# DREME 5.4.0
#     command: dreme -oc dreme_example_output_files -png -p Klf1.fna
#   positives: 904 from Klf1.fna (Sun Feb 28 16:39:39 PST 2021)
#   negatives: 904 from shuffled positives
#        host: Timothys-Mac-Mini.local
#        when: Sat May 22 13:31:44 PDT 2021

MEME version 5.4.0

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 0.255 C 0.245 G 0.243 T 0.257


MOTIF CCMCRCCC DREME-1

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST    CCMCRCCC   GGGYGKGG        350         49   1.8e-071   7.6e-067
#         CCACACCC   GGGTGTGG        175         19   2.4e-036   1.0e-031
#         CCCCACCC   GGGTGGGG        128         25   1.5e-019   6.4e-015
#         CCACGCCC   GGGCGTGG         55          3   5.3e-014   2.3e-009
#         CCCCGCCC   GGGCGGGG         53          3   2.0e-013   8.6e-009

letter-probability matrix: alength= 4 w= 8 nsites= 454 E= 7.6e-067
0.000000 1.000000 0.000000 0.000000
0.000000 1.000000 0.000000 0.000000
0.550661 0.449339 0.000000 0.000000
0.000000 1.000000 0.000000 0.000000
0.733480 0.000000 0.266520 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


MOTIF BTTATCW DREME-2

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST     BTTATCW    WGATAAV        449        190   5.6e-038   2.4e-033
#          CTTATCT    AGATAAG        169         56   2.0e-016   8.6e-012
#          CTTATCA    TGATAAG        109         36   1.0e-010   4.3e-006
#          TTTATCT    AGATAAA        106         42   2.1e-008   9.0e-004
#          GTTATCA    TGATAAC         69         23   4.5e-007   1.9e-002
#          GTTATCT    AGATAAC         64         28   7.6e-005   3.2e+000
#          TTTATCA    TGATAAA         61         26   7.8e-005   3.3e+000

letter-probability matrix: alength= 4 w= 7 nsites= 613 E= 2.4e-033
0.000000 0.484502 0.216966 0.298532
0.000000 0.000000 0.000000 1.000000
0.000000 0.000000 0.000000 1.000000
1.000000 0.000000 0.000000 0.000000
0.000000 0.000000 0.000000 1.000000
0.000000 1.000000 0.000000 0.000000
0.415987 0.000000 0.000000 0.584013


MOTIF MCRCCCA DREME-3

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST     MCRCCCA    TGGGYGK        283        109   6.9e-024   2.9e-019
#          CCACCCA    TGGGTGG        129         48   6.2e-011   2.6e-006
#          ACACCCA    TGGGTGT        102         42   1.0e-007   4.4e-003
#          ACGCCCA    TGGGCGT         46         10   4.3e-007   1.8e-002
#          CCGCCCA    TGGGCGG         43         17   4.4e-004   1.9e+001

letter-probability matrix: alength= 4 w= 7 nsites= 340 E= 2.9e-019
0.458824 0.541176 0.000000 0.000000
0.000000 1.000000 0.000000 0.000000
0.729412 0.000000 0.270588 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
1.000000 0.000000 0.000000 0.000000


MOTIF RARGAAA DREME-4

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST     RARGAAA    TTTCYTY        398        215   4.8e-020   2.1e-015
#          AAAGAAA    TTTCTTT        149         68   2.5e-009   1.1e-004
#          AAGGAAA    TTTCCTT        130         57   9.3e-009   4.0e-004
#          GAAGAAA    TTTCTTC        122         54   3.8e-008   1.6e-003
#          GAGGAAA    TTTCCTC        110         67   4.2e-004   1.8e+001

letter-probability matrix: alength= 4 w= 7 nsites= 539 E= 2.1e-015
0.543599 0.000000 0.456401 0.000000
1.000000 0.000000 0.000000 0.000000
0.534323 0.000000 0.465677 0.000000
0.000000 0.000000 1.000000 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


