This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g ACAACC -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 164.44 s (47 us/read; 1.27 M reads/minute). === Summary === Total reads processed: 3,470,393 Reads with adapters: 310,552 (8.9%) Reads that were too short: 99,467 (2.9%) Reads written (passing filters): 211,085 (6.1%) Total basepairs processed: 1,044,588,293 bp Total written (filtered): 58,160,398 bp (5.6%) === Adapter 1 === Sequence: ACAACC; Type: regular 5'; Length: 6; Trimmed: 310552 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 2067 847.3 0 2067 7 95764 847.3 0 95764 8 81534 847.3 0 81534 9 256 847.3 0 256 10 100 847.3 0 100 11 104 847.3 0 104 12 55 847.3 0 55 13 82 847.3 0 82 14 63 847.3 0 63 15 70 847.3 0 70 16 80 847.3 0 80 17 120 847.3 0 120 18 52 847.3 0 52 19 59 847.3 0 59 20 56 847.3 0 56 21 29 847.3 0 29 22 50 847.3 0 50 23 64 847.3 0 64 24 84 847.3 0 84 25 66 847.3 0 66 26 57 847.3 0 57 27 53 847.3 0 53 28 39 847.3 0 39 29 68 847.3 0 68 30 66 847.3 0 66 31 66 847.3 0 66 32 75 847.3 0 75 33 58 847.3 0 58 34 69 847.3 0 69 35 61 847.3 0 61 36 73 847.3 0 73 37 57 847.3 0 57 38 83 847.3 0 83 39 47 847.3 0 47 40 64 847.3 0 64 41 83 847.3 0 83 42 91 847.3 0 91 43 113 847.3 0 113 44 72 847.3 0 72 45 75 847.3 0 75 46 71 847.3 0 71 47 76 847.3 0 76 48 79 847.3 0 79 49 66 847.3 0 66 50 66 847.3 0 66 51 95 847.3 0 95 52 133 847.3 0 133 53 156 847.3 0 156 54 119 847.3 0 119 55 83 847.3 0 83 56 76 847.3 0 76 57 82 847.3 0 82 58 86 847.3 0 86 59 120 847.3 0 120 60 226 847.3 0 226 61 147 847.3 0 147 62 80 847.3 0 80 63 93 847.3 0 93 64 102 847.3 0 102 65 75 847.3 0 75 66 98 847.3 0 98 67 85 847.3 0 85 68 94 847.3 0 94 69 89 847.3 0 89 70 103 847.3 0 103 71 87 847.3 0 87 72 246 847.3 0 246 73 275 847.3 0 275 74 325 847.3 0 325 75 125 847.3 0 125 76 97 847.3 0 97 77 104 847.3 0 104 78 123 847.3 0 123 79 134 847.3 0 134 80 140 847.3 0 140 81 112 847.3 0 112 82 120 847.3 0 120 83 104 847.3 0 104 84 122 847.3 0 122 85 96 847.3 0 96 86 125 847.3 0 125 87 83 847.3 0 83 88 92 847.3 0 92 89 111 847.3 0 111 90 83 847.3 0 83 91 82 847.3 0 82 92 79 847.3 0 79 93 100 847.3 0 100 94 109 847.3 0 109 95 107 847.3 0 107 96 79 847.3 0 79 97 74 847.3 0 74 98 82 847.3 0 82 99 100 847.3 0 100 100 93 847.3 0 93 101 101 847.3 0 101 102 154 847.3 0 154 103 254 847.3 0 254 104 260 847.3 0 260 105 167 847.3 0 167 106 235 847.3 0 235 107 208 847.3 0 208 108 154 847.3 0 154 109 150 847.3 0 150 110 156 847.3 0 156 111 180 847.3 0 180 112 144 847.3 0 144 113 147 847.3 0 147 114 156 847.3 0 156 115 153 847.3 0 153 116 192 847.3 0 192 117 168 847.3 0 168 118 142 847.3 0 142 119 142 847.3 0 142 120 156 847.3 0 156 121 215 847.3 0 215 122 208 847.3 0 208 123 152 847.3 0 152 124 456 847.3 0 456 125 348 847.3 0 348 126 326 847.3 0 326 127 147 847.3 0 147 128 129 847.3 0 129 129 138 847.3 0 138 130 129 847.3 0 129 131 181 847.3 0 181 132 208 847.3 0 208 133 276 847.3 0 276 134 267 847.3 0 267 135 260 847.3 0 260 136 161 847.3 0 161 137 194 847.3 0 194 138 164 847.3 0 164 139 161 847.3 0 161 140 144 847.3 0 144 141 172 847.3 0 