This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CACTCT -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 78.46 s (27 us/read; 2.24 M reads/minute). === Summary === Total reads processed: 2,926,947 Reads with adapters: 257,104 (8.8%) Reads that were too short: 52,474 (1.8%) Reads written (passing filters): 204,630 (7.0%) Total basepairs processed: 881,011,047 bp Total written (filtered): 32,611,535 bp (3.7%) === Adapter 1 === Sequence: CACTCT; Type: regular 5'; Length: 6; Trimmed: 257104 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 304 714.6 0 304 7 3416 714.6 0 3416 8 229 714.6 0 229 9 12977 714.6 0 12977 10 44 714.6 0 44 11 12 714.6 0 12 12 20 714.6 0 20 13 15 714.6 0 15 14 13 714.6 0 13 15 22 714.6 0 22 16 15 714.6 0 15 17 24 714.6 0 24 18 71 714.6 0 71 19 30 714.6 0 30 20 13 714.6 0 13 21 16 714.6 0 16 22 14 714.6 0 14 23 22 714.6 0 22 24 10 714.6 0 10 25 27 714.6 0 27 26 14 714.6 0 14 27 9 714.6 0 9 28 13 714.6 0 13 29 8 714.6 0 8 30 19 714.6 0 19 31 24 714.6 0 24 32 10 714.6 0 10 33 13 714.6 0 13 34 14 714.6 0 14 35 18 714.6 0 18 36 10 714.6 0 10 37 16 714.6 0 16 38 12 714.6 0 12 39 9 714.6 0 9 40 10 714.6 0 10 41 3 714.6 0 3 42 20 714.6 0 20 43 16 714.6 0 16 44 79 714.6 0 79 45 16 714.6 0 16 46 65 714.6 0 65 47 195 714.6 0 195 48 49 714.6 0 49 49 64 714.6 0 64 50 28 714.6 0 28 51 8 714.6 0 8 52 17 714.6 0 17 53 7 714.6 0 7 54 71 714.6 0 71 55 24 714.6 0 24 56 48 714.6 0 48 57 51 714.6 0 51 58 18 714.6 0 18 59 13 714.6 0 13 60 11 714.6 0 11 61 19 714.6 0 19 62 21 714.6 0 21 63 14 714.6 0 14 64 19 714.6 0 19 65 10 714.6 0 10 66 10 714.6 0 10 67 14 714.6 0 14 68 8 714.6 0 8 69 13 714.6 0 13 70 18 714.6 0 18 71 20 714.6 0 20 72 13 714.6 0 13 73 7 714.6 0 7 74 11 714.6 0 11 75 9 714.6 0 9 76 12 714.6 0 12 77 11 714.6 0 11 78 9 714.6 0 9 79 32 714.6 0 32 80 34 714.6 0 34 81 60 714.6 0 60 82 75 714.6 0 75 83 67 714.6 0 67 84 48 714.6 0 48 85 39 714.6 0 39 86 39 714.6 0 39 87 47 714.6 0 47 88 86 714.6 0 86 89 151 714.6 0 151 90 114 714.6 0 114 91 148 714.6 0 148 92 280 714.6 0 280 93 127 714.6 0 127 94 536 714.6 0 536 95 438 714.6 0 438 96 296 714.6 0 296 97 168 714.6 0 168 98 94 714.6 0 94 99 112 714.6 0 112 100 91 714.6 0 91 101 42 714.6 0 42 102 117 714.6 0 117 103 57 714.6 0 57 104 255 714.6 0 255 105 335 714.6 0 335 106 587 714.6 0 587 107 179 714.6 0 179 108 421 714.6 0 421 109 128 714.6 0 128 110 437 714.6 0 437 111 234 714.6 0 234 112 783 714.6 0 783 113 572 714.6 0 572 114 334 714.6 0 334 115 79 714.6 0 79 116 80 714.6 0 80 117 55 714.6 0 55 118 75 714.6 0 75 119 134 714.6 0 134 120 100 714.6 0 100 121 153 714.6 0 153 122 147 714.6 0 147 123 170 714.6 0 170 124 221 714.6 0 221 125 184 714.6 0 184 126 318 714.6 0 318 127 839 714.6 0 839 128 944 714.6 0 944 129 