This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AGCACT -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 175.26 s (33 us/read; 1.83 M reads/minute). === Summary === Total reads processed: 5,333,634 Reads with adapters: 216,125 (4.1%) Reads that were too short: 69,211 (1.3%) Reads written (passing filters): 146,914 (2.8%) Total basepairs processed: 1,605,423,834 bp Total written (filtered): 25,707,196 bp (1.6%) === Adapter 1 === Sequence: AGCACT; Type: regular 5'; Length: 6; Trimmed: 216125 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 39 1302.2 0 39 7 3334 1302.2 0 3334 8 300 1302.2 0 300 9 8 1302.2 0 8 10 9 1302.2 0 9 11 7 1302.2 0 7 12 14 1302.2 0 14 13 11 1302.2 0 11 14 4153 1302.2 0 4153 15 558 1302.2 0 558 16 8 1302.2 0 8 17 8 1302.2 0 8 18 8 1302.2 0 8 19 11 1302.2 0 11 20 9 1302.2 0 9 21 5 1302.2 0 5 22 13 1302.2 0 13 23 9 1302.2 0 9 24 14 1302.2 0 14 25 15 1302.2 0 15 26 77 1302.2 0 77 27 62 1302.2 0 62 28 4 1302.2 0 4 29 6 1302.2 0 6 30 10 1302.2 0 10 31 5 1302.2 0 5 32 16 1302.2 0 16 33 15 1302.2 0 15 34 9 1302.2 0 9 35 15 1302.2 0 15 36 13 1302.2 0 13 37 7 1302.2 0 7 38 15 1302.2 0 15 39 9 1302.2 0 9 40 41 1302.2 0 41 41 10 1302.2 0 10 42 26 1302.2 0 26 43 22 1302.2 0 22 44 38 1302.2 0 38 45 13 1302.2 0 13 46 8 1302.2 0 8 47 11 1302.2 0 11 48 10 1302.2 0 10 49 13 1302.2 0 13 50 4 1302.2 0 4 51 11 1302.2 0 11 52 9 1302.2 0 9 53 10 1302.2 0 10 54 14 1302.2 0 14 55 19 1302.2 0 19 56 14 1302.2 0 14 57 18 1302.2 0 18 58 10 1302.2 0 10 59 8 1302.2 0 8 60 30 1302.2 0 30 61 8 1302.2 0 8 62 13 1302.2 0 13 63 14 1302.2 0 14 64 10 1302.2 0 10 65 46 1302.2 0 46 66 23 1302.2 0 23 67 22 1302.2 0 22 68 11 1302.2 0 11 69 15 1302.2 0 15 70 15 1302.2 0 15 71 14 1302.2 0 14 72 15 1302.2 0 15 73 8 1302.2 0 8 74 14 1302.2 0 14 75 20 1302.2 0 20 76 21 1302.2 0 21 77 15 1302.2 0 15 78 39 1302.2 0 39 79 64 1302.2 0 64 80 179 1302.2 0 179 81 398 1302.2 0 398 82 98 1302.2 0 98 83 185 1302.2 0 185 84 135 1302.2 0 135 85 70 1302.2 0 70 86 105 1302.2 0 105 87 454 1302.2 0 454 88 345 1302.2 0 345 89 82 1302.2 0 82 90 293 1302.2 0 293 91 686 1302.2 0 686 92 208 1302.2 0 208 93 210 1302.2 0 210 94 555 1302.2 0 555 95 321 1302.2 0 321 96 164 1302.2 0 164 97 419 1302.2 0 419 98 408 1302.2 0 408 99 350 1302.2 0 350 100 276 1302.2 0 276 101 720 1302.2 0 720 102 576 1302.2 0 576 103 877 1302.2 0 877 104 13890 1302.2 0 13890 105 19162 1302.2 0 19162 106 23883 1302.2 0 23883 107 313 1302.2 0 313 108 97 1302.2 0 97 109 33 1302.2 0 33 110 242 1302.2 0 242 111 235 1302.2 0 235 112 267 1302.2 0 267 113 238 1302.2 0 238 114 167 1302.2 0 167 115 96 1302.2 0 96 116 105 1302.2 0 105 117 190 1302.2 0 190 118 118 1302.2 0 118 119 1043 1302.2 0 1043 120 730 1302.2 0 730 121 417 1302.2 0 417 122 320 1302.2 0 320 123 323 1302.2 0 323 124 299 1302.2 0 299 125 365 1302.2 0 365 126 308 1302.2 0 308 127 252 1302.2 