172 142 143 847.3 0 143 143 177 847.3 0 177 144 161 847.3 0 161 145 219 847.3 0 219 146 245 847.3 0 245 147 231 847.3 0 231 148 260 847.3 0 260 149 412 847.3 0 412 150 312 847.3 0 312 151 231 847.3 0 231 152 221 847.3 0 221 153 226 847.3 0 226 154 215 847.3 0 215 155 193 847.3 0 193 156 224 847.3 0 224 157 199 847.3 0 199 158 289 847.3 0 289 159 282 847.3 0 282 160 255 847.3 0 255 161 249 847.3 0 249 162 290 847.3 0 290 163 221 847.3 0 221 164 209 847.3 0 209 165 225 847.3 0 225 166 259 847.3 0 259 167 242 847.3 0 242 168 215 847.3 0 215 169 411 847.3 0 411 170 466 847.3 0 466 171 571 847.3 0 571 172 438 847.3 0 438 173 245 847.3 0 245 174 245 847.3 0 245 175 197 847.3 0 197 176 151 847.3 0 151 177 151 847.3 0 151 178 144 847.3 0 144 179 167 847.3 0 167 180 280 847.3 0 280 181 263 847.3 0 263 182 226 847.3 0 226 183 251 847.3 0 251 184 246 847.3 0 246 185 290 847.3 0 290 186 226 847.3 0 226 187 414 847.3 0 414 188 398 847.3 0 398 189 329 847.3 0 329 190 234 847.3 0 234 191 201 847.3 0 201 192 199 847.3 0 199 193 227 847.3 0 227 194 177 847.3 0 177 195 213 847.3 0 213 196 191 847.3 0 191 197 169 847.3 0 169 198 184 847.3 0 184 199 218 847.3 0 218 200 256 847.3 0 256 201 213 847.3 0 213 202 206 847.3 0 206 203 324 847.3 0 324 204 357 847.3 0 357 205 452 847.3 0 452 206 184 847.3 0 184 207 172 847.3 0 172 208 175 847.3 0 175 209 234 847.3 0 234 210 225 847.3 0 225 211 205 847.3 0 205 212 239 847.3 0 239 213 306 847.3 0 306 214 630 847.3 0 630 215 1471 847.3 0 1471 216 1685 847.3 0 1685 217 1970 847.3 0 1970 218 329 847.3 0 329 219 371 847.3 0 371 220 296 847.3 0 296 221 341 847.3 0 341 222 344 847.3 0 344 223 474 847.3 0 474 224 516 847.3 0 516 225 831 847.3 0 831 226 3714 847.3 0 3714 227 7073 847.3 0 7073 228 9046 847.3 0 9046 229 17004 847.3 0 17004 230 1786 847.3 0 1786 231 1688 847.3 0 1688 232 1495 847.3 0 1495 233 2560 847.3 0 2560 234 189 847.3 0 189 235 151 847.3 0 151 236 182 847.3 0 182 237 271 847.3 0 271 238 329 847.3 0 329 239 438 847.3 0 438 240 367 847.3 0 367 241 189 847.3 0 189 242 171 847.3 0 171 243 178 847.3 0 178 244 199 847.3 0 199 245 172 847.3 0 172 246 192 847.3 0 192 247 231 847.3 0 231 248 352 847.3 0 352 249 384 847.3 0 384 250 280 847.3 0 280 251 173 847.3 0 173 252 202 847.3 0 202 253 204 847.3 0 204 254 251 847.3 0 251 255 217 847.3 0 217 256 259 847.3 0 259 257 356 847.3 0 356 258 386 847.3 0 386 259 511 847.3 0 511 260 438 847.3 0 438 261 417 847.3 0 417 262 385 847.3 0 385 263 532 847.3 0 532 264 1399 847.3 0 1399 265 2981 847.3 0 2981 266 4646 847.3 0 4646 267 4106 847.3 0 4106 268 5216 847.3 0 5216 269 534 847.3 0 534 270 319 847.3 0 319 271 284 847.3 0 284 272 325 847.3 0 325 273 438 847.3 0 438 274 450 847.3 0 450 275 529 847.3 0 529 276 645 847.3 0 645 277 344 847.3 0 344 278 305 847.3 0 305 279 431 847.3 0 431 280 444 847.3 0 444 281 368 847.3 0 368 282 252 847.3 0 252 283 250 847.3 0 250 284 272 847.3 0 272 285 267 847.3 0 267 286 343 847.3 0 343 287 425 847.3 0 425 288 316 847.3 0 316 289 260 847.3 0 260 290 381 847.3 0 381 291 2338 847.3 0 2338 292 1917 847.3 0 1917 293 1396 