This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TAATGA -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 70.95 s (26 us/read; 2.29 M reads/minute). === Summary === Total reads processed: 2,708,680 Reads with adapters: 200,318 (7.4%) Reads that were too short: 67,493 (2.5%) Reads written (passing filters): 132,825 (4.9%) Total basepairs processed: 815,312,680 bp Total written (filtered): 24,745,191 bp (3.0%) === Adapter 1 === Sequence: TAATGA; Type: regular 5'; Length: 6; Trimmed: 200318 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 168 661.3 0 168 7 6354 661.3 0 6354 8 6009 661.3 0 6009 9 50 661.3 0 50 10 33 661.3 0 33 11 44 661.3 0 44 12 45 661.3 0 45 13 39 661.3 0 39 14 30 661.3 0 30 15 32 661.3 0 32 16 30 661.3 0 30 17 45 661.3 0 45 18 32 661.3 0 32 19 38 661.3 0 38 20 40 661.3 0 40 21 35 661.3 0 35 22 27 661.3 0 27 23 56 661.3 0 56 24 37 661.3 0 37 25 49 661.3 0 49 26 51 661.3 0 51 27 98 661.3 0 98 28 123 661.3 0 123 29 2108 661.3 0 2108 30 271 661.3 0 271 31 74 661.3 0 74 32 47 661.3 0 47 33 30 661.3 0 30 34 59 661.3 0 59 35 47 661.3 0 47 36 49 661.3 0 49 37 57 661.3 0 57 38 39 661.3 0 39 39 49 661.3 0 49 40 37 661.3 0 37 41 30 661.3 0 30 42 56 661.3 0 56 43 56 661.3 0 56 44 40 661.3 0 40 45 31 661.3 0 31 46 55 661.3 0 55 47 37 661.3 0 37 48 35 661.3 0 35 49 47 661.3 0 47 50 42 661.3 0 42 51 31 661.3 0 31 52 48 661.3 0 48 53 50 661.3 0 50 54 44 661.3 0 44 55 42 661.3 0 42 56 36 661.3 0 36 57 66 661.3 0 66 58 45 661.3 0 45 59 41 661.3 0 41 60 51 661.3 0 51 61 60 661.3 0 60 62 48 661.3 0 48 63 38 661.3 0 38 64 38 661.3 0 38 65 44 661.3 0 44 66 56 661.3 0 56 67 62 661.3 0 62 68 82 661.3 0 82 69 107 661.3 0 107 70 1253 661.3 0 1253 71 661 661.3 0 661 72 1068 661.3 0 1068 73 109 661.3 0 109 74 63 661.3 0 63 75 88 661.3 0 88 76 357 661.3 0 357 77 145 661.3 0 145 78 341 661.3 0 341 79 524 661.3 0 524 80 252 661.3 0 252 81 868 661.3 0 868 82 859 661.3 0 859 83 701 661.3 0 701 84 346 661.3 0 346 85 556 661.3 0 556 86 262 661.3 0 262 87 215 661.3 0 215 88 156 661.3 0 156 89 242 661.3 0 242 90 195 661.3 0 195 91 272 661.3 0 272 92 371 661.3 0 371 93 400 661.3 0 400 94 362 661.3 0 362 95 260 661.3 0 260 96 279 661.3 0 279 97 224 661.3 0 224 98 343 661.3 0 343 99 954 661.3 0 954 100 511 661.3 0 511 101 188 661.3 0 188 102 368 661.3 0 368 103 251 661.3 0 251 104 128 661.3 0 128 105 87 661.3 0 87 106 147 661.3 0 147 107 578 661.3 0 578 108 364 661.3 0 364 109 323 661.3 0 323 110 405 661.3 0 405 111 824 661.3 0 824 112 393 661.3 0 393 113 499 661.3 0 499 114 759 661.3 0 759 115 721 661.3 0 721 116 675 661.3 0 675 117 638 661.3 0 638 118 588 661.3 0 588 119 661 661.3 0 661 120 583 661.3 0 583 121 583 661.3 0 583 122 658 661.3 0 658 123 856 661.3 0 856 124 8415 661.3 0 8415 125 25828 661.3 0 25828 126 22261 661.3 0 22261 127 615 661.3 0 615 128 473 661.3 0 473 129 684 661.3 0 684 130 584 661.3 0 584 131 477 661.3 0 477 132 300 661.3 0 300 133 390 661.3 0 390 134 332 661.3 0 332 135 410 661.3 0 410 136 445 