# DREME 5.3.3 # command: dreme -oc ./motif -p ./fasta/posSeq.fa -k 6 -rna # positives: 2210 from ./fasta/posSeq.fa (Sat Jun 12 20:51:54 CST 2021) # negatives: 2210 from shuffled positives # host: ubuntu-Super-Server # when: Sun Jun 13 19:55:48 CST 2021 MEME version 5.3.3 ALPHABET "RNA" RNA-LIKE A "Adenine" CC0000 C "Cytosine" 0000CC G "Guanine" FFB300 U "Uracil" 008000 N "Any base" = ACGU X = ACGU . = ACGU V "Not U" = ACG H "Not G" = ACU D "Not C" = AGU B "Not A" = CGU M "Amino" = AC R "Purine" = AG W "Weak" = AU S "Strong" = CG Y "Pyrimidine" = CU K "Keto" = GU T = U END ALPHABET Background letter frequencies (from dataset): A 0.312 C 0.137 G 0.155 U 0.396 MOTIF AAUAHA DREME-1 # Word Pos Neg P-value E-value # BEST AAUAHA 546 287 8.4e-024 3.5e-020 # AAUAAA 340 166 8.2e-017 3.4e-013 # AAUAUA 157 92 1.4e-005 5.6e-002 # AAUACA 79 41 2.8e-004 1.2e+000 letter-probability matrix: alength= 4 w= 6 nsites= 595 E= 3.5e-020 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 0.606723 0.131092 0.000000 0.262185 1.000000 0.000000 0.000000 0.000000 MOTIF UUUGBU DREME-2 # Word Pos Neg P-value E-value # BEST UUUGBU 604 392 1.3e-014 5.2e-011 # UUUGGU 185 97 3.4e-008 1.4e-004 # UUUGUU 347 254 2.6e-005 1.1e-001 # UUUGCU 112 65 1.9e-004 7.8e-001 letter-probability matrix: alength= 4 w= 6 nsites= 671 E= 5.2e-011 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 0.168405 0.274218 0.557377 0.000000 0.000000 0.000000 1.000000 MOTIF URUAUA DREME-3 # Word Pos Neg P-value E-value # BEST URUAUA 262 129 8.7e-013 3.5e-009 # UAUAUA 170 75 2.0e-010 8.0e-007 # UGUAUA 122 68 3.8e-005 1.5e-001 letter-probability matrix: alength= 4 w= 6 nsites= 281 E= 3.5e-009 0.000000 0.000000 0.000000 1.000000 0.558719 0.000000 0.441281 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 MOTIF YUUCUU DREME-4 # Word Pos Neg P-value E-value # BEST YUUCUU 394 260 8.0e-009 3.2e-005 # UUUCUU 297 200 2.3e-006 9.1e-003 # CUUCUU 125 76 2.5e-004 9.9e-001 letter-probability matrix: alength= 4 w= 6 nsites= 433 E= 3.2e-005 0.000000 0.260970 0.000000 0.739030 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 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 MOTIF GAASAA DREME-5 # Word Pos Neg P-value E-value # BEST GAASAA 148 75 3.0e-007 1.2e-003 # GAAGAA 78 40 2.5e-004 9.9e-001 # GAACAA 72 36 2.9e-004 1.2e+000 letter-probability matrix: alength= 4 w= 6 nsites= 152 E= 1.2e-003 0.000000 0.000000 1.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.480263 0.519737 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 MOTIF CRAGCU DREME-6 # Word Pos Neg P-value E-value # BEST CRAGCU 33 5 2.0e-006 7.7e-003 # CAAGCU 26 5 9.2e-005 3.6e-001 # CGAGCU 7 0 7.8e-003 3.1e+001 letter-probability matrix: alength= 4 w= 6 nsites= 33 E= 7.7e-003 0.000000 1.000000 0.000000 0.000000 0.787879 0.000000 0.212121 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 0.000000 1.000000 MOTIF AHAGCU DREME-7 # Word Pos Neg P-value E-value # BEST AHAGCU 94 42 3.5e-006 1.4e-002 # ACAGCU 16 0 1.5e-005 5.8e-002 # AUAGCU 26 10 5.5e-003 2.2e+001 # AAAGCU 56 32 6.4e-003 2.5e+001 letter-probability matrix: alength= 4 w= 6 nsites= 98 E= 1.4e-002 1.000000 0.000000 0.000000 0.000000 0.571429 0.163265 0.000000 0.265306 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 0.000000 1.000000 MOTIF CUCUSU DREME-8 # Word Pos Neg P-value E-value # BEST CUCUSU 110 54 5.0e-006 2.0e-002 # CUCUCU 58 25 1.7e-004 6.5e-001 # CUCUGU 59 30 1.3e-003 4.9e+000 letter-probability matrix: alength= 4 w= 6 nsites= 116 E= 2.0e-002 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 0.000000 0.000000 1.000000 0.000000 0.525862 0.474138 0.000000 0.000000 0.000000 0.000000 1.000000 # Stopping reason: E-value threshold exceeded # Running time: 11.23 seconds