0 252 128 285 1302.2 0 285 129 371 1302.2 0 371 130 126 1302.2 0 126 131 261 1302.2 0 261 132 413 1302.2 0 413 133 308 1302.2 0 308 134 270 1302.2 0 270 135 234 1302.2 0 234 136 245 1302.2 0 245 137 338 1302.2 0 338 138 964 1302.2 0 964 139 719 1302.2 0 719 140 443 1302.2 0 443 141 268 1302.2 0 268 142 376 1302.2 0 376 143 308 1302.2 0 308 144 300 1302.2 0 300 145 613 1302.2 0 613 146 408 1302.2 0 408 147 229 1302.2 0 229 148 258 1302.2 0 258 149 114 1302.2 0 114 150 137 1302.2 0 137 151 275 1302.2 0 275 152 246 1302.2 0 246 153 358 1302.2 0 358 154 386 1302.2 0 386 155 588 1302.2 0 588 156 451 1302.2 0 451 157 731 1302.2 0 731 158 1449 1302.2 0 1449 159 12512 1302.2 0 12512 160 3463 1302.2 0 3463 161 17732 1302.2 0 17732 162 453 1302.2 0 453 163 490 1302.2 0 490 164 381 1302.2 0 381 165 417 1302.2 0 417 166 289 1302.2 0 289 167 745 1302.2 0 745 168 490 1302.2 0 490 169 409 1302.2 0 409 170 260 1302.2 0 260 171 785 1302.2 0 785 172 561 1302.2 0 561 173 405 1302.2 0 405 174 388 1302.2 0 388 175 154 1302.2 0 154 176 140 1302.2 0 140 177 228 1302.2 0 228 178 298 1302.2 0 298 179 405 1302.2 0 405 180 631 1302.2 0 631 181 654 1302.2 0 654 182 490 1302.2 0 490 183 428 1302.2 0 428 184 841 1302.2 0 841 185 627 1302.2 0 627 186 375 1302.2 0 375 187 251 1302.2 0 251 188 772 1302.2 0 772 189 367 1302.2 0 367 190 413 1302.2 0 413 191 301 1302.2 0 301 192 357 1302.2 0 357 193 164 1302.2 0 164 194 192 1302.2 0 192 195 352 1302.2 0 352 196 347 1302.2 0 347 197 180 1302.2 0 180 198 322 1302.2 0 322 199 453 1302.2 0 453 200 2724 1302.2 0 2724 201 1467 1302.2 0 1467 202 666 1302.2 0 666 203 298 1302.2 0 298 204 488 1302.2 0 488 205 559 1302.2 0 559 206 471 1302.2 0 471 207 720 1302.2 0 720 208 473 1302.2 0 473 209 304 1302.2 0 304 210 438 1302.2 0 438 211 427 1302.2 0 427 212 462 1302.2 0 462 213 414 1302.2 0 414 214 435 1302.2 0 435 215 691 1302.2 0 691 216 611 1302.2 0 611 217 733 1302.2 0 733 218 514 1302.2 0 514 219 458 1302.2 0 458 220 757 1302.2 0 757 221 1057 1302.2 0 1057 222 366 1302.2 0 366 223 363 1302.2 0 363 224 1017 1302.2 0 1017 225 684 1302.2 0 684 226 714 1302.2 0 714 227 604 1302.2 0 604 228 878 1302.2 0 878 229 537 1302.2 0 537 230 445 1302.2 0 445 231 311 1302.2 0 311 232 499 1302.2 0 499 233 324 1302.2 0 324 234 231 1302.2 0 231 235 539 1302.2 0 539 236 1036 1302.2 0 1036 237 353 1302.2 0 353 238 735 1302.2 0 735 239 755 1302.2 0 755 240 4985 1302.2 0 4985 241 2992 1302.2 0 2992 242 2272 1302.2 0 2272 243 754 1302.2 0 754 244 728 1302.2 0 728 245 625 1302.2 0 625 246 434 1302.2 0 434 247 419 1302.2 0 419 248 664 1302.2 0 664 249 624 1302.2 0 624 250 561 1302.2 0 561 251 431 1302.2 0 431 252 498 1302.2 0 498 253 1050 1302.2 0 1050 254 1253 1302.2 0 1253 255 918 1302.2 0 918 256 587 1302.2 0 587 257 402 1302.2 0 402 258 442 1302.2 0 442 259 297 1302.2 0 297 260 308 1302.2 0 308 261 