# DREME 4.12.0
#     command: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--CIN5/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--CIN5/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--CIN5/seqs-shuffled
#   positives: 559 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--CIN5/seqs-centered (Sat Jan 18 13:21:25 PST 2020)
#   negatives: 559 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/AWRI1631--CIN5/seqs-shuffled (Sat Jan 18 13:21:25 PST 2020)
#        host: kali.stanford.edu
#        when: Sat Jan 18 13:35:31 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 0.305 C 0.197 G 0.192 T 0.305


MOTIF GGTTCRA DREME-1

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST     GGTTCRA    TYGAACC         84         11   1.7e-016   5.3e-012
#          GGTTCGA    TCGAACC         59          4   1.7e-014   5.2e-010
#          GGTTCAA    TTGAACC         26          7   5.6e-004   1.7e+001

letter-probability matrix: alength= 4 w= 7 nsites= 85 E= 5.3e-012
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
0.305882 0.000000 0.694118 0.000000
1.000000 0.000000 0.000000 0.000000


MOTIF CCWTAACC DREME-2

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    CCWTAACC   GGTTAWGG         28          0   2.6e-009   8.2e-005
#         CCTTAACC   GGTTAAGG         19          0   1.6e-006   5.1e-002
#         CCATAACC   GGTTATGG          9          0   1.9e-003   5.9e+001

letter-probability matrix: alength= 4 w= 8 nsites= 28 E= 8.2e-005
0.000000 1.000000 0.000000 0.000000
0.000000 1.000000 0.000000 0.000000
0.321429 0.000000 0.000000 0.678571
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 1.000000 0.000000 0.000000
0.000000 1.000000 0.000000 0.000000


MOTIF GSCCAA DREME-3

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST      GSCCAA     TTGGSC         74         22   1.3e-008   3.9e-004
#           GGCCAA     TTGGCC         41         11   1.2e-005   3.7e-001
#           GCCCAA     TTGGGC         37         14   6.9e-004   2.1e+001

letter-probability matrix: alength= 4 w= 6 nsites= 81 E= 3.9e-004
0.000000 0.000000 1.000000 0.000000
0.000000 0.493827 0.506173 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
1.000000 0.000000 0.000000 0.000000


MOTIF GTMCGGA DREME-4

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST     GTMCGGA    TCCGKAC         28          1   4.0e-008   1.2e-003
#          GTACGGA    TCCGTAC         15          0   2.8e-005   8.5e-001
#          GTCCGGA    TCCGGAC         13          1   8.6e-004   2.6e+001

letter-probability matrix: alength= 4 w= 7 nsites= 30 E= 1.2e-003
0.000000 0.000000 1.000000 0.000000
0.000000 0.000000 0.000000 1.000000
0.566667 0.433333 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


# Stopping reason: E-value threshold exceeded
#    Running time: 18.62 seconds