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 108.81 s (34 us/read; 1.76 M reads/minute). === Summary === Total reads processed: 3,184,960 Reads with adapters: 663,506 (20.8%) Reads that were too short: 34,551 (1.1%) Reads written (passing filters): 628,955 (19.7%) Total basepairs processed: 958,672,960 bp Total written (filtered): 177,320,098 bp (18.5%) === Adapter 1 === Sequence: ACCTAT; Type: regular 5'; Length: 6; Trimmed: 663506 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 2728 777.6 0 2728 7 48218 777.6 0 48218 8 5951 777.6 0 5951 9 165948 777.6 0 165948 10 3498 777.6 0 3498 11 4507 777.6 0 4507 12 75862 777.6 0 75862 13 133961 777.6 0 133961 14 149903 777.6 0 149903 15 305 777.6 0 305 16 16 777.6 0 16 17 8 777.6 0 8 18 10 777.6 0 10 19 12 777.6 0 12 20 7 777.6 0 7 21 5 777.6 0 5 22 11 777.6 0 11 23 7 777.6 0 7 24 16 777.6 0 16 25 11 777.6 0 11 26 20 777.6 0 20 27 19 777.6 0 19 28 18 777.6 0 18 29 11 777.6 0 11 30 15 777.6 0 15 31 11 777.6 0 11 32 20 777.6 0 20 33 11 777.6 0 11 34 17 777.6 0 17 35 15 777.6 0 15 36 58 777.6 0 58 37 18 777.6 0 18 38 240 777.6 0 240 39 10 777.6 0 10 40 33 777.6 0 33 41 6 777.6 0 6 42 7 777.6 0 7 43 57 777.6 0 57 44 13 777.6 0 13 45 18 777.6 0 18 46 5 777.6 0 5 47 5 777.6 0 5 48 4 777.6 0 4 49 6 777.6 0 6 50 6 777.6 0 6 51 8 777.6 0 8 52 11 777.6 0 11 53 5 777.6 0 5 54 6 777.6 0 6 55 2 777.6 0 2 56 10 777.6 0 10 57 7 777.6 0 7 58 14 777.6 0 14 59 9 777.6 0 9 60 8 777.6 0 8 61 7 777.6 0 7 62 6 777.6 0 6 63 9 777.6 0 9 64 6 777.6 0 6 65 4 777.6 0 4 66 5 777.6 0 5 67 9 777.6 0 9 68 5 777.6 0 5 69 3 777.6 0 3 70 4 777.6 0 4 71 5 777.6 0 5 72 23 777.6 0 23 73 254 777.6 0 254 74 35 777.6 0 35 75 49 777.6 0 49 76 30 777.6 0 30 77 90 777.6 0 90 78 52 777.6 0 52 79 108 777.6 0 108 80 64 777.6 0 64 81 129 777.6 0 129 82 56 777.6 0 56 83 92 777.6 0 92 84 84 777.6 0 84 85 45 777.6 0 45 86 108 777.6 0 108 87 109 777.6 0 109 88 39 777.6 0 39 89 135 777.6 0 135 90 418 777.6 0 418 91 319 777.6 0 319 92 66 777.6 0 66 93 188 777.6 0 188 94 412 777.6 0 412 95 257 777.6 0 257 96 406 777.6 0 406 97 253 777.6 0 253 98 101 777.6 0 101 99 41 777.6 0 41 100 102 777.6 0 102 101 137 777.6 0 137 102 83 777.6 0 83 103 129 777.6 0 129 104 233 777.6 0 233 105 205 777.6 0 205 106 1643 777.6 0 1643 107 442 777.6 0 442 108 174 777.6 0 174 109 86 777.6 0 86 110 377 777.6 0 377 111 228 777.6 0 228 112 292 777.6 0 292 113 311 