This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AGAGAC -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 70.97 s (26 us/read; 2.29 M reads/minute). === Summary === Total reads processed: 2,708,680 Reads with adapters: 311,158 (11.5%) Reads that were too short: 59,912 (2.2%) Reads written (passing filters): 251,246 (9.3%) Total basepairs processed: 815,312,680 bp Total written (filtered): 52,615,640 bp (6.5%) === Adapter 1 === Sequence: AGAGAC; Type: regular 5'; Length: 6; Trimmed: 311158 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 416 661.3 0 416 7 18530 661.3 0 18530 8 4516 661.3 0 4516 9 23 661.3 0 23 10 449 661.3 0 449 11 27 661.3 0 27 12 39 661.3 0 39 13 27 661.3 0 27 14 46 661.3 0 46 15 16 661.3 0 16 16 9 661.3 0 9 17 13 661.3 0 13 18 12 661.3 0 12 19 7 661.3 0 7 20 16 661.3 0 16 21 12 661.3 0 12 22 23 661.3 0 23 23 10 661.3 0 10 24 16 661.3 0 16 25 13 661.3 0 13 26 9 661.3 0 9 27 16 661.3 0 16 28 44 661.3 0 44 29 27 661.3 0 27 30 16 661.3 0 16 31 16 661.3 0 16 32 35 661.3 0 35 33 27 661.3 0 27 34 20 661.3 0 20 35 24 661.3 0 24 36 30 661.3 0 30 37 25 661.3 0 25 38 26 661.3 0 26 39 17 661.3 0 17 40 17 661.3 0 17 41 7 661.3 0 7 42 20 661.3 0 20 43 22 661.3 0 22 44 23 661.3 0 23 45 23 661.3 0 23 46 25 661.3 0 25 47 28 661.3 0 28 48 30 661.3 0 30 49 46 661.3 0 46 50 24 661.3 0 24 51 34 661.3 0 34 52 207 661.3 0 207 53 89 661.3 0 89 54 58 661.3 0 58 55 41 661.3 0 41 56 22 661.3 0 22 57 126 661.3 0 126 58 7 661.3 0 7 59 59 661.3 0 59 60 41 661.3 0 41 61 120 661.3 0 120 62 378 661.3 0 378 63 89 661.3 0 89 64 242 661.3 0 242 65 147 661.3 0 147 66 382 661.3 0 382 67 535 661.3 0 535 68 112 661.3 0 112 69 127 661.3 0 127 70 76 661.3 0 76 71 242 661.3 0 242 72 277 661.3 0 277 73 449 661.3 0 449 74 629 661.3 0 629 75 835 661.3 0 835 76 1231 661.3 0 1231 77 2227 661.3 0 2227 78 4610 661.3 0 4610 79 82641 661.3 0 82641 80 14954 661.3 0 14954 81 44672 661.3 0 44672 82 755 661.3 0 755 83 536 661.3 0 536 84 488 661.3 0 488 85 411 661.3 0 411 86 766 661.3 0 766 87 611 661.3 0 611 88 478 661.3 0 478 89 251 661.3 0 251 90 604 661.3 0 604 91 342 661.3 0 342 92 406 661.3 0 406 93 659 661.3 0 659 94 311 661.3 0 311 95 453 661.3 0 453 96 325 661.3 0 325 97 176 661.3 0 176 98 177 661.3 0 177 99 261 661.3 0 261 100 217 661.3 0 217 101 382 661.3 0 382 102 303 661.3 0 303 103 166 661.3 0 166 104 129 661.3 0 129 105 83 661.3 0 83 106 89 661.3 0 89 107 83 661.3 0 83 108 100 661.3 0 100 109 197 661.3 0 197 110 200 661.3 0 200 111 323 661.3 0 323 112 244 661.3 0 244 113 297 661.3 0 297 114 267 661.3 0 267 115 374 661.3 0 374 116 656 661.3 0 656 117 1009 661.3 0 1009 118 883 661.3 0 883 119 480 661.3 0 480 120 444 661.3 0 444 121 543 661.3 0 543 122 487 661.3 0 487 123 538 661.3 0 538 124 467 661.3 0 467 125 429 661.3 0 429 126 402 661.3 0 402 127 349 661.3 0 349 128 378 661.3 0 378 129 521 661.3 0 521 130 788 661.3 0 788 131 624 661.3 0 624 132 735 661.3 0 735 133 461 661.3 0 461 134 510 661.3 0 510 