This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CAGAGC -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 89.83 s (26 us/read; 2.31 M reads/minute). === Summary === Total reads processed: 3,465,239 Reads with adapters: 159,965 (4.6%) Reads that were too short: 47,037 (1.4%) Reads written (passing filters): 112,928 (3.3%) Total basepairs processed: 1,043,036,939 bp Total written (filtered): 29,350,475 bp (2.8%) === Adapter 1 === Sequence: CAGAGC; Type: regular 5'; Length: 6; Trimmed: 159965 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1321 846.0 0 1321 7 79851 846.0 0 79851 8 110 846.0 0 110 9 66 846.0 0 66 10 10 846.0 0 10 11 1338 846.0 0 1338 12 62 846.0 0 62 13 6 846.0 0 6 14 11 846.0 0 11 15 5 846.0 0 5 16 4 846.0 0 4 17 11 846.0 0 11 18 5 846.0 0 5 19 9 846.0 0 9 20 13 846.0 0 13 21 5 846.0 0 5 22 5 846.0 0 5 23 9 846.0 0 9 24 8 846.0 0 8 25 11 846.0 0 11 26 6 846.0 0 6 27 69 846.0 0 69 28 27 846.0 0 27 29 143 846.0 0 143 30 9 846.0 0 9 31 4 846.0 0 4 32 5 846.0 0 5 33 9 846.0 0 9 34 4 846.0 0 4 35 4 846.0 0 4 36 10 846.0 0 10 37 12 846.0 0 12 38 6 846.0 0 6 39 7 846.0 0 7 40 14 846.0 0 14 41 12 846.0 0 12 42 8 846.0 0 8 43 12 846.0 0 12 44 7 846.0 0 7 45 9 846.0 0 9 46 10 846.0 0 10 47 7 846.0 0 7 48 14 846.0 0 14 49 13 846.0 0 13 50 14 846.0 0 14 51 17 846.0 0 17 52 25 846.0 0 25 53 32 846.0 0 32 54 31 846.0 0 31 55 48 846.0 0 48 56 927 846.0 0 927 57 19 846.0 0 19 58 211 846.0 0 211 59 17 846.0 0 17 60 22 846.0 0 22 61 40 846.0 0 40 62 143 846.0 0 143 63 97 846.0 0 97 64 333 846.0 0 333 65 9 846.0 0 9 66 18 846.0 0 18 67 55 846.0 0 55 68 144 846.0 0 144 69 38 846.0 0 38 70 11 846.0 0 11 71 17 846.0 0 17 72 30 846.0 0 30 73 83 846.0 0 83 74 113 846.0 0 113 75 88 846.0 0 88 76 71 846.0 0 71 77 58 846.0 0 58 78 981 846.0 0 981 79 510 846.0 0 510 80 728 846.0 0 728 81 692 846.0 0 692 82 185 846.0 0 185 83 444 846.0 0 444 84 154 846.0 0 154 85 204 846.0 0 204 86 120 846.0 0 120 87 170 846.0 0 170 88 58 846.0 0 58 89 167 846.0 0 167 90 91 846.0 0 91 91 113 846.0 0 113 92 181 846.0 0 181 93 82 846.0 0 82 94 147 846.0 0 147 95 207 846.0 0 207 96 100 846.0 0 100 97 51 846.0 0 51 98 75 846.0 0 75 99 44 846.0 0 44 100 60 846.0 0 60 101 50 846.0 0 50 102 31 846.0 0 31 103 22 846.0 0 22 104 22 846.0 0 22 105 24 846.0 0 24 106 12 846.0 0 12 107 26 846.0 0 26 108 40 846.0 0 40 109 74 846.0 0 74 110 267 846.0 0 267 111 62 846.0 0 62 112 89 846.0 0 89 113 72 846.0 0 72 114 116 846.0 0 116 115 190 846.0 0 190 116 481 846.0 0 481 117 420 846.0 0 420 118 187 846.0 0 187 119 96 846.0 0 96 120 129 846.0 0 129 121 153 846.0 0 153 122 205 846.0 0 205 123 186 846.0 0 186 124 131 846.0 0 131 125 109 846.0 0 109 126 151 846.0 0 151 127 120 846.0 0 120 128 169 846.0 0 169 129 196 846.0 0 196 130 179 846.0 