777.6 0 311 114 113 777.6 0 113 115 120 777.6 0 120 116 83 777.6 0 83 117 62 777.6 0 62 118 69 777.6 0 69 119 152 777.6 0 152 120 572 777.6 0 572 121 245 777.6 0 245 122 407 777.6 0 407 123 149 777.6 0 149 124 127 777.6 0 127 125 185 777.6 0 185 126 578 777.6 0 578 127 1843 777.6 0 1843 128 1533 777.6 0 1533 129 784 777.6 0 784 130 161 777.6 0 161 131 109 777.6 0 109 132 123 777.6 0 123 133 185 777.6 0 185 134 297 777.6 0 297 135 568 777.6 0 568 136 348 777.6 0 348 137 285 777.6 0 285 138 393 777.6 0 393 139 686 777.6 0 686 140 942 777.6 0 942 141 432 777.6 0 432 142 360 777.6 0 360 143 391 777.6 0 391 144 132 777.6 0 132 145 317 777.6 0 317 146 664 777.6 0 664 147 220 777.6 0 220 148 335 777.6 0 335 149 85 777.6 0 85 150 121 777.6 0 121 151 598 777.6 0 598 152 349 777.6 0 349 153 734 777.6 0 734 154 375 777.6 0 375 155 366 777.6 0 366 156 141 777.6 0 141 157 172 777.6 0 172 158 1028 777.6 0 1028 159 406 777.6 0 406 160 476 777.6 0 476 161 629 777.6 0 629 162 271 777.6 0 271 163 272 777.6 0 272 164 193 777.6 0 193 165 281 777.6 0 281 166 284 777.6 0 284 167 273 777.6 0 273 168 171 777.6 0 171 169 110 777.6 0 110 170 201 777.6 0 201 171 93 777.6 0 93 172 135 777.6 0 135 173 228 777.6 0 228 174 635 777.6 0 635 175 221 777.6 0 221 176 216 777.6 0 216 177 131 777.6 0 131 178 85 777.6 0 85 179 175 777.6 0 175 180 240 777.6 0 240 181 366 777.6 0 366 182 314 777.6 0 314 183 322 777.6 0 322 184 234 777.6 0 234 185 269 777.6 0 269 186 246 777.6 0 246 187 183 777.6 0 183 188 157 777.6 0 157 189 93 777.6 0 93 190 207 777.6 0 207 191 339 777.6 0 339 192 578 777.6 0 578 193 190 777.6 0 190 194 249 777.6 0 249 195 125 777.6 0 125 196 92 777.6 0 92 197 108 777.6 0 108 198 402 777.6 0 402 199 319 777.6 0 319 200 186 777.6 0 186 201 136 777.6 0 136 202 195 777.6 0 195 203 329 777.6 0 329 204 307 777.6 0 307 205 170 777.6 0 170 206 296 777.6 0 296 207 279 777.6 0 279 208 266 777.6 0 266 209 244 777.6 0 244 210 257 777.6 0 257 211 325 777.6 0 325 212 174 777.6 0 174 213 220 777.6 0 220 214 349 777.6 0 349 215 295 777.6 0 295 216 209 777.6 0 209 217 203 777.6 0 203 218 213 777.6 0 213 219 324 777.6 0 324 220 491 777.6 0 491 221 228 777.6 0 228 222 129 777.6 0 129 223 150 777.6 0 150 224 483 777.6 0 483 225 451 777.6 0 451 226 300 777.6 0 300 227 258 777.6 0 258 228 280 777.6 0 280 229 167 777.6 0 167 230 160 777.6 0 160 231 174 777.6 0 174 232 186 777.6 0 186 233 207 