This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g ACACAA -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 73.87 s (26 us/read; 2.30 M reads/minute). === Summary === Total reads processed: 2,834,615 Reads with adapters: 446,983 (15.8%) Reads that were too short: 45,702 (1.6%) Reads written (passing filters): 401,281 (14.2%) Total basepairs processed: 853,219,115 bp Total written (filtered): 113,244,563 bp (13.3%) === Adapter 1 === Sequence: ACACAA; Type: regular 5'; Length: 6; Trimmed: 446983 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 3921 692.0 0 3921 7 176628 692.0 0 176628 8 4565 692.0 0 4565 9 182623 692.0 0 182623 10 210 692.0 0 210 11 14 692.0 0 14 12 12 692.0 0 12 13 18 692.0 0 18 14 11 692.0 0 11 15 18 692.0 0 18 16 18 692.0 0 18 17 9 692.0 0 9 18 13 692.0 0 13 19 11 692.0 0 11 20 11 692.0 0 11 21 11 692.0 0 11 22 14 692.0 0 14 23 19 692.0 0 19 24 13 692.0 0 13 25 27 692.0 0 27 26 31 692.0 0 31 27 35 692.0 0 35 28 33 692.0 0 33 29 12 692.0 0 12 30 24 692.0 0 24 31 16 692.0 0 16 32 21 692.0 0 21 33 35 692.0 0 35 34 9 692.0 0 9 35 14 692.0 0 14 36 9 692.0 0 9 37 20 692.0 0 20 38 24 692.0 0 24 39 27 692.0 0 27 40 17 692.0 0 17 41 191 692.0 0 191 42 133 692.0 0 133 43 408 692.0 0 408 44 32 692.0 0 32 45 39 692.0 0 39 46 20 692.0 0 20 47 21 692.0 0 21 48 18 692.0 0 18 49 22 692.0 0 22 50 35 692.0 0 35 51 25 692.0 0 25 52 52 692.0 0 52 53 17 692.0 0 17 54 13 692.0 0 13 55 13 692.0 0 13 56 17 692.0 0 17 57 79 692.0 0 79 58 36 692.0 0 36 59 48 692.0 0 48 60 15 692.0 0 15 61 18 692.0 0 18 62 23 692.0 0 23 63 29 692.0 0 29 64 21 692.0 0 21 65 37 692.0 0 37 66 41 692.0 0 41 67 68 692.0 0 68 68 29 692.0 0 29 69 58 692.0 0 58 70 26 692.0 0 26 71 61 692.0 0 61 72 141 692.0 0 141 73 134 692.0 0 134 74 172 692.0 0 172 75 140 692.0 0 140 76 123 692.0 0 123 77 107 692.0 0 107 78 99 692.0 0 99 79 71 692.0 0 71 80 113 692.0 0 113 81 73 692.0 0 73 82 51 692.0 0 51 83 68 692.0 0 68 84 42 692.0 0 42 85 20 692.0 0 20 86 28 692.0 0 28 87 30 692.0 0 30 88 26 692.0 0 26 89 38 692.0 0 38 90 30 692.0 0 30 91 35 692.0 0 35 92 57 692.0 0 57 93 37 692.0 0 37 94 48 692.0 0 48 95 82 692.0 0 82 96 48 692.0 0 48 97 75 692.0 0 75 98 68 692.0 0 68 99 62 692.0 0 62 100 67 692.0 0 67 101 85 692.0 0 85 102 147 692.0 0 147 103 263 692.0 0 263 104 343 692.0 0 343 105 389 692.0 0 389 106 386 692.0 0 386 107 310 692.0 0 310 108 235 692.0 0 235 109 208 692.0 0 208 110 192 692.0 0 192 111 186 692.0 0 186 112 195 692.0 0 195 113 236 