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 70.37 s (23 us/read; 2.64 M reads/minute). === Summary === Total reads processed: 3,094,653 Reads with adapters: 296,025 (9.6%) Reads that were too short: 72,917 (2.4%) Reads written (passing filters): 223,108 (7.2%) Total basepairs processed: 931,490,553 bp Total written (filtered): 41,166,167 bp (4.4%) === Adapter 1 === Sequence: TAATGA; Type: regular 5'; Length: 6; Trimmed: 296025 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 223 755.5 0 223 7 477 755.5 0 477 8 19742 755.5 0 19742 9 54 755.5 0 54 10 25 755.5 0 25 11 11 755.5 0 11 12 7 755.5 0 7 13 5 755.5 0 5 14 6 755.5 0 6 15 19 755.5 0 19 16 8 755.5 0 8 17 11 755.5 0 11 18 17 755.5 0 17 19 9 755.5 0 9 20 13 755.5 0 13 21 6 755.5 0 6 22 12 755.5 0 12 23 19 755.5 0 19 24 16 755.5 0 16 25 8 755.5 0 8 26 12 755.5 0 12 27 28 755.5 0 28 28 35 755.5 0 35 29 547 755.5 0 547 30 16 755.5 0 16 31 20 755.5 0 20 32 12 755.5 0 12 33 5 755.5 0 5 34 14 755.5 0 14 35 4 755.5 0 4 36 25 755.5 0 25 37 13 755.5 0 13 38 8 755.5 0 8 39 8 755.5 0 8 40 7 755.5 0 7 41 8 755.5 0 8 42 15 755.5 0 15 43 24 755.5 0 24 44 13 755.5 0 13 45 12 755.5 0 12 46 14 755.5 0 14 47 7 755.5 0 7 48 14 755.5 0 14 49 8 755.5 0 8 50 9 755.5 0 9 51 5 755.5 0 5 52 5 755.5 0 5 53 12 755.5 0 12 54 14 755.5 0 14 55 12 755.5 0 12 56 12 755.5 0 12 57 22 755.5 0 22 58 18 755.5 0 18 59 17 755.5 0 17 60 33 755.5 0 33 61 59 755.5 0 59 62 19 755.5 0 19 63 24 755.5 0 24 64 28 755.5 0 28 65 14 755.5 0 14 66 29 755.5 0 29 67 21 755.5 0 21 68 25 755.5 0 25 69 36 755.5 0 36 70 486 755.5 0 486 71 178 755.5 0 178 72 273 755.5 0 273 73 49 755.5 0 49 74 53 755.5 0 53 75 74 755.5 0 74 76 416 755.5 0 416 77 67 755.5 0 67 78 166 755.5 0 166 79 496 755.5 0 496 80 569 755.5 0 569 81 461 755.5 0 461 82 901 755.5 0 901 83 1413 755.5 0 1413 84 346 755.5 0 346 85 377 755.5 0 377 86 207 755.5 0 207 87 90 755.5 0 90 88 145 755.5 0 145 89 242 755.5 0 242 90 55 755.5 0 55 91 92 755.5 0 92 92 502 755.5 0 502 93 265 755.5 0 265 94 434 755.5 0 434 95 295 755.5 0 295 96 92 755.5 0 92 97 112 755.5 0 112 98 439 755.5 0 439 99 509 755.5 0 509 100 409 755.5 0 409 101 125 755.5 0 125 102 183 755.5 0 183 103 82 755.5 0 82 104 124 755.5 0 124 105 261 755.5 0 261 106 152 755.5 0 152 107 134 755.5 0 134 108 250 755.5 0 250 109 697 755.5 0 697 110 475 755.5 0 475 111 1188 755.5 0 1188 112 488 755.5 0 488 113 570 755.5 0 570 114 1095 755.5 0 1095 115 627 755.5 0 627 116 668 755.5 0 668 117 1526 755.5 0 1526 118 904 755.5 0 904 119 697 755.5 0 697 120 902 755.5 0 902 121 1462 755.5 0 1462 122 1766 755.5 0 1766 123 1726 755.5 0 1726 124 29389 755.5 0 29389 125 26113 755.5 0 26113 126 87032 755.5 0 87032 127 982 755.5 0 982 128 190 755.5 0 190 129 643 755.5 0 643 130 485 755.5 0 485 131 413 755.5 0 413 132 219 755.5 0 219 133 319 755.5 0 319 134 322 755.5 0 322 135 403 755.5 0 403 136 325 755.5 0 325 137 