135 416 661.3 0 416 136 481 661.3 0 481 137 607 661.3 0 607 138 513 661.3 0 513 139 476 661.3 0 476 140 526 661.3 0 526 141 552 661.3 0 552 142 730 661.3 0 730 143 603 661.3 0 603 144 545 661.3 0 545 145 623 661.3 0 623 146 669 661.3 0 669 147 787 661.3 0 787 148 649 661.3 0 649 149 621 661.3 0 621 150 902 661.3 0 902 151 5924 661.3 0 5924 152 2337 661.3 0 2337 153 617 661.3 0 617 154 580 661.3 0 580 155 523 661.3 0 523 156 665 661.3 0 665 157 673 661.3 0 673 158 651 661.3 0 651 159 560 661.3 0 560 160 547 661.3 0 547 161 611 661.3 0 611 162 518 661.3 0 518 163 519 661.3 0 519 164 391 661.3 0 391 165 464 661.3 0 464 166 543 661.3 0 543 167 761 661.3 0 761 168 601 661.3 0 601 169 634 661.3 0 634 170 1171 661.3 0 1171 171 868 661.3 0 868 172 1182 661.3 0 1182 173 660 661.3 0 660 174 681 661.3 0 681 175 529 661.3 0 529 176 609 661.3 0 609 177 571 661.3 0 571 178 646 661.3 0 646 179 605 661.3 0 605 180 478 661.3 0 478 181 552 661.3 0 552 182 600 661.3 0 600 183 555 661.3 0 555 184 588 661.3 0 588 185 534 661.3 0 534 186 708 661.3 0 708 187 925 661.3 0 925 188 778 661.3 0 778 189 544 661.3 0 544 190 462 661.3 0 462 191 537 661.3 0 537 192 556 661.3 0 556 193 468 661.3 0 468 194 702 661.3 0 702 195 509 661.3 0 509 196 692 661.3 0 692 197 466 661.3 0 466 198 810 661.3 0 810 199 751 661.3 0 751 200 535 661.3 0 535 201 511 661.3 0 511 202 411 661.3 0 411 203 516 661.3 0 516 204 559 661.3 0 559 205 560 661.3 0 560 206 476 661.3 0 476 207 466 661.3 0 466 208 458 661.3 0 458 209 519 661.3 0 519 210 491 661.3 0 491 211 535 661.3 0 535 212 647 661.3 0 647 213 653 661.3 0 653 214 589 661.3 0 589 215 561 661.3 0 561 216 628 661.3 0 628 217 745 661.3 0 745 218 606 661.3 0 606 219 674 661.3 0 674 220 641 661.3 0 641 221 654 661.3 0 654 222 668 661.3 0 668 223 579 661.3 0 579 224 618 661.3 0 618 225 517 661.3 0 517 226 579 661.3 0 579 227 578 661.3 0 578 228 766 661.3 0 766 229 488 661.3 0 488 230 519 661.3 0 519 231 544 661.3 0 544 232 547 661.3 0 547 233 526 661.3 0 526 234 517 661.3 0 517 235 400 661.3 0 400 236 573 661.3 0 573 237 488 661.3 0 488 238 656 661.3 0 656 239 639 661.3 0 639 240 786 661.3 0 786 241 662 661.3 0 662 242 617 661.3 0 617 243 592 661.3 0 592 244 528 661.3 0 528 245 524 661.3 0 524 246 416 661.3 0 416 247 515 661.3 0 515 248 543 661.3 0 543 249 703 661.3 0 703 250 681 661.3 0 681 251 985 661.3 0 985 252 591 661.3 0 591 253 641 661.3 0 641 254 402 661.3 0 402 255 419 661.3 0 419 256 367 661.3 0 367 257 356 661.3 0 356 258 310 661.3 0 310 259 331 661.3 0 331 260 470 661.3 0 470 261 510 661.3 0 510 262 559 661.3 0 559 263 696 661.3 0 696 264 609 661.3 0 609 265 453 661.3 0 453 266 447 661.3 0 447 267 456 661.3 0 456 268 506 661.3 0 506 269 626 661.3 0 626 270 499 661.3 0 499 271 721 661.3 0 721 272 641 661.3 0 641 273 679 661.3 0 679 274 526 661.3 0 526 275 596 661.3 0 596 276 674 661.3 0 674 277 653 661.3 0 653 278 551 661.3 0 551 279 515 661.3 0 515 280 641 661.3 0 641 281 639 661.3 0 639 