692.0 0 236 114 205 692.0 0 205 115 199 692.0 0 199 116 248 692.0 0 248 117 162 692.0 0 162 118 258 692.0 0 258 119 237 692.0 0 237 120 314 692.0 0 314 121 175 692.0 0 175 122 199 692.0 0 199 123 181 692.0 0 181 124 335 692.0 0 335 125 278 692.0 0 278 126 307 692.0 0 307 127 186 692.0 0 186 128 263 692.0 0 263 129 239 692.0 0 239 130 196 692.0 0 196 131 249 692.0 0 249 132 368 692.0 0 368 133 1981 692.0 0 1981 134 1140 692.0 0 1140 135 1796 692.0 0 1796 136 217 692.0 0 217 137 168 692.0 0 168 138 131 692.0 0 131 139 187 692.0 0 187 140 155 692.0 0 155 141 175 692.0 0 175 142 159 692.0 0 159 143 177 692.0 0 177 144 207 692.0 0 207 145 222 692.0 0 222 146 252 692.0 0 252 147 209 692.0 0 209 148 177 692.0 0 177 149 147 692.0 0 147 150 142 692.0 0 142 151 148 692.0 0 148 152 167 692.0 0 167 153 111 692.0 0 111 154 150 692.0 0 150 155 152 692.0 0 152 156 193 692.0 0 193 157 172 692.0 0 172 158 241 692.0 0 241 159 359 692.0 0 359 160 448 692.0 0 448 161 527 692.0 0 527 162 1188 692.0 0 1188 163 642 692.0 0 642 164 943 692.0 0 943 165 320 692.0 0 320 166 240 692.0 0 240 167 247 692.0 0 247 168 194 692.0 0 194 169 193 692.0 0 193 170 187 692.0 0 187 171 218 692.0 0 218 172 263 692.0 0 263 173 233 692.0 0 233 174 156 692.0 0 156 175 157 692.0 0 157 176 139 692.0 0 139 177 133 692.0 0 133 178 180 692.0 0 180 179 183 692.0 0 183 180 271 692.0 0 271 181 197 692.0 0 197 182 241 692.0 0 241 183 482 692.0 0 482 184 290 692.0 0 290 185 259 692.0 0 259 186 208 692.0 0 208 187 253 692.0 0 253 188 213 692.0 0 213 189 226 692.0 0 226 190 278 692.0 0 278 191 285 692.0 0 285 192 249 692.0 0 249 193 257 692.0 0 257 194 195 692.0 0 195 195 162 692.0 0 162 196 160 692.0 0 160 197 153 692.0 0 153 198 201 692.0 0 201 199 170 692.0 0 170 200 205 692.0 0 205 201 203 692.0 0 203 202 226 692.0 0 226 203 233 692.0 0 233 204 171 692.0 0 171 205 205 692.0 0 205 206 227 692.0 0 227 207 299 692.0 0 299 208 273 692.0 0 273 209 294 692.0 0 294 210 276 692.0 0 276 211 444 692.0 0 444 212 379 692.0 0 379 213 2430 692.0 0 2430 214 5004 692.0 0 5004 215 2721 692.0 0 2721 216 719 692.0 0 719 217 331 692.0 0 331 218 290 692.0 0 290 219 313 692.0 0 313 220 314 692.0 0 314 221 345 692.0 0 345 222 299 692.0 0 299 223 336 692.0 0 336 224 430 692.0 0 430 225 1200 692.0 0 1200 226 990 692.0 0 990 227 1043 692.0 0 1043 228 462 692.0 0 462 229 406 692.0 0 406 230 308 692.0 0 308 231 253 692.0 0 253 232 319 692.0 0 319 233 191 692.0 0 191 234 265 692.0 0 265 235 257 692.0 0 