This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g ACAACC -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g ggactacnngggtatctaat -e 0.2 -O 20 - Trimming 1 adapter with at most 20.0% errors in single-end mode ... Finished in 71.73 s (26 us/read; 2.27 M reads/minute). === Summary === Total reads processed: 2,708,680 Reads with adapters: 248,501 (9.2%) Reads that were too short: 100,938 (3.7%) Reads written (passing filters): 147,563 (5.4%) Total basepairs processed: 815,312,680 bp Total written (filtered): 32,251,606 bp (4.0%) === Adapter 1 === Sequence: ACAACC; Type: regular 5'; Length: 6; Trimmed: 248501 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 452 661.3 0 452 7 11998 661.3 0 11998 8 8657 661.3 0 8657 9 418 661.3 0 418 10 1177 661.3 0 1177 11 44638 661.3 0 44638 12 110 661.3 0 110 13 43 661.3 0 43 14 47 661.3 0 47 15 46 661.3 0 46 16 40 661.3 0 40 17 56 661.3 0 56 18 41 661.3 0 41 19 39 661.3 0 39 20 45 661.3 0 45 21 41 661.3 0 41 22 33 661.3 0 33 23 54 661.3 0 54 24 40 661.3 0 40 25 45 661.3 0 45 26 50 661.3 0 50 27 41 661.3 0 41 28 57 661.3 0 57 29 48 661.3 0 48 30 43 661.3 0 43 31 57 661.3 0 57 32 39 661.3 0 39 33 31 661.3 0 31 34 67 661.3 0 67 35 67 661.3 0 67 36 84 661.3 0 84 37 46 661.3 0 46 38 54 661.3 0 54 39 45 661.3 0 45 40 43 661.3 0 43 41 39 661.3 0 39 42 43 661.3 0 43 43 45 661.3 0 45 44 46 661.3 0 46 45 59 661.3 0 59 46 49 661.3 0 49 47 41 661.3 0 41 48 66 661.3 0 66 49 49 661.3 0 49 50 48 661.3 0 48 51 39 661.3 0 39 52 56 661.3 0 56 53 72 661.3 0 72 54 49 661.3 0 49 55 31 661.3 0 31 56 47 661.3 0 47 57 50 661.3 0 50 58 42 661.3 0 42 59 43 661.3 0 43 60 63 661.3 0 63 61 51 661.3 0 51 62 41 661.3 0 41 63 49 661.3 0 49 64 49 661.3 0 49 65 59 661.3 0 59 66 58 661.3 0 58 67 45 661.3 0 45 68 63 661.3 0 63 69 39 661.3 0 39 70 51 661.3 0 51 71 69 661.3 0 69 72 107 661.3 0 107 73 51 661.3 0 51 74 86 661.3 0 86 75 60 661.3 0 60 76 52 661.3 0 52 77 51 661.3 0 51 78 73 661.3 0 73 79 114 661.3 0 114 80 322 661.3 0 322 81 400 661.3 0 400 82 514 661.3 0 514 83 515 661.3 0 515 84 772 661.3 0 772 85 467 661.3 0 467 86 488 661.3 0 488 87 656 661.3 0 656 88 744 661.3 0 744 89 276 661.3 0 276 90 449 661.3 0 449 91 829 661.3 0 829 92 792 661.3 0 792 93 905 661.3 0 905 94 337 661.3 0 337 95 369 661.3 0 369 96 177 661.3 0 177 97 191 661.3 0 191 98 328 661.3 0 328 99 246 661.3 0 246 100 191 661.3 0 191 101 523 661.3 0 523 102 284 661.3 0 284 103 285 661.3 0 285 104 313 661.3 0 313 105 599 661.3 0 599 106 720 661.3 0 720 107 429 661.3 0 429 108 375 661.3 0 375 109 357 661.3 0 357 110 270 661.3 0 270 111 371 661.3 0 371 112 323 661.3 0 323 113 348 661.3 0 348 114 309 661.3 0 309 115 393 661.3 0 393 116 396 661.3 0 396 117 500 661.3 0 500 118 430 661.3 0 430 119 356 661.3 0 356 120 387 661.3 0 387 121 549 661.3 0 549 122 622 661.3 0 622 123 551 661.3 0 551 124 819 661.3 0 819 125 827 661.3 0 827 126 569 661.3 0 569 127 387 661.3 0 387 128 369 661.3 0 369 129 466 661.3 0 466 130 744 661.3 0 744 131 652 661.3 0 652 132 864 661.3 0 864 133 681 