NEW: Starting a medium job Organism code: SC Processing *both* strands ./weederlauncher.out ../../Test/gal4.seq SC medium S A M 10 Searching for motifs of length 6 with 1 mutations..... (Actual commandline is : ./weederTFBS.out -f ../../Test/gal4.seq -R 100 -O SC -W 6 -e 1 -M -S -T 10 ) 1) GCTCGG 2.10 2) CGCCCG 2.02 3) GACCGG 1.75 4) GTTCGG 1.67 5) CGGAGC 1.66 6) ACTGCC 1.63 7) CGGCGC 1.62 8) GGAGCA 1.56 9) CGGGGC 1.54 10) GGAGAG 1.43 Elapsed time : 0 min. 0 sec. Searching for motifs of length 8 with 2 mutations..... (Actual commandline is : ./weederTFBS.out -f ../../Test/gal4.seq -R 100 -O SC -W 8 -e 2 -M -S -T 10 ) 1) TCGGAGCA 2.87 2) CGGAGCAG 2.78 3) CGGCGCAC 2.77 4) GTTCGGAG 2.65 5) CCGCTCGG 2.59 6) GCGCCCGG 2.45 7) TTCGGAGC 2.45 8) GTGCGGCG 2.44 9) GCGAAGCG 2.38 10) TTACTGCC 2.32 Elapsed time : 0 min. 3 sec. Searching for motifs of length 10 with 3 mutations..... (Actual commandline is : ./weederTFBS.out -f ../../Test/gal4.seq -R 100 -O SC -W 10 -e 3 -M -S -T 10 ) 1) TCGGAGCAGT 3.68 2) CGGGCGACAG 3.63 3) CAGTGCGGCG 3.60 4) CGGAGCAGTG 3.55 5) TTCGGAGCAG 3.38 6) GTTCGGAGCA 3.34 7) GGCAGTAACC 3.34 8) TCGCCCGCTC 3.13 9) CGGAGCACTG 3.13 10) CGCCCGCTCG 3.13 Elapsed time : 1 min. 8 sec. Your sequences: Sequence 1 : >YBR018C GAL7 275483 275983 Sequence 2 : >YBR019C GAL10 278308 278808 Sequence 3 : >YBR020W GAL1 278377 278977 Sequence 4 : >YLR081W GAL2 289713 290213 Sequence 5 : >YML051W GAL80 171094 171594 Sequence 6 : >YOR120W GCY1 550612 551112 **** MY ADVICE **** *** Interesting motifs (highest-ranking) seem to be : GCTCGG CCGAGC 2 redundant motifs found: CCGCTCGG - GTTCGG - Best occurrences: Seq St oligo pos match 1 + GTTTGG 134 (91.33) 1 + [GCTTTG] 194 (87.75) 1 + [GCACTG] 230 (86.04) 1 + GCTCGG 312 (100.00) 1 + GGTCGG 433 (93.32) 1 - GCTCTG 463 (93.17) 1 - [TTTCCG] 436 (85.36) 1 - GCTTGG 371 (94.58) 1 - [TCACGG] 329 (85.62) 1 - GCTCCG 226 (95.87) 1 - GCTTCG 75 (90.46) 1 - GCTCGT 24 (94.58) 2 + GCTTCG 4 (90.46) 2 + [GTTTGT] 94 (85.91) 2 + GTTCGG 168 (96.74) 2 + GCACGG 233 (92.88) 2 + GCTCGG 271 (100.00) 2 + [GCTTCT] 279 (85.04) 2 + [GCTCTT] 372 (87.75) 2 - [GTACGG] 288 (89.62) 2 - [GTTCCT] 206 (87.20) 2 - [GCACTG] 176 (86.04) 2 - GCTCCG 171 (95.87) 3 + [GTACGG] 147 (89.62) 3 + [GTTCCT] 230 (87.20) 3 + [GCACTG] 260 (86.04) 3 + GCTCCG 265 (95.87) 3 + [GTTTGT] 518 (85.91) 3 - GCTTCG 432 (90.46) 3 - [GTTTGT] 341 (85.91) 3 - GTTCGG 268 (96.74) 3 - GCTCGG 165 (100.00) 3 - [GCTTCT] 157 (85.04) 3 - [GCTCTT] 64 (87.75) 4 + [GCACCG] 82 (88.75) 4 + [GCTCTT] 415 (87.75) 4 - [GTTTGT] 317 (85.91) 4 - TCTCGG 190 (92.74) 4 - GTTCGG 185 (96.74) 4 - [GCCCCG] 171 (88.75) 4 - [TCTCCG] 106 (88.62) 5 + GCCCGG 198 (92.88) 5 + [TCTCTG] 211 (85.91) 5 + [TTTCCG] 233 (85.36) 5 + [GCTTTG] 238 (87.75) 5 - GTTCGG 349 (96.74) 5 - GCTCGT 192 (94.58) 5 - [TTTCCG] 143 (85.36) 5 - GCTCCT 27 (90.46) 6 + GCTTGG 25 (94.58) 6 - [TCCCGG] 399 (85.62) 6 - GCTCGG 341 (100.00) 6 - [GCCCCG] 134 (88.75) 6 - [GTTTGT] 79 (85.91) Frequency Matrix All Occurrences Best Occurrences A C G T A C G T 1 0 0 19 1 0 0 24 1 2 0 15 1 4 0 19 1 5 3 1 1 0 18 1 1 0 23 4 0 18 0 2 0 19 0 6 5 0 3 16 1 0 7 17 1 6 0 0 18 2 0 0 22 3 ========================================== TCGGAGCA TGCTCCGA 7 redundant motifs found: GTTCGGAGCA - TTCGGAGCAG - TCGGAGCAGT - TTCGGAGC - CGGAGCAG - GGAGCA - CGGAGC - Best occurrences: Seq St oligo pos match 1 + TCGGAGCA 225 (100.00) 1 + [GCAGAGCA] 462 (88.59) 1 - TCGGATCA 332 (93.36) 1 - [TCCGAGCG] 311 (89.97) 2 + TCGGAGCA 170 (100.00) 2 + [ACGGAGGA] 235 (88.43) 2 - [GCCGAGCG] 270 (85.04) 2 - [TCCGAACA] 167 (88.08) 3 + [GCCGAGCG] 164 (85.04) 3 + [TCCGAACA] 267 (88.08) 3 - TCGGAGCA 264 (100.00) 3 - [TCGGAGGG] 180 (88.62) 4 + [TCGGGGCG] 170 (88.62) 4 + [GCGGATCA] 175 (88.43) 4 + [GGGGAGCA] 224 (86.23) 4 - [TCGGAGTG] 181 (86.58) 4 - [ACGGCGCA] 116 (88.43) 5 + [AAGGAGCA] 26 (89.47) 5 + [CCGGCGCA] 334 (87.23) 5 - [CCGTAGCA] 138 (86.94) 5 - [TAGCAGCA] 135 (85.43) 6 + TCGGGGCA 133 (93.36) 6 + [TCATAGCA] 190 (86.59) 6 + [TAGGTGCA] 449 (85.73) Frequency Matrix All Occurrences Best Occurrences A C G T A C G T 1 3 2 3 16 0 0 0 5 2 3 20 1 0 0 5 0 0 3 2 3 18 1 0 0 5 0 4 0 1 21 2 0 0 5 0 5 19 2 2 1 4 0 1 0 6 2 1 19 2 0 0 4 1 7 2 19 2 1 0 5 0 0 8 20 0 4 0 5 0 0 0 ========================================== TCGGAGCAGT