257 236 233 692.0 0 233 237 300 692.0 0 300 238 199 692.0 0 199 239 209 692.0 0 209 240 210 692.0 0 210 241 197 692.0 0 197 242 267 692.0 0 267 243 202 692.0 0 202 244 183 692.0 0 183 245 195 692.0 0 195 246 198 692.0 0 198 247 254 692.0 0 254 248 321 692.0 0 321 249 306 692.0 0 306 250 509 692.0 0 509 251 399 692.0 0 399 252 558 692.0 0 558 253 499 692.0 0 499 254 488 692.0 0 488 255 468 692.0 0 468 256 307 692.0 0 307 257 316 692.0 0 316 258 252 692.0 0 252 259 251 692.0 0 251 260 273 692.0 0 273 261 239 692.0 0 239 262 226 692.0 0 226 263 364 692.0 0 364 264 385 692.0 0 385 265 425 692.0 0 425 266 390 692.0 0 390 267 279 692.0 0 279 268 383 692.0 0 383 269 372 692.0 0 372 270 370 692.0 0 370 271 329 692.0 0 329 272 361 692.0 0 361 273 364 692.0 0 364 274 337 692.0 0 337 275 337 692.0 0 337 276 428 692.0 0 428 277 449 692.0 0 449 278 414 692.0 0 414 279 377 692.0 0 377 280 309 692.0 0 309 281 438 692.0 0 438 282 414 692.0 0 414 283 514 692.0 0 514 284 433 692.0 0 433 285 319 692.0 0 319 286 342 692.0 0 342 287 304 692.0 0 304 288 294 692.0 0 294 289 532 692.0 0 532 290 478 692.0 0 478 291 651 692.0 0 651 292 371 692.0 0 371 293 357 692.0 0 357 294 334 692.0 0 334 295 386 692.0 0 386 296 382 692.0 0 382 297 340 692.0 0 340 298 291 692.0 0 291 299 312 692.0 0 312 300 362 692.0 0 362 301 863 692.0 0 863 Finished in 19.43 s (48 us/read; 1.24 M reads/minute). === Summary === Total reads processed: 401,281 Reads with adapters: 178,099 (44.4%) Reads that were too short: 156 (0.0%) Reads written (passing filters): 177,943 (44.3%) Total basepairs processed: 113,244,563 bp Total written (filtered): 48,661,732 bp (43.0%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 178099 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 5 0.0 3 0 0 0 2 3 18 106 0.0 3 0 0 77 19 10 19 3135 0.0 3 0 2862 175 75 23 20 173233 0.0 4 165395 6421 1060 273 84 21 301 0.0 4 50 228 16 4 3 22 35 0.0 4 6 1 21 0 7 23 235 0.0 4 1 0 0 173 61 24 4 0.0 4 0 1 0 0 3 26 2 0.0 4 1 0 0 1 27 1 0.0 4 0 0 0 0 1 28 4 0.0 4 1 0 0 0 3 37 1 0.0 4 0 0 0 0 1 44 1 0.0 4 0 0 0 0 1 46 1 0.0 4 0 0 0 0 1 51 1 0.0 4 0 0 0 0 1 52 1 0.0 4 0 0 0 0 1 55 1 0.0 4 0 0 0 0 1 56 1 0.0 4 0 0 0 0 1 57 1 0.0 4 0 0 0 0 1 59 2 0.0 4 0 0 0 0 2 63 1 0.0 4 0 0 0 0 1 64 1 0.0 4 0 0 0 0 1 67 1 0.0 4 1 68 1 0.0 4 1 70 2 0.0 4 0 0 0 0 2 73 1 0.0 4 0 0 0 0 1 75 3 0.0 4 0 0 0 0 3 77 1 0.0 4 0 0 0 1 94 3 0.0 4 1 0 0 0 2 95 2 0.0 4 0 0 0 0 2 101 1 0.0 4 0 0 0 0 1 105 1 0.0 4 0 0 0 0 1 108 1 0.0 4 0 0 