This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g ACAGGT -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 177.02 s (33 us/read; 1.81 M reads/minute). === Summary === Total reads processed: 5,333,634 Reads with adapters: 104,611 (2.0%) Reads that were too short: 32,475 (0.6%) Reads written (passing filters): 72,136 (1.4%) Total basepairs processed: 1,605,423,834 bp Total written (filtered): 14,764,173 bp (0.9%) === Adapter 1 === Sequence: ACAGGT; Type: regular 5'; Length: 6; Trimmed: 104611 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 226 1302.2 0 226 7 516 1302.2 0 516 8 19810 1302.2 0 19810 9 41 1302.2 0 41 10 13 1302.2 0 13 11 14 1302.2 0 14 12 23 1302.2 0 23 13 13 1302.2 0 13 14 10 1302.2 0 10 15 22 1302.2 0 22 16 18 1302.2 0 18 17 16 1302.2 0 16 18 161 1302.2 0 161 19 15 1302.2 0 15 20 46 1302.2 0 46 21 15 1302.2 0 15 22 18 1302.2 0 18 23 17 1302.2 0 17 24 8 1302.2 0 8 25 15 1302.2 0 15 26 17 1302.2 0 17 27 31 1302.2 0 31 28 15 1302.2 0 15 29 20 1302.2 0 20 30 28 1302.2 0 28 31 12 1302.2 0 12 32 10 1302.2 0 10 33 16 1302.2 0 16 34 16 1302.2 0 16 35 9 1302.2 0 9 36 10 1302.2 0 10 37 17 1302.2 0 17 38 16 1302.2 0 16 39 20 1302.2 0 20 40 10 1302.2 0 10 41 63 1302.2 0 63 42 33 1302.2 0 33 43 9 1302.2 0 9 44 41 1302.2 0 41 45 13 1302.2 0 13 46 24 1302.2 0 24 47 14 1302.2 0 14 48 14 1302.2 0 14 49 12 1302.2 0 12 50 15 1302.2 0 15 51 10 1302.2 0 10 52 13 1302.2 0 13 53 26 1302.2 0 26 54 26 1302.2 0 26 55 16 1302.2 0 16 56 28 1302.2 0 28 57 13 1302.2 0 13 58 22 1302.2 0 22 59 18 1302.2 0 18 60 24 1302.2 0 24 61 26 1302.2 0 26 62 13 1302.2 0 13 63 10 1302.2 0 10 64 18 1302.2 0 18 65 38 1302.2 0 38 66 39 1302.2 0 39 67 56 1302.2 0 56 68 49 1302.2 0 49 69 98 1302.2 0 98 70 149 1302.2 0 149 71 1731 1302.2 0 1731 72 1045 1302.2 0 1045 73 1008 1302.2 0 1008 74 33 1302.2 0 33 75 89 1302.2 0 89 76 104 1302.2 0 104 77 357 1302.2 0 357 78 508 1302.2 0 508 79 271 1302.2 0 271 80 311 1302.2 0 311 81 855 1302.2 0 855 82 487 1302.2 0 487 83 361 1302.2 0 361 84 1195 1302.2 0 1195 85 427 1302.2 0 427 86 174 1302.2 0 174 87 302 1302.2 0 302 88 155 1302.2 0 155 89 57 1302.2 0 57 90 87 1302.2 0 87 91 584 1302.2 0 584 92 412 1302.2 0 412 93 1318 1302.2 0 1318 94 906 1302.2 0 906 95 432 1302.2 0 432 96 642 1302.2 0 642 97 423 1302.2 0 423 98 1875 1302.2 0 1875 99 157 1302.2 0 157 100 69 1302.2 0 69 101 55 1302.2 0 55 102 29 1302.2 0 29 103 28 1302.2 0 28 104 36 1302.2 0 36 105 28 1302.2 0 28 106 19 1302.2 0 19 107 35 1302.2 0 35 108 140 1302.2 0 140 109 106 1302.2 0 106 110 73 1302.2 0 73 111 85 1302.2 0 85 112 85 1302.2 0 85 113 100 1302.2 0 100 114 166 1302.2 0 166 115 295 1302.2 0 295 116 352 1302.2 0 352 117 353 1302.2 0 353 118 172 1302.2 0 172 119 183 1302.2 0 183 120 224 1302.2 0 224 121 189 1302.2 0 189 122 235 1302.2 0 235 123 430 1302.2 0 430 124 455 1302.2 0 455 125 818 1302.2 0 818 126 309 1302.2 0 