282 547 661.3 0 547 283 586 661.3 0 586 284 500 661.3 0 500 285 527 661.3 0 527 286 437 661.3 0 437 287 557 661.3 0 557 288 769 661.3 0 769 289 762 661.3 0 762 290 1127 661.3 0 1127 291 1098 661.3 0 1098 292 932 661.3 0 932 293 698 661.3 0 698 294 588 661.3 0 588 295 668 661.3 0 668 296 850 661.3 0 850 297 1027 661.3 0 1027 298 1119 661.3 0 1119 299 802 661.3 0 802 300 770 661.3 0 770 301 321 661.3 0 321 Finished in 10.00 s (40 us/read; 1.51 M reads/minute). === Summary === Total reads processed: 251,246 Reads with adapters: 4,711 (1.9%) Reads that were too short: 50 (0.0%) Reads written (passing filters): 4,661 (1.9%) Total basepairs processed: 52,615,640 bp Total written (filtered): 1,263,364 bp (2.4%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 4711 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 16 1 0.0 3 0 0 0 0 1 17 1 0.0 3 0 0 0 1 18 3 0.0 3 0 0 2 0 1 19 54 0.0 3 0 49 1 0 4 20 4498 0.0 4 4406 74 13 2 3 21 9 0.0 4 0 9 22 3 0.0 4 0 0 1 0 2 23 13 0.0 4 0 0 0 8 5 24 1 0.0 4 0 0 0 0 1 25 2 0.0 4 0 0 0 0 2 26 1 0.0 4 0 0 0 0 1 43 3 0.0 4 0 0 0 0 3 44 1 0.0 4 0 0 0 0 1 45 1 0.0 4 0 0 0 0 1 48 1 0.0 4 0 0 0 0 1 53 1 0.0 4 0 0 0 0 1 54 1 0.0 4 0 0 0 0 1 55 1 0.0 4 0 0 0 0 1 59 2 0.0 4 0 0 0 0 2 63 1 0.0 4 0 0 0 1 65 1 0.0 4 0 0 0 0 1 68 1 0.0 4 0 0 0 0 1 73 2 0.0 4 0 0 0 0 2 75 1 0.0 4 0 0 0 0 1 77 2 0.0 4 0 0 0 1 1 80 1 0.0 4 0 0 0 0 1 81 2 0.0 4 0 0 0 0 2 82 1 0.0 4 0 0 0 0 1 83 1 0.0 4 0 0 0 0 1 84 1 0.0 4 0 0 0 0 1 91 1 0.0 4 0 0 0 0 1 96 1 0.0 4 0 0 0 0 1 101 1 0.0 4 0 0 0 0 1 112 1 0.0 4 0 0 0 0 1 113 1 0.0 4 0 0 0 0 1 117 1 0.0 4 0 0 0 0 1 118 1 0.0 4 0 0 0 0 1 121 1 0.0 4 0 0 0 0 1 125 2 0.0 4 0 0 0 0 2 127 63 0.0 4 0 0 0 0 63 128 1 0.0 4 0 0 0 0 1 132 1 0.0 4 0 0 0 0 1 134 1 0.0 4 0 0 0 0 1 137 1 0.0 4 0 0 0 0 1 145 1 0.0 4 0 0 0 0 1 153 1 0.0 4 0 0 0 0 1 158 1 0.0 4 0 0 0 0 1 170 1 0.0 4 0 0 0 0 1 176 1 0.0 4 0 0 0 0 1 181 2 0.0 4 0 0 0 0 2 193 1 0.0 4 0 0 0 0 1 196 1 0.0 4 0 0 0 0 1 201 1 0.0 4 0 0 0 0 1 213 1 0.0 4 0 0 0 0 1 228 5 0.0 4 0 0 0 0 5 257 1 0.0 4 0 0 0 0 1 259 1 0.0 4 0 0 0 0 1 262 1 0.0 4 0 0 0 0 1 263 1 0.0 4 0 0 0 0 1 282 2 0.0 4 0 0 0 0 2 291 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 0.15 s (32 us/read; 1.86 M reads/minute). === Summary === Total reads processed: 4,661 Reads with adapters: 1,363 (29.2%) Reads written (passing filters): 4,661 (100.0%) Total basepairs processed: 1,263,364 bp Total written (filtered): 987,089 bp (78.1%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 1363 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 44.8% C: 0.7% G: 23.0% T: 31.1% none/other: 0.4% Overview of removed sequences length count expect max.err error counts 4 1 18.2 0 1 10 11 0.0 1 0 11 11 316 0.0 1 0 316 134 1 0.0 1 1 151 1 0.0 1 1 209 2 0.0 1 1 1 253 1 0.0 1 1 256 1 0.0 1 0 1 258 2 0.0 1 2 259 411 0.0 1 391 20 260 170 0.0 1 162 8 261 12 0.0 1 12 265 4 0.0 1 4 266 1 0.0 1 1 269 2 0.0 1 1 1 270 408 0.0 1 386 22 271 16 0.0 1 16 272 3 0.0 1 3