661.3 0 681 134 688 661.3 0 688 135 537 661.3 0 537 136 450 661.3 0 450 137 578 661.3 0 578 138 544 661.3 0 544 139 415 661.3 0 415 140 311 661.3 0 311 141 601 661.3 0 601 142 632 661.3 0 632 143 625 661.3 0 625 144 586 661.3 0 586 145 657 661.3 0 657 146 714 661.3 0 714 147 681 661.3 0 681 148 984 661.3 0 984 149 824 661.3 0 824 150 945 661.3 0 945 151 802 661.3 0 802 152 682 661.3 0 682 153 781 661.3 0 781 154 718 661.3 0 718 155 888 661.3 0 888 156 769 661.3 0 769 157 763 661.3 0 763 158 942 661.3 0 942 159 667 661.3 0 667 160 644 661.3 0 644 161 694 661.3 0 694 162 869 661.3 0 869 163 875 661.3 0 875 164 629 661.3 0 629 165 624 661.3 0 624 166 733 661.3 0 733 167 713 661.3 0 713 168 753 661.3 0 753 169 984 661.3 0 984 170 1283 661.3 0 1283 171 1540 661.3 0 1540 172 856 661.3 0 856 173 771 661.3 0 771 174 741 661.3 0 741 175 756 661.3 0 756 176 563 661.3 0 563 177 587 661.3 0 587 178 964 661.3 0 964 179 854 661.3 0 854 180 682 661.3 0 682 181 567 661.3 0 567 182 697 661.3 0 697 183 839 661.3 0 839 184 655 661.3 0 655 185 509 661.3 0 509 186 560 661.3 0 560 187 984 661.3 0 984 188 1244 661.3 0 1244 189 949 661.3 0 949 190 726 661.3 0 726 191 681 661.3 0 681 192 610 661.3 0 610 193 720 661.3 0 720 194 727 661.3 0 727 195 1214 661.3 0 1214 196 650 661.3 0 650 197 393 661.3 0 393 198 564 661.3 0 564 199 599 661.3 0 599 200 977 661.3 0 977 201 826 661.3 0 826 202 485 661.3 0 485 203 741 661.3 0 741 204 555 661.3 0 555 205 581 661.3 0 581 206 374 661.3 0 374 207 400 661.3 0 400 208 336 661.3 0 336 209 476 661.3 0 476 210 449 661.3 0 449 211 455 661.3 0 455 212 543 661.3 0 543 213 788 661.3 0 788 214 1321 661.3 0 1321 215 1395 661.3 0 1395 216 934 661.3 0 934 217 917 661.3 0 917 218 755 661.3 0 755 219 528 661.3 0 528 220 473 661.3 0 473 221 720 661.3 0 720 222 709 661.3 0 709 223 634 661.3 0 634 224 901 661.3 0 901 225 1111 661.3 0 1111 226 1923 661.3 0 1923 227 4383 661.3 0 4383 228 2367 661.3 0 2367 229 2321 661.3 0 2321 230 1649 661.3 0 1649 231 2417 661.3 0 2417 232 1903 661.3 0 1903 233 1353 661.3 0 1353 234 612 661.3 0 612 235 466 661.3 0 466 236 476 661.3 0 476 237 694 661.3 0 694 238 705 661.3 0 705 239 597 661.3 0 597 240 588 661.3 0 588 241 564 661.3 0 564 242 510 661.3 0 510 243 491 661.3 0 491 244 576 661.3 0 576 245 616 661.3 0 616 246 368 661.3 0 368 247 429 661.3 0 429 248 1080 661.3 0 1080 249 2403 661.3 0 2403 250 2239 661.3 0 2239 251 906 661.3 0 906 252 548 661.3 0 548 253 905 661.3 0 905 254 791 661.3 0 791 255 589 661.3 0 589 256 475 661.3 0 475 257 620 661.3 0 620 258 616 661.3 0 616 259 721 661.3 0 721 260 714 661.3 0 714 261 824 661.3 0 824 262 884 661.3 0 884 263 1094 661.3 0 1094 264 1734 661.3 0 1734 265 1774 661.3 0 1774 266 1557 661.3 0 1557 267 859 661.3 0 859 268 959 661.3 0 959 269 1040 661.3 0 1040 270 880 661.3 0 880 271 1178 661.3 0 1178 272 1031 661.3 0 1031 273 1329 661.3 0 1329 274 1316 661.3 0 1316 275 1337 661.3 0 1337 276 1443 661.3 0 1443 277 1012 661.3 0 1012 278 838 661.3 0 838 279 622 661.3 0 622 280 777 661.3 0 777 