0 0 1 111 1 0.0 4 0 0 0 1 114 2 0.0 4 0 0 0 0 2 115 1 0.0 4 0 0 0 0 1 120 1 0.0 4 0 0 0 0 1 122 1 0.0 4 0 0 0 0 1 125 3 0.0 4 0 0 0 0 3 126 6 0.0 4 0 0 0 0 6 127 821 0.0 4 0 0 0 1 820 128 6 0.0 4 0 0 0 0 6 129 4 0.0 4 0 0 0 0 4 130 3 0.0 4 0 0 0 0 3 131 1 0.0 4 0 0 0 0 1 132 1 0.0 4 0 0 0 0 1 134 1 0.0 4 0 0 0 0 1 136 3 0.0 4 0 0 0 1 2 142 1 0.0 4 0 0 0 0 1 147 2 0.0 4 0 0 0 0 2 151 1 0.0 4 0 0 0 0 1 152 3 0.0 4 0 0 0 0 3 153 13 0.0 4 0 0 0 0 13 155 1 0.0 4 0 0 0 0 1 156 2 0.0 4 0 0 0 0 2 172 1 0.0 4 0 1 192 1 0.0 4 0 0 0 0 1 199 1 0.0 4 0 0 0 0 1 203 1 0.0 4 0 0 0 0 1 206 1 0.0 4 0 0 0 0 1 207 1 0.0 4 0 0 0 0 1 208 8 0.0 4 0 0 0 1 7 209 2 0.0 4 0 0 0 0 2 210 3 0.0 4 0 0 0 0 3 213 1 0.0 4 0 0 0 0 1 215 5 0.0 4 0 0 0 0 5 220 2 0.0 4 0 0 0 0 2 224 2 0.0 4 0 0 0 0 2 225 1 0.0 4 0 0 0 0 1 226 2 0.0 4 0 0 0 0 2 228 7 0.0 4 0 0 0 0 7 229 7 0.0 4 0 0 0 0 7 230 2 0.0 4 0 0 0 0 2 232 10 0.0 4 0 0 0 1 9 233 3 0.0 4 0 0 0 0 3 234 5 0.0 4 0 0 0 0 5 235 3 0.0 4 0 0 0 0 3 236 1 0.0 4 0 0 0 0 1 237 6 0.0 4 0 0 0 0 6 255 1 0.0 4 0 0 0 0 1 257 5 0.0 4 0 0 0 0 5 258 1 0.0 4 0 0 0 0 1 262 3 0.0 4 0 0 0 0 3 263 2 0.0 4 0 0 0 0 2 264 2 0.0 4 0 0 0 0 2 265 3 0.0 4 0 0 0 0 3 268 2 0.0 4 0 0 0 0 2 270 1 0.0 4 0 0 0 0 1 274 1 0.0 4 0 0 0 0 1 279 1 0.0 4 0 0 0 0 1 280 2 0.0 4 0 0 0 0 2 282 7 0.0 4 0 0 0 0 7 283 5 0.0 4 0 0 0 0 5 285 3 0.0 4 0 0 0 1 2 288 5 0.0 4 0 0 0 0 5 290 5 0.0 4 0 0 0 0 5 291 1 0.0 4 0 0 0 0 1 292 5 0.0 4 0 0 0 0 5 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 6.23 s (35 us/read; 1.71 M reads/minute). === Summary === Total reads processed: 177,943 Reads with adapters: 14,724 (8.3%) Reads written (passing filters): 177,943 (100.0%) Total basepairs processed: 48,661,732 bp Total written (filtered): 48,476,662 bp (99.6%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 14724 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 5.6% C: 10.1% G: 82.0% 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 3 673 2780.4 0 673 4 67 695.1 0 67 5 1 173.8 0 1 6 1 43.4 0 1 7 6 10.9 0 6 8 1 2.7 0 1 9 39 0.7 0 5 34 10 120 0.2 1 1 119 11 11220 0.0 1 528 10692 12 2321 0.0 1 67 2254 13 99 0.0 1 2 97 14 13 0.0 1 0 13 15 14 0.0 1 1 13 16 4 0.0 1 0 4 42 1 0.0 1 1 46 1 0.0 1 1 127 1 0.0 1 1 152 35 0.0 1 24 11 171 1 0.0 1 1 172 1 0.0 1 1 191 2 0.0 1 0 2 192 1 0.0 1 1 210 89 0.0 1 62 27 211 3 0.0 1 3 222 4 0.0 1 0 4 226 1 0.0 1 1 228 1 0.0 1 1 258 1 0.0 1 1 259 1 0.0 1 1 261 2 0.0 1 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.