777.6 0 207 234 280 777.6 0 280 235 295 777.6 0 295 236 288 777.6 0 288 237 183 777.6 0 183 238 185 777.6 0 185 239 131 777.6 0 131 240 313 777.6 0 313 241 301 777.6 0 301 242 294 777.6 0 294 243 343 777.6 0 343 244 311 777.6 0 311 245 471 777.6 0 471 246 335 777.6 0 335 247 237 777.6 0 237 248 157 777.6 0 157 249 112 777.6 0 112 250 75 777.6 0 75 251 153 777.6 0 153 252 223 777.6 0 223 253 267 777.6 0 267 254 319 777.6 0 319 255 392 777.6 0 392 256 582 777.6 0 582 257 387 777.6 0 387 258 232 777.6 0 232 259 131 777.6 0 131 260 142 777.6 0 142 261 229 777.6 0 229 262 331 777.6 0 331 263 202 777.6 0 202 264 261 777.6 0 261 265 241 777.6 0 241 266 569 777.6 0 569 267 980 777.6 0 980 268 530 777.6 0 530 269 317 777.6 0 317 270 156 777.6 0 156 271 226 777.6 0 226 272 243 777.6 0 243 273 219 777.6 0 219 274 303 777.6 0 303 275 244 777.6 0 244 276 208 777.6 0 208 277 597 777.6 0 597 278 1208 777.6 0 1208 279 901 777.6 0 901 280 1249 777.6 0 1249 281 1734 777.6 0 1734 282 1139 777.6 0 1139 283 652 777.6 0 652 284 340 777.6 0 340 285 409 777.6 0 409 286 352 777.6 0 352 287 566 777.6 0 566 288 586 777.6 0 586 289 407 777.6 0 407 290 180 777.6 0 180 291 164 777.6 0 164 292 263 777.6 0 263 293 415 777.6 0 415 294 539 777.6 0 539 295 345 777.6 0 345 296 330 777.6 0 330 297 340 777.6 0 340 298 239 777.6 0 239 299 371 777.6 0 371 300 272 777.6 0 272 301 236 777.6 0 236 Finished in 37.63 s (60 us/read; 1.00 M reads/minute). === Summary === Total reads processed: 628,955 Reads with adapters: 174,811 (27.8%) Reads that were too short: 178 (0.0%) Reads written (passing filters): 174,633 (27.8%) Total basepairs processed: 177,320,098 bp Total written (filtered): 46,968,847 bp (26.5%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 174811 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 2 0.0 3 0 0 0 0 2 18 25 0.0 3 0 0 13 6 6 19 415 0.0 3 0 372 18 18 7 20 168491 0.0 4 163377 4287 572 185 70 21 376 0.0 4 35 330 9 0 2 22 36 0.0 4 2 0 27 1 6 23 172 0.0 4 56 1 2 96 17 24 2 0.0 4 0 0 0 0 2 25 1 0.0 4 0 0 0 1 28 1 0.0 4 1 32 1 0.0 4 0 0 1 37 1 0.0 4 1 38 1 0.0 4 0 0 0 0 1 40 1 0.0 4 1 42 2 0.0 4 1 0 0 0 1 44 2 0.0 4 0 0 0 0 2 45 5 0.0 4 0 0 0 0 5 47 1 0.0 4 0 0 0 0 1 60 1 0.0 4 0 0 0 0 1 62 1 0.0 4 0 0 0 0 1 63 1 0.0 4 0 0 0 0 1 67 1 0.0 4 0 0 0 0 1 81 1 0.0 4 0 0 0 0 1 84 1 0.0 4 0 0 0 0 1 86 1 0.0 4 0 0 0 0 1 87 4 0.0 4 0 0 0 0 4 93 2 0.0 4 0 0 0 0 2 98 1 