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 70.26 s (26 us/read; 2.31 M reads/minute). === Summary === Total reads processed: 2,708,680 Reads with adapters: 271,249 (10.0%) Reads that were too short: 43,599 (1.6%) Reads written (passing filters): 227,650 (8.4%) Total basepairs processed: 815,312,680 bp Total written (filtered): 48,953,574 bp (6.0%) === Adapter 1 === Sequence: AGAGAC; Type: regular 5'; Length: 6; Trimmed: 271249 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 311 661.3 0 311 7 18709 661.3 0 18709 8 4472 661.3 0 4472 9 9 661.3 0 9 10 137 661.3 0 137 11 7 661.3 0 7 12 105 661.3 0 105 13 49 661.3 0 49 14 6 661.3 0 6 15 3 661.3 0 3 16 9 661.3 0 9 17 6 661.3 0 6 18 5 661.3 0 5 19 5 661.3 0 5 20 7 661.3 0 7 21 6 661.3 0 6 22 10 661.3 0 10 23 7 661.3 0 7 24 7 661.3 0 7 25 12 661.3 0 12 26 7 661.3 0 7 27 11 661.3 0 11 28 26 661.3 0 26 29 17 661.3 0 17 30 20 661.3 0 20 31 14 661.3 0 14 32 15 661.3 0 15 33 13 661.3 0 13 34 13 661.3 0 13 35 20 661.3 0 20 36 23 661.3 0 23 37 12 661.3 0 12 38 35 661.3 0 35 39 8 661.3 0 8 40 15 661.3 0 15 41 9 661.3 0 9 42 27 661.3 0 27 43 36 661.3 0 36 44 11 661.3 0 11 45 17 661.3 0 17 46 13 661.3 0 13 47 31 661.3 0 31 48 26 661.3 0 26 49 44 661.3 0 44 50 20 661.3 0 20 51 45 661.3 0 45 52 228 661.3 0 228 53 86 661.3 0 86 54 39 661.3 0 39 55 24 661.3 0 24 56 21 661.3 0 21 57 138 661.3 0 138 58 12 661.3 0 12 59 45 661.3 0 45 60 31 661.3 0 31 61 130 661.3 0 130 62 340 661.3 0 340 63 65 661.3 0 65 64 196 661.3 0 196 65 108 661.3 0 108 66 278 661.3 0 278 67 487 661.3 0 487 68 151 661.3 0 151 69 120 661.3 0 120 70 56 661.3 0 56 71 240 661.3 0 240 72 182 661.3 0 182 73 362 661.3 0 362 74 493 661.3 0 493 75 717 661.3 0 717 76 1006 661.3 0 1006 77 2116 661.3 0 2116 78 5986 661.3 0 5986 79 86761 661.3 0 86761 80 14284 661.3 0 14284 81 44759 661.3 0 44759 82 353 661.3 0 353 83 201 661.3 0 201 84 92 661.3 0 92 85 65 661.3 0 65 86 70 661.3 0 70 87 46 661.3 0 46 88 44 661.3 0 44 89 20 661.3 0 20 90 44 661.3 0 44 91 72 661.3 0 72 92 46 661.3 0 46 93 149 661.3 0 149 94 99 661.3 0 99 95 128 661.3 0 128 96 124 661.3 0 124 97 96 661.3 0 96 98 105 661.3 0 105 99 124 661.3 0 124 100 145 661.3 0 145 101 291 661.3 0 291 102 222 661.3 0 222 103 121 661.3 0 121 104 71 661.3 0 71 105 55 661.3 0 55 106 42 661.3 0 42 107 57 661.3 0 57 108 59 661.3 0 59 109 123 661.3 0 123 110 124 661.3 0 124 111 179 661.3 0 179 112 123 661.3 0 123 113 145 661.3 0 145 114 121 661.3 0 121 115 200 661.3 0 200 116 481 661.3 0 481 117 706 661.3 0 706 118 639 661.3 0 639 119 263 661.3 0 263 120 200 661.3 0 200 121 285 661.3 0 285 122 289 661.3 0 289 123 337 661.3 0 337 124 269 