This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AGAGAC -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 94.82 s (30 us/read; 2.02 M reads/minute). === Summary === Total reads processed: 3,193,041 Reads with adapters: 261,213 (8.2%) Reads that were too short: 36,967 (1.2%) Reads written (passing filters): 224,246 (7.0%) Total basepairs processed: 961,105,341 bp Total written (filtered): 47,681,527 bp (5.0%) === Adapter 1 === Sequence: AGAGAC; Type: regular 5'; Length: 6; Trimmed: 261213 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 101 779.6 0 101 7 5682 779.6 0 5682 8 27 779.6 0 27 9 10 779.6 0 10 10 13 779.6 0 13 11 38 779.6 0 38 12 24 779.6 0 24 13 15 779.6 0 15 14 15 779.6 0 15 15 4 779.6 0 4 16 2 779.6 0 2 17 6 779.6 0 6 18 4 779.6 0 4 19 9 779.6 0 9 20 8 779.6 0 8 21 8 779.6 0 8 22 4 779.6 0 4 23 5 779.6 0 5 24 7 779.6 0 7 25 8 779.6 0 8 26 6 779.6 0 6 27 13 779.6 0 13 28 8 779.6 0 8 29 15 779.6 0 15 30 5 779.6 0 5 31 12 779.6 0 12 32 13 779.6 0 13 33 8 779.6 0 8 34 1 779.6 0 1 35 6 779.6 0 6 36 11 779.6 0 11 37 9 779.6 0 9 38 2 779.6 0 2 39 12 779.6 0 12 40 14 779.6 0 14 41 8 779.6 0 8 42 23 779.6 0 23 43 30 779.6 0 30 44 24 779.6 0 24 45 27 779.6 0 27 46 45 779.6 0 45 47 37 779.6 0 37 48 36 779.6 0 36 49 82 779.6 0 82 50 26 779.6 0 26 51 47 779.6 0 47 52 435 779.6 0 435 53 66 779.6 0 66 54 54 779.6 0 54 55 72 779.6 0 72 56 11 779.6 0 11 57 14 779.6 0 14 58 13 779.6 0 13 59 49 779.6 0 49 60 32 779.6 0 32 61 184 779.6 0 184 62 568 779.6 0 568 63 99 779.6 0 99 64 198 779.6 0 198 65 360 779.6 0 360 66 330 779.6 0 330 67 344 779.6 0 344 68 152 779.6 0 152 69 134 779.6 0 134 70 76 779.6 0 76 71 116 779.6 0 116 72 282 779.6 0 282 73 406 779.6 0 406 74 617 779.6 0 617 75 990 779.6 0 990 76 1070 779.6 0 1070 77 2738 779.6 0 2738 78 3982 779.6 0 3982 79 86079 779.6 0 86079 80 32581 779.6 0 32581 81 49071 779.6 0 49071 82 485 779.6 0 485 83 393 779.6 0 393 84 436 779.6 0 436 85 323 779.6 0 323 86 384 779.6 0 384 87 383 779.6 0 383 88 268 779.6 0 268 89 110 779.6 0 110 90 80 779.6 0 80 91 408 779.6 0 408 92 94 779.6 0 94 93 308 779.6 0 308 94 196 779.6 0 196 95 156 779.6 0 156 96 96 779.6 0 96 97 98 779.6 0 98 98 58 779.6 0 58 99 87 779.6 0 87 100 72 779.6 0 72 101 184 779.6 0 184 102 93 779.6 0 93 103 145 779.6 0 145 104 48 779.6 0 48 105 73 779.6 0 73 106 52 779.6 0 52 107 41 779.6 0 41 108 61 779.6 0 61 109 54 779.6 0 54 110 60 779.6 0 60 111 156 779.6 0 156 112 116 779.6 0 116 113 161 779.6 0 161 114 104 779.6 0 104 115 224 779.6 0 224 116 302 779.6 0 302 117 1149 779.6 0 1149 118 458 779.6 0 458 119 462 779.6 0 462 120 238 779.6 0 238 121 155 779.6 0 155 122 223 779.6 0 223 123 245 779.6 0 245 124 220 779.6 0 220 125 262 779.6 0 262 126 252 779.6 0 252 127 249 779.6 0 249 128 173 779.6 0 173 129 240 779.6 0 240 130 1218 779.6 0 1218 131 328 779.6 0 328 132 578 779.6 0 578 133 206 779.6 