335 755.5 0 335 138 298 755.5 0 298 139 371 755.5 0 371 140 933 755.5 0 933 141 210 755.5 0 210 142 584 755.5 0 584 143 423 755.5 0 423 144 483 755.5 0 483 145 364 755.5 0 364 146 224 755.5 0 224 147 281 755.5 0 281 148 328 755.5 0 328 149 1285 755.5 0 1285 150 2217 755.5 0 2217 151 3604 755.5 0 3604 152 288 755.5 0 288 153 337 755.5 0 337 154 228 755.5 0 228 155 225 755.5 0 225 156 638 755.5 0 638 157 331 755.5 0 331 158 346 755.5 0 346 159 211 755.5 0 211 160 263 755.5 0 263 161 297 755.5 0 297 162 314 755.5 0 314 163 321 755.5 0 321 164 418 755.5 0 418 165 312 755.5 0 312 166 344 755.5 0 344 167 312 755.5 0 312 168 323 755.5 0 323 169 474 755.5 0 474 170 219 755.5 0 219 171 197 755.5 0 197 172 303 755.5 0 303 173 443 755.5 0 443 174 130 755.5 0 130 175 126 755.5 0 126 176 189 755.5 0 189 177 280 755.5 0 280 178 365 755.5 0 365 179 326 755.5 0 326 180 250 755.5 0 250 181 488 755.5 0 488 182 365 755.5 0 365 183 382 755.5 0 382 184 377 755.5 0 377 185 391 755.5 0 391 186 412 755.5 0 412 187 225 755.5 0 225 188 281 755.5 0 281 189 328 755.5 0 328 190 433 755.5 0 433 191 360 755.5 0 360 192 288 755.5 0 288 193 303 755.5 0 303 194 260 755.5 0 260 195 202 755.5 0 202 196 411 755.5 0 411 197 804 755.5 0 804 198 372 755.5 0 372 199 169 755.5 0 169 200 123 755.5 0 123 201 263 755.5 0 263 202 547 755.5 0 547 203 423 755.5 0 423 204 301 755.5 0 301 205 618 755.5 0 618 206 542 755.5 0 542 207 278 755.5 0 278 208 437 755.5 0 437 209 450 755.5 0 450 210 438 755.5 0 438 211 404 755.5 0 404 212 331 755.5 0 331 213 451 755.5 0 451 214 453 755.5 0 453 215 354 755.5 0 354 216 588 755.5 0 588 217 579 755.5 0 579 218 485 755.5 0 485 219 487 755.5 0 487 220 337 755.5 0 337 221 625 755.5 0 625 222 1155 755.5 0 1155 223 11489 755.5 0 11489 224 6438 755.5 0 6438 225 7362 755.5 0 7362 226 1972 755.5 0 1972 227 1275 755.5 0 1275 228 286 755.5 0 286 229 328 755.5 0 328 230 403 755.5 0 403 231 320 755.5 0 320 232 317 755.5 0 317 233 621 755.5 0 621 234 875 755.5 0 875 235 599 755.5 0 599 236 1130 755.5 0 1130 237 732 755.5 0 732 238 475 755.5 0 475 239 388 755.5 0 388 240 327 755.5 0 327 241 405 755.5 0 405 242 422 755.5 0 422 243 333 755.5 0 333 244 269 755.5 0 269 245 421 755.5 0 421 246 361 755.5 0 361 247 288 755.5 0 288 248 317 755.5 0 317 249 249 755.5 0 249 250 398 755.5 0 398 251 504 755.5 0 504 252 358 755.5 0 358 253 210 755.5 0 210 254 186 755.5 0 186 255 217 755.5 0 217 256 328 755.5 0 328 257 238 755.5 0 238 258 208 755.5 0 208 259 310 755.5 0 310 260 435 755.5 0 435 261 394 755.5 0 394 262 307 755.5 0 307 263 376 755.5 0 376 264 387 755.5 0 387 265 269 755.5 0 269 266 570 755.5 0 570 267 431 755.5 0 431 268 456 755.5 0 456 269 355 755.5 0 355 270 553 755.5 0 553 271 514 755.5 0 514 272 588 755.5 0 588 273 644 755.5 0 644 274 1018 755.5 0 1018 275 299 755.5 0 299 276 388 755.5 0 388 277 484 755.5 0 484 278 402 755.5 0 402 279 355 755.5 0 