ACTGCTCCGA 4 redundant motifs found: TTCGGAGCAG - CGGAGCAGTG - CGGAGCAG - TCGGAGCA - Best occurrences: Seq St oligo pos match 1 + TCGGAGCACT 225 (97.75) 1 + [TCGGACAACT] 314 (85.88) 1 - [TCGGATCACG] 330 (88.10) 1 - [TCCGAGCGCT] 309 (88.74) 1 - [TCGCAATAGT] 68 (86.48) 2 + TCGGAGCAGT 170 (100.00) 2 + [ACGGAGGAGA] 235 (86.57) 2 - [TCCGAACAAT] 165 (86.98) 3 + [TCCGAACAAT] 267 (86.98) 3 - TCGGAGCAGT 262 (100.00) 3 - [TCGGAGGGCT] 178 (89.00) 3 - [AATGAGCAGT] 126 (86.17) 4 + [TCGGGGCGGA] 170 (86.78) 4 + [GCGGATCACT] 175 (86.34) 4 + [TAGGATAAGT] 347 (87.44) 4 - [TAGCAGGAGT] 243 (86.09) 4 - [TCGGAGTGAT] 179 (86.85) 4 - [ACGGCGCAGA] 114 (86.17) 5 + [CCGGCGCACT] 334 (88.01) 5 - TAGCAGCAGT 133 (90.63) 6 + TCGGGGCAGA 133 (90.99) 6 - [CCGGAATAGT] 142 (86.83) Frequency Matrix All Occurrences Best Occurrences A C G T A C G T 1 3 3 1 20 0 0 0 5 2 4 21 1 1 1 4 0 0 3 1 3 20 3 0 0 5 0 4 0 3 23 1 0 1 4 0 5 21 3 3 0 4 0 1 0 6 4 1 18 4 0 0 5 0 7 3 18 3 3 0 5 0 0 8 21 1 4 1 5 0 0 0 9 3 7 17 0 0 1 4 0 10 4 1 2 20 1 0 0 4 ========================================== *** Interesting motifs (not highest-ranking) can also be : CGGAGCAG CTGCTCCG 7 redundant motifs found: TTCGGAGCAG - CGGAGCAGTG - TCGGAGCAGT - CGGCGCAC - TCGGAGCA - GGAGCA - CGGAGC - Best occurrences: Seq St oligo pos match 1 + CGGAGCAC 226 (94.54) 1 - [CGGATCAC] 331 (88.93) 2 + CGGAGCAG 171 (100.00) 2 + [CGGTGAAG] 217 (85.70) 2 + [CGGAGGAG] 236 (89.98) 2 + [ATGAGCAG] 307 (89.03) 2 - [CGGATTAG] 283 (87.98) 2 - [CCGAGCGG] 269 (85.28) 3 + [CCGAGCGG] 165 (85.28) 3 - CGGAGCAG 263 (100.00) 3 - [CGGTGAAG] 217 (85.70) 3 - [ATGAGCAG] 127 (89.03) 4 + [CGGGGCGG] 171 (85.13) 4 + [CGGATCAC] 176 (88.93) 4 - CGGCGCAG 115 (92.11) 5 + [AGGAGCAA] 27 (87.70) 5 + [CGGCGCAC] 335 (86.65) 5 - [AGGACCAG] 445 (85.26) 5 - CGTAGCAG 137 (91.69) 5 - [CGGATTAG] 116 (87.98) 6 + CGGGGCAG 134 (92.11) 6 - [CTGAGAAG] 211 (87.19) Frequency Matrix All Occurrences Best Occurrences A C G T A C G T 1 5 20 2 1 0 6 0 0 2 2 2 21 3 0 0 6 0 3 0 1 25 2 0 0 5 1 4 22 2 2 2 4 1 1 0 5 1 1 22 4 0 0 6 0 6 3 21 1 3 0 6 0 0 7 25 0 3 0 6 0 0 0 8 2 4 21 1 0 1 5 0 ========================================== CGGCGCAC