# DREME 4.12.0
#     command: dreme -v 1 -oc /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--HIR1/dreme_out -png -dna -p /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--HIR1/seqs-centered -n /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--HIR1/seqs-shuffled
#   positives: 576 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--HIR1/seqs-centered (Sun Jan 19 03:48:24 PST 2020)
#   negatives: 576 from /srv/www/kundaje/amr1/yeastvar/meme_results/results/gm_results/BY4741--HIR1/seqs-shuffled (Sun Jan 19 03:48:24 PST 2020)
#        host: kali.stanford.edu
#        when: Sun Jan 19 04:04:02 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 0.314 C 0.190 G 0.182 T 0.314


MOTIF GRTTCGA DREME-1

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST     GRTTCGA    TCGAAYC         48          4   2.8e-011   8.6e-007
#          GGTTCGA    TCGAACC         40          2   1.1e-010   3.4e-006
#          GATTCGA    TCGAATC         12          2   6.2e-003   1.9e+002

letter-probability matrix: alength= 4 w= 7 nsites= 48 E= 8.6e-007
0.000000 0.000000 1.000000 0.000000
0.208333 0.000000 0.791667 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 0.000000 1.000000 0.000000
1.000000 0.000000 0.000000 0.000000


MOTIF RAAAAARA DREME-2

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    RAAAAARA   TYTTTTTY        122         47   2.0e-010   6.4e-006
#         AAAAAAAA   TTTTTTTT         69         29   1.5e-005   4.8e-001
#         GAAAAAAA   TTTTTTTC         52         18   1.7e-005   5.3e-001
#         AAAAAAGA   TCTTTTTT         47         15   1.8e-005   5.6e-001
#         GAAAAAGA   TCTTTTTC         19          5   3.0e-003   9.5e+001

letter-probability matrix: alength= 4 w= 8 nsites= 154 E= 6.4e-006
0.629870 0.000000 0.370130 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
0.616883 0.000000 0.383117 0.000000
1.000000 0.000000 0.000000 0.000000


# Stopping reason: E-value threshold exceeded
#    Running time: 11.99 seconds