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 99.40 s (32 us/read; 1.87 M reads/minute). === Summary === Total reads processed: 3,094,653 Reads with adapters: 304,425 (9.8%) Reads that were too short: 113,370 (3.7%) Reads written (passing filters): 191,055 (6.2%) Total basepairs processed: 931,490,553 bp Total written (filtered): 43,210,383 bp (4.6%) === Adapter 1 === Sequence: ACAACC; Type: regular 5'; Length: 6; Trimmed: 304425 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 701 755.5 0 701 7 4912 755.5 0 4912 8 84504 755.5 0 84504 9 187 755.5 0 187 10 173 755.5 0 173 11 6072 755.5 0 6072 12 24 755.5 0 24 13 20 755.5 0 20 14 15 755.5 0 15 15 19 755.5 0 19 16 25 755.5 0 25 17 13 755.5 0 13 18 16 755.5 0 16 19 21 755.5 0 21 20 12 755.5 0 12 21 13 755.5 0 13 22 13 755.5 0 13 23 19 755.5 0 19 24 20 755.5 0 20 25 20 755.5 0 20 26 19 755.5 0 19 27 21 755.5 0 21 28 22 755.5 0 22 29 14 755.5 0 14 30 23 755.5 0 23 31 16 755.5 0 16 32 14 755.5 0 14 33 16 755.5 0 16 34 16 755.5 0 16 35 19 755.5 0 19 36 16 755.5 0 16 37 15 755.5 0 15 38 38 755.5 0 38 39 15 755.5 0 15 40 59 755.5 0 59 41 92 755.5 0 92 42 52 755.5 0 52 43 20 755.5 0 20 44 28 755.5 0 28 45 18 755.5 0 18 46 10 755.5 0 10 47 18 755.5 0 18 48 13 755.5 0 13 49 16 755.5 0 16 50 26 755.5 0 26 51 10 755.5 0 10 52 24 755.5 0 24 53 20 755.5 0 20 54 29 755.5 0 29 55 24 755.5 0 24 56 19 755.5 0 19 57 14 755.5 0 14 58 12 755.5 0 12 59 29 755.5 0 29 60 24 755.5 0 24 61 20 755.5 0 20 62 13 755.5 0 13 63 14 755.5 0 14 64 21 755.5 0 21 65 20 755.5 0 20 66 29 755.5 0 29 67 16 755.5 0 16 68 19 755.5 0 19 69 24 755.5 0 24 70 27 755.5 0 27 71 40 755.5 0 40 72 104 755.5 0 104 73 28 755.5 0 28 74 60 755.5 0 60 75 49 755.5 0 49 76 39 755.5 0 39 77 144 755.5 0 144 78 413 755.5 0 413 79 416 755.5 0 416 80 909 755.5 0 909 81 580 755.5 0 580 82 418 755.5 0 418 83 642 755.5 0 642 84 1511 755.5 0 1511 85 321 755.5 0 321 86 393 755.5 0 393 87 1086 755.5 0 1086 88 2080 755.5 0 2080 89 86 755.5 0 86 90 204 755.5 0 204 91 1925 755.5 0 1925 92 595 755.5 0 595 93 1671 755.5 0 1671 94 327 755.5 0 327 95 417 755.5 0 417 96 153 755.5 0 153 97 248 755.5 0 248 98 331 755.5 0 331 99 273 755.5 0 273 100 207 755.5 0 207 101 619 755.5 0 619 102 212 755.5 0 212 103 442 755.5 0 442 104 1593 755.5 0 1593 105 575 755.5 0 575 106 231 755.5 0 231 107 467 755.5 0 467 108 395 755.5 0 395 109 316 755.5 0 316 110 298 755.5 0 298 111 417 755.5 0 417 112 230 755.5 0 230 113 378 755.5 0 378 114 269 755.5 0 269 115 289 755.5 0 289 116 507 755.5 0 507 117 1241 755.5 0 1241 118 328 755.5 0 328 119 597 755.5 0 597 120 587 755.5 0 587 121 563 755.5 0 563 122 629 755.5 0 629 123 962 755.5 0 962 124 1021 755.5 0 1021 125 811 755.5 0 811 126 802 755.5 0 802 127 312 755.5 0 312 128 371 755.5 0 371 129 649 755.5 0 649 130 1183 755.5 0 