GTGCGCCG 2 redundant motifs found: CGGAGCAG - CGGCGC - Best occurrences: Seq St oligo pos match 1 + [CGAAGCGC] 75 (88.70) 1 + CGGAGCAC 226 (97.90) 1 + [CGAAGGAC] 337 (88.59) 1 - CGGATCAC 331 (92.97) 1 - [CGCGGCTC] 26 (88.47) 2 + CGGAGCAG 171 (94.86) 2 + [CGGCGCGA] 181 (88.98) 2 + CGAGGCAC 186 (94.04) 2 + GGACGCAC 229 (93.32) 2 + [CGGAGGAG] 236 (88.30) 2 + [TGGGGCTC] 368 (85.51) 2 - [GGACGCAA] 462 (88.76) 2 - CGCCGCAC 178 (96.62) 2 - [CTCCGAAC] 168 (85.00) 2 - [CGAATCAA] 75 (85.66) 3 + [CGACGGAA] 185 (86.12) 3 + CGCCGCAC 256 (96.62) 3 + [CTCCGAAC] 266 (85.00) 3 + [CGAATCAA] 359 (85.66) 3 - CGGAGCAG 263 (94.86) 3 - CGAGGCAC 247 (94.04) 3 - GGACGCAC 205 (93.32) 3 - [TGGGGCTC] 66 (85.51) 4 + [TGGGTCAC] 36 (85.51) 4 + [CGGCGGTC] 86 (88.49) 4 + [CGGGGCGG] 171 (87.29) 4 + CGGATCAC 176 (92.97) 4 + [CTCCGAAC] 183 (85.00) 4 + [GGGAGCAA] 225 (89.42) 4 + [CTGTGCAC] 263 (89.33) 4 - CGGCGCAG 115 (96.96) 4 - CTCCGCAC 103 (91.57) 5 + [TGGCGCAA] 223 (89.10) 5 + CGGCGCAC 335 (100.00) 5 - GGGCGCTC 194 (91.13) 5 - [CGTAGCAG] 137 (89.08) 6 + CGGCGAAC 123 (93.43) 6 + CGGGGCAG 134 (93.74) 6 + [CGCTGCTC] 310 (86.06) 6 + [CTGCTCTC] 312 (85.08) 6 - [CGTCACAC] 291 (87.76) Frequency Matrix All Occurrences Best Occurrences A C G T A C G T 1 0 18 3 1 0 14 3 0 2 0 0 20 2 0 0 16 1 3 4 3 14 1 4 3 10 0 4 5 13 3 1 5 9 3 0 5 1 0 19 2 0 0 15 2 6 1 20 1 0 1 16 0 0 7 19 0 1 2 16 0 0 1 8 2 16 4 0 0 13 4 0 ========================================== GTTCGG CCGAAC 2 redundant motifs found: GTTCGGAG - GCTCGG - Best occurrences: Seq St oligo pos match 1 + [CCGCGG] 29 (87.36) 1 + [CTTCAG] 82 (89.16) 1 + GTTTGG 134 (92.74) 1 + CTTCGG 223 (94.58) 1 + GCTCGG 312 (96.74) 1 + [GTTCAC] 358 (87.32) 1 + GTTCAG 397 (94.58) 1 + GGTCGG 433 (93.32) 1 - [GCTTGG] 371 (89.48) 1 - CTTCGG 336 (94.58) 1 - [CTTCGC] 240 (87.32) 1 - [CTTCGC] 74 (87.32) 1 - [CCGCGG] 29 (87.36) 2 + [CTTCGC] 5 (87.32) 2 + GTTCGG 168 (100.00) 2 + GTGCGG 178 (96.03) 2 + GCACGG 233 (91.77) 2 + GCTCGG 271 (96.74) 2 - [CTTTGG] 336 (87.32) 2 - GTACGG 288 (95.03) 2 - [GGTCGC] 212 (86.06) 3 + GTACGG 147 (95.03) 3 + [GGTCGC] 224 (86.06) 3 - [CTTCGC] 431 (87.32) 3 - GTTCGG 