MOTIF AKAAAM DREME-5

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST      AKAAAM     KTTTMT        585        415   5.3e-016   2.3e-011
#           AGAAAA     TTTTCT        302        208   5.6e-007   2.4e-002
#           ATAAAA     TTTTAT        192        117   1.7e-006   7.3e-002
#           ATAAAC     GTTTAT        128         75   5.0e-005   2.1e+000
#           AGAAAC     GTTTCT        211        145   5.8e-005   2.5e+000

letter-probability matrix: alength= 4 w= 6 nsites= 1018 E= 2.3e-011
1.000000 0.000000 0.000000 0.000000
0.000000 0.000000 0.629666 0.370334
1.000000 0.000000 0.000000 0.000000
1.000000 0.000000 0.000000 0.000000
1.000000 0.000000 0.000000 0.000000
0.617878 0.382122 0.000000 0.000000


MOTIF CTGTSTS DREME-6

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST     CTGTSTS    SASACAG        384        235   9.1e-014   3.8e-009
#          CTGTGTG    CACACAG        139         72   5.6e-007   2.3e-002
#          CTGTCTC    GAGACAG        129         73   1.8e-005   7.6e-001
#          CTGTCTG    CAGACAG        127         77   1.3e-004   5.3e+000
#          CTGTGTC    GACACAG         87         55   3.3e-003   1.4e+002

letter-probability matrix: alength= 4 w= 7 nsites= 516 E= 3.8e-009
0.000000 1.000000 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
0.000000 0.531008 0.468992 0.000000
0.000000 0.000000 0.000000 1.000000
0.000000 0.453488 0.546512 0.000000


MOTIF AGGGCGK DREME-7

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST     AGGGCGK    MCGCCCT         96         28   8.3e-011   3.5e-006
#          AGGGCGT    ACGCCCT         50         10   5.1e-008   2.1e-003
#          AGGGCGG    CCGCCCT         48         18   1.1e-004   4.6e+000

letter-probability matrix: alength= 4 w= 7 nsites= 105 E= 3.5e-006
1.000000 0.000000 0.000000 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 1.000000 0.000000 0.000000
0.000000 0.000000 1.000000 0.000000
0.000000 0.000000 0.514286 0.485714


MOTIF CCTKCCY DREME-8

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST     CCTKCCY    RGGMAGG        406        278   3.4e-010   1.4e-005
#          CCTTCCT    AGGAAGG        144         85   1.9e-005   7.9e-001
#          CCTTCCC    GGGAAGG        122         75   2.5e-004   1.0e+001
#          CCTGCCC    GGGCAGG        125         82   9.3e-004   3.9e+001
#          CCTGCCT    AGGCAGG        135         94   2.3e-003   9.5e+001

letter-probability matrix: alength= 4 w= 7 nsites= 576 E= 1.4e-005
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 0.491319 0.508681
0.000000 1.000000 0.000000 0.000000
0.000000 1.000000 0.000000 0.000000
0.000000 0.467014 0.000000 0.532986


MOTIF TTAAAAW DREME-9

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST     TTAAAAW    WTTTTAA        178         89   2.1e-009   8.5e-005
#          TTAAAAA    TTTTTAA        117         61   6.1e-006   2.5e-001
#          TTAAAAT    ATTTTAA         78         38   8.0e-005   3.3e+000

letter-probability matrix: alength= 4 w= 7 nsites= 203 E= 8.5e-005
0.000000 0.000000 0.000000 1.000000
0.000000 0.000000 0.000000 1.000000
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
0.605911 0.000000 0.000000 0.394089


MOTIF AAATAH DREME-10

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST      AAATAH     DTATTT        350        242   3.9e-008   1.6e-003
#           AAATAC     GTATTT        123         71   4.9e-005   2.0e+000
#           AAATAT     ATATTT        149        100   5.1e-004   2.1e+001
#           AAATAA     TTATTT        147        105   2.6e-003   1.1e+002

letter-probability matrix: alength= 4 w= 6 nsites= 494 E= 1.6e-003
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 0.000000 1.000000
1.000000 0.000000 0.000000 0.000000
0.354251 0.277328 0.000000 0.368421