0 179 131 180 846.0 0 180 132 120 846.0 0 120 133 145 846.0 0 145 134 118 846.0 0 118 135 176 846.0 0 176 136 212 846.0 0 212 137 226 846.0 0 226 138 173 846.0 0 173 139 161 846.0 0 161 140 149 846.0 0 149 141 145 846.0 0 145 142 285 846.0 0 285 143 241 846.0 0 241 144 218 846.0 0 218 145 189 846.0 0 189 146 222 846.0 0 222 147 228 846.0 0 228 148 186 846.0 0 186 149 157 846.0 0 157 150 222 846.0 0 222 151 204 846.0 0 204 152 273 846.0 0 273 153 242 846.0 0 242 154 177 846.0 0 177 155 284 846.0 0 284 156 293 846.0 0 293 157 309 846.0 0 309 158 309 846.0 0 309 159 214 846.0 0 214 160 309 846.0 0 309 161 188 846.0 0 188 162 255 846.0 0 255 163 239 846.0 0 239 164 213 846.0 0 213 165 243 846.0 0 243 166 295 846.0 0 295 167 308 846.0 0 308 168 252 846.0 0 252 169 244 846.0 0 244 170 211 846.0 0 211 171 267 846.0 0 267 172 259 846.0 0 259 173 218 846.0 0 218 174 196 846.0 0 196 175 260 846.0 0 260 176 239 846.0 0 239 177 277 846.0 0 277 178 294 846.0 0 294 179 254 846.0 0 254 180 248 846.0 0 248 181 330 846.0 0 330 182 339 846.0 0 339 183 485 846.0 0 485 184 280 846.0 0 280 185 317 846.0 0 317 186 282 846.0 0 282 187 448 846.0 0 448 188 286 846.0 0 286 189 262 846.0 0 262 190 259 846.0 0 259 191 270 846.0 0 270 192 317 846.0 0 317 193 235 846.0 0 235 194 186 846.0 0 186 195 296 846.0 0 296 196 251 846.0 0 251 197 355 846.0 0 355 198 213 846.0 0 213 199 171 846.0 0 171 200 241 846.0 0 241 201 213 846.0 0 213 202 213 846.0 0 213 203 209 846.0 0 209 204 268 846.0 0 268 205 331 846.0 0 331 206 232 846.0 0 232 207 196 846.0 0 196 208 302 846.0 0 302 209 239 846.0 0 239 210 280 846.0 0 280 211 335 846.0 0 335 212 296 846.0 0 296 213 340 846.0 0 340 214 360 846.0 0 360 215 255 846.0 0 255 216 363 846.0 0 363 217 419 846.0 0 419 218 634 846.0 0 634 219 574 846.0 0 574 220 604 846.0 0 604 221 481 846.0 0 481 222 402 846.0 0 402 223 337 846.0 0 337 224 284 846.0 0 284 225 2941 846.0 0 2941 226 1160 846.0 0 1160 227 2863 846.0 0 2863 228 799 846.0 0 799 229 462 846.0 0 462 230 725 846.0 0 725 231 236 846.0 0 236 232 268 846.0 0 268 233 381 846.0 0 381 234 258 846.0 0 258 235 207 846.0 0 207 236 392 846.0 0 392 237 697 846.0 0 697 238 1145 846.0 0 1145 239 522 846.0 0 522 240 258 846.0 0 258 241 287 846.0 0 287 242 231 846.0 0 231 243 246 846.0 0 246 244 251 846.0 0 251 245 371 846.0 0 371 246 383 846.0 0 383 247 337 846.0 0 337 248 291 846.0 0 291 249 325 846.0 0 325 250 468 846.0 0 468 251 260 846.0 0 260 252 250 846.0 0 250 253 210 846.0 0 210 254 294 846.0 0 294 255 280 846.0 0 280 256 249 846.0 0 249 257 170 846.0 0 170 258 179 846.0 0 179 259 256 846.0 0 256 260 1708 846.0 0 1708 261 604 846.0 0 604 262 1131 846.0 0 1131 263 634 846.0 0 634 264 590 846.0 0 590 265 609 846.0 0 609 266 296 846.0 0 296 267 285 846.0 0 285 