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 ... 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 180.57 s (34 us/read; 1.77 M reads/minute). === Summary === Total reads processed: 5,333,634 Reads with adapters: 727,201 (13.6%) Reads that were too short: 84,115 (1.6%) Reads written (passing filters): 643,086 (12.1%) Total basepairs processed: 1,605,423,834 bp Total written (filtered): 164,621,454 bp (10.3%) === Adapter 1 === Sequence: AATCCT; Type: regular 5'; Length: 6; Trimmed: 727201 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 543 1302.2 0 543 7 9017 1302.2 0 9017 8 359 1302.2 0 359 9 320 1302.2 0 320 10 884 1302.2 0 884 11 1399 1302.2 0 1399 12 78594 1302.2 0 78594 13 1223 1302.2 0 1223 14 243 1302.2 0 243 15 588 1302.2 0 588 16 148 1302.2 0 148 17 167 1302.2 0 167 18 431 1302.2 0 431 19 174 1302.2 0 174 20 289 1302.2 0 289 21 140 1302.2 0 140 22 267 1302.2 0 267 23 825 1302.2 0 825 24 1135 1302.2 0 1135 25 1856 1302.2 0 1856 26 3419 1302.2 0 3419 27 3633 1302.2 0 3633 28 7270 1302.2 0 7270 29 13003 1302.2 0 13003 30 214580 1302.2 0 214580 31 34823 1302.2 0 34823 32 159219 1302.2 0 159219 33 721 1302.2 0 721 34 54 1302.2 0 54 35 35 1302.2 0 35 36 103 1302.2 0 103 37 192 1302.2 0 192 38 109 1302.2 0 109 39 15 1302.2 0 15 40 14 1302.2 0 14 41 24 1302.2 0 24 42 7 1302.2 0 7 43 13 1302.2 0 13 44 9 1302.2 0 9 45 28 1302.2 0 28 46 110 1302.2 0 110 47 55 1302.2 0 55 48 11 1302.2 0 11 49 11 1302.2 0 11 50 10 1302.2 0 10 51 23 1302.2 0 23 52 9 1302.2 0 9 53 20 1302.2 0 20 54 51 1302.2 0 51 55 2293 1302.2 0 2293 56 303 1302.2 0 303 57 9 1302.2 0 9 58 8 1302.2 0 8 59 4 1302.2 0 4 60 7 1302.2 0 7 61 6 1302.2 0 6 62 10 1302.2 0 10 63 9 1302.2 0 9 64 13 1302.2 0 13 65 15 1302.2 0 15 66 21 1302.2 0 21 67 12 1302.2 0 12 68 8 1302.2 0 8 69 19 1302.2 0 19 70 98 1302.2 0 98 71 547 1302.2 0 547 72 179 1302.2 0 179 73 139 1302.2 0 139 74 193 1302.2 0 193 75 67 1302.2 0 67 76 206 1302.2 0 206 77 1203 1302.2 0 1203 78 827 1302.2 0 827 79 568 1302.2 0 568 80 1099 1302.2 0 1099 81 725 1302.2 0 725 82 573 1302.2 0 573 83 603 1302.2 0 603 84 911 1302.2 0 911 85 580 1302.2 0 580 86 303 1302.2 0 303 87 1132 1302.2 0 1132 88 658 1302.2 0 658 89 1668 1302.2 0 1668 90 1121 1302.2 0 1121 91 131 1302.2 0 131 92 385 1302.2 0 385 93 1580 1302.2 0 1580 94 438 1302.2 0 438 95 409 1302.2 0 409 96 194 1302.2 0 194 97 173 1302.2 0 173 98 482 1302.2 0 482 99 526 1302.2 0 526 100 1402 1302.2 0 1402 101 751 1302.2 0 751 102 1605 1302.2 0 1605 103 1573 1302.2 0 1573 104 2996 1302.2 0 2996 105 1959 1302.2 0 1959 106 1799 1302.2 0 1799 107 469 1302.2 0 469 108 71 1302.2 0 71 109 233 1302.2 0 233 110 1475 1302.2 0 1475 111 1080 1302.2 0 1080 112 392 1302.2 0 392 113 390 1302.2 0 390 114 248 1302.2 0 248 115 399 1302.2 0 399 116 322 1302.2 0 322 117 472 1302.2 0 472 118 3442 1302.2 0 3442 