661.3 0 445 137 398 661.3 0 398 138 351 661.3 0 351 139 560 661.3 0 560 140 668 661.3 0 668 141 419 661.3 0 419 142 347 661.3 0 347 143 306 661.3 0 306 144 400 661.3 0 400 145 374 661.3 0 374 146 395 661.3 0 395 147 339 661.3 0 339 148 430 661.3 0 430 149 1116 661.3 0 1116 150 1506 661.3 0 1506 151 2818 661.3 0 2818 152 607 661.3 0 607 153 320 661.3 0 320 154 360 661.3 0 360 155 339 661.3 0 339 156 447 661.3 0 447 157 402 661.3 0 402 158 349 661.3 0 349 159 369 661.3 0 369 160 304 661.3 0 304 161 334 661.3 0 334 162 363 661.3 0 363 163 422 661.3 0 422 164 489 661.3 0 489 165 611 661.3 0 611 166 399 661.3 0 399 167 329 661.3 0 329 168 291 661.3 0 291 169 462 661.3 0 462 170 351 661.3 0 351 171 289 661.3 0 289 172 265 661.3 0 265 173 316 661.3 0 316 174 237 661.3 0 237 175 264 661.3 0 264 176 312 661.3 0 312 177 370 661.3 0 370 178 390 661.3 0 390 179 356 661.3 0 356 180 299 661.3 0 299 181 503 661.3 0 503 182 476 661.3 0 476 183 437 661.3 0 437 184 374 661.3 0 374 185 450 661.3 0 450 186 387 661.3 0 387 187 270 661.3 0 270 188 379 661.3 0 379 189 380 661.3 0 380 190 438 661.3 0 438 191 372 661.3 0 372 192 346 661.3 0 346 193 382 661.3 0 382 194 260 661.3 0 260 195 301 661.3 0 301 196 568 661.3 0 568 197 652 661.3 0 652 198 472 661.3 0 472 199 251 661.3 0 251 200 180 661.3 0 180 201 396 661.3 0 396 202 502 661.3 0 502 203 432 661.3 0 432 204 382 661.3 0 382 205 485 661.3 0 485 206 469 661.3 0 469 207 473 661.3 0 473 208 459 661.3 0 459 209 537 661.3 0 537 210 464 661.3 0 464 211 444 661.3 0 444 212 457 661.3 0 457 213 443 661.3 0 443 214 459 661.3 0 459 215 463 661.3 0 463 216 451 661.3 0 451 217 448 661.3 0 448 218 468 661.3 0 468 219 400 661.3 0 400 220 416 661.3 0 416 221 484 661.3 0 484 222 651 661.3 0 651 223 967 661.3 0 967 224 1193 661.3 0 1193 225 9025 661.3 0 9025 226 2770 661.3 0 2770 227 11345 661.3 0 11345 228 429 661.3 0 429 229 289 661.3 0 289 230 371 661.3 0 371 231 375 661.3 0 375 232 402 661.3 0 402 233 456 661.3 0 456 234 677 661.3 0 677 235 762 661.3 0 762 236 455 661.3 0 455 237 509 661.3 0 509 238 554 661.3 0 554 239 388 661.3 0 388 240 327 661.3 0 327 241 446 661.3 0 446 242 527 661.3 0 527 243 408 661.3 0 408 244 409 661.3 0 409 245 485 661.3 0 485 246 452 661.3 0 452 247 354 661.3 0 354 248 259 661.3 0 259 249 229 661.3 0 229 250 350 661.3 0 350 251 561 661.3 0 561 252 437 661.3 0 437 253 266 661.3 0 266 254 312 661.3 0 312 255 335 661.3 0 335 256 441 661.3 0 441 257 430 661.3 0 430 258 317 661.3 0 317 259 314 661.3 0 314 260 455 661.3 0 455 261 517 661.3 0 517 262 545 661.3 0 545 263 441 661.3 0 441 264 394 661.3 0 394 265 314 661.3 0 314 266 461 661.3 0 461 267 463 661.3 0 463 268 374 661.3 0 374 269 299 661.3 0 299 270 546 661.3 0 546 271 560 661.3 0 560 272 486 661.3 0 486 273 658 661.3 0 658 274 682 661.3 0 682 275 268 661.3 0 268 276 337 661.3 0 337 277 626 661.3 0 626 278 455 661.3 0 455 279 322 661.3 0 322 280 290 661.3 0 290 281 298 661.3 0 298 282 378 661.3 0 378 283 440 661.3 0 440 284 