrix: alength= 4 w= 7 nsites= 89 E= 4.4e-016
0.224719 0.000000 0.775281 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
0.000000 0.000000 1.000000 0.000000
1.000000 0.000000 0.000000 0.000000


MOTIF AAAAADAA DREME-2

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    AAAAADAA   TTHTTTTT        134         51   2.5e-011   8.7e-007
#         AAAAAGAA   TTCTTTTT         46         10   3.9e-007   1.3e-002
#         AAAAAAAA   TTTTTTTT         61         26   7.0e-005   2.4e+000
#         AAAAATAA   TTATTTTT         45         20   1.0e-003   3.6e+001

letter-probability matrix: alength= 4 w= 8 nsites= 155 E= 8.7e-007
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
0.432258 0.000000 0.283871 0.283871
1.000000 0.000000 0.000000 0.000000
1.000000 0.000000 0.000000 0.000000


MOTIF AGTGGTW DREME-3

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST     AGTGGTW    WACCACT         67         13   1.1e-010   3.7e-006
#          AGTGGTT    AACCACT         43          9   6.7e-007   2.3e-002
#          AGTGGTA    TACCACT         29          4   4.4e-006   1.5e-001

letter-probability matrix: alength= 4 w= 7 nsites= 76 E= 3.7e-006
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 0.000000 0.000000 1.000000
0.394737 0.000000 0.000000 0.605263


MOTIF ACGGTGM DREME-4

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST     ACGGTGM    KCACCGT         30          2   9.3e-008   3.2e-003
#          ACGGTGA    TCACCGT         17          1   6.6e-005   2.3e+000
#          ACGGTGC    GCACCGT         13          1   8.7e-004   3.0e+001

letter-probability matrix: alength= 4 w= 7 nsites= 30 E= 3.2e-003
1.000000 0.000000 0.000000 0.000000
0.000000 1.000000 0.000000 0.000000
0.000000 0.000000 1.000000 0.000000
0.000000 0.000000 1.000000 0.000000
0.000000 0.000000 0.000000 1.000000
0.000000 0.000000 1.000000 0.000000
0.566667 0.433333 0.000000 0.000000


# Stopping reason: E-value threshold exceeded
#    Running time: 22.99 seconds