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 92.09 s (30 us/read; 2.02 M reads/minute). === Summary === Total reads processed: 3,094,653 Reads with adapters: 276,748 (8.9%) Reads that were too short: 52,585 (1.7%) Reads written (passing filters): 224,163 (7.2%) Total basepairs processed: 931,490,553 bp Total written (filtered): 46,873,363 bp (5.0%) === Adapter 1 === Sequence: AGAGAC; Type: regular 5'; Length: 6; Trimmed: 276748 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 53 755.5 0 53 7 917 755.5 0 917 8 2582 755.5 0 2582 9 8 755.5 0 8 10 34 755.5 0 34 11 56 755.5 0 56 12 24 755.5 0 24 13 40 755.5 0 40 14 33 755.5 0 33 15 72 755.5 0 72 16 22 755.5 0 22 17 10 755.5 0 10 18 30 755.5 0 30 19 29 755.5 0 29 20 16 755.5 0 16 21 51 755.5 0 51 22 12 755.5 0 12 23 21 755.5 0 21 24 28 755.5 0 28 25 55 755.5 0 55 26 88 755.5 0 88 27 129 755.5 0 129 28 6694 755.5 0 6694 29 51 755.5 0 51 30 28 755.5 0 28 31 18 755.5 0 18 32 16 755.5 0 16 33 30 755.5 0 30 34 6 755.5 0 6 35 21 755.5 0 21 36 17 755.5 0 17 37 17 755.5 0 17 38 10 755.5 0 10 39 11 755.5 0 11 40 8 755.5 0 8 41 11 755.5 0 11 42 26 755.5 0 26 43 24 755.5 0 24 44 12 755.5 0 12 45 18 755.5 0 18 46 17 755.5 0 17 47 22 755.5 0 22 48 16 755.5 0 16 49 33 755.5 0 33 50 23 755.5 0 23 51 20 755.5 0 20 52 218 755.5 0 218 53 36 755.5 0 36 54 16 755.5 0 16 55 20 755.5 0 20 56 6 755.5 0 6 57 13 755.5 0 13 58 15 755.5 0 15 59 34 755.5 0 34 60 23 755.5 0 23 61 101 755.5 0 101 62 433 755.5 0 433 63 51 755.5 0 51 64 104 755.5 0 104 65 186 755.5 0 186 66 214 755.5 0 214 67 455 755.5 0 455 68 147 755.5 0 147 69 118 755.5 0 118 70 67 755.5 0 67 71 68 755.5 0 68 72 270 755.5 0 270 73 386 755.5 0 386 74 425 755.5 0 425 75 734 755.5 0 734 76 573 755.5 0 573 77 2290 755.5 0 2290 78 4487 755.5 0 4487 79 120419 755.5 0 120419 80 12089 755.5 0 12089 81 16817 755.5 0 16817 82 328 755.5 0 328 83 481 755.5 0 481 84 728 755.5 0 728 85 492 755.5 0 492 86 601 755.5 0 601 87 687 755.5 0 687 88 448 755.5 0 448 89 182 755.5 0 182 90 126 755.5 0 126 91 644 755.5 0 644 92 142 755.5 0 142 93 547 755.5 0 547 94 320 755.5 0 320 95 229 755.5 0 229 96 140 755.5 0 140 97 170 755.5 0 170 98 92 755.5 0 92 99 151 755.5 0 151 100 115 755.5 0 115 101 294 755.5 0 294 102 137 755.5 0 137 103 191 755.5 0 191 104 104 755.5 0 104 105 125 755.5 0 125 106 66 755.5 0 66 107 79 755.5 0 79 108 106 755.5 0 106 109 93 755.5 0 93 110 107 755.5 0 107 111 209 755.5 0 209 112 175 755.5 0 175 113 233 755.5 0 233 114 183 755.5 0 183 115 301 755.5 0 301 116 406 755.5 0 406 117 1299 755.5 0 1299 118 673 755.5 0 673 119 719 755.5 0 719 120 370 755.5 0 370 121 300 755.5 0 300 122 396 755.5 0 396 123 333 755.5 0 333 124 544 755.5 0 544 125 378 755.5 0 378 126 338 755.5 0 338 127 348 755.5 0 348 128 296 755.5 0 296 129 343 755.5 0 343 130 696 755.5 0 696 131 455 755.5 0 455 132 