281 1488 661.3 0 1488 282 986 661.3 0 986 283 550 661.3 0 550 284 873 661.3 0 873 285 810 661.3 0 810 286 561 661.3 0 561 287 499 661.3 0 499 288 659 661.3 0 659 289 1016 661.3 0 1016 290 895 661.3 0 895 291 2497 661.3 0 2497 292 5238 661.3 0 5238 293 2135 661.3 0 2135 294 392 661.3 0 392 295 382 661.3 0 382 296 482 661.3 0 482 297 790 661.3 0 790 298 1057 661.3 0 1057 299 813 661.3 0 813 300 661 661.3 0 661 301 470 661.3 0 470 Finished in 6.25 s (42 us/read; 1.42 M reads/minute). === Summary === Total reads processed: 147,563 Reads with adapters: 9,089 (6.2%) Reads that were too short: 30 (0.0%) Reads written (passing filters): 9,059 (6.1%) Total basepairs processed: 32,251,606 bp Total written (filtered): 2,430,490 bp (7.5%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 9089 times. No. of allowed errors: 0-4 bp: 0; 5-9 bp: 1; 10-14 bp: 2; 15-19 bp: 3; 20 bp: 4 Overview of removed sequences length count expect max.err error counts 17 2 0.0 3 0 0 0 2 18 3 0.0 3 0 0 1 1 1 19 117 0.0 3 0 115 1 1 20 8522 0.0 4 8419 95 6 0 2 21 13 0.0 4 2 11 22 2 0.0 4 1 0 0 0 1 23 2 0.0 4 0 0 0 2 34 1 0.0 4 0 0 0 0 1 35 1 0.0 4 0 0 0 0 1 41 1 0.0 4 0 0 0 0 1 45 1 0.0 4 0 0 0 0 1 47 1 0.0 4 0 0 0 0 1 53 1 0.0 4 0 0 0 0 1 56 1 0.0 4 0 0 0 0 1 58 1 0.0 4 0 0 0 0 1 61 1 0.0 4 0 0 0 0 1 62 1 0.0 4 0 0 0 0 1 64 1 0.0 4 0 0 0 0 1 71 1 0.0 4 0 0 0 0 1 73 1 0.0 4 0 0 0 0 1 74 1 0.0 4 0 0 0 0 1 85 1 0.0 4 0 0 0 0 1 89 2 0.0 4 0 0 0 0 2 90 1 0.0 4 0 0 0 0 1 92 1 0.0 4 0 0 0 0 1 101 1 0.0 4 0 0 0 0 1 105 1 0.0 4 0 0 0 0 1 107 1 0.0 4 0 0 0 0 1 116 1 0.0 4 0 0 0 0 1 118 1 0.0 4 0 1 121 1 0.0 4 0 1 122 2 0.0 4 1 0 0 0 1 123 2 0.0 4 0 0 0 0 2 124 2 0.0 4 0 0 0 0 2 125 351 0.0 4 0 0 0 0 351 126 1 0.0 4 0 0 0 0 1 127 33 0.0 4 0 0 0 0 33 129 1 0.0 4 0 0 0 0 1 137 2 0.0 4 0 0 0 0 2 141 1 0.0 4 0 0 0 0 1 147 1 0.0 4 0 0 0 0 1 149 1 0.0 4 0 0 0 0 1 174 1 0.0 4 0 0 0 0 1 226 5 0.0 4 0 0 0 0 5 This is cutadapt 1.11 with Python 2.7.12 Command line parameters: -a CTGSTGCVYCCCRTAGG - Trimming 1 adapter with at most 10.0% errors in single-end mode ... Finished in 0.31 s (34 us/read; 1.75 M reads/minute). === Summary === Total reads processed: 9,059 Reads with adapters: 388 (4.3%) Reads written (passing filters): 9,059 (100.0%) Total basepairs processed: 2,430,490 bp Total written (filtered): 2,412,469 bp (99.3%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 388 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 5.4% C: 2.3% G: 90.5% T: 1.8% none/other: 0.0% WARNING: The adapter is preceded by "G" extremely often. The provided adapter sequence may be incomplete. To fix the problem, add "G" to the beginning of the adapter sequence. Overview of removed sequences length count expect max.err error counts 3 1 141.5 0 1 4 1 35.4 0 1 5 1 8.8 0 1 10 41 0.0 1 0 41 11 285 0.0 1 1 284 12 1 0.0 1 0 1 13 1 0.0 1 0 1 14 1 0.0 1 0 1 48 1 0.0 1 1 190 1 0.0 1 1 259 17 0.0 1 15 2 260 1 0.0 1 1 261 1 0.0 1 1 264 30 0.0 1 29 1 265 2 0.0 1 2 271 3 0.0 1 3 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.