# DREME 4.12.0
#     command: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--HSF1/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--HSF1/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--HSF1/seqs-shuffled
#   positives: 544 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--HSF1/seqs-centered (Sat Jan 18 01:36:52 PST 2020)
#   negatives: 544 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--HSF1/seqs-shuffled (Sat Jan 18 01:36:52 PST 2020)
#        host: kali.stanford.edu
#        when: Sat Jan 18 01:50:21 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 0.199 G 0.206 T 0.297


MOTIF RGTTCGA DREME-1

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST     RGTTCGA    TCGAACY         76          4   1.1e-019   3.4e-015
#          GGTTCGA    TCGAACC         57          2   7.2e-016   2.3e-011
#          AGTTCGA    TCGAACT         24          2   4.2e-006   1.3e-001

letter-probability matrix: alength= 4 w= 7 nsites= 76 E= 3.4e-015
0.289474 0.000000 0.710526 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 AARAARA DREME-2

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST     AARAARA    TYTTYTT        195         96   6.8e-012   2.1e-007
#          AAAAAAA    TTTTTTT        112         47   1.4e-008   4.2e-004
#          AAGAAAA    TTTTCTT         73         35   7.7e-005   2.4e+000
#          AAAAAGA    TCTTTTT         56         28   1.0e-003   3.1e+001
#          AAGAAGA    TCTTCTT         29         12   5.0e-003   1.6e+002

letter-probability matrix: alength= 4 w= 7 nsites= 257 E= 2.1e-007
1.000000 0.000000 0.000000 0.000000
1.000000 0.000000 0.000000 0.000000
0.622568 0.000000 0.377432 0.000000
1.000000 0.000000 0.000000 0.000000
1.000000 0.000000 0.000000 0.000000
0.708171 0.000000 0.291829 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         56         11   4.0e-009   1.2e-004
#          AGTGGTT    AACCACT         35          5   4.5e-007   1.4e-002
#          AGTGGTA    TACCACT         27          6   1.3e-004   4.1e+000

letter-probability matrix: alength= 4 w= 7 nsites= 63 E= 1.2e-004
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
0.428571 0.000000 0.000000 0.571429


MOTIF AACCRACT DREME-4

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    AACCRACT   AGTYGGTT         27          2   6.1e-007   1.9e-002
#         AACCAACT   AGTTGGTT         17          2   3.3e-004   1.0e+001
#         AACCGACT   AGTCGGTT         10          0   9.4e-004   2.9e+001

letter-probability matrix: alength= 4 w= 8 nsites= 27 E= 1.9e-002
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 0.000000
0.629630 0.000000 0.370370 0.000000
1.000000 0.000000 0.000000 0.000000
0.000000 1.000000 0.000000 0.000000
0.000000 0.000000 0.000000 1.000000


# Stopping reason: E-value threshold exceeded
#    Running time: 17.90 seconds