# DREME 4.12.0
#     command: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MSS11/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MSS11/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MSS11/seqs-shuffled
#   positives: 709 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MSS11/seqs-centered (Sat Jan 18 07:38:27 PST 2020)
#   negatives: 709 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/RM11-1A--MSS11/seqs-shuffled (Sat Jan 18 07:38:27 PST 2020)
#        host: kali.stanford.edu
#        when: Sat Jan 18 07:54:57 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 0.300 C 0.199 G 0.200 T 0.301


MOTIF GGWTCGA DREME-1

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST     GGWTCGA    TCGAWCC         89          9   5.0e-019   1.7e-014
#          GGTTCGA    TCGAACC         71          5   5.3e-017   1.8e-012
#          GGATCGA    TCGATCC         23          4   1.4e-004   4.7e+000

letter-probability matrix: alength= 4 w= 7 nsites= 89 E= 1.7e-014
0.000000 0.000000 1.000000 0.000000
0.000000 0.000000 1.000000 0.000000
0.235955 0.000000 0.000000 0.764045
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 AAAAAWAW DREME-2

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    AAAAAWAW   WTWTTTTT        146         67   2.4e-009   8.2e-005
#         AAAAAAAT   ATTTTTTT         80         28   1.0e-007   3.4e-003
#         AAAAAAAA   TTTTTTTT         58         27   3.5e-004   1.2e+001
#         AAAAATAA   TTATTTTT         52         25   1.1e-003   3.6e+001
#         AAAAATAT   ATATTTTT         22          6   1.7e-003   5.8e+001

letter-probability matrix: alength= 4 w= 8 nsites= 169 E= 8.2e-005
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
0.621302 0.000000 0.000000 0.378698
1.000000 0.000000 0.000000 0.000000
0.550296 0.000000 0.000000 0.449704


MOTIF AGTGGTH DREME-3

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST     AGTGGTH    DACCACT         67         17   6.9e-009   2.4e-004
#          AGTGGTT    AACCACT         36          7   3.3e-006   1.1e-001
#          AGTGGTA    TACCACT         29         10   1.5e-003   5.1e+001
#          AGTGGTC    GACCACT         10          1   5.7e-003   1.9e+002

letter-probability matrix: alength= 4 w= 7 nsites= 76 E= 2.4e-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
0.381579 0.131579 0.000000 0.486842


MOTIF SCCAGA DREME-4

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST      SCCAGA     TCTGGS         75         26   2.2e-007   7.6e-003
#           GCCAGA     TCTGGC         48         13   2.5e-006   8.3e-002
#           CCCAGA     TCTGGG         29         13   8.9e-003   3.0e+002

letter-probability matrix: alength= 4 w= 6 nsites= 78 E= 7.6e-003
0.000000 0.384615 0.615385 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
0.000000 0.000000 1.000000 0.000000
1.000000 0.000000 0.000000 0.000000


# Stopping reason: E-value threshold exceeded
#    Running time: 23.41 seconds