1183 131 689 755.5 0 689 132 1503 755.5 0 1503 133 731 755.5 0 731 134 820 755.5 0 820 135 618 755.5 0 618 136 610 755.5 0 610 137 712 755.5 0 712 138 534 755.5 0 534 139 592 755.5 0 592 140 251 755.5 0 251 141 503 755.5 0 503 142 879 755.5 0 879 143 1438 755.5 0 1438 144 473 755.5 0 473 145 635 755.5 0 635 146 642 755.5 0 642 147 723 755.5 0 723 148 679 755.5 0 679 149 906 755.5 0 906 150 973 755.5 0 973 151 780 755.5 0 780 152 992 755.5 0 992 153 724 755.5 0 724 154 795 755.5 0 795 155 1196 755.5 0 1196 156 927 755.5 0 927 157 999 755.5 0 999 158 1119 755.5 0 1119 159 654 755.5 0 654 160 730 755.5 0 730 161 721 755.5 0 721 162 867 755.5 0 867 163 1027 755.5 0 1027 164 747 755.5 0 747 165 625 755.5 0 625 166 650 755.5 0 650 167 782 755.5 0 782 168 711 755.5 0 711 169 765 755.5 0 765 170 1403 755.5 0 1403 171 2075 755.5 0 2075 172 1197 755.5 0 1197 173 523 755.5 0 523 174 636 755.5 0 636 175 558 755.5 0 558 176 744 755.5 0 744 177 721 755.5 0 721 178 1471 755.5 0 1471 179 1471 755.5 0 1471 180 975 755.5 0 975 181 660 755.5 0 660 182 931 755.5 0 931 183 951 755.5 0 951 184 738 755.5 0 738 185 512 755.5 0 512 186 331 755.5 0 331 187 767 755.5 0 767 188 1565 755.5 0 1565 189 1627 755.5 0 1627 190 971 755.5 0 971 191 669 755.5 0 669 192 759 755.5 0 759 193 554 755.5 0 554 194 666 755.5 0 666 195 2141 755.5 0 2141 196 991 755.5 0 991 197 320 755.5 0 320 198 528 755.5 0 528 199 422 755.5 0 422 200 691 755.5 0 691 201 978 755.5 0 978 202 579 755.5 0 579 203 652 755.5 0 652 204 586 755.5 0 586 205 518 755.5 0 518 206 294 755.5 0 294 207 433 755.5 0 433 208 542 755.5 0 542 209 512 755.5 0 512 210 459 755.5 0 459 211 557 755.5 0 557 212 520 755.5 0 520 213 611 755.5 0 611 214 1324 755.5 0 1324 215 1322 755.5 0 1322 216 1150 755.5 0 1150 217 1089 755.5 0 1089 218 721 755.5 0 721 219 417 755.5 0 417 220 454 755.5 0 454 221 1151 755.5 0 1151 222 1045 755.5 0 1045 223 808 755.5 0 808 224 1086 755.5 0 1086 225 1292 755.5 0 1292 226 2620 755.5 0 2620 227 4555 755.5 0 4555 228 1735 755.5 0 1735 229 2386 755.5 0 2386 230 1242 755.5 0 1242 231 2359 755.5 0 2359 232 2194 755.5 0 2194 233 2580 755.5 0 2580 234 543 755.5 0 543 235 448 755.5 0 448 236 524 755.5 0 524 237 547 755.5 0 547 238 526 755.5 0 526 239 569 755.5 0 569 240 605 755.5 0 605 241 712 755.5 0 712 242 856 755.5 0 856 243 696 755.5 0 696 244 627 755.5 0 627 245 586 755.5 0 586 246 425 755.5 0 425 247 438 755.5 0 438 248 1338 755.5 0 1338 249 2801 755.5 0 2801 250 2447 755.5 0 2447 251 1109 755.5 0 1109 252 1078 755.5 0 1078 253 1431 755.5 0 1431 254 886 755.5 0 886 255 704 755.5 0 704 256 454 755.5 0 454 257 616 755.5 0 616 258 552 755.5 0 552 259 774 755.5 0 774 260 756 755.5 0 756 261 1108 755.5 0 1108 262 836 755.5 0 836 263 1136 755.5 0 1136 264 2596 755.5 0 2596 265 1173 755.5 0 1173 266 