0 206 134 283 779.6 0 283 135 198 779.6 0 198 136 246 779.6 0 246 137 265 779.6 0 265 138 236 779.6 0 236 139 259 779.6 0 259 140 292 779.6 0 292 141 282 779.6 0 282 142 303 779.6 0 303 143 248 779.6 0 248 144 245 779.6 0 245 145 299 779.6 0 299 146 419 779.6 0 419 147 428 779.6 0 428 148 654 779.6 0 654 149 558 779.6 0 558 150 356 779.6 0 356 151 554 779.6 0 554 152 807 779.6 0 807 153 381 779.6 0 381 154 260 779.6 0 260 155 291 779.6 0 291 156 379 779.6 0 379 157 348 779.6 0 348 158 329 779.6 0 329 159 363 779.6 0 363 160 245 779.6 0 245 161 331 779.6 0 331 162 282 779.6 0 282 163 285 779.6 0 285 164 246 779.6 0 246 165 236 779.6 0 236 166 267 779.6 0 267 167 311 779.6 0 311 168 389 779.6 0 389 169 258 779.6 0 258 170 736 779.6 0 736 171 506 779.6 0 506 172 1045 779.6 0 1045 173 202 779.6 0 202 174 369 779.6 0 369 175 183 779.6 0 183 176 304 779.6 0 304 177 246 779.6 0 246 178 340 779.6 0 340 179 347 779.6 0 347 180 339 779.6 0 339 181 297 779.6 0 297 182 284 779.6 0 284 183 273 779.6 0 273 184 316 779.6 0 316 185 300 779.6 0 300 186 410 779.6 0 410 187 360 779.6 0 360 188 561 779.6 0 561 189 262 779.6 0 262 190 306 779.6 0 306 191 222 779.6 0 222 192 317 779.6 0 317 193 196 779.6 0 196 194 291 779.6 0 291 195 241 779.6 0 241 196 283 779.6 0 283 197 271 779.6 0 271 198 450 779.6 0 450 199 621 779.6 0 621 200 369 779.6 0 369 201 268 779.6 0 268 202 266 779.6 0 266 203 253 779.6 0 253 204 284 779.6 0 284 205 234 779.6 0 234 206 299 779.6 0 299 207 287 779.6 0 287 208 315 779.6 0 315 209 193 779.6 0 193 210 237 779.6 0 237 211 243 779.6 0 243 212 333 779.6 0 333 213 426 779.6 0 426 214 383 779.6 0 383 215 355 779.6 0 355 216 428 779.6 0 428 217 353 779.6 0 353 218 438 779.6 0 438 219 1046 779.6 0 1046 220 380 779.6 0 380 221 431 779.6 0 431 222 424 779.6 0 424 223 326 779.6 0 326 224 348 779.6 0 348 225 260 779.6 0 260 226 406 779.6 0 406 227 419 779.6 0 419 228 514 779.6 0 514 229 260 779.6 0 260 230 212 779.6 0 212 231 222 779.6 0 222 232 387 779.6 0 387 233 269 779.6 0 269 234 307 779.6 0 307 235 268 779.6 0 268 236 309 779.6 0 309 237 209 779.6 0 209 238 339 779.6 0 339 239 462 779.6 0 462 240 646 779.6 0 646 241 554 779.6 0 554 242 511 779.6 0 511 243 430 779.6 0 430 244 264 779.6 0 264 245 291 779.6 0 291 246 191 779.6 0 191 247 294 779.6 0 294 248 351 779.6 0 351 249 481 779.6 0 481 250 451 779.6 0 451 251 813 779.6 0 813 252 527 779.6 0 527 253 302 779.6 0 302 254 207 779.6 0 207 255 111 779.6 0 111 256 110 779.6 0 110 257 120 779.6 0 120 258 165 779.6 0 165 259 216 779.6 0 216 260 241 779.6 0 241 261 314 779.6 0 314 262 363 779.6 0 363 263 409 779.6 0 409 264 346 779.6 0 346 265 241 779.6 0 241 266 247 779.6 0 247 267 222 779.6 0 222 268 244 779.6 0 244 269 328 779.6 0 328 270 293 779.6 0 293 271 435 779.6 0 435 272 437 779.6 0 437 273 500 779.6 0 500 274 357 779.6 0 357 275 393 779.6 0 393 276 585 