355 280 268 755.5 0 268 281 307 755.5 0 307 282 302 755.5 0 302 283 349 755.5 0 349 284 404 755.5 0 404 285 390 755.5 0 390 286 258 755.5 0 258 287 454 755.5 0 454 288 467 755.5 0 467 289 502 755.5 0 502 290 613 755.5 0 613 291 568 755.5 0 568 292 645 755.5 0 645 293 484 755.5 0 484 294 401 755.5 0 401 295 703 755.5 0 703 296 1115 755.5 0 1115 297 821 755.5 0 821 298 412 755.5 0 412 299 1113 755.5 0 1113 300 1093 755.5 0 1093 301 381 755.5 0 381 Finished in 7.41 s (33 us/read; 1.81 M reads/minute). === Summary === Total reads processed: 223,108 Reads with adapters: 20,479 (9.2%) Reads that were too short: 71 (0.0%) Reads written (passing filters): 20,408 (9.1%) Total basepairs processed: 41,166,167 bp Total written (filtered): 5,558,382 bp (13.5%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 20479 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 1 0.0 3 0 0 0 0 1 18 2 0.0 3 0 0 2 19 94 0.0 3 0 71 7 11 5 20 8279 0.0 4 7904 345 18 9 3 21 11959 0.0 4 11594 305 43 12 5 22 23 0.0 4 4 16 2 1 23 11 0.0 4 0 0 3 5 3 24 16 0.0 4 0 0 0 9 7 25 9 0.0 4 2 0 0 1 6 26 1 0.0 4 0 0 0 0 1 27 2 0.0 4 0 1 0 0 1 35 1 0.0 4 0 0 0 0 1 39 1 0.0 4 0 0 0 0 1 40 1 0.0 4 0 0 0 0 1 47 1 0.0 4 0 0 0 0 1 49 2 0.0 4 1 0 0 0 1 51 1 0.0 4 0 0 0 0 1 52 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 71 1 0.0 4 0 0 0 0 1 79 1 0.0 4 0 0 0 0 1 80 1 0.0 4 0 0 0 0 1 85 1 0.0 4 0 0 0 0 1 91 1 0.0 4 0 0 0 0 1 92 2 0.0 4 0 0 0 0 2 95 1 0.0 4 0 0 0 0 1 96 1 0.0 4 0 0 0 0 1 98 2 0.0 4 0 0 0 0 2 100 1 0.0 4 0 0 0 0 1 101 4 0.0 4 0 0 0 0 4 102 1 0.0 4 0 0 0 0 1 103 1 0.0 4 0 0 0 0 1 110 1 0.0 4 0 0 0 0 1 112 2 0.0 4 0 0 0 0 2 115 1 0.0 4 0 0 0 0 1 121 1 0.0 4 0 0 0 0 1 124 1 0.0 4 0 0 0 0 1 133 1 0.0 4 0 0 0 0 1 136 1 0.0 4 0 0 0 0 1 140 2 0.0 4 0 0 0 0 2 141 1 0.0 4 0 0 0 0 1 142 5 0.0 4 0 0 0 0 5 145 1 0.0 4 0 0 0 0 1 150 1 0.0 4 0 0 0 0 1 154 1 0.0 4 0 0 0 0 1 158 1 0.0 4 0 0 0 0 1 161 1 0.0 4 0 0 0 0 1 171 6 0.0 4 0 0 0 0 6 172 9 0.0 4 0 0 0 0 9 173 3 0.0 4 0 0 0 0 3 174 7 0.0 4 0 0 0 0 7 175 4 0.0 4 0 0 0 0 4 176 1 0.0 4 0 0 0 0 1 183 3 0.0 4 0 0 0 1 2 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 0.62 s (30 us/read; 1.97 M reads/minute). === Summary === Total reads processed: 20,408 Reads with adapters: 1,735 (8.5%) Reads written (passing filters): 20,408 (100.0%) Total basepairs processed: 5,558,382 bp Total written (filtered): 5,537,527 bp (99.6%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 1735 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 2.8% C: 1.5% G: 92.9% T: 2.7% none/other: 0.1% 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 1 318.9 0 1 4 1 79.7 0 1 9 194 0.1 0 15 179 10 221 0.0 1 5 216 11 1303 0.0 1 3 1300 12 2 0.0 1 0 2 13 2 0.0 1 0 2 150 2 0.0 1 0 2 207 1 0.0 1 0 1 208 1 0.0 1 1 228 1 0.0 1 1 234 1 0.0 1 1 263 2 0.0 1 2 265 1 0.0 1 1 268 1 0.0 1 1 273 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.