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 ... Finished in 108.11 s (34 us/read; 1.77 M reads/minute). === Summary === Total reads processed: 3,184,960 Reads with adapters: 617,589 (19.4%) Reads that were too short: 25,054 (0.8%) Reads written (passing filters): 592,535 (18.6%) Total basepairs processed: 958,672,960 bp Total written (filtered): 167,591,373 bp (17.5%) === Adapter 1 === Sequence: ACCTAT; Type: regular 5'; Length: 6; Trimmed: 617589 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 3399 777.6 0 3399 7 44517 777.6 0 44517 8 7456 777.6 0 7456 9 167175 777.6 0 167175 10 2749 777.6 0 2749 11 3959 777.6 0 3959 12 64521 777.6 0 64521 13 130713 777.6 0 130713 14 135925 777.6 0 135925 15 260 777.6 0 260 16 9 777.6 0 9 17 6 777.6 0 6 18 7 777.6 0 7 19 4 777.6 0 4 20 10 777.6 0 10 21 7 777.6 0 7 22 4 777.6 0 4 23 9 777.6 0 9 24 13 777.6 0 13 25 9 777.6 0 9 26 8 777.6 0 8 27 7 777.6 0 7 28 8 777.6 0 8 29 6 777.6 0 6 30 11 777.6 0 11 31 10 777.6 0 10 32 4 777.6 0 4 33 6 777.6 0 6 34 4 777.6 0 4 35 6 777.6 0 6 36 45 777.6 0 45 37 19 777.6 0 19 38 297 777.6 0 297 39 7 777.6 0 7 40 25 777.6 0 25 41 4 777.6 0 4 42 17 777.6 0 17 43 19 777.6 0 19 44 14 777.6 0 14 45 11 777.6 0 11 46 14 777.6 0 14 47 12 777.6 0 12 48 4 777.6 0 4 49 5 777.6 0 5 50 3 777.6 0 3 51 3 777.6 0 3 53 4 777.6 0 4 54 4 777.6 0 4 55 2 777.6 0 2 56 2 777.6 0 2 57 7 777.6 0 7 58 4 777.6 0 4 59 6 777.6 0 6 60 1 777.6 0 1 61 7 777.6 0 7 62 4 777.6 0 4 63 1 777.6 0 1 64 3 777.6 0 3 65 4 777.6 0 4 66 8 777.6 0 8 67 8 777.6 0 8 68 2 777.6 0 2 69 4 777.6 0 4 70 4 777.6 0 4 71 13 777.6 0 13 72 5 777.6 0 5 73 3 777.6 0 3 74 4 777.6 0 4 75 1 777.6 0 1 76 4 777.6 0 4 77 2 777.6 0 2 78 14 777.6 0 14 79 20 777.6 0 20 80 32 777.6 0 32 81 28 777.6 0 28 82 21 777.6 0 21 83 50 777.6 0 50 84 31 777.6 0 31 85 21 777.6 0 21 86 34 777.6 0 34 87 132 777.6 0 132 88 13 777.6 0 13 89 112 777.6 0 112 90 512 777.6 0 512 91 545 777.6 0 545 92 30 777.6 0 30 93 68 777.6 0 68 94 195 777.6 0 195 95 417 777.6 0 417 96 361 777.6 0 361 97 231 777.6 0 231 98 79 777.6 0 79 99 44 777.6 0 44 100 79 777.6 0 79 101 106 777.6 0 106 102 46 777.6 0 46 103 159 777.6 0 159 104 188 777.6 0 188 105 153 777.6 0 153 106 1431 777.6 0 1431 107 399 777.6 0 399 108 129 777.6 0 129 109 118 777.6 0 118 110 367 777.6 0 367 111 152 777.6 0 152 112 188 777.6 0 188 113 197 777.6 0 197 114 65 777.6 0 65 115 88 777.6 0 88 116 72 777.6 0 72 117 33 777.6 0 33 118 51 777.6 0 51 119 117 777.6 0 117 120 498 777.6 0 498 121 216 777.6 0 216 122 374 777.6 0 374 123 92 777.6 0 92 124 116 777.6 0 116 125 136 777.6 0 136 126 481 777.6 0 481 127 1852 777.6 0 1852 128 1440 777.6 0 1440 129 655 777.6 0 655 130 126 777.6 0 126 131 82 777.6 0 82 132 135 777.6 0 135 133 177 777.6 0 177 134 288 777.6 0 288 135 581 777.6 0 581 136 385 777.6 0 385 137 267 777.6 0 267 138 217 777.6 0 217 139 453 777.6 0 453 140 610 777.6 0 610 141 361 777.6 0 361 142 320 777.6 0 320 143 231 777.6 0 231 144 120 777.6 0 120 145 238 777.6 0 238 146 745 777.6 0 745 147 202 777.6 0 202 148 215 777.6 0 215 149 60 777.6 0 60 150 94 777.6 0 94 151 786 777.6 0 786 152 375 777.6 0 375 153 782 777.6 0 782 154 271 777.6 0 271 155 254 