268 (100.00) 3 - GTGCGG 258 (96.03) 3 - [CGTCGG] 184 (87.91) 3 - GCTCGG 165 (96.74) 4 + [GGGCGG] 63 (89.35) 4 + [CCTCAG] 72 (85.91) 4 + GTGCGG 103 (96.03) 4 + GTTCAG 122 (94.58) 4 + [GGGCGG] 173 (89.35) 4 - [GCACAG] 263 (86.36) 4 - GTTCGG 185 (100.00) 4 - [GCGCAG] 115 (87.36) 5 + [CTACGG] 140 (89.61) 5 - GTTCGG 349 (100.00) 5 - [GTGCGC] 337 (88.77) 5 - [CTTCAG] 67 (89.16) 5 - [GGTCAG] 39 (87.91) 6 + [GCTTGG] 25 (89.48) 6 + [GGGCGG] 167 (89.35) 6 + [CTACGG] 361 (89.61) 6 - GCTCGG 341 (96.74) 6 - GTTCGC 125 (92.74) Frequency Matrix All Occurrences Best Occurrences A C G T A C G T 1 0 2 18 0 0 2 19 0 2 0 4 1 15 0 5 1 15 3 2 0 3 15 3 0 3 15 4 0 19 0 1 0 20 0 1 5 2 0 18 0 2 0 19 0 6 0 1 19 0 0 1 20 0 ========================================== GTTCGGAG CTCCGAAC 4 redundant motifs found: GTTCGGAGCA - GTGCGGCG - TTCGGAGC - GTTCGG - Best occurrences: Seq St oligo pos match 1 + CCGCGGAG 29 (90.20) 1 + CTTCGGAG 223 (96.50) 1 + [GTTGAGCG] 235 (85.91) 1 + GCTCGGAC 312 (92.88) 1 + GGTCGGAA 433 (90.09) 1 - [GCTCTGCA] 461 (85.65) 1 - CTTCGGAT 334 (92.18) 1 - [GTGCTCCG] 226 (86.02) 1 - [CTTCGCAA] 72 (86.14) 1 - GTTGTGAG 62 (90.34) 2 + GTTCGGAG 168 (100.00) 2 + GTGCGGCG 178 (94.28) 2 + GCACGGAG 233 (92.88) 2 + GCTCGGCG 271 (94.99) 2 + [GTTAAGCG] 314 (85.91) 2 - GTACGGAT 286 (91.36) 2 - [TTTCTGGG] 22 (88.00) 3 + [TTTCTGGG] 412 (88.00) 3 - GTTCGGAG 266 (100.00) 3 - GTGCGGCG 256 (94.28) 3 - CGTCGGAG 182 (92.30) 3 - GCTCGGCG 163 (94.99) 3 - [GTTAAGCG] 120 (85.91) 4 + GTGCGGAG 103 (96.50) 4 + [CTGCGCCG] 115 (86.14) 4 + GTTCAGGG 122 (90.10) 4 + [GGGCGGAT] 173 (87.99) 4 + TTTCGCAG 324 (91.04) 4 - [GTGCACAG] 263 (86.02) 4 - GTTCGGAG 183 (100.00) 4 - [CTTCTGCC] 156 (86.35) 5 + [CTACGGAA] 140 (86.46) 5 - GTTATGAG 394 (90.34) 5 - GTTCGGGC 347 (91.62) 5 - [GTGCGCCG] 335 (89.64) 6 + [CTTCTCAG] 211 (88.24) 6 + [GCACGCAG] 239 (88.24) 6 - [GTAATGAG] 485 (86.02) 6 - [TTAAGGAG] 317 (85.32) 6 - TTTCTGAG 214 (92.07) 6 - GTTCGCCG 123 (93.14) Frequency Matrix All Occurrences Best Occurrences A C G T A C G T 1 0 3 17 2 0 4 17 2 2 0 4 2 16 0 5 2 16 3 2 0 3 17 2 0 4 17 4 1 20 1 0 1 21 1 0 5 1 0 18 3 1 0 19 3 6 0 2 20 0 0 2 