# DREME 4.12.0
#     command: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SWR1/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SWR1/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SWR1/seqs-shuffled
#   positives: 412 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SWR1/seqs-centered (Sat Jan 18 16:43:18 PST 2020)
#   negatives: 412 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--SWR1/seqs-shuffled (Sat Jan 18 16:43:19 PST 2020)
#        host: kali.stanford.edu
#        when: Sat Jan 18 16:50:52 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 0.309 C 0.192 G 0.191 T 0.308


MOTIF GGWTCGA DREME-1

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST     GGWTCGA    TCGAWCC         66          5   5.2e-016   1.4e-011
#          GGTTCGA    TCGAACC         53          2   8.1e-015   2.2e-010
#          GGATCGA    TCGATCC         18          4   1.9e-003   5.2e+001

letter-probability matrix: alength= 4 w= 7 nsites= 66 E= 1.4e-011
0.000000 0.000000 1.000000 0.000000
0.000000 0.000000 1.000000 0.000000
0.242424 0.000000 0.000000 0.757576
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 CTTAAYCA DREME-2

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    CTTAAYCA   TGRTTAAG         28          0   2.3e-009   6.2e-005
#         CTTAACCA   TGGTTAAG         20          0   7.5e-007   2.0e-002
#         CTTAATCA   TGATTAAG          8          0   3.8e-003   1.0e+002

letter-probability matrix: alength= 4 w= 8 nsites= 28 E= 6.2e-005
0.000000 1.000000 0.000000 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
1.000000 0.000000 0.000000 0.000000
0.000000 0.714286 0.000000 0.285714
0.000000 1.000000 0.000000 0.000000
1.000000 0.000000 0.000000 0.000000


MOTIF AAAAAWA DREME-3

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST     AAAAAWA    TWTTTTT        126         62   6.9e-008   1.8e-003
#          AAAAAAA    TTTTTTT         93         43   1.7e-006   4.6e-002
#          AAAAATA    TATTTTT         59         28   3.0e-004   8.0e+000

letter-probability matrix: alength= 4 w= 7 nsites= 156 E= 1.8e-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
0.634615 0.000000 0.000000 0.365385
1.000000 0.000000 0.000000 0.000000


MOTIF GAAGAK DREME-4

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST      GAAGAK     MTCTTC         82         33   5.1e-007   1.3e-002
#           GAAGAT     ATCTTC         48         17   4.0e-005   1.1e+000
#           GAAGAG     CTCTTC         36         18   8.0e-003   2.1e+002

letter-probability matrix: alength= 4 w= 6 nsites= 93 E= 1.3e-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
0.000000 0.000000 0.397849 0.602151


MOTIF TCGSCCA DREME-5

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST     TCGSCCA    TGGSCGA         27          2   5.6e-007   1.4e-002
#          TCGGCCA    TGGCCGA         16          1   1.2e-004   3.1e+000
#          TCGCCCA    TGGGCGA         11          1   3.0e-003   7.8e+001

letter-probability matrix: alength= 4 w= 7 nsites= 27 E= 1.4e-002
0.000000 0.000000 0.000000 1.000000
0.000000 1.000000 0.000000 0.000000
0.000000 0.000000 1.000000 0.000000
0.000000 0.407407 0.592593 0.000000
0.000000 1.000000 0.000000 0.000000
0.000000 1.000000 0.000000 0.000000
1.000000 0.000000 0.000000 0.000000


# Stopping reason: E-value threshold exceeded
#    Running time: 17.16 seconds