777.6 0 254 156 111 777.6 0 111 157 151 777.6 0 151 158 706 777.6 0 706 159 336 777.6 0 336 160 308 777.6 0 308 161 580 777.6 0 580 162 178 777.6 0 178 163 243 777.6 0 243 164 136 777.6 0 136 165 233 777.6 0 233 166 262 777.6 0 262 167 208 777.6 0 208 168 123 777.6 0 123 169 74 777.6 0 74 170 155 777.6 0 155 171 81 777.6 0 81 172 123 777.6 0 123 173 212 777.6 0 212 174 521 777.6 0 521 175 180 777.6 0 180 176 125 777.6 0 125 177 77 777.6 0 77 178 60 777.6 0 60 179 201 777.6 0 201 180 192 777.6 0 192 181 323 777.6 0 323 182 232 777.6 0 232 183 222 777.6 0 222 184 168 777.6 0 168 185 255 777.6 0 255 186 215 777.6 0 215 187 137 777.6 0 137 188 92 777.6 0 92 189 73 777.6 0 73 190 186 777.6 0 186 191 306 777.6 0 306 192 554 777.6 0 554 193 151 777.6 0 151 194 259 777.6 0 259 195 73 777.6 0 73 196 64 777.6 0 64 197 108 777.6 0 108 198 295 777.6 0 295 199 223 777.6 0 223 200 116 777.6 0 116 201 116 777.6 0 116 202 162 777.6 0 162 203 281 777.6 0 281 204 286 777.6 0 286 205 99 777.6 0 99 206 258 777.6 0 258 207 296 777.6 0 296 208 239 777.6 0 239 209 190 777.6 0 190 210 119 777.6 0 119 211 139 777.6 0 139 212 145 777.6 0 145 213 157 777.6 0 157 214 314 777.6 0 314 215 258 777.6 0 258 216 194 777.6 0 194 217 167 777.6 0 167 218 155 777.6 0 155 219 180 777.6 0 180 220 384 777.6 0 384 221 167 777.6 0 167 222 114 777.6 0 114 223 108 777.6 0 108 224 420 777.6 0 420 225 426 777.6 0 426 226 285 777.6 0 285 227 235 777.6 0 235 228 215 777.6 0 215 229 141 777.6 0 141 230 110 777.6 0 110 231 138 777.6 0 138 232 113 777.6 0 113 233 208 777.6 0 208 234 271 777.6 0 271 235 362 777.6 0 362 236 357 777.6 0 357 237 162 777.6 0 162 238 111 777.6 0 111 239 88 777.6 0 88 240 217 777.6 0 217 241 225 777.6 0 225 242 241 777.6 0 241 243 297 777.6 0 297 244 255 777.6 0 255 245 248 777.6 0 248 246 191 777.6 0 191 247 187 777.6 0 187 248 98 777.6 0 98 249 85 777.6 0 85 250 39 777.6 0 39 251 185 777.6 0 185 252 261 777.6 0 261 253 349 777.6 0 349 254 202 777.6 0 202 255 210 777.6 0 210 256 311 777.6 0 311 257 247 777.6 0 247 258 145 777.6 0 145 259 97 777.6 0 97 260 138 777.6 0 138 261 261 777.6 0 261 262 544 777.6 0 544 263 387 777.6 0 387 264 225 777.6 0 225 265 196 777.6 0 196 266 239 777.6 0 239 267 861 777.6 0 861 268 494 777.6 0 494 269 285 777.6 0 285 270 96 777.6 0 96 271 125 777.6 0 125 272 162 777.6 0 162 273 148 777.6 0 148 274 255 777.6 0 255 275 199 777.6 0 199 276 206 777.6 0 206 277 547 777.6 0 547 278 737 777.6 0 737 279 475 777.6 0 475 280 829 777.6 0 829 281 639 777.6 0 639 282 539 777.6 0 539 283 489 777.6 0 489 284 349 777.6 0 349 285 235 777.6 0 235 286 248 777.6 0 248 287 262 777.6 0 262 288 469 777.6 0 469 289 245 777.6 0 245 290 136 777.6 0 136 291 129 777.6 0 129 292 151 777.6 0 151 293 280 777.6 0 280 294 309 777.6 0 309 295 224 777.6 0 224 296 202 777.6 0 202 297 106 777.6 0 106 298 60 777.6 0 60 299 74 777.6 0 74 300 146 777.6 0 146 301 209 777.6 0 209 Finished in 31.74 s (54 us/read; 1.12 M reads/minute). === Summary === Total reads processed: 592,535 Reads with adapters: 41,217 (7.0%) Reads that were too short: 185 (0.0%) Reads written (passing filters): 41,032 (6.9%) Total basepairs processed: 167,591,373 bp Total