This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AATCCT -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 79.96 s (27 us/read; 2.20 M reads/minute). === Summary === Total reads processed: 2,926,947 Reads with adapters: 593,492 (20.3%) Reads that were too short: 52,913 (1.8%) Reads written (passing filters): 540,579 (18.5%) Total basepairs processed: 881,011,047 bp Total written (filtered): 142,474,167 bp (16.2%) === Adapter 1 === Sequence: AATCCT; Type: regular 5'; Length: 6; Trimmed: 593492 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 125 714.6 0 125 7 151 714.6 0 151 8 373 714.6 0 373 9 17378 714.6 0 17378 10 130 714.6 0 130 11 146 714.6 0 146 12 332 714.6 0 332 13 852 714.6 0 852 14 153 714.6 0 153 15 377 714.6 0 377 16 140 714.6 0 140 17 236 714.6 0 236 18 586 714.6 0 586 19 355 714.6 0 355 20 368 714.6 0 368 21 132 714.6 0 132 22 275 714.6 0 275 23 531 714.6 0 531 24 974 714.6 0 974 25 1296 714.6 0 1296 26 2036 714.6 0 2036 27 3116 714.6 0 3116 28 5226 714.6 0 5226 29 12746 714.6 0 12746 30 212623 714.6 0 212623 31 181141 714.6 0 181141 32 59477 714.6 0 59477 33 341 714.6 0 341 34 49 714.6 0 49 35 34 714.6 0 34 36 55 714.6 0 55 37 43 714.6 0 43 38 15 714.6 0 15 39 15 714.6 0 15 40 15 714.6 0 15 41 24 714.6 0 24 42 21 714.6 0 21 43 28 714.6 0 28 44 37 714.6 0 37 45 54 714.6 0 54 46 18 714.6 0 18 47 17 714.6 0 17 48 18 714.6 0 18 49 17 714.6 0 17 50 17 714.6 0 17 51 15 714.6 0 15 52 9 714.6 0 9 53 20 714.6 0 20 54 42 714.6 0 42 55 208 714.6 0 208 56 83 714.6 0 83 57 15 714.6 0 15 58 12 714.6 0 12 59 13 714.6 0 13 60 15 714.6 0 15 61 16 714.6 0 16 62 15 714.6 0 15 63 20 714.6 0 20 64 11 714.6 0 11 65 12 714.6 0 12 66 8 714.6 0 8 67 6 714.6 0 6 68 9 714.6 0 9 69 11 714.6 0 11 70 23 714.6 0 23 71 17 714.6 0 17 72 18 714.6 0 18 73 8 714.6 0 8 74 22 714.6 0 22 75 19 714.6 0 19 76 42 714.6 0 42 77 85 714.6 0 85 78 44 714.6 0 44 79 78 714.6 0 78 80 131 714.6 0 131 81 237 714.6 0 237 82 279 714.6 0 279 83 280 714.6 0 280 84 141 714.6 0 141 85 153 714.6 0 153 86 157 714.6 0 157 87 270 714.6 0 270 88 212 714.6 0 212 89 293 714.6 0 293 90 260 714.6 0 260 91 226 714.6 0 226 92 500 714.6 0 500 93 443 714.6 0 443 94 260 714.6 0 260 95 153 714.6 0 153 96 152 714.6 0 152 97 184 714.6 0 184 98 106 714.6 0 106 99 143 714.6 0 143 100 432 714.6 0 432 101 259 714.6 0 259 102 869 714.6 0 869 103 619 714.6 0 619 104 456 714.6 0 456 105 780 714.6 0 780 106 513 714.6 0 513 107 276 714.6 0 276 108 241 714.6 0 241 109 313 714.6 0 313 110 258 714.6 0 258 111 217 714.6 0 217 112 198 714.6 0 198 113 201 714.6 0 201 114 198 714.6 0 198 115 155 714.6 0 155 116 153 714.6 0 153 117 158 714.6 0 158 118 407 714.6 0 407 119 410 714.6 0 410 120 266 714.6 0 266 121 130 714.6 0 130 122 243 714.6 0 243 123 303 714.6 0 303 124 615 714.6 0 615 125 750 714.6 0 750 126 