268 304 846.0 0 304 269 369 846.0 0 369 270 564 846.0 0 564 271 316 846.0 0 316 272 416 846.0 0 416 273 309 846.0 0 309 274 183 846.0 0 183 275 230 846.0 0 230 276 349 846.0 0 349 277 442 846.0 0 442 278 319 846.0 0 319 279 213 846.0 0 213 280 272 846.0 0 272 281 429 846.0 0 429 282 468 846.0 0 468 283 339 846.0 0 339 284 339 846.0 0 339 285 789 846.0 0 789 286 1143 846.0 0 1143 287 696 846.0 0 696 288 646 846.0 0 646 289 592 846.0 0 592 290 849 846.0 0 849 291 442 846.0 0 442 292 307 846.0 0 307 293 253 846.0 0 253 294 413 846.0 0 413 295 371 846.0 0 371 296 644 846.0 0 644 297 487 846.0 0 487 298 495 846.0 0 495 299 269 846.0 0 269 300 181 846.0 0 181 301 136 846.0 0 136 Finished in 5.09 s (45 us/read; 1.33 M reads/minute). === Summary === Total reads processed: 112,928 Reads with adapters: 81,165 (71.9%) Reads that were too short: 16 (0.0%) Reads written (passing filters): 81,149 (71.9%) Total basepairs processed: 29,350,475 bp Total written (filtered): 22,234,013 bp (75.8%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 81165 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 4 0.0 3 0 0 0 2 2 18 17 0.0 3 0 0 7 5 5 19 277 0.0 3 0 251 12 9 5 20 80432 0.0 4 79110 1169 109 33 11 21 184 0.0 4 40 143 1 22 14 0.0 4 2 0 11 1 23 203 0.0 4 155 5 2 37 4 24 4 0.0 4 1 0 1 1 1 25 1 0.0 4 0 0 1 32 1 0.0 4 0 0 1 33 1 0.0 4 0 0 0 0 1 45 1 0.0 4 0 0 0 0 1 66 1 0.0 4 0 0 0 0 1 68 6 0.0 4 0 0 0 0 6 77 1 0.0 4 0 0 0 0 1 78 1 0.0 4 0 0 0 0 1 79 1 0.0 4 0 0 0 0 1 88 2 0.0 4 0 0 0 0 2 90 1 0.0 4 0 0 0 0 1 91 1 0.0 4 0 0 0 0 1 92 1 0.0 4 0 0 0 0 1 93 1 0.0 4 0 0 0 0 1 96 1 0.0 4 0 0 0 0 1 98 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 1 110 1 0.0 4 0 0 0 0 1 120 1 0.0 4 0 0 0 0 1 134 1 0.0 4 0 0 0 0 1 164 1 0.0 4 0 0 0 0 1 179 1 0.0 4 0 0 0 0 1 210 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 2.78 s (34 us/read; 1.75 M reads/minute). === Summary === Total reads processed: 81,149 Reads with adapters: 6,365 (7.8%) Reads written (passing filters): 81,149 (100.0%) Total basepairs processed: 22,234,013 bp Total written (filtered): 22,120,850 bp (99.5%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 6365 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 3.4% C: 4.1% G: 91.7% T: 0.8% 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 52 1268.0 0 52 4 1 317.0 0 1 5 1 79.2 0 1 8 1 1.2 0 1 9 3 0.3 0 0 3 10 12 0.1 1 1 11 11 5796 0.0 1 36 5760 12 134 0.0 1 13 121 13 170 0.0 1 80 90 14 3 0.0 1 0 3 151 1 0.0 1 1 152 45 0.0 1 41 4 153 1 0.0 1 1 171 1 0.0 1 1 205 4 0.0 1 4 210 5 0.0 1 2 3 257 18 0.0 1 16 2 258 1 0.0 1 1 259 2 0.0 1 2 261 1 0.0 1 1 263 3 0.0 1 3 264 1 0.0 1 1 267 13 0.0 1 13 269 86 0.0 1 84 2 271 1 0.0 1 1 272 7 0.0 1 6 1 273 2 0.0 1 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.