1081 755.5 0 1081 133 347 755.5 0 347 134 423 755.5 0 423 135 402 755.5 0 402 136 366 755.5 0 366 137 381 755.5 0 381 138 420 755.5 0 420 139 390 755.5 0 390 140 312 755.5 0 312 141 436 755.5 0 436 142 424 755.5 0 424 143 435 755.5 0 435 144 366 755.5 0 366 145 384 755.5 0 384 146 582 755.5 0 582 147 392 755.5 0 392 148 456 755.5 0 456 149 624 755.5 0 624 150 486 755.5 0 486 151 463 755.5 0 463 152 795 755.5 0 795 153 597 755.5 0 597 154 535 755.5 0 535 155 476 755.5 0 476 156 578 755.5 0 578 157 566 755.5 0 566 158 533 755.5 0 533 159 572 755.5 0 572 160 449 755.5 0 449 161 539 755.5 0 539 162 524 755.5 0 524 163 541 755.5 0 541 164 390 755.5 0 390 165 411 755.5 0 411 166 381 755.5 0 381 167 495 755.5 0 495 168 572 755.5 0 572 169 409 755.5 0 409 170 662 755.5 0 662 171 362 755.5 0 362 172 766 755.5 0 766 173 302 755.5 0 302 174 625 755.5 0 625 175 314 755.5 0 314 176 495 755.5 0 495 177 407 755.5 0 407 178 553 755.5 0 553 179 533 755.5 0 533 180 539 755.5 0 539 181 554 755.5 0 554 182 461 755.5 0 461 183 475 755.5 0 475 184 528 755.5 0 528 185 441 755.5 0 441 186 543 755.5 0 543 187 551 755.5 0 551 188 1168 755.5 0 1168 189 430 755.5 0 430 190 473 755.5 0 473 191 371 755.5 0 371 192 475 755.5 0 475 193 314 755.5 0 314 194 453 755.5 0 453 195 410 755.5 0 410 196 493 755.5 0 493 197 372 755.5 0 372 198 786 755.5 0 786 199 662 755.5 0 662 200 547 755.5 0 547 201 371 755.5 0 371 202 383 755.5 0 383 203 353 755.5 0 353 204 481 755.5 0 481 205 400 755.5 0 400 206 423 755.5 0 423 207 480 755.5 0 480 208 428 755.5 0 428 209 299 755.5 0 299 210 348 755.5 0 348 211 421 755.5 0 421 212 489 755.5 0 489 213 664 755.5 0 664 214 614 755.5 0 614 215 583 755.5 0 583 216 625 755.5 0 625 217 497 755.5 0 497 218 467 755.5 0 467 219 413 755.5 0 413 220 579 755.5 0 579 221 700 755.5 0 700 222 712 755.5 0 712 223 600 755.5 0 600 224 536 755.5 0 536 225 449 755.5 0 449 226 411 755.5 0 411 227 377 755.5 0 377 228 879 755.5 0 879 229 393 755.5 0 393 230 321 755.5 0 321 231 386 755.5 0 386 232 572 755.5 0 572 233 430 755.5 0 430 234 481 755.5 0 481 235 434 755.5 0 434 236 482 755.5 0 482 237 351 755.5 0 351 238 610 755.5 0 610 239 910 755.5 0 910 240 713 755.5 0 713 241 761 755.5 0 761 242 683 755.5 0 683 243 658 755.5 0 658 244 426 755.5 0 426 245 446 755.5 0 446 246 288 755.5 0 288 247 401 755.5 0 401 248 600 755.5 0 600 249 703 755.5 0 703 250 653 755.5 0 653 251 1070 755.5 0 1070 252 870 755.5 0 870 253 425 755.5 0 425 254 264 755.5 0 264 255 194 755.5 0 194 256 189 755.5 0 189 257 185 755.5 0 185 258 244 755.5 0 244 259 329 755.5 0 329 260 427 755.5 0 427 261 479 755.5 0 479 262 655 755.5 0 655 263 531 755.5 0 531 264 468 755.5 0 468 265 323 755.5 0 323 266 320 755.5 0 320 267 325 755.5 0 325 268 413 755.5 0 413 269 459 755.5 0 459 270 478 755.5 0 478 271 674 755.5 0 674 272 670 755.5 0 670 