119 1800 1302.2 0 1800 120 1458 1302.2 0 1458 121 515 1302.2 0 515 122 428 1302.2 0 428 123 547 1302.2 0 547 124 771 1302.2 0 771 125 990 1302.2 0 990 126 680 1302.2 0 680 127 411 1302.2 0 411 128 343 1302.2 0 343 129 291 1302.2 0 291 130 418 1302.2 0 418 131 827 1302.2 0 827 132 916 1302.2 0 916 133 699 1302.2 0 699 134 472 1302.2 0 472 135 742 1302.2 0 742 136 715 1302.2 0 715 137 1072 1302.2 0 1072 138 1889 1302.2 0 1889 139 957 1302.2 0 957 140 514 1302.2 0 514 141 701 1302.2 0 701 142 911 1302.2 0 911 143 719 1302.2 0 719 144 1198 1302.2 0 1198 145 648 1302.2 0 648 146 611 1302.2 0 611 147 567 1302.2 0 567 148 429 1302.2 0 429 149 1032 1302.2 0 1032 150 637 1302.2 0 637 151 660 1302.2 0 660 152 555 1302.2 0 555 153 793 1302.2 0 793 154 1173 1302.2 0 1173 155 492 1302.2 0 492 156 525 1302.2 0 525 157 957 1302.2 0 957 158 1181 1302.2 0 1181 159 1961 1302.2 0 1961 160 906 1302.2 0 906 161 1121 1302.2 0 1121 162 719 1302.2 0 719 163 1033 1302.2 0 1033 164 1928 1302.2 0 1928 165 1874 1302.2 0 1874 166 952 1302.2 0 952 167 857 1302.2 0 857 168 870 1302.2 0 870 169 448 1302.2 0 448 170 447 1302.2 0 447 171 663 1302.2 0 663 172 589 1302.2 0 589 173 513 1302.2 0 513 174 369 1302.2 0 369 175 180 1302.2 0 180 176 231 1302.2 0 231 177 593 1302.2 0 593 178 847 1302.2 0 847 179 1690 1302.2 0 1690 180 1503 1302.2 0 1503 181 696 1302.2 0 696 182 749 1302.2 0 749 183 1025 1302.2 0 1025 184 1329 1302.2 0 1329 185 624 1302.2 0 624 186 322 1302.2 0 322 187 209 1302.2 0 209 188 464 1302.2 0 464 189 785 1302.2 0 785 190 1457 1302.2 0 1457 191 864 1302.2 0 864 192 647 1302.2 0 647 193 269 1302.2 0 269 194 199 1302.2 0 199 195 437 1302.2 0 437 196 720 1302.2 0 720 197 624 1302.2 0 624 198 642 1302.2 0 642 199 731 1302.2 0 731 200 495 1302.2 0 495 201 554 1302.2 0 554 202 839 1302.2 0 839 203 2488 1302.2 0 2488 204 2205 1302.2 0 2205 205 1161 1302.2 0 1161 206 1292 1302.2 0 1292 207 544 1302.2 0 544 208 434 1302.2 0 434 209 677 1302.2 0 677 210 512 1302.2 0 512 211 485 1302.2 0 485 212 376 1302.2 0 376 213 366 1302.2 0 366 214 526 1302.2 0 526 215 938 1302.2 0 938 216 645 1302.2 0 645 217 905 1302.2 0 905 218 787 1302.2 0 787 219 382 1302.2 0 382 220 502 1302.2 0 502 221 231 1302.2 0 231 222 658 1302.2 0 658 223 1950 1302.2 0 1950 224 1572 1302.2 0 1572 225 858 1302.2 0 858 226 948 1302.2 0 948 227 691 1302.2 0 691 228 793 1302.2 0 793 229 412 1302.2 0 412 230 390 1302.2 0 390 231 595 1302.2 0 595 232 613 1302.2 0 613 233 657 1302.2 0 657 234 1009 1302.2 0 1009 235 493 1302.2 0 493 236 231 1302.2 0 231 237 104 1302.2 0 104 238 132 1302.2 0 132 239 237 1302.2 0 237 240 383 1302.2 0 383 241 664 1302.2 0 664 242 652 1302.2 0 652 243 1367 1302.2 0 1367 244 1102 1302.2 0 1102 245 583 1302.2 0 583 246 290 1302.2 0 290 247 154 1302.2 0 154 248 138 1302.2 0 138 249 269 1302.2 0 269 250 557 1302.2 0 