309 127 285 1302.2 0 285 128 246 1302.2 0 246 129 604 1302.2 0 604 130 565 1302.2 0 565 131 341 1302.2 0 341 132 466 1302.2 0 466 133 293 1302.2 0 293 134 380 1302.2 0 380 135 511 1302.2 0 511 136 562 1302.2 0 562 137 400 1302.2 0 400 138 328 1302.2 0 328 139 234 1302.2 0 234 140 202 1302.2 0 202 141 141 1302.2 0 141 142 152 1302.2 0 152 143 303 1302.2 0 303 144 466 1302.2 0 466 145 464 1302.2 0 464 146 349 1302.2 0 349 147 157 1302.2 0 157 148 114 1302.2 0 114 149 105 1302.2 0 105 150 164 1302.2 0 164 151 209 1302.2 0 209 152 192 1302.2 0 192 153 313 1302.2 0 313 154 466 1302.2 0 466 155 959 1302.2 0 959 156 674 1302.2 0 674 157 398 1302.2 0 398 158 360 1302.2 0 360 159 309 1302.2 0 309 160 242 1302.2 0 242 161 249 1302.2 0 249 162 272 1302.2 0 272 163 441 1302.2 0 441 164 498 1302.2 0 498 165 642 1302.2 0 642 166 513 1302.2 0 513 167 446 1302.2 0 446 168 424 1302.2 0 424 169 193 1302.2 0 193 170 210 1302.2 0 210 171 279 1302.2 0 279 172 595 1302.2 0 595 173 411 1302.2 0 411 174 346 1302.2 0 346 175 231 1302.2 0 231 176 247 1302.2 0 247 177 266 1302.2 0 266 178 454 1302.2 0 454 179 560 1302.2 0 560 180 501 1302.2 0 501 181 348 1302.2 0 348 182 367 1302.2 0 367 183 411 1302.2 0 411 184 354 1302.2 0 354 185 325 1302.2 0 325 186 178 1302.2 0 178 187 96 1302.2 0 96 188 158 1302.2 0 158 189 304 1302.2 0 304 190 899 1302.2 0 899 191 872 1302.2 0 872 192 1691 1302.2 0 1691 193 662 1302.2 0 662 194 421 1302.2 0 421 195 258 1302.2 0 258 196 359 1302.2 0 359 197 294 1302.2 0 294 198 225 1302.2 0 225 199 172 1302.2 0 172 200 204 1302.2 0 204 201 237 1302.2 0 237 202 387 1302.2 0 387 203 634 1302.2 0 634 204 763 1302.2 0 763 205 310 1302.2 0 310 206 204 1302.2 0 204 207 147 1302.2 0 147 208 229 1302.2 0 229 209 301 1302.2 0 301 210 806 1302.2 0 806 211 1466 1302.2 0 1466 212 670 1302.2 0 670 213 355 1302.2 0 355 214 264 1302.2 0 264 215 364 1302.2 0 364 216 499 1302.2 0 499 217 520 1302.2 0 520 218 365 1302.2 0 365 219 188 1302.2 0 188 220 286 1302.2 0 286 221 495 1302.2 0 495 222 648 1302.2 0 648 223 346 1302.2 0 346 224 502 1302.2 0 502 225 572 1302.2 0 572 226 489 1302.2 0 489 227 376 1302.2 0 376 228 291 1302.2 0 291 229 177 1302.2 0 177 230 111 1302.2 0 111 231 125 1302.2 0 125 232 209 1302.2 0 209 233 287 1302.2 0 287 234 220 1302.2 0 220 235 216 1302.2 0 216 236 300 1302.2 0 300 237 273 1302.2 0 273 238 189 1302.2 0 189 239 110 1302.2 0 110 240 158 1302.2 0 158 241 228 1302.2 0 228 242 350 1302.2 0 350 243 375 1302.2 0 375 244 335 1302.2 0 335 245 342 1302.2 0 342 246 221 1302.2 0 221 247 114 1302.2 0 114 248 90 1302.2 0 90 249 189 1302.2 0 189 250 275 1302.2 0 275 251 440 1302.2 0 440 252 282 1302.2 0 282 253 261 1302.2 0 261 254 326 1302.2 0 326 255 445 1302.2 0 445 256 286 1302.2 0 286 257 183 1302.2 0 183 258 192 1302.2 0 192 259 109 1302.2 0 109 260 130 1302.2 0 130 261 185 1302.2 0 185 262 202 1302.2 0 202 