# DREME 4.12.0
#     command: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/seqs-shuffled
#   positives: 487 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/seqs-centered (Sun Jan 19 10:23:11 PST 2020)
#   negatives: 487 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/YJM789--YKL222C/seqs-shuffled (Sun Jan 19 10:23:11 PST 2020)
#        host: kali.stanford.edu
#        when: Sun Jan 19 10:33:37 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 0.200 G 0.201 T 0.301


MOTIF GGTTCRA DREME-1

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST     GGTTCRA    TYGAACC         94         12   6.7e-019   2.0e-014
#          GGTTCGA    TCGAACC         67          6   2.6e-015   7.6e-011
#          GGTTCAA    TTGAACC         28          6   7.6e-005   2.2e+000

letter-probability matrix: alength= 4 w= 7 nsites= 95 E= 2.0e-014
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
0.294737 0.000000 0.705263 0.000000
1.000000 0.000000 0.000000 0.000000


MOTIF AAAAAAAK DREME-2

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    AAAAAAAK   MTTTTTTT         78         20   2.1e-010   6.2e-006
#         AAAAAAAT   ATTTTTTT         56         14   8.2e-008   2.4e-003
#         AAAAAAAG   CTTTTTTT         25          6   3.6e-004   1.1e+001

letter-probability matrix: alength= 4 w= 8 nsites= 85 E= 6.2e-006
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
1.000000 0.000000 0.000000 0.000000
1.000000 0.000000 0.000000 0.000000
0.000000 0.000000 0.305882 0.694118


MOTIF AGTGGTW DREME-3

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST     AGTGGTW    WACCACT         57         11   2.0e-009   5.8e-005
#          AGTGGTT    AACCACT         40          6   8.4e-008   2.4e-003
#          AGTGGTA    TACCACT         26          5   7.7e-005   2.2e+000

letter-probability matrix: alength= 4 w= 7 nsites= 69 E= 5.8e-005
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
0.391304 0.000000 0.000000 0.608696


MOTIF GCCAKA DREME-4

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST      GCCAKA     TMTGGC         59         13   6.0e-009   1.7e-004
#           GCCAGA     TCTGGC         29          3   9.0e-007   2.6e-002
#           GCCATA     TATGGC         30         10   9.0e-004   2.6e+001

letter-probability matrix: alength= 4 w= 6 nsites= 60 E= 1.7e-004
0.000000 0.000000 1.000000 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 0.483333 0.516667
1.000000 0.000000 0.000000 0.000000


# Stopping reason: E-value threshold exceeded
#    Running time: 16.69 seconds