MOTIF CATYTCC DREME-11

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST     CATYTCC    GGARATG        144         72   1.1e-007   4.3e-003
#          CATTTCC    GGAAATG         79         32   2.5e-006   1.0e-001
#          CATCTCC    GGAGATG         70         42   4.1e-003   1.7e+002

letter-probability matrix: alength= 4 w= 7 nsites= 158 E= 4.3e-003
0.000000 1.000000 0.000000 0.000000
1.000000 0.000000 0.000000 0.000000
0.000000 0.000000 0.000000 1.000000
0.000000 0.455696 0.000000 0.544304
0.000000 0.000000 0.000000 1.000000
0.000000 1.000000 0.000000 0.000000
0.000000 1.000000 0.000000 0.000000


MOTIF CAGMCAC DREME-12

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST     CAGMCAC    GTGKCTG        162         88   2.8e-007   1.2e-002
#          CAGACAC    GTGTCTG         77         33   9.3e-006   3.8e-001
#          CAGCCAC    GTGGCTG        100         60   5.9e-004   2.4e+001

letter-probability matrix: alength= 4 w= 7 nsites= 191 E= 1.2e-002
0.000000 1.000000 0.000000 0.000000
1.000000 0.000000 0.000000 0.000000
0.000000 0.000000 1.000000 0.000000
0.434555 0.565445 0.000000 0.000000
0.000000 1.000000 0.000000 0.000000
1.000000 0.000000 0.000000 0.000000
0.000000 1.000000 0.000000 0.000000


MOTIF CACAGY DREME-13

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST      CACAGY     RCTGTG        415        312   4.8e-007   2.0e-002
#           CACAGC     GCTGTG        263        184   1.0e-005   4.2e-001
#           CACAGT     ACTGTG        226        167   4.6e-004   1.9e+001

letter-probability matrix: alength= 4 w= 6 nsites= 574 E= 2.0e-002
0.000000 1.000000 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
0.000000 0.000000 1.000000 0.000000
0.000000 0.559233 0.000000 0.440767


MOTIF CTGGRGA DREME-14

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST     CTGGRGA    TCYCCAG        205        125   6.9e-007   2.8e-002
#          CTGGGGA    TCCCCAG        117         69   1.3e-004   5.2e+000
#          CTGGAGA    TCTCCAG        102         66   2.2e-003   9.1e+001

letter-probability matrix: alength= 4 w= 7 nsites= 233 E= 2.8e-002
0.000000 1.000000 0.000000 0.000000
0.000000 0.000000 0.000000 1.000000
0.000000 0.000000 1.000000 0.000000
0.000000 0.000000 1.000000 0.000000
0.463519 0.000000 0.536481 0.000000
0.000000 0.000000 1.000000 0.000000
1.000000 0.000000 0.000000 0.000000


MOTIF SACGTGA DREME-15

#             Word    RC Word        Pos        Neg    P-value    E-value
# BEST     SACGTGA    TCACGTS         43          9   7.4e-007   3.0e-002
#          CACGTGA    TCACGTG         25          6   4.0e-004   1.6e+001
#          GACGTGA    TCACGTC         18          3   7.0e-004   2.9e+001

letter-probability matrix: alength= 4 w= 7 nsites= 44 E= 3.0e-002
0.000000 0.590909 0.409091 0.000000
1.000000 0.000000 0.000000 0.000000
0.000000 1.000000 0.000000 0.000000
0.000000 0.000000 1.000000 0.000000
0.000000 0.000000 0.000000 1.000000
0.000000 0.000000 1.000000 0.000000
1.000000 0.000000 0.000000 0.000000


# Stopping reason: E-value threshold exceeded
#    Running time: 267.43 seconds