968 755.5 0 968 267 442 755.5 0 442 268 616 755.5 0 616 269 798 755.5 0 798 270 717 755.5 0 717 271 1166 755.5 0 1166 272 1208 755.5 0 1208 273 1374 755.5 0 1374 274 1762 755.5 0 1762 275 1393 755.5 0 1393 276 1559 755.5 0 1559 277 1254 755.5 0 1254 278 823 755.5 0 823 279 611 755.5 0 611 280 844 755.5 0 844 281 1801 755.5 0 1801 282 1273 755.5 0 1273 283 758 755.5 0 758 284 1174 755.5 0 1174 285 752 755.5 0 752 286 472 755.5 0 472 287 393 755.5 0 393 288 421 755.5 0 421 289 766 755.5 0 766 290 922 755.5 0 922 291 2550 755.5 0 2550 292 4127 755.5 0 4127 293 10565 755.5 0 10565 294 326 755.5 0 326 295 280 755.5 0 280 296 344 755.5 0 344 297 658 755.5 0 658 298 884 755.5 0 884 299 756 755.5 0 756 300 546 755.5 0 546 301 377 755.5 0 377 Finished in 8.84 s (46 us/read; 1.30 M reads/minute). === Summary === Total reads processed: 191,055 Reads with adapters: 87,442 (45.8%) Reads that were too short: 27 (0.0%) Reads written (passing filters): 87,415 (45.8%) Total basepairs processed: 43,210,383 bp Total written (filtered): 23,861,712 bp (55.2%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 87442 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 3 0.0 3 0 0 0 2 1 18 36 0.0 3 0 0 32 4 19 1115 0.0 3 0 1095 13 2 5 20 85950 0.0 4 84580 1319 47 4 21 187 0.0 4 31 154 1 0 1 22 19 0.0 4 1 2 14 0 2 23 37 0.0 4 0 0 0 34 3 24 5 0.0 4 3 0 0 0 2 25 1 0.0 4 0 0 0 0 1 28 1 0.0 4 1 31 1 0.0 4 0 0 0 0 1 35 1 0.0 4 0 0 0 1 40 1 0.0 4 0 0 0 0 1 53 1 0.0 4 0 0 0 0 1 58 1 0.0 4 0 0 0 0 1 59 2 0.0 4 0 0 0 0 2 67 1 0.0 4 0 0 0 0 1 83 1 0.0 4 0 0 0 0 1 85 1 0.0 4 0 0 0 0 1 90 1 0.0 4 0 0 0 0 1 91 1 0.0 4 0 0 0 0 1 92 1 0.0 4 0 0 0 0 1 94 1 0.0 4 0 0 0 0 1 102 1 0.0 4 0 0 0 0 1 108 1 0.0 4 0 0 0 0 1 114 1 0.0 4 0 0 0 0 1 120 1 0.0 4 0 0 0 0 1 125 4 0.0 4 0 0 0 0 4 126 1 0.0 4 0 0 0 0 1 127 52 0.0 4 0 0 0 0 52 151 4 0.0 4 0 0 0 0 4 152 1 0.0 4 0 0 0 0 1 154 1 0.0 4 0 0 0 1 155 1 0.0 4 0 0 0 0 1 159 1 0.0 4 0 0 0 0 1 170 1 0.0 4 0 0 0 0 1 182 1 0.0 4 0 0 0 0 1 210 1 0.0 4 0 0 0 0 1 214 1 0.0 4 0 0 0 0 1 279 1 0.0 4 0 0 0 0 1 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 3.63 s (42 us/read; 1.44 M reads/minute). === Summary === Total reads processed: 87,415 Reads with adapters: 652 (0.7%) Reads written (passing filters): 87,415 (100.0%) Total basepairs processed: 23,861,712 bp Total written (filtered): 23,853,379 bp (100.0%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 652 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.7% C: 1.2% G: 95.9% T: 1.2% 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 4 1365.9 0 4 4 7 341.5 0 7 6 3 21.3 0 3 9 1 0.3 0 0 1 10 120 0.1 1 5 115 11 504 0.0 1 0 504 12 5 0.0 1 0 5 15 2 0.0 1 0 2 151 1 0.0 1 0 1 222 1 0.0 1 1 259 1 0.0 1 1 264 1 0.0 1 1 268 2 0.0 1 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.