847.3 0 1396 294 251 847.3 0 251 295 201 847.3 0 201 296 165 847.3 0 165 297 140 847.3 0 140 298 160 847.3 0 160 299 198 847.3 0 198 300 275 847.3 0 275 301 587 847.3 0 587 Finished in 16.33 s (77 us/read; 0.78 M reads/minute). === Summary === Total reads processed: 211,085 Reads with adapters: 84,936 (40.2%) Reads that were too short: 91 (0.0%) Reads written (passing filters): 84,845 (40.2%) Total basepairs processed: 58,160,398 bp Total written (filtered): 23,066,390 bp (39.7%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 84936 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 10 0.0 3 0 0 0 5 5 18 40 0.0 3 0 0 28 8 4 19 1291 0.0 3 0 1100 91 68 32 20 82117 0.0 4 77795 3503 588 170 61 21 212 0.0 4 40 158 10 2 2 22 18 0.0 4 0 0 16 1 1 23 213 0.0 4 5 0 0 152 56 24 3 0.0 4 0 0 0 0 3 27 1 0.0 4 0 0 0 0 1 28 1 0.0 4 0 0 0 0 1 29 1 0.0 4 1 30 1 0.0 4 0 0 1 32 2 0.0 4 0 0 0 0 2 44 1 0.0 4 1 47 2 0.0 4 0 0 0 0 2 48 1 0.0 4 0 0 0 0 1 51 1 0.0 4 0 0 0 0 1 63 2 0.0 4 0 0 0 0 2 66 1 0.0 4 0 0 0 0 1 71 1 0.0 4 0 0 0 0 1 75 1 0.0 4 0 0 0 0 1 80 1 0.0 4 0 0 0 0 1 81 1 0.0 4 0 0 0 0 1 90 1 0.0 4 0 0 0 0 1 91 2 0.0 4 0 0 0 0 2 92 1 0.0 4 0 0 0 0 1 102 1 0.0 4 0 0 0 0 1 111 1 0.0 4 0 0 0 0 1 119 1 0.0 4 0 0 0 1 120 1 0.0 4 0 0 0 0 1 121 1 0.0 4 0 0 0 0 1 122 2 0.0 4 0 0 0 0 2 124 1 0.0 4 0 0 0 0 1 125 3 0.0 4 0 0 0 0 3 126 16 0.0 4 0 0 0 0 16 127 897 0.0 4 0 0 0 0 897 128 4 0.0 4 0 0 0 0 4 129 1 0.0 4 0 0 0 0 1 130 2 0.0 4 0 0 0 0 2 139 1 0.0 4 0 0 0 0 1 141 1 0.0 4 0 0 0 0 1 143 1 0.0 4 0 0 0 0 1 149 1 0.0 4 0 0 0 0 1 150 1 0.0 4 0 0 0 0 1 153 1 0.0 4 0 0 0 0 1 154 1 0.0 4 0 0 0 0 1 162 1 0.0 4 0 0 0 0 1 196 1 0.0 4 0 0 0 0 1 198 1 0.0 4 0 0 0 0 1 209 1 0.0 4 0 0 0 0 1 210 1 0.0 4 0 0 0 0 1 213 1 0.0 4 0 0 0 0 1 216 2 0.0 4 0 0 0 0 2 219 2 0.0 4 0 0 0 0 2 222 1 0.0 4 0 0 0 0 1 228 7 0.0 4 0 0 0 0 7 229 7 0.0 4 0 0 0 0 7 232 1 0.0 4 0 0 0 0 1 234 1 0.0 4 0 0 0 0 1 235 3 0.0 4 0 0 0 0 3 236 2 0.0 4 0 0 0 0 2 254 1 0.0 4 0 0 0 0 1 257 3 0.0 4 0 0 0 0 3 259 1 0.0 4 0 0 0 0 1 260 1 0.0 4 0 0 0 0 1 261 1 0.0 4 0 0 0 0 1 262 2 0.0 4 0 0 0 0 2 263 2 0.0 4 0 0 0 0 2 265 2 0.0 4 0 0 0 0 2 282 8 0.0 4 0 0 0 0 8 283 3 0.0 4 0 0 0 0 3 288 8 0.0 4 0 0 0 0 8 294 8 0.0 4 0 0 0 0 8 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 5.11 s (60 us/read; 1.00 M reads/minute). === Summary === Total reads processed: 84,845 Reads with adapters: 14,711 (17.3%) Reads written (passing filters): 84,845 (100.0%) Total basepairs processed: 23,066,390 bp Total written (filtered): 22,900,527 bp (99.3%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 14711 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.8% C: 5.3% G: 91.1% 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 3 102 1325.7 0 102 4 31 331.4 0 31 5 4 82.9 0 4 7 2 5.2 0 2 8 1 1.3 0 1 9 97 0.3 0 7 90 10 3511 0.1 1 198 3313 11 10788 0.0 1 229 10559 12 100 0.0 1 5 95 13 6 0.0 1 0 6 14 7 0.0 1 0 7 15 2 0.0 1 0 2 19 11 0.0 1 8 3 37 1 0.0 1 0 1 151 14 0.0 1 9 5 152 1 0.0 1 0 1 153 1 0.0 1 0 1 190 1 0.0 1 0 1 209 31 0.0 1 22 9 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.