1123 714.6 0 1123 127 185 714.6 0 185 128 148 714.6 0 148 129 150 714.6 0 150 130 170 714.6 0 170 131 284 714.6 0 284 132 213 714.6 0 213 133 222 714.6 0 222 134 199 714.6 0 199 135 171 714.6 0 171 136 199 714.6 0 199 137 267 714.6 0 267 138 361 714.6 0 361 139 321 714.6 0 321 140 163 714.6 0 163 141 257 714.6 0 257 142 468 714.6 0 468 143 351 714.6 0 351 144 288 714.6 0 288 145 272 714.6 0 272 146 220 714.6 0 220 147 289 714.6 0 289 148 189 714.6 0 189 149 562 714.6 0 562 150 453 714.6 0 453 151 300 714.6 0 300 152 243 714.6 0 243 153 206 714.6 0 206 154 300 714.6 0 300 155 257 714.6 0 257 156 203 714.6 0 203 157 425 714.6 0 425 158 280 714.6 0 280 159 761 714.6 0 761 160 893 714.6 0 893 161 370 714.6 0 370 162 299 714.6 0 299 163 454 714.6 0 454 164 469 714.6 0 469 165 290 714.6 0 290 166 308 714.6 0 308 167 519 714.6 0 519 168 301 714.6 0 301 169 239 714.6 0 239 170 190 714.6 0 190 171 225 714.6 0 225 172 254 714.6 0 254 173 206 714.6 0 206 174 162 714.6 0 162 175 216 714.6 0 216 176 200 714.6 0 200 177 266 714.6 0 266 178 245 714.6 0 245 179 438 714.6 0 438 180 288 714.6 0 288 181 245 714.6 0 245 182 279 714.6 0 279 183 402 714.6 0 402 184 490 714.6 0 490 185 391 714.6 0 391 186 261 714.6 0 261 187 157 714.6 0 157 188 390 714.6 0 390 189 459 714.6 0 459 190 396 714.6 0 396 191 230 714.6 0 230 192 152 714.6 0 152 193 128 714.6 0 128 194 202 714.6 0 202 195 200 714.6 0 200 196 213 714.6 0 213 197 295 714.6 0 295 198 185 714.6 0 185 199 426 714.6 0 426 200 391 714.6 0 391 201 366 714.6 0 366 202 414 714.6 0 414 203 359 714.6 0 359 204 542 714.6 0 542 205 507 714.6 0 507 206 496 714.6 0 496 207 276 714.6 0 276 208 152 714.6 0 152 209 125 714.6 0 125 210 154 714.6 0 154 211 200 714.6 0 200 212 224 714.6 0 224 213 239 714.6 0 239 214 266 714.6 0 266 215 348 714.6 0 348 216 302 714.6 0 302 217 217 714.6 0 217 218 344 714.6 0 344 219 345 714.6 0 345 220 299 714.6 0 299 221 148 714.6 0 148 222 156 714.6 0 156 223 337 714.6 0 337 224 354 714.6 0 354 225 335 714.6 0 335 226 400 714.6 0 400 227 320 714.6 0 320 228 443 714.6 0 443 229 366 714.6 0 366 230 244 714.6 0 244 231 350 714.6 0 350 232 529 714.6 0 529 233 371 714.6 0 371 234 262 714.6 0 262 235 245 714.6 0 245 236 122 714.6 0 122 237 98 714.6 0 98 238 106 714.6 0 106 239 132 714.6 0 132 240 159 714.6 0 159 241 202 714.6 0 202 242 227 714.6 0 227 243 272 714.6 0 272 244 235 714.6 0 235 245 291 714.6 0 291 246 212 714.6 0 212 247 238 714.6 0 238 248 68 714.6 0 68 249 145 714.6 0 145 250 262 714.6 0 262 251 333 714.6 0 333 252 625 714.6 0 625 253 484 714.6 0 484 254 889 714.6 0 889 255 1174 714.6 0 1174 256 1119 714.6 0 1119 257 675 714.6 0 675 258 866 714.6 0 866 259 1056 714.6 0 1056 260 2274 714.6 0 2274 261 11164 714.6 0 11164 262 7251 714.6 0 7251 263 355 714.6 0 355 264 273 714.6 0 273 265 315 714.6 0 