This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g ACCTAT -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 91.18 s (26 us/read; 2.28 M reads/minute). === Summary === Total reads processed: 3,465,239 Reads with adapters: 207,266 (6.0%) Reads that were too short: 40,838 (1.2%) Reads written (passing filters): 166,428 (4.8%) Total basepairs processed: 1,043,036,939 bp Total written (filtered): 41,718,981 bp (4.0%) === Adapter 1 === Sequence: ACCTAT; Type: regular 5'; Length: 6; Trimmed: 207266 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 699 846.0 0 699 7 8241 846.0 0 8241 8 347 846.0 0 347 9 5240 846.0 0 5240 10 594 846.0 0 594 11 757 846.0 0 757 12 18995 846.0 0 18995 13 29186 846.0 0 29186 14 49858 846.0 0 49858 15 105 846.0 0 105 16 7 846.0 0 7 17 16 846.0 0 16 18 16 846.0 0 16 19 13 846.0 0 13 20 18 846.0 0 18 21 14 846.0 0 14 22 19 846.0 0 19 23 23 846.0 0 23 24 59 846.0 0 59 25 35 846.0 0 35 26 39 846.0 0 39 27 54 846.0 0 54 28 27 846.0 0 27 29 15 846.0 0 15 30 27 846.0 0 27 31 28 846.0 0 28 32 21 846.0 0 21 33 20 846.0 0 20 34 25 846.0 0 25 35 24 846.0 0 24 36 41 846.0 0 41 37 64 846.0 0 64 38 2418 846.0 0 2418 39 26 846.0 0 26 40 28 846.0 0 28 41 20 846.0 0 20 42 45 846.0 0 45 43 42 846.0 0 42 44 471 846.0 0 471 45 21 846.0 0 21 46 27 846.0 0 27 47 28 846.0 0 28 48 18 846.0 0 18 49 17 846.0 0 17 50 27 846.0 0 27 51 17 846.0 0 17 52 17 846.0 0 17 53 29 846.0 0 29 54 12 846.0 0 12 55 12 846.0 0 12 56 15 846.0 0 15 57 10 846.0 0 10 58 14 846.0 0 14 59 24 846.0 0 24 60 17 846.0 0 17 61 26 846.0 0 26 62 13 846.0 0 13 63 13 846.0 0 13 64 12 846.0 0 12 65 16 846.0 0 16 66 20 846.0 0 20 67 16 846.0 0 16 68 18 846.0 0 18 69 15 846.0 0 15 70 21 846.0 0 21 71 15 846.0 0 15 72 18 846.0 0 18 73 17 846.0 0 17 74 20 846.0 0 20 75 13 846.0 0 13 76 21 846.0 0 21 77 20 846.0 0 20 78 21 846.0 0 21 79 23 846.0 0 23 80 43 846.0 0 43 81 41 846.0 0 41 82 32 846.0 0 32 83 80 846.0 0 80 84 57 846.0 0 57 85 59 846.0 0 59 86 86 846.0 0 86 87 98 846.0 0 98 88 85 846.0 0 85 89 248 846.0 0 248 90 321 846.0 0 321 91 478 846.0 0 478 92 373 846.0 0 373 93 209 846.0 0 209 94 412 846.0 0 412 95 513 846.0 0 513 96 453 846.0 0 453 97 367 846.0 0 367 98 157 846.0 0 157 99 92 846.0 0 92 100 100 846.0 0 100 101 104 846.0 0 104 102 89 846.0 0 89 103 107 846.0 0 107 104 2498 846.0 0 2498 105 811 846.0 0 811 106 522 846.0 0 522 107 192 846.0 0 192 108 815 846.0 0 815 109 694 846.0 0 694 110 379 846.0 0 379 111 306 846.0 0 306 112 268 846.0 0 268 113 243 846.0 0 243 114 141 846.0 0 141 115 148 846.0 0 148 116 117 846.0 0 117 117 91 846.0 0 91 118 106 846.0 0 106 119 171 846.0 0 171 120 494 846.0 0 494 121 418 846.0 0 418 122 260 846.0 0 260 123 96 846.0 0 96 124 