# DREME 5.3.3 # command: dreme -oc ./motif -p ./fasta/posSeq.fa -k 6 -rna # positives: 2368 from ./fasta/posSeq.fa (Sat Jun 12 20:52:06 CST 2021) # negatives: 2368 from shuffled positives # host: ubuntu-Super-Server # when: Sun Jun 13 20:02:58 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 0.311 C 0.139 G 0.155 U 0.395 MOTIF WAUAWA DREME-1 # Word Pos Neg P-value E-value # BEST WAUAWA 730 435 1.1e-023 4.6e-020 # UAUAUA 212 92 4.6e-013 1.9e-009 # AAUAAA 326 183 1.0e-011 4.2e-008 # UAUAAA 176 119 3.7e-004 1.5e+000 # AAUAUA 155 110 2.7e-003 1.1e+001 letter-probability matrix: alength= 4 w= 6 nsites= 835 E= 4.6e-020 0.582036 0.000000 0.000000 0.417964 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.580838 0.000000 0.000000 0.419162 1.000000 0.000000 0.000000 0.000000 MOTIF UWUGUA DREME-2 # Word Pos Neg P-value E-value # BEST UWUGUA 356 213 9.1e-011 3.7e-007 # UUUGUA 232 132 2.8e-008 1.1e-004 # UAUGUA 132 82 2.9e-004 1.2e+000 letter-probability matrix: alength= 4 w= 6 nsites= 377 E= 3.7e-007 0.000000 0.000000 0.000000 1.000000 0.363395 0.000000 0.000000 0.636605 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 MOTIF UGUUYC DREME-3 # Word Pos Neg P-value E-value # BEST UGUUYC 209 103 2.7e-010 1.1e-006 # UGUUUC 161 80 4.8e-008 1.9e-004 # UGUUCC 50 24 1.6e-003 6.3e+000 letter-probability matrix: alength= 4 w= 6 nsites= 214 E= 1.1e-006 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 1.000000 0.000000 0.233645 0.000000 0.766355 0.000000 1.000000 0.000000 0.000000 MOTIF RGYUUU DREME-4 # Word Pos Neg P-value E-value # BEST RGYUUU 405 262 1.3e-009 5.3e-006 # AGCUUU 82 43 2.6e-004 1.0e+000 # GGCUUU 45 20 1.2e-003 4.9e+000 # AGUUUU 200 145 1.2e-003 5.0e+000 # GGUUUU 95 63 6.0e-003 2.4e+001 letter-probability matrix: alength= 4 w= 6 nsites= 433 E= 5.3e-006 0.669746 0.000000 0.330254 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.300231 0.000000 0.699769 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 MOTIF UUUGGY DREME-5 # Word Pos Neg P-value E-value # BEST UUUGGY 202 114 1.7e-007 6.9e-004 # UUUGGU 165 94 3.4e-006 1.4e-002 # UUUGGC 40 21 9.8e-003 3.9e+001 letter-probability matrix: alength= 4 w= 6 nsites= 213 E= 6.9e-004 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 1.000000 0.000000 0.000000 0.183099 0.000000 0.816901 MOTIF UGWAAC DREME-6 # Word Pos Neg P-value E-value # BEST UGWAAC 133 67 1.1e-006 4.3e-003 # UGUAAC 56 23 1.2e-004 4.6e-001 # UGAAAC 81 45 7.4e-004 2.9e+000 letter-probability matrix: alength= 4 w= 6 nsites= 143 E= 4.3e-003 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 1.000000 0.000000 0.594406 0.000000 0.000000 0.405594 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 MOTIF KCUUCU DREME-7 # Word Pos Neg P-value E-value # BEST KCUUCU 174 99 1.7e-006 6.9e-003 # UCUUCU 134 80 9.8e-005 3.9e-001 # GCUUCU 42 21 5.3e-003 2.1e+001 letter-probability matrix: alength= 4 w= 6 nsites= 179 E= 6.9e-003 0.000000 0.000000 0.234637 0.765363 0.000000 1.000000 0.000000 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 0.000000 0.000000 1.000000 MOTIF RAGAAA DREME-8 # Word Pos Neg P-value E-value # BEST RAGAAA 229 145 3.6e-006 1.4e-002 # AAGAAA 164 104 9.8e-005 3.9e-001 # GAGAAA 76 44 2.0e-003 7.8e+000 letter-probability matrix: alength= 4 w= 6 nsites= 252 E= 1.4e-002 0.682540 0.000000 0.317460 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 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 # Stopping reason: E-value threshold exceeded # Running time: 14.17 seconds