# DREME 4.12.0
#     command: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--STE12/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--STE12/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--STE12/seqs-shuffled
#   positives: 551 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--STE12/seqs-centered (Sun Jan 19 11:03:07 PST 2020)
#   negatives: 551 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--STE12/seqs-shuffled (Sun Jan 19 11:03:07 PST 2020)
#        host: kali.stanford.edu
#        when: Sun Jan 19 11:17:01 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 0.303 C 0.195 G 0.197 T 0.306


MOTIF GGTTCSA DREME-1

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST     GGTTCSA    TSGAACC         58          5   2.2e-013   6.9e-009
#          GGTTCGA    TCGAACC         48          4   2.6e-011   8.3e-007
#          GGTTCCA    TGGAACC         10          1   5.7e-003   1.8e+002

letter-probability matrix: alength= 4 w= 7 nsites= 58 E= 6.9e-009
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
0.000000 0.172414 0.827586 0.000000
1.000000 0.000000 0.000000 0.000000


MOTIF ATGTAYGG DREME-2

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    ATGTAYGG   CCRTACAT         26          0   1.1e-008   3.4e-004
#         ATGTATGG   CCATACAT         16          0   1.4e-005   4.3e-001
#         ATGTACGG   CCGTACAT         11          0   4.6e-004   1.5e+001

letter-probability matrix: alength= 4 w= 8 nsites= 31 E= 3.4e-004
1.000000 0.000000 0.000000 0.000000
0.000000 0.000000 0.000000 1.000000
0.000000 0.000000 1.000000 0.000000
0.000000 0.000000 0.000000 1.000000
1.000000 0.000000 0.000000 0.000000
0.000000 0.419355 0.000000 0.580645
0.000000 0.000000 1.000000 0.000000
0.000000 0.000000 1.000000 0.000000


MOTIF SAAGA DREME-3

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST       SAAGA      TCTTS        273        182   1.7e-008   5.3e-004
#            GAAGA      TCTTC        165         96   6.5e-007   2.0e-002
#            CAAGA      TCTTG        154        106   4.2e-004   1.3e+001

letter-probability matrix: alength= 4 w= 5 nsites= 368 E= 5.3e-004
0.000000 0.480978 0.519022 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


MOTIF CGCCTTA DREME-4

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST     CGCCTTA    TAAGGCG         29          1   2.0e-008   6.1e-004
#          CGCCTTA    TAAGGCG         29          1   2.0e-008   6.1e-004

letter-probability matrix: alength= 4 w= 7 nsites= 29 E= 6.1e-004
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 0.000000 1.000000
0.000000 0.000000 0.000000 1.000000
1.000000 0.000000 0.000000 0.000000


MOTIF AAAAWAAT DREME-5

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    AAAAWAAT   ATTWTTTT         62         20   7.9e-007   2.4e-002
#         AAAAAAAT   ATTTTTTT         47         18   1.4e-004   4.2e+000
#         AAAATAAT   ATTATTTT         17          3   1.2e-003   3.5e+001

letter-probability matrix: alength= 4 w= 8 nsites= 68 E= 2.4e-002
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
0.720588 0.000000 0.000000 0.279412
1.000000 0.000000 0.000000 0.000000
1.000000 0.000000 0.000000 0.000000
0.000000 0.000000 0.000000 1.000000


# Stopping reason: E-value threshold exceeded
#    Running time: 21.74 seconds