205 846.0 0 205 125 349 846.0 0 349 126 952 846.0 0 952 127 2351 846.0 0 2351 128 3056 846.0 0 3056 129 656 846.0 0 656 130 183 846.0 0 183 131 115 846.0 0 115 132 151 846.0 0 151 133 258 846.0 0 258 134 277 846.0 0 277 135 679 846.0 0 679 136 507 846.0 0 507 137 304 846.0 0 304 138 420 846.0 0 420 139 565 846.0 0 565 140 963 846.0 0 963 141 508 846.0 0 508 142 333 846.0 0 333 143 163 846.0 0 163 144 239 846.0 0 239 145 327 846.0 0 327 146 591 846.0 0 591 147 371 846.0 0 371 148 307 846.0 0 307 149 241 846.0 0 241 150 189 846.0 0 189 151 806 846.0 0 806 152 1911 846.0 0 1911 153 914 846.0 0 914 154 482 846.0 0 482 155 323 846.0 0 323 156 304 846.0 0 304 157 219 846.0 0 219 158 552 846.0 0 552 159 1103 846.0 0 1103 160 496 846.0 0 496 161 520 846.0 0 520 162 335 846.0 0 335 163 247 846.0 0 247 164 259 846.0 0 259 165 341 846.0 0 341 166 321 846.0 0 321 167 260 846.0 0 260 168 173 846.0 0 173 169 211 846.0 0 211 170 240 846.0 0 240 171 208 846.0 0 208 172 255 846.0 0 255 173 326 846.0 0 326 174 516 846.0 0 516 175 423 846.0 0 423 176 287 846.0 0 287 177 222 846.0 0 222 178 168 846.0 0 168 179 273 846.0 0 273 180 277 846.0 0 277 181 497 846.0 0 497 182 374 846.0 0 374 183 294 846.0 0 294 184 202 846.0 0 202 185 359 846.0 0 359 186 340 846.0 0 340 187 334 846.0 0 334 188 241 846.0 0 241 189 191 846.0 0 191 190 364 846.0 0 364 191 442 846.0 0 442 192 502 846.0 0 502 193 330 846.0 0 330 194 407 846.0 0 407 195 150 846.0 0 150 196 171 846.0 0 171 197 195 846.0 0 195 198 263 846.0 0 263 199 308 846.0 0 308 200 233 846.0 0 233 201 305 846.0 0 305 202 439 846.0 0 439 203 581 846.0 0 581 204 392 846.0 0 392 205 192 846.0 0 192 206 298 846.0 0 298 207 580 846.0 0 580 208 454 846.0 0 454 209 352 846.0 0 352 210 194 846.0 0 194 211 159 846.0 0 159 212 193 846.0 0 193 213 214 846.0 0 214 214 358 846.0 0 358 215 391 846.0 0 391 216 413 846.0 0 413 217 287 846.0 0 287 218 276 846.0 0 276 219 314 846.0 0 314 220 481 846.0 0 481 221 447 846.0 0 447 222 260 846.0 0 260 223 222 846.0 0 222 224 519 846.0 0 519 225 365 846.0 0 365 226 642 846.0 0 642 227 271 846.0 0 271 228 319 846.0 0 319 229 253 846.0 0 253 230 276 846.0 0 276 231 289 846.0 0 289 232 310 846.0 0 310 233 497 846.0 0 497 234 560 846.0 0 560 235 428 846.0 0 428 236 434 846.0 0 434 237 288 846.0 0 288 238 235 846.0 0 235 239 209 846.0 0 209 240 418 846.0 0 418 241 404 846.0 0 404 242 536 846.0 0 536 243 522 846.0 0 522 244 451 846.0 0 451 245 279 846.0 0 279 246 218 846.0 0 218 247 289 846.0 0 289 248 150 846.0 0 150 249 163 846.0 0 163 250 79 846.0 0 79 251 426 846.0 0 426 252 672 846.0 0 672 253 698 846.0 0 698 254 343 846.0 0 343 255 322 846.0 0 322 256 310 846.0 0 310 257 324 846.0 0 324 258 294 846.0 0 