21 0 7 15 5 2 0 16 5 2 0 8 1 2 17 2 1 2 18 2 ========================================== CGGAGCAGTG CACTGCTCCG 3 redundant motifs found: CGGAGCACTG - TCGGAGCAGT - CGGAGCAG - Best occurrences: Seq St oligo pos match 1 + [CGCTTCAGTG] 80 (87.36) 1 + CGGAGCACTG 226 (98.08) 1 + [CGGACAACTG] 315 (86.80) 1 + [CGAAGGACTG] 337 (87.61) 1 - [CTCAACAGTG] 231 (87.01) 2 + CGGAGCAGTG 171 (100.00) 2 + [CGGAGGAGAG] 236 (89.64) 2 + [ATGAGCAGTT] 307 (86.83) 2 - [CGCAGATGTG] 191 (87.01) 2 - CGCCGCACTG 176 (92.34) 3 + [CGCAGATGTG] 240 (87.01) 3 + CGCCGCACTG 256 (92.34) 3 - CGGAGCAGTG 261 (100.00) 3 - [CGGAGGGCTG] 177 (87.61) 3 - [ATGAGCAGTT] 125 (86.83) 4 + [CGGATCACTC] 176 (88.70) 4 - [CGGCGCAGAT] 113 (85.50) 5 + [CGGCGCACTC] 335 (89.56) 5 - [ACCAGCAGTG] 440 (87.53) 5 - AGCAGCAGTG 132 (95.70) 5 - [AGTGGCAGTG] 126 (85.79) 6 - AGCAGCGGTG 307 (90.35) Frequency Matrix All Occurrences Best Occurrences A C G T A C G T 1 7 21 1 0 2 5 0 0 2 1 1 24 3 0 0 7 0 3 2 9 16 2 0 4 3 0 4 21 4 2 2 5 2 0 0 5 2 2 22 3 0 0 7 0 6 3 22 3 1 0 7 0 0 7 24 0 3 2 6 0 1 0 8 1 9 19 0 0 3 4 0 9 3 2 1 23 0 0 0 7 10 1 4 21 3 0 0 7 0 ========================================== CGGAGC GCTCCG 6 redundant motifs found: TTCGGAGC - CGGAGCAG - TCGGAGCA - CGGGGC - GGAGCA - CGGCGC - Best occurrences: Seq St oligo pos match 1 + [ACGAGC] 24 (85.17) 1 + CGGAGT 32 (92.78) 1 + CGAAGC 75 (93.86) 1 + CGGAGC 226 (100.00) 1 + [CGAAGG] 241 (86.64) 1 + [CGAAGG] 337 (86.64) 1 + [CCAAGC] 371 (88.73) 1 + CAGAGC 463 (90.69) 1 - CGGATC 333 (92.39) 1 - CCGAGC 312 (94.86) 1 - [CGAAGT] 222 (86.64) 1 - [CGGCTC] 26 (86.53) 2 + CGGAGC 171 (100.00) 2 + CGGCGC 181 (94.14) 2 + [CGAGGC] 186 (86.78) 2 + CGGAGG 236 (92.78) 2 + [CGGCGG] 274 (86.91) 2 - [CGGATT] 285 (85.17) 2 - CCGAGC 271 (94.86) 2 - [CCGTGC] 233 (85.69) 2 - [CGAATC] 77 (86.25) 2 - CGAAGC 4 (93.86) 3 + CCGAGC 165 (94.86) 3 + [CGAATC] 359 (86.25) 3 + CGAAGC 432 (93.86) 3 - CGGAGC 265 (100.00) 3 - [CGAGGC] 249 (86.78) 3 - CGGAGG 181 (92.78) 3 - [CGGCGG] 162 (86.91) 4 + [CGGCGG] 86 (86.91) 4 + CGGAGA 106 (90.69) 4 + CGGGGC 171 (92.92) 4 + CGGATC 176 (92.39) 4 + [CCGAGA] 190 (85.55) 4 + GGGAGC 225 (90.30) 4 - CGGAGT 