273 524 755.5 0 524 274 392 755.5 0 392 275 516 755.5 0 516 276 650 755.5 0 650 277 897 755.5 0 897 278 685 755.5 0 685 279 459 755.5 0 459 280 604 755.5 0 604 281 505 755.5 0 505 282 467 755.5 0 467 283 502 755.5 0 502 284 427 755.5 0 427 285 322 755.5 0 322 286 329 755.5 0 329 287 424 755.5 0 424 288 545 755.5 0 545 289 743 755.5 0 743 290 1517 755.5 0 1517 291 978 755.5 0 978 292 1177 755.5 0 1177 293 587 755.5 0 587 294 497 755.5 0 497 295 515 755.5 0 515 296 706 755.5 0 706 297 660 755.5 0 660 298 710 755.5 0 710 299 460 755.5 0 460 300 370 755.5 0 370 301 112 755.5 0 112 Finished in 10.38 s (46 us/read; 1.30 M reads/minute). === Summary === Total reads processed: 224,163 Reads with adapters: 3,537 (1.6%) Reads that were too short: 24 (0.0%) Reads written (passing filters): 3,513 (1.6%) Total basepairs processed: 46,873,363 bp Total written (filtered): 956,751 bp (2.0%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 3537 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 18 2 0.0 3 0 0 2 19 31 0.0 3 0 24 5 1 1 20 2611 0.0 4 2555 46 1 1 8 21 15 0.0 4 1 13 1 22 837 0.0 4 818 15 3 1 23 4 0.0 4 1 1 0 2 24 1 0.0 4 0 0 0 0 1 25 1 0.0 4 0 0 0 1 28 1 0.0 4 0 0 0 0 1 32 1 0.0 4 0 0 0 0 1 37 1 0.0 4 0 0 0 0 1 40 1 0.0 4 0 0 0 0 1 41 1 0.0 4 0 0 0 0 1 43 1 0.0 4 1 50 1 0.0 4 0 0 0 0 1 52 1 0.0 4 0 0 0 0 1 55 2 0.0 4 0 0 0 0 2 57 2 0.0 4 0 0 0 1 1 65 1 0.0 4 0 0 0 0 1 72 2 0.0 4 0 0 0 0 2 75 1 0.0 4 0 0 0 1 79 1 0.0 4 0 0 0 0 1 89 1 0.0 4 0 0 0 0 1 95 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 1 119 1 0.0 4 0 0 0 0 1 126 1 0.0 4 0 0 0 0 1 138 1 0.0 4 0 0 0 0 1 142 1 0.0 4 0 0 0 0 1 145 1 0.0 4 0 0 0 0 1 159 1 0.0 4 0 0 0 0 1 160 1 0.0 4 0 0 0 0 1 165 1 0.0 4 0 0 0 0 1 166 1 0.0 4 0 0 0 0 1 186 1 0.0 4 0 0 0 0 1 187 1 0.0 4 0 0 0 0 1 206 1 0.0 4 0 0 0 1 218 1 0.0 4 0 0 0 1 263 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 0.13 s (37 us/read; 1.62 M reads/minute). === Summary === Total reads processed: 3,513 Reads with adapters: 2,657 (75.6%) Reads written (passing filters): 3,513 (100.0%) Total basepairs processed: 956,751 bp Total written (filtered): 282,970 bp (29.6%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 2657 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 85.2% C: 12.5% G: 2.1% T: 0.2% none/other: 0.0% WARNING: The adapter is preceded by "A" extremely often. The provided adapter sequence may be incomplete. To fix the problem, add "A" to the beginning of the adapter sequence. Overview of removed sequences length count expect max.err error counts 9 10 0.0 0 0 10 10 7 0.0 1 0 7 11 46 0.0 1 0 46 231 6 0.0 1 6 236 1 0.0 1 1 256 1 0.0 1 1 257 1 0.0 1 1 258 6 0.0 1 6 259 2153 0.0 1 2086 67 260 66 0.0 1 63 3 261 26 0.0 1 23 3 262 2 0.0 1 2 263 317 0.0 1 287 30 264 14 0.0 1 12 2 268 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.