263 303 1302.2 0 303 264 896 1302.2 0 896 265 677 1302.2 0 677 266 458 1302.2 0 458 267 176 1302.2 0 176 268 110 1302.2 0 110 269 114 1302.2 0 114 270 165 1302.2 0 165 271 424 1302.2 0 424 272 533 1302.2 0 533 273 241 1302.2 0 241 274 167 1302.2 0 167 275 194 1302.2 0 194 276 188 1302.2 0 188 277 371 1302.2 0 371 278 404 1302.2 0 404 279 234 1302.2 0 234 280 180 1302.2 0 180 281 100 1302.2 0 100 282 127 1302.2 0 127 283 165 1302.2 0 165 284 279 1302.2 0 279 285 460 1302.2 0 460 286 388 1302.2 0 388 287 305 1302.2 0 305 288 152 1302.2 0 152 289 172 1302.2 0 172 290 421 1302.2 0 421 291 517 1302.2 0 517 292 410 1302.2 0 410 293 305 1302.2 0 305 294 139 1302.2 0 139 295 220 1302.2 0 220 296 214 1302.2 0 214 297 792 1302.2 0 792 298 459 1302.2 0 459 299 194 1302.2 0 194 300 199 1302.2 0 199 301 210 1302.2 0 210 Finished in 3.48 s (48 us/read; 1.24 M reads/minute). === Summary === Total reads processed: 72,136 Reads with adapters: 20,343 (28.2%) Reads that were too short: 27 (0.0%) Reads written (passing filters): 20,316 (28.2%) Total basepairs processed: 14,764,173 bp Total written (filtered): 5,546,283 bp (37.6%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 20343 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 1 18 13 0.0 3 0 0 10 2 1 19 362 0.0 3 0 327 24 5 6 20 19862 0.0 4 19170 603 59 21 9 21 49 0.0 4 10 32 4 2 1 22 10 0.0 4 1 0 3 0 6 23 11 0.0 4 0 0 0 7 4 24 1 0.0 4 0 0 0 0 1 26 1 0.0 4 0 0 0 1 28 1 0.0 4 0 0 0 0 1 32 1 0.0 4 1 40 1 0.0 4 0 0 0 0 1 53 1 0.0 4 0 0 0 0 1 61 1 0.0 4 0 0 0 0 1 65 1 0.0 4 0 0 0 0 1 77 1 0.0 4 0 0 0 0 1 79 2 0.0 4 0 0 0 0 2 85 1 0.0 4 0 0 0 0 1 86 1 0.0 4 0 0 0 0 1 88 2 0.0 4 0 0 0 1 1 89 1 0.0 4 0 0 0 0 1 96 1 0.0 4 0 0 0 0 1 102 1 0.0 4 0 0 0 0 1 104 1 0.0 4 0 0 0 0 1 105 1 0.0 4 0 0 0 0 1 106 1 0.0 4 0 0 0 0 1 107 1 0.0 4 0 0 0 0 1 113 1 0.0 4 0 0 0 0 1 115 2 0.0 4 0 0 0 0 2 128 1 0.0 4 0 0 0 1 132 1 0.0 4 0 0 0 0 1 137 1 0.0 4 0 0 0 0 1 138 1 0.0 4 0 0 0 0 1 146 2 0.0 4 0 0 0 0 2 166 1 0.0 4 0 0 0 0 1 197 1 0.0 4 0 0 0 0 1 200 1 0.0 4 0 0 0 0 1 205 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 0.89 s (44 us/read; 1.37 M reads/minute). === Summary === Total reads processed: 20,316 Reads with adapters: 3,307 (16.3%) Reads written (passing filters): 20,316 (100.0%) Total basepairs processed: 5,546,283 bp Total written (filtered): 5,505,337 bp (99.3%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 3307 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.7% C: 1.9% G: 94.1% T: 2.3% 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 1 317.4 0 1 4 48 79.4 0 48 7 1 1.2 0 1 9 6 0.1 0 1 5 10 80 0.0 1 5 75 11 3141 0.0 1 5 3136 12 5 0.0 1 0 5 14 1 0.0 1 0 1 105 1 0.0 1 0 1 106 1 0.0 1 1 126 1 0.0 1 0 1 151 1 0.0 1 1 202 4 0.0 1 2 2 204 1 0.0 1 1 224 3 0.0 1 3 233 1 0.0 1 1 258 3 0.0 1 3 259 7 0.0 1 7 273 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.