355 1302.2 0 355 262 353 1302.2 0 353 263 664 1302.2 0 664 264 909 1302.2 0 909 265 852 1302.2 0 852 266 510 1302.2 0 510 267 404 1302.2 0 404 268 494 1302.2 0 494 269 670 1302.2 0 670 270 447 1302.2 0 447 271 569 1302.2 0 569 272 505 1302.2 0 505 273 713 1302.2 0 713 274 738 1302.2 0 738 275 841 1302.2 0 841 276 756 1302.2 0 756 277 597 1302.2 0 597 278 713 1302.2 0 713 279 780 1302.2 0 780 280 988 1302.2 0 988 281 1080 1302.2 0 1080 282 894 1302.2 0 894 283 847 1302.2 0 847 284 899 1302.2 0 899 285 543 1302.2 0 543 286 485 1302.2 0 485 287 355 1302.2 0 355 288 397 1302.2 0 397 289 391 1302.2 0 391 290 401 1302.2 0 401 291 481 1302.2 0 481 292 386 1302.2 0 386 293 413 1302.2 0 413 294 485 1302.2 0 485 295 260 1302.2 0 260 296 170 1302.2 0 170 297 412 1302.2 0 412 298 560 1302.2 0 560 299 839 1302.2 0 839 300 1951 1302.2 0 1951 301 1493 1302.2 0 1493 Finished in 5.78 s (39 us/read; 1.53 M reads/minute). === Summary === Total reads processed: 146,914 Reads with adapters: 3,301 (2.2%) Reads that were too short: 41 (0.0%) Reads written (passing filters): 3,260 (2.2%) Total basepairs processed: 25,707,196 bp Total written (filtered): 896,353 bp (3.5%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 3301 times. No. of allowed errors: 0-4 bp: 0; 5-9 bp: 1; 10-14 bp: 2; 15-17 bp: 3 Overview of removed sequences length count expect max.err error counts 14 1 0.0 2 0 0 0 1 16 23 0.0 3 0 23 17 3164 0.0 3 3110 51 1 2 18 17 0.0 3 0 13 2 2 19 13 0.0 3 1 0 7 5 20 3 0.0 3 0 0 1 2 32 1 0.0 3 0 0 0 1 40 6 0.0 3 0 0 0 6 44 1 0.0 3 0 0 0 1 46 5 0.0 3 0 0 0 5 47 1 0.0 3 0 0 0 1 64 1 0.0 3 0 0 0 1 87 7 0.0 3 0 0 0 7 88 6 0.0 3 0 0 0 6 89 2 0.0 3 0 0 0 2 90 8 0.0 3 0 0 0 8 91 4 0.0 3 0 0 0 4 118 2 0.0 3 0 0 0 2 129 1 0.0 3 0 0 0 1 130 3 0.0 3 0 0 0 3 131 1 0.0 3 0 0 0 1 132 1 0.0 3 0 0 0 1 136 1 0.0 3 0 0 0 1 137 1 0.0 3 0 0 0 1 151 1 0.0 3 0 0 0 1 163 1 0.0 3 0 0 0 1 179 1 0.0 3 0 0 0 1 188 1 0.0 3 0 0 0 1 189 24 0.0 3 0 0 0 24 This is cutadapt 1.11 with Python 2.7.12 Command line parameters: -a taatctatgggnncatcagg - Trimming 1 adapter with at most 10.0% errors in single-end mode ... Finished in 0.16 s (49 us/read; 1.22 M reads/minute). === Summary === Total reads processed: 3,260 Reads with adapters: 389 (11.9%) Reads written (passing filters): 3,260 (100.0%) Total basepairs processed: 896,353 bp Total written (filtered): 895,186 bp (99.9%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 389 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 6.2% C: 86.6% G: 7.2% T: 0.0% none/other: 0.0% WARNING: The adapter is preceded by "C" extremely often. The provided adapter sequence may be incomplete. To fix the problem, add "C" to the beginning of the adapter sequence. Overview of removed sequences length count expect max.err error counts 3 389 50.9 0 389 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.