404 661.3 0 404 285 540 661.3 0 540 286 343 661.3 0 343 287 209 661.3 0 209 288 386 661.3 0 386 289 424 661.3 0 424 290 463 661.3 0 463 291 571 661.3 0 571 292 392 661.3 0 392 293 383 661.3 0 383 294 515 661.3 0 515 295 531 661.3 0 531 296 659 661.3 0 659 297 651 661.3 0 651 298 685 661.3 0 685 299 600 661.3 0 600 300 329 661.3 0 329 301 386 661.3 0 386 Finished in 5.20 s (39 us/read; 1.53 M reads/minute). === Summary === Total reads processed: 132,825 Reads with adapters: 6,323 (4.8%) Reads that were too short: 60 (0.0%) Reads written (passing filters): 6,263 (4.7%) Total basepairs processed: 24,745,191 bp Total written (filtered): 1,701,301 bp (6.9%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 6323 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 19 19 0.0 3 0 16 1 0 2 20 2007 0.0 4 1920 78 6 1 2 21 4125 0.0 4 3914 192 15 1 3 22 15 0.0 4 2 8 0 4 1 23 1 0.0 4 0 0 0 0 1 24 3 0.0 4 1 0 0 2 25 53 0.0 4 0 0 0 0 53 26 4 0.0 4 0 0 0 0 4 27 14 0.0 4 13 0 1 30 1 0.0 4 0 0 0 0 1 33 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 44 1 0.0 4 0 0 0 0 1 53 1 0.0 4 0 0 0 0 1 55 1 0.0 4 0 0 0 0 1 61 1 0.0 4 0 0 0 0 1 64 1 0.0 4 0 0 0 0 1 68 1 0.0 4 0 0 0 0 1 71 1 0.0 4 0 0 0 0 1 78 1 0.0 4 0 0 0 0 1 79 2 0.0 4 0 0 0 0 2 90 1 0.0 4 0 0 0 0 1 95 1 0.0 4 0 0 0 0 1 102 1 0.0 4 0 0 0 0 1 103 1 0.0 4 0 0 0 0 1 104 1 0.0 4 0 0 0 0 1 111 1 0.0 4 1 112 1 0.0 4 0 0 0 0 1 121 1 0.0 4 0 0 0 0 1 124 2 0.0 4 0 0 0 0 2 125 1 0.0 4 0 0 0 0 1 127 9 0.0 4 0 0 0 0 9 128 1 0.0 4 0 0 0 0 1 131 1 0.0 4 0 0 0 0 1 134 1 0.0 4 0 0 0 0 1 136 1 0.0 4 0 0 0 0 1 140 3 0.0 4 0 0 0 0 3 142 4 0.0 4 0 0 0 0 4 143 1 0.0 4 0 0 0 0 1 146 1 0.0 4 0 0 0 0 1 153 1 0.0 4 0 0 0 0 1 154 1 0.0 4 0 0 0 0 1 155 1 0.0 4 0 0 0 0 1 156 1 0.0 4 0 0 0 0 1 157 1 0.0 4 0 0 0 0 1 158 1 0.0 4 0 0 0 0 1 160 2 0.0 4 0 0 0 0 2 162 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 1 171 3 0.0 4 0 0 0 0 3 172 6 0.0 4 0 0 0 0 6 173 2 0.0 4 0 0 0 1 1 174 2 0.0 4 0 0 0 0 2 175 2 0.0 4 0 0 0 0 2 177 1 0.0 4 0 0 0 0 1 178 1 0.0 4 0 0 0 0 1 225 1 0.0 4 0 0 0 0 1 228 1 0.0 4 0 0 0 0 1 249 1 0.0 4 0 0 0 0 1 260 1 0.0 4 0 0 0 0 1 262 1 0.0 4 0 0 0 0 1 277 1 0.0 4 0 0 0 0 1 294 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 0.22 s (35 us/read; 1.71 M reads/minute). === Summary === Total reads processed: 6,263 Reads with adapters: 544 (8.7%) Reads written (passing filters): 6,263 (100.0%) Total basepairs processed: 1,701,301 bp Total written (filtered): 1,686,274 bp (99.1%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 544 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 5.3% C: 3.7% G: 84.6% T: 6.4% 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 4 1 24.5 0 1 8 1 0.1 0 1 9 92 0.0 0 13 79 10 98 0.0 1 3 95 11 311 0.0 1 3 308 150 5 0.0 1 4 1 151 1 0.0 1 1 208 1 0.0 1 1 209 1 0.0 1 1 218 1 0.0 1 1 228 1 0.0 1 0 1 240 10 0.0 1 10 258 1 0.0 1 1 259 1 0.0 1 1 260 1 0.0 1 1 269 16 0.0 1 15 1 270 1 0.0 1 1 271 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.