661.3 0 269 125 220 661.3 0 220 126 201 661.3 0 201 127 185 661.3 0 185 128 188 661.3 0 188 129 263 661.3 0 263 130 677 661.3 0 677 131 359 661.3 0 359 132 470 661.3 0 470 133 273 661.3 0 273 134 274 661.3 0 274 135 252 661.3 0 252 136 334 661.3 0 334 137 425 661.3 0 425 138 380 661.3 0 380 139 334 661.3 0 334 140 318 661.3 0 318 141 379 661.3 0 379 142 482 661.3 0 482 143 318 661.3 0 318 144 322 661.3 0 322 145 357 661.3 0 357 146 412 661.3 0 412 147 497 661.3 0 497 148 457 661.3 0 457 149 393 661.3 0 393 150 604 661.3 0 604 151 4329 661.3 0 4329 152 1539 661.3 0 1539 153 347 661.3 0 347 154 335 661.3 0 335 155 324 661.3 0 324 156 437 661.3 0 437 157 346 661.3 0 346 158 426 661.3 0 426 159 375 661.3 0 375 160 357 661.3 0 357 161 424 661.3 0 424 162 291 661.3 0 291 163 352 661.3 0 352 164 230 661.3 0 230 165 316 661.3 0 316 166 398 661.3 0 398 167 531 661.3 0 531 168 434 661.3 0 434 169 380 661.3 0 380 170 1021 661.3 0 1021 171 703 661.3 0 703 172 978 661.3 0 978 173 462 661.3 0 462 174 553 661.3 0 553 175 333 661.3 0 333 176 409 661.3 0 409 177 345 661.3 0 345 178 351 661.3 0 351 179 405 661.3 0 405 180 299 661.3 0 299 181 361 661.3 0 361 182 367 661.3 0 367 183 371 661.3 0 371 184 386 661.3 0 386 185 397 661.3 0 397 186 499 661.3 0 499 187 663 661.3 0 663 188 600 661.3 0 600 189 357 661.3 0 357 190 328 661.3 0 328 191 346 661.3 0 346 192 368 661.3 0 368 193 368 661.3 0 368 194 452 661.3 0 452 195 386 661.3 0 386 196 451 661.3 0 451 197 334 661.3 0 334 198 565 661.3 0 565 199 666 661.3 0 666 200 328 661.3 0 328 201 357 661.3 0 357 202 255 661.3 0 255 203 343 661.3 0 343 204 415 661.3 0 415 205 436 661.3 0 436 206 415 661.3 0 415 207 344 661.3 0 344 208 345 661.3 0 345 209 382 661.3 0 382 210 339 661.3 0 339 211 378 661.3 0 378 212 461 661.3 0 461 213 462 661.3 0 462 214 429 661.3 0 429 215 408 661.3 0 408 216 399 661.3 0 399 217 643 661.3 0 643 218 517 661.3 0 517 219 621 661.3 0 621 220 448 661.3 0 448 221 508 661.3 0 508 222 523 661.3 0 523 223 503 661.3 0 503 224 506 661.3 0 506 225 429 661.3 0 429 226 354 661.3 0 354 227 407 661.3 0 407 228 513 661.3 0 513 229 353 661.3 0 353 230 333 661.3 0 333 231 331 661.3 0 331 232 396 661.3 0 396 233 337 661.3 0 337 234 340 661.3 0 340 235 359 661.3 0 359 236 416 661.3 0 416 237 399 661.3 0 399 238 523 661.3 0 523 239 532 661.3 0 532 240 525 661.3 0 525 241 427 661.3 0 427 242 437 661.3 0 437 243 453 661.3 0 453 244 382 661.3 0 382 245 381 661.3 0 381 246 342 661.3 0 342 247 394 661.3 0 394 248 405 661.3 0 405 249 463 661.3 0 463 250 326 661.3 0 326 251 491 661.3 0 491 252 329 661.3 0 329 253 504 661.3 0 504 254 377 661.3 0 377 255 364 