written (filtered): 11,271,062 bp (6.7%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 41217 times. No. of allowed errors: 0-4 bp: 0; 5-9 bp: 1; 10-14 bp: 2; 15-17 bp: 3 Overview of removed sequences length count expect max.err error counts 15 6 0.0 3 0 0 5 1 16 165 0.0 3 0 157 6 2 17 39976 0.0 3 39323 624 24 5 18 91 0.0 3 2 86 3 19 18 0.0 3 0 0 17 1 20 138 0.0 3 95 5 1 37 25 1 0.0 3 1 28 1 0.0 3 1 30 1 0.0 3 1 31 1 0.0 3 0 0 1 33 1 0.0 3 1 35 3 0.0 3 0 0 0 3 40 1 0.0 3 0 0 0 1 41 2 0.0 3 2 42 3 0.0 3 0 0 0 3 43 11 0.0 3 0 0 0 11 48 1 0.0 3 0 0 0 1 51 1 0.0 3 0 0 0 1 67 3 0.0 3 0 0 0 3 70 1 0.0 3 0 0 0 1 72 1 0.0 3 0 0 0 1 74 1 0.0 3 0 0 0 1 81 1 0.0 3 0 0 0 1 87 19 0.0 3 0 0 0 19 88 26 0.0 3 0 0 0 26 91 1 0.0 3 0 0 0 1 99 1 0.0 3 0 0 0 1 110 6 0.0 3 0 0 0 6 111 1 0.0 3 0 0 0 1 112 1 0.0 3 1 113 1 0.0 3 0 0 0 1 123 3 0.0 3 0 0 0 3 125 1 0.0 3 0 0 0 1 131 1 0.0 3 0 0 0 1 132 1 0.0 3 0 0 0 1 135 2 0.0 3 0 0 0 2 136 7 0.0 3 0 0 0 7 139 1 0.0 3 0 0 0 1 140 3 0.0 3 0 0 0 3 154 12 0.0 3 0 0 0 12 155 1 0.0 3 0 0 0 1 156 2 0.0 3 0 0 0 2 157 3 0.0 3 0 0 0 3 158 1 0.0 3 0 0 0 1 159 87 0.0 3 0 0 0 87 160 9 0.0 3 0 0 0 9 161 10 0.0 3 0 0 0 10 162 26 0.0 3 0 0 0 26 163 5 0.0 3 0 0 0 5 164 14 0.0 3 0 0 0 14 165 3 0.0 3 0 0 0 3 168 8 0.0 3 6 2 171 3 0.0 3 0 0 0 3 174 2 0.0 3 0 0 0 2 176 1 0.0 3 0 0 0 1 178 49 0.0 3 0 0 0 49 179 77 0.0 3 0 0 0 77 180 86 0.0 3 0 0 0 86 181 3 0.0 3 0 0 0 3 182 102 0.0 3 0 0 0 102 183 10 0.0 3 0 0 0 10 184 1 0.0 3 0 0 0 1 185 1 0.0 3 0 0 0 1 187 1 0.0 3 0 0 0 1 188 1 0.0 3 0 0 0 1 189 1 0.0 3 0 0 0 1 191 4 0.0 3 0 0 0 4 192 12 0.0 3 0 0 0 12 194 1 0.0 3 0 0 0 1 198 1 0.0 3 0 0 0 1 204 1 0.0 3 0 0 0 1 207 1 0.0 3 0 0 0 1 213 1 0.0 3 0 0 0 1 214 1 0.0 3 0 0 0 1 216 1 0.0 3 0 0 0 1 227 1 0.0 3 0 0 0 1 230 1 0.0 3 0 0 0 1 239 5 0.0 3 0 0 0 5 246 1 0.0 3 0 0 0 1 256 1 0.0 3 0 0 0 1 262 1 0.0 3 0 0 0 1 265 1 0.0 3 0 0 0 1 267 1 0.0 3 0 0 0 1 271 20 0.0 3 0 0 0 20 272 4 0.0 3 0 0 0 4 273 6 0.0 3 0 0 0 6 274 28 0.0 3 0 0 1 27 275 44 0.0 3 0 0 2 42 276 4 0.0 3 0 0 0 4 279 1 0.0 3 0 0 0 1 280 5 0.0 3 0 0 0 5 281 34 0.0 3 0 0 1 33 282 2 0.0 3 0 0 0 2 283 1 0.0 3 0 0 0 1 285 1 0.0 3 0 0 0 1 286 3 0.0 3 0 0 0 3 287 4 0.0 3 0 0 0 4 288 2 0.0 3 0 0 0 2 292 1 0.0 3 0 0 0 1 This is cutadapt 1.11 with Python 2.7.12 Command line parameters: -a taatctatgggnncatcagg - Trimming 1 adapter with at most 10.0% errors in single-end mode ... Finished in 1.84 s (45 us/read; 1.34 M reads/minute). === Summary === Total reads processed: 41,032 Reads with adapters: 1,928 (4.7%) Reads written (passing filters): 41,032 (100.0%) Total basepairs processed: 11,271,062 bp Total written (filtered): 11,265,263 bp (99.9%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 1928 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 5.8% C: 89.2% G: 3.5% T: 1.6% none/other: 0.0% WARNING: The adapter is preceded by "C" extremely often. The provided adapter sequence may be incomplete. To fix the problem, add "C" to the beginning of the adapter sequence. Overview of removed sequences length count expect max.err error counts 3 1917 641.1 0 1917 4 8 160.3 0 8 5 2 40.1 0 2 6 1 10.0 0 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.