641 714.6 0 641 130 275 714.6 0 275 131 314 714.6 0 314 132 150 714.6 0 150 133 284 714.6 0 284 134 663 714.6 0 663 135 1681 714.6 0 1681 136 371 714.6 0 371 137 154 714.6 0 154 138 221 714.6 0 221 139 307 714.6 0 307 140 381 714.6 0 381 141 361 714.6 0 361 142 427 714.6 0 427 143 543 714.6 0 543 144 869 714.6 0 869 145 1807 714.6 0 1807 146 21577 714.6 0 21577 147 17449 714.6 0 17449 148 6385 714.6 0 6385 149 403 714.6 0 403 150 397 714.6 0 397 151 1011 714.6 0 1011 152 2222 714.6 0 2222 153 1221 714.6 0 1221 154 1375 714.6 0 1375 155 699 714.6 0 699 156 819 714.6 0 819 157 739 714.6 0 739 158 991 714.6 0 991 159 1630 714.6 0 1630 160 3362 714.6 0 3362 161 42305 714.6 0 42305 162 38623 714.6 0 38623 163 11600 714.6 0 11600 164 521 714.6 0 521 165 483 714.6 0 483 166 467 714.6 0 467 167 395 714.6 0 395 168 216 714.6 0 216 169 157 714.6 0 157 170 134 714.6 0 134 171 175 714.6 0 175 172 301 714.6 0 301 173 298 714.6 0 298 174 457 714.6 0 457 175 504 714.6 0 504 176 361 714.6 0 361 177 247 714.6 0 247 178 218 714.6 0 218 179 284 714.6 0 284 180 310 714.6 0 310 181 860 714.6 0 860 182 733 714.6 0 733 183 716 714.6 0 716 184 397 714.6 0 397 185 260 714.6 0 260 186 224 714.6 0 224 187 314 714.6 0 314 188 262 714.6 0 262 189 257 714.6 0 257 190 268 714.6 0 268 191 294 714.6 0 294 192 504 714.6 0 504 193 262 714.6 0 262 194 249 714.6 0 249 195 144 714.6 0 144 196 216 714.6 0 216 197 231 714.6 0 231 198 227 714.6 0 227 199 245 714.6 0 245 200 266 714.6 0 266 201 320 714.6 0 320 202 497 714.6 0 497 203 281 714.6 0 281 204 290 714.6 0 290 205 305 714.6 0 305 206 271 714.6 0 271 207 291 714.6 0 291 208 216 714.6 0 216 209 229 714.6 0 229 210 190 714.6 0 190 211 190 714.6 0 190 212 225 714.6 0 225 213 306 714.6 0 306 214 464 714.6 0 464 215 436 714.6 0 436 216 418 714.6 0 418 217 452 714.6 0 452 218 502 714.6 0 502 219 512 714.6 0 512 220 450 714.6 0 450 221 453 714.6 0 453 222 406 714.6 0 406 223 517 714.6 0 517 224 337 714.6 0 337 225 299 714.6 0 299 226 495 714.6 0 495 227 352 714.6 0 352 228 551 714.6 0 551 229 394 714.6 0 394 230 473 714.6 0 473 231 464 714.6 0 464 232 518 714.6 0 518 233 467 714.6 0 467 234 396 714.6 0 396 235 344 714.6 0 344 236 392 714.6 0 392 237 404 714.6 0 404 238 720 714.6 0 720 239 1076 714.6 0 1076 240 2405 714.6 0 2405 241 2356 714.6 0 2356 242 2223 714.6 0 2223 243 930 714.6 0 930 244 753 714.6 0 753 245 416 714.6 0 416 246 301 714.6 0 301 247 215 714.6 0 215 248 140 714.6 0 140 249 180 714.6 0 180 250 285 714.6 0 285 251 580 714.6 0 580 252 632 714.6 0 632 253 534 714.6 0 534 254 724 714.6 0 724 255 583 714.6 0 583 256 480 714.6 0 480 257 344 714.6 0 344 258 353 714.6 0 353 259 280 714.6 0 280 260 255 714.6 0 255 261 374 714.6 0 374 262 380 714.6 0 380 263 399 714.6 0 