661.3 0 364 256 340 661.3 0 340 257 343 661.3 0 343 258 310 661.3 0 310 259 300 661.3 0 300 260 346 661.3 0 346 261 426 661.3 0 426 262 442 661.3 0 442 263 522 661.3 0 522 264 446 661.3 0 446 265 394 661.3 0 394 266 315 661.3 0 315 267 370 661.3 0 370 268 336 661.3 0 336 269 450 661.3 0 450 270 314 661.3 0 314 271 533 661.3 0 533 272 526 661.3 0 526 273 578 661.3 0 578 274 442 661.3 0 442 275 492 661.3 0 492 276 441 661.3 0 441 277 442 661.3 0 442 278 402 661.3 0 402 279 352 661.3 0 352 280 470 661.3 0 470 281 375 661.3 0 375 282 422 661.3 0 422 283 283 661.3 0 283 284 391 661.3 0 391 285 320 661.3 0 320 286 289 661.3 0 289 287 378 661.3 0 378 288 413 661.3 0 413 289 534 661.3 0 534 290 634 661.3 0 634 291 920 661.3 0 920 292 631 661.3 0 631 293 554 661.3 0 554 294 450 661.3 0 450 295 446 661.3 0 446 296 499 661.3 0 499 297 742 661.3 0 742 298 783 661.3 0 783 299 764 661.3 0 764 300 588 661.3 0 588 301 149 661.3 0 149 Finished in 9.26 s (41 us/read; 1.48 M reads/minute). === Summary === Total reads processed: 227,650 Reads with adapters: 4,669 (2.1%) Reads that were too short: 16 (0.0%) Reads written (passing filters): 4,653 (2.0%) Total basepairs processed: 48,953,574 bp Total written (filtered): 1,263,497 bp (2.6%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 4669 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 0 3 18 5 0.0 3 0 0 5 19 56 0.0 3 0 56 20 4510 0.0 4 4453 55 0 1 1 21 10 0.0 4 3 7 22 4 0.0 4 3 0 0 1 23 1 0.0 4 0 0 0 1 43 1 0.0 4 0 0 0 0 1 44 1 0.0 4 0 0 0 0 1 47 1 0.0 4 0 0 0 1 58 1 0.0 4 0 0 0 0 1 72 1 0.0 4 0 0 0 0 1 76 1 0.0 4 0 0 0 0 1 77 1 0.0 4 0 0 0 0 1 78 1 0.0 4 1 79 1 0.0 4 0 0 0 0 1 82 1 0.0 4 0 0 0 0 1 86 1 0.0 4 0 0 0 0 1 89 1 0.0 4 0 0 0 0 1 90 1 0.0 4 0 0 0 0 1 92 1 0.0 4 0 0 0 0 1 95 1 0.0 4 0 0 0 0 1 101 1 0.0 4 0 0 0 0 1 115 1 0.0 4 0 0 0 0 1 126 3 0.0 4 0 0 0 1 2 127 56 0.0 4 0 0 0 0 56 162 1 0.0 4 0 0 0 0 1 167 1 0.0 4 0 0 0 0 1 200 1 0.0 4 0 0 0 0 1 216 1 0.0 4 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 0.17 s (37 us/read; 1.64 M reads/minute). === Summary === Total reads processed: 4,653 Reads with adapters: 1,039 (22.3%) Reads written (passing filters): 4,653 (100.0%) Total basepairs processed: 1,263,497 bp Total written (filtered): 1,016,478 bp (80.4%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 1039 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 54.7% C: 0.1% G: 10.1% T: 35.1% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 1 72.7 0 1 10 3 0.0 1 0 3 11 102 0.0 1 0 102 224 1 0.0 1 1 259 382 0.0 1 361 21 260 174 0.0 1 158 16 261 9 0.0 1 9 269 1 0.0 1 1 270 346 0.0 1 329 17 271 16 0.0 1 16 272 4 0.0 1 4