182 (92.78) 4 - CGGCGC 117 (94.14) 4 - CGGTGC 82 (90.83) 5 + AGGAGC 27 (90.30) 5 + [ACGAGC] 192 (85.17) 5 + CGGCGC 335 (94.14) 5 - [CCGGGC] 198 (87.78) 5 - CGTAGC 139 (90.55) 5 - [CGGATT] 118 (85.17) 6 + CGGGGC 134 (92.92) 6 + [CGAATC] 297 (86.25) 6 + CCGAGC 341 (94.86) 6 - [CCAAGC] 25 (88.73) Frequency Matrix All Occurrences Best Occurrences A C G T A C G T 1 1 25 1 0 1 25 1 0 2 1 4 22 0 1 4 22 0 3 3 0 23 1 3 0 23 1 4 21 3 2 1 21 3 2 1 5 0 0 25 2 0 0 25 2 6 1 22 2 2 1 22 2 2 ========================================== CCGCTCGG CCGAGCGG 2 redundant motifs found: GCGCCCGG - GCTCGG - Best occurrences: Seq St oligo pos match 1 + GCGCTCGG 310 (94.60) 1 + [CAGGTCGG] 431 (89.78) 1 - [CAGCTTGG] 371 (87.48) 1 - [CGGCTCGT] 24 (86.53) 2 + [ACGCACGG] 231 (88.13) 2 + CCGCTCGG 269 (100.00) 2 - [CCGAGCGG] 269 (87.26) 2 - [CCGGTCGC] 212 (87.99) 2 - [CCGCACTG] 176 (89.58) 2 - [CTGCTCCG] 171 (88.32) 3 + [CCGAGCGG] 165 (87.26) 3 + [CCGGTCGC] 222 (87.99) 3 + [CCGCACTG] 258 (89.58) 3 + [CTGCTCCG] 263 (88.32) 3 - CCGCTCGG 165 (100.00) 4 + [CCGTTCAG] 120 (86.37) 4 - [CGGTTCGG] 185 (88.52) 4 - [CCGCCCCG] 171 (88.32) 5 + [GCGCCCGG] 196 (88.13) 5 + [CCGCTTTG] 236 (87.48) 5 - [TCGTTCGG] 349 (86.18) 5 - [GCGCTCGT] 192 (87.60) 6 - [AAGCTCGG] 341 (88.13) Frequency Matrix All Occurrences Best Occurrences A C G T A C G T 1 2 17 3 1 0 2 1 0 2 3 16 2 2 0 3 0 0 3 0 0 23 0 0 0 3 0 4 2 15 3 3 0 3 0 0 5 3 2 2 16 0 0 0 3 6 0 21 0 2 0 3 0 0 7 1 3 16 3 0 0 3 0 8 0 2 19 2 0 0 3 0 ========================================== TTCGGAGCAG CTGCTCCGAA 5 redundant motifs found: GTTCGGAGCA - TCGGAGCAGT - TTCGGAGC - CGGAGCAG - TCGGAGCA - Best occurrences: Seq St oligo pos match 1 + TTCGGAGCAC 224 (93.98) 1 - [TTCGGATCAC] 331 (87.95) 2 + TTCGGAGCAG 169 (100.00) 3 - TTCGGAGCAG 263 (100.00) 6 + ATCGGGGCAG 132 (90.13) 6 - [TTCTGAGAAG] 211 (85.99) Frequency Matrix All Occurrences Best Occurrences A C G T A C G T 1 3 1 1 16 1 0 0 3 2 3 1 2 15 0 0 0 4 3 3 16 2 0 0 4 0 0 4 1 1 18 1 0 0 4 0 5 3 2 15 1 0 0 4 0 6 17 1 3 0 3 0 1 0 7 1 2 16 2 0 0 4 0 8 2 14 2 3 0 4 0 0 9 16 2 2 1 4 0 0 0 10 2 2 16 1 0 1 3 0 ==========================================