315 266 132 714.6 0 132 267 125 714.6 0 125 268 191 714.6 0 191 269 159 714.6 0 159 270 182 714.6 0 182 271 261 714.6 0 261 272 407 714.6 0 407 273 369 714.6 0 369 274 351 714.6 0 351 275 919 714.6 0 919 276 935 714.6 0 935 277 1273 714.6 0 1273 278 699 714.6 0 699 279 499 714.6 0 499 280 290 714.6 0 290 281 220 714.6 0 220 282 305 714.6 0 305 283 362 714.6 0 362 284 255 714.6 0 255 285 166 714.6 0 166 286 157 714.6 0 157 287 72 714.6 0 72 288 60 714.6 0 60 289 82 714.6 0 82 290 132 714.6 0 132 291 424 714.6 0 424 292 250 714.6 0 250 293 128 714.6 0 128 294 71 714.6 0 71 295 58 714.6 0 58 296 74 714.6 0 74 297 112 714.6 0 112 298 130 714.6 0 130 299 282 714.6 0 282 300 390 714.6 0 390 301 100 714.6 0 100 Finished in 21.97 s (41 us/read; 1.48 M reads/minute). === Summary === Total reads processed: 540,579 Reads with adapters: 17,995 (3.3%) Reads that were too short: 91 (0.0%) Reads written (passing filters): 17,904 (3.3%) Total basepairs processed: 142,474,167 bp Total written (filtered): 4,918,508 bp (3.5%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 17995 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 14 1 0.0 2 0 0 0 1 15 3 0.0 3 0 0 2 1 16 126 0.0 3 0 125 1 17 17636 0.0 3 17341 290 3 2 18 51 0.0 3 0 42 8 1 19 15 0.0 3 0 0 8 7 20 33 0.0 3 28 1 0 4 25 2 0.0 3 1 0 0 1 27 1 0.0 3 0 0 0 1 35 1 0.0 3 0 0 0 1 40 1 0.0 3 0 0 0 1 49 1 0.0 3 0 0 0 1 51 1 0.0 3 0 0 0 1 67 4 0.0 3 0 0 0 4 68 1 0.0 3 0 0 0 1 69 1 0.0 3 0 0 0 1 70 3 0.0 3 0 0 0 3 71 1 0.0 3 0 0 0 1 72 1 0.0 3 0 0 0 1 73 1 0.0 3 0 0 0 1 78 1 0.0 3 0 0 0 1 82 1 0.0 3 0 0 0 1 84 1 0.0 3 0 0 0 1 98 1 0.0 3 0 0 0 1 99 1 0.0 3 0 0 0 1 100 1 0.0 3 0 0 0 1 104 1 0.0 3 0 0 0 1 108 1 0.0 3 0 0 1 113 1 0.0 3 0 0 0 1 117 1 0.0 3 0 0 0 1 123 1 0.0 3 0 0 0 1 135 1 0.0 3 0 0 0 1 137 1 0.0 3 0 0 0 1 141 1 0.0 3 0 0 0 1 159 1 0.0 3 0 0 0 1 161 1 0.0 3 0 0 0 1 167 1 0.0 3 0 0 0 1 168 2 0.0 3 0 0 0 2 169 14 0.0 3 0 0 0 14 182 5 0.0 3 0 0 0 5 184 1 0.0 3 0 0 0 1 185 1 0.0 3 0 0 0 1 195 2 0.0 3 0 0 0 2 198 4 0.0 3 0 0 0 4 202 1 0.0 3 0 0 0 1 234 1 0.0 3 0 0 0 1 246 1 0.0 3 0 0 0 1 255 1 0.0 3 0 0 0 1 257 9 0.0 3 0 0 0 9 258 19 0.0 3 0 0 0 19 259 18 0.0 3 0 0 0 18 260 3 0.0 3 0 0 0 3 261 1 0.0 3 0 0 0 1 263 2 0.0 3 0 0 0 2 265 5 0.0 3 0 0 0 5 266 3 0.0 3 0 0 0 3 268 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 0.64 s (36 us/read; 1.68 M reads/minute). === Summary === Total reads processed: 17,904 Reads with adapters: 698 (3.9%) Reads written (passing filters): 17,904 (100.0%) Total basepairs processed: 4,918,508 bp Total written (filtered): 4,916,408 bp (100.0%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 698 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 16.3% C: 4.2% G: 79.5% T: 0.0% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 694 279.8 0 694 4 2 69.9 0 2 5 2 17.5 0 2