399 264 370 714.6 0 370 265 469 714.6 0 469 266 346 714.6 0 346 267 1172 714.6 0 1172 268 1074 714.6 0 1074 269 971 714.6 0 971 270 1236 714.6 0 1236 271 861 714.6 0 861 272 563 714.6 0 563 273 338 714.6 0 338 274 542 714.6 0 542 275 641 714.6 0 641 276 810 714.6 0 810 277 1028 714.6 0 1028 278 1247 714.6 0 1247 279 1098 714.6 0 1098 280 586 714.6 0 586 281 538 714.6 0 538 282 756 714.6 0 756 283 834 714.6 0 834 284 381 714.6 0 381 285 381 714.6 0 381 286 358 714.6 0 358 287 195 714.6 0 195 288 343 714.6 0 343 289 351 714.6 0 351 290 608 714.6 0 608 291 570 714.6 0 570 292 388 714.6 0 388 293 198 714.6 0 198 294 142 714.6 0 142 295 122 714.6 0 122 296 135 714.6 0 135 297 147 714.6 0 147 298 164 714.6 0 164 299 277 714.6 0 277 300 326 714.6 0 326 301 203 714.6 0 203 Finished in 6.74 s (33 us/read; 1.82 M reads/minute). === Summary === Total reads processed: 204,630 Reads with adapters: 13,367 (6.5%) Reads that were too short: 55 (0.0%) Reads written (passing filters): 13,312 (6.5%) Total basepairs processed: 32,611,535 bp Total written (filtered): 3,658,888 bp (11.2%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 13367 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 15 8 0.0 3 0 0 6 2 16 153 0.0 3 0 150 2 1 17 13078 0.0 3 12840 235 3 18 38 0.0 3 0 35 3 19 13 0.0 3 1 0 9 3 20 6 0.0 3 0 0 0 6 36 1 0.0 3 0 0 0 1 37 2 0.0 3 0 0 0 2 45 1 0.0 3 0 0 0 1 48 1 0.0 3 0 0 0 1 49 1 0.0 3 0 0 0 1 51 5 0.0 3 0 0 0 5 53 1 0.0 3 0 0 0 1 55 1 0.0 3 0 0 0 1 60 1 0.0 3 0 0 0 1 61 1 0.0 3 0 0 0 1 67 5 0.0 3 0 0 0 5 69 2 0.0 3 0 0 0 2 83 1 0.0 3 0 0 0 1 87 4 0.0 3 0 0 0 4 90 1 0.0 3 0 0 0 1 92 1 0.0 3 0 0 0 1 115 1 0.0 3 0 0 0 1 116 2 0.0 3 0 0 0 2 124 1 0.0 3 0 0 0 1 126 1 0.0 3 0 0 0 1 127 4 0.0 3 0 0 0 4 128 8 0.0 3 0 0 0 8 130 1 0.0 3 0 0 0 1 131 1 0.0 3 0 0 0 1 132 1 0.0 3 0 0 0 1 134 1 0.0 3 0 0 0 1 137 1 0.0 3 0 0 0 1 138 2 0.0 3 0 0 0 2 139 1 0.0 3 0 0 0 1 141 1 0.0 3 0 0 0 1 142 4 0.0 3 0 0 0 4 143 2 0.0 3 0 0 0 2 144 1 0.0 3 0 0 0 1 145 1 0.0 3 0 0 0 1 146 1 0.0 3 0 0 0 1 149 1 0.0 3 0 0 0 1 150 1 0.0 3 0 0 0 1 160 1 0.0 3 0 0 0 1 200 1 0.0 3 0 0 0 1 206 1 0.0 3 0 0 0 1 258 1 0.0 3 0 0 0 1 288 1 0.0 3 0 0 0 1 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 0.48 s (36 us/read; 1.66 M reads/minute). === Summary === Total reads processed: 13,312 Reads with adapters: 1,126 (8.5%) Reads written (passing filters): 13,312 (100.0%) Total basepairs processed: 3,658,888 bp Total written (filtered): 3,655,508 bp (99.9%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 1126 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 2.3% C: 6.8% G: 90.4% T: 0.4% 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 3 1125 208.0 0 1125 5 1 13.0 0 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.