779.6 0 585 277 584 779.6 0 584 278 428 779.6 0 428 279 338 779.6 0 338 280 456 779.6 0 456 281 333 779.6 0 333 282 324 779.6 0 324 283 314 779.6 0 314 284 252 779.6 0 252 285 230 779.6 0 230 286 210 779.6 0 210 287 296 779.6 0 296 288 475 779.6 0 475 289 460 779.6 0 460 290 753 779.6 0 753 291 822 779.6 0 822 292 776 779.6 0 776 293 366 779.6 0 366 294 329 779.6 0 329 295 445 779.6 0 445 296 549 779.6 0 549 297 656 779.6 0 656 298 547 779.6 0 547 299 453 779.6 0 453 300 301 779.6 0 301 301 155 779.6 0 155 Finished in 9.25 s (41 us/read; 1.45 M reads/minute). === Summary === Total reads processed: 224,246 Reads with adapters: 6,020 (2.7%) Reads that were too short: 229 (0.1%) Reads written (passing filters): 5,791 (2.6%) Total basepairs processed: 47,681,527 bp Total written (filtered): 1,589,886 bp (3.3%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 6020 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 3 0.0 3 0 0 2 1 16 40 0.0 3 0 36 3 1 17 5624 0.0 3 5471 136 13 4 18 17 0.0 3 1 14 1 1 19 7 0.0 3 2 0 3 2 20 13 0.0 3 0 0 0 13 23 6 0.0 3 0 0 0 6 25 1 0.0 3 0 0 0 1 30 1 0.0 3 0 0 0 1 35 1 0.0 3 0 0 0 1 36 1 0.0 3 0 0 0 1 41 22 0.0 3 0 0 0 22 43 1 0.0 3 0 0 0 1 44 11 0.0 3 0 0 0 11 47 1 0.0 3 0 0 0 1 51 1 0.0 3 0 0 0 1 52 1 0.0 3 0 0 0 1 53 1 0.0 3 0 0 0 1 55 3 0.0 3 0 0 0 3 56 1 0.0 3 0 0 0 1 57 2 0.0 3 0 0 0 2 59 2 0.0 3 0 0 0 2 60 1 0.0 3 0 0 0 1 73 1 0.0 3 0 0 0 1 75 1 0.0 3 0 0 0 1 76 5 0.0 3 0 0 0 5 78 1 0.0 3 0 0 0 1 79 2 0.0 3 0 0 0 2 86 1 0.0 3 0 0 0 1 88 1 0.0 3 0 0 1 89 1 0.0 3 0 0 0 1 90 1 0.0 3 0 0 0 1 91 1 0.0 3 0 0 0 1 100 1 0.0 3 0 0 0 1 101 1 0.0 3 0 0 0 1 104 3 0.0 3 0 0 0 3 106 5 0.0 3 0 0 0 5 107 1 0.0 3 0 0 0 1 108 2 0.0 3 0 0 0 2 109 6 0.0 3 0 0 0 6 110 1 0.0 3 0 0 0 1 120 1 0.0 3 0 0 0 1 125 1 0.0 3 0 0 0 1 126 3 0.0 3 0 0 0 3 132 1 0.0 3 0 0 0 1 133 2 0.0 3 0 0 0 2 134 1 0.0 3 0 0 0 1 144 2 0.0 3 0 0 0 2 145 1 0.0 3 0 0 0 1 149 13 0.0 3 0 0 0 13 153 1 0.0 3 0 0 0 1 157 1 0.0 3 0 0 0 1 162 1 0.0 3 0 0 0 1 168 2 0.0 3 0 0 0 2 170 3 0.0 3 0 0 0 3 171 2 0.0 3 0 0 0 2 182 1 0.0 3 0 0 0 1 197 1 0.0 3 0 0 0 1 206 1 0.0 3 0 0 0 1 207 2 0.0 3 0 0 0 2 209 29 0.0 3 0 0 0 29 210 103 0.0 3 0 0 1 102 211 33 0.0 3 0 0 1 32 213 3 0.0 3 0 0 0 3 216 6 0.0 3 0 0 0 6 217 3 0.0 3 0 0 0 3 218 3 0.0 3 0 0 0 3 219 2 0.0 3 0 0 0 2 220 1 0.0 3 0 0 0 1 221 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 0.24 s (41 us/read; 1.45 M reads/minute). === Summary === Total reads processed: 5,791 Reads with adapters: 610 (10.5%) Reads written (passing filters): 5,791 (100.0%) Total basepairs processed: 1,589,886 bp Total written (filtered): 1,587,997 bp (99.9%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 610 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 34.6% C: 42.0% G: 8.0% T: 15.4% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 554 90.5 0 554 4 54 22.6 0 54 5 1 5.7 0 1 6 1 1.4 0 1