294 259 231 846.0 0 231 260 292 846.0 0 292 261 468 846.0 0 468 262 573 846.0 0 573 263 514 846.0 0 514 264 370 846.0 0 370 265 298 846.0 0 298 266 276 846.0 0 276 267 856 846.0 0 856 268 691 846.0 0 691 269 464 846.0 0 464 270 234 846.0 0 234 271 313 846.0 0 313 272 381 846.0 0 381 273 248 846.0 0 248 274 360 846.0 0 360 275 365 846.0 0 365 276 404 846.0 0 404 277 739 846.0 0 739 278 810 846.0 0 810 279 885 846.0 0 885 280 867 846.0 0 867 281 896 846.0 0 896 282 1205 846.0 0 1205 283 611 846.0 0 611 284 488 846.0 0 488 285 324 846.0 0 324 286 253 846.0 0 253 287 343 846.0 0 343 288 1653 846.0 0 1653 289 481 846.0 0 481 290 266 846.0 0 266 291 300 846.0 0 300 292 388 846.0 0 388 293 431 846.0 0 431 294 619 846.0 0 619 295 358 846.0 0 358 296 263 846.0 0 263 297 215 846.0 0 215 298 151 846.0 0 151 299 205 846.0 0 205 300 256 846.0 0 256 301 203 846.0 0 203 Finished in 7.80 s (47 us/read; 1.28 M reads/minute). === Summary === Total reads processed: 166,428 Reads with adapters: 5,161 (3.1%) Reads that were too short: 17 (0.0%) Reads written (passing filters): 5,144 (3.1%) Total basepairs processed: 41,718,981 bp Total written (filtered): 1,385,563 bp (3.3%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 5161 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 16 1 0.0 3 0 0 0 0 1 17 2 0.0 3 0 0 0 1 1 18 1 0.0 3 0 0 1 19 18 0.0 3 0 15 0 1 2 20 4777 0.0 4 4702 69 4 1 1 21 10 0.0 4 1 9 23 204 0.0 4 197 5 0 2 24 1 0.0 4 0 0 0 0 1 27 1 0.0 4 0 0 0 0 1 32 1 0.0 4 0 0 0 0 1 34 1 0.0 4 0 0 0 0 1 45 2 0.0 4 0 0 0 0 2 46 1 0.0 4 0 0 0 0 1 58 1 0.0 4 0 0 0 0 1 81 1 0.0 4 1 82 1 0.0 4 0 0 0 0 1 87 1 0.0 4 0 0 0 0 1 90 1 0.0 4 0 0 0 0 1 121 2 0.0 4 0 0 0 0 2 122 119 0.0 4 0 0 0 0 119 123 1 0.0 4 0 0 0 0 1 142 1 0.0 4 0 0 0 0 1 158 1 0.0 4 0 0 0 0 1 180 1 0.0 4 0 0 0 0 1 188 1 0.0 4 0 0 0 0 1 196 1 0.0 4 0 0 0 0 1 212 1 0.0 4 0 0 0 0 1 223 3 0.0 4 0 0 0 0 3 226 1 0.0 4 0 0 0 0 1 229 1 0.0 4 0 0 0 0 1 232 1 0.0 4 0 0 0 0 1 259 1 0.0 4 0 0 0 0 1 277 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 0.17 s (33 us/read; 1.82 M reads/minute). === Summary === Total reads processed: 5,144 Reads with adapters: 843 (16.4%) Reads written (passing filters): 5,144 (100.0%) Total basepairs processed: 1,385,563 bp Total written (filtered): 1,196,186 bp (86.3%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 843 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 79.6% C: 1.7% G: 18.1% T: 0.6% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 9 12 0.0 0 0 12 10 85 0.0 1 6 79 11 16 0.0 1 0 16 256 4 0.0 1 4 257 584 0.0 1 548 36 258 5 0.0 1 4 1 259 5 0.0 1 5 260 7 0.0 1 6 1 261 47 0.0 1 44 3 262 72 0.0 1 65 7 263 1 0.0 1 1 264 1 0.0 1 1 266 3 0.0 1 3 270 1 0.0 1 1