0.0 4 0 0 0 0 1 99 1 0.0 4 0 0 0 0 1 109 4 0.0 4 0 0 0 0 4 119 2 0.0 4 0 0 0 0 2 120 11 0.0 4 0 0 0 0 11 121 49 0.0 4 0 0 0 0 49 122 4379 0.0 4 0 0 0 0 4379 123 12 0.0 4 0 0 0 0 12 124 3 0.0 4 0 0 0 0 3 125 2 0.0 4 0 0 0 0 2 126 3 0.0 4 0 0 0 0 3 127 599 0.0 4 0 0 0 0 599 129 1 0.0 4 0 0 0 0 1 140 1 0.0 4 0 0 0 0 1 141 16 0.0 4 0 0 0 0 16 148 13 0.0 4 0 0 0 0 13 150 1 0.0 4 0 0 0 0 1 160 1 0.0 4 0 0 0 1 170 1 0.0 4 0 0 0 0 1 172 1 0.0 4 0 0 0 0 1 187 1 0.0 4 0 0 0 0 1 191 1 0.0 4 0 0 0 0 1 197 1 0.0 4 0 0 0 0 1 207 2 0.0 4 0 0 0 0 2 208 3 0.0 4 0 0 0 0 3 209 4 0.0 4 0 0 0 1 3 211 2 0.0 4 0 0 0 0 2 216 1 0.0 4 0 0 0 0 1 217 1 0.0 4 0 0 0 0 1 223 15 0.0 4 0 0 0 0 15 224 1 0.0 4 0 0 0 0 1 227 4 0.0 4 0 0 0 1 3 228 3 0.0 4 0 0 0 0 3 229 6 0.0 4 0 0 0 0 6 230 4 0.0 4 0 0 0 1 3 233 1 0.0 4 0 0 0 1 238 1 0.0 4 0 0 0 0 1 240 1 0.0 4 0 0 0 0 1 245 1 0.0 4 0 0 0 0 1 251 1 0.0 4 0 0 0 0 1 252 5 0.0 4 0 0 0 0 5 253 1 0.0 4 0 0 0 0 1 254 8 0.0 4 0 0 0 1 7 255 4 0.0 4 0 0 0 0 4 257 2 0.0 4 0 0 0 0 2 258 2 0.0 4 0 0 0 1 1 259 5 0.0 4 0 0 0 0 5 260 11 0.0 4 0 0 0 1 10 261 1 0.0 4 0 0 0 0 1 264 1 0.0 4 0 0 0 0 1 271 2 0.0 4 0 0 0 0 2 277 28 0.0 4 0 0 0 0 28 278 9 0.0 4 0 0 0 1 8 279 2 0.0 4 0 0 0 0 2 280 4 0.0 4 0 0 0 0 4 282 1 0.0 4 0 0 0 0 1 284 4 0.0 4 0 0 0 0 4 285 2 0.0 4 0 0 0 0 2 286 7 0.0 4 0 0 0 0 7 287 5 0.0 4 0 0 0 0 5 289 1 0.0 4 0 0 0 0 1 291 2 0.0 4 0 0 0 0 2 294 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 7.43 s (43 us/read; 1.41 M reads/minute). === Summary === Total reads processed: 174,633 Reads with adapters: 10,099 (5.8%) Reads written (passing filters): 174,633 (100.0%) Total basepairs processed: 46,968,847 bp Total written (filtered): 46,719,062 bp (99.5%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 10099 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 9.4% C: 2.3% G: 86.5% T: 1.8% 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 3 2728.6 0 3 4 13 682.2 0 13 5 4 170.5 0 4 8 2 2.7 0 2 9 1883 0.7 0 127 1756 10 2719 0.2 1 95 2624 11 4839 0.0 1 7 4832 12 11 0.0 1 0 11 13 21 0.0 1 0 21 122 1 0.0 1 0 1 150 18 0.0 1 5 13 152 1 0.0 1 0 1 158 1 0.0 1 0 1 160 1 0.0 1 1 177 1 0.0 1 0 1 207 1 0.0 1 1 208 29 0.0 1 25 4 209 2 0.0 1 0 2 210 1 0.0 1 1 257 351 0.0 1 325 26 258 16 0.0 1 16 259 6 0.0 1 6 260 3 0.0 1 3 261 161 0.0 1 152 9 262 4 0.0 1 4 263 5 0.0 1 5 264 2 0.0 1 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.