557 251 922 1302.2 0 922 252 1869 1302.2 0 1869 253 3035 1302.2 0 3035 254 3886 1302.2 0 3886 255 1512 1302.2 0 1512 256 1141 1302.2 0 1141 257 559 1302.2 0 559 258 681 1302.2 0 681 259 596 1302.2 0 596 260 1089 1302.2 0 1089 261 1320 1302.2 0 1320 262 5540 1302.2 0 5540 263 1215 1302.2 0 1215 264 1950 1302.2 0 1950 265 1795 1302.2 0 1795 266 549 1302.2 0 549 267 385 1302.2 0 385 268 252 1302.2 0 252 269 218 1302.2 0 218 270 377 1302.2 0 377 271 523 1302.2 0 523 272 630 1302.2 0 630 273 806 1302.2 0 806 274 434 1302.2 0 434 275 669 1302.2 0 669 276 2161 1302.2 0 2161 277 1706 1302.2 0 1706 278 2095 1302.2 0 2095 279 873 1302.2 0 873 280 406 1302.2 0 406 281 288 1302.2 0 288 282 489 1302.2 0 489 283 513 1302.2 0 513 284 509 1302.2 0 509 285 803 1302.2 0 803 286 442 1302.2 0 442 287 182 1302.2 0 182 288 236 1302.2 0 236 289 312 1302.2 0 312 290 545 1302.2 0 545 291 866 1302.2 0 866 292 654 1302.2 0 654 293 480 1302.2 0 480 294 316 1302.2 0 316 295 185 1302.2 0 185 296 211 1302.2 0 211 297 756 1302.2 0 756 298 564 1302.2 0 564 299 288 1302.2 0 288 300 596 1302.2 0 596 301 889 1302.2 0 889 Finished in 37.40 s (58 us/read; 1.03 M reads/minute). === Summary === Total reads processed: 643,086 Reads with adapters: 9,075 (1.4%) Reads that were too short: 60 (0.0%) Reads written (passing filters): 9,015 (1.4%) Total basepairs processed: 164,621,454 bp Total written (filtered): 2,445,033 bp (1.5%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 9075 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 18 2 0.0 3 0 0 2 19 74 0.0 3 0 69 2 2 1 20 8687 0.0 4 8516 148 12 6 5 21 19 0.0 4 1 17 1 22 5 0.0 4 1 0 2 1 1 23 4 0.0 4 0 0 0 2 2 24 1 0.0 4 0 0 0 0 1 25 3 0.0 4 0 0 0 0 3 27 1 0.0 4 1 33 2 0.0 4 1 0 0 0 1 38 3 0.0 4 0 0 0 0 3 43 1 0.0 4 0 0 0 0 1 45 2 0.0 4 0 0 0 0 2 46 4 0.0 4 1 0 0 1 2 47 2 0.0 4 0 0 0 0 2 49 2 0.0 4 0 0 0 0 2 51 1 0.0 4 0 0 0 0 1 52 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 0 0 0 0 1 68 1 0.0 4 0 0 0 0 1 71 1 0.0 4 0 0 0 0 1 73 2 0.0 4 0 0 0 0 2 77 1 0.0 4 0 0 0 0 1 80 1 0.0 4 0 0 0 0 1 84 1 0.0 4 0 0 0 0 1 91 1 0.0 4 0 0 0 0 1 92 1 0.0 4 0 0 0 0 1 94 1 0.0 4 0 0 0 0 1 95 1 0.0 4 0 0 0 0 1 103 1 0.0 4 0 0 0 0 1 105 1 0.0 4 0 0 1 107 5 0.0 4 0 0 0 0 5 110 1 0.0 4 0 0 0 0 1 114 2 0.0 4 0 0 0 0 2 118 1 0.0 4 0 0 0 0 1 120 1 0.0 4 0 0 0 0 1 123 2 0.0 4 0 0 0 0 2 124 174 0.0 4 0 0 0 0 174 125 1 0.0 4 0 0 0 0 1 126 1 0.0 4 0 0 0 0 1 127 1 0.0 4 0 0 0 0 1 129 1 0.0 4 0 0 0 0 1 130 3 0.0 4 0 0 0 0 3 132 1 0.0 4 0 0 0 0 1 136 1 0.0 4 0 0 0 0 1 142 1 0.0 4 0 0 0 0 1 145 1 0.0 4 0 0 0 0 1 146 1 0.0 4 0 0 0 0 1 148 12 0.0 4 0 0 0 0 12 149 1 0.0 4 0 0 0 0 1 150 2 0.0 4 0 0 0 0 2 161 2 0.0 4 0 0 0 0 2 166 1 0.0 4 0 0 0 0 1 174 1 0.0 4 0 0 0 0 1 175 1 0.0 4 1 176 1 0.0 4 0 0 0 0 1 178 1 0.0 4 0 0 0 0 1 184 1 0.0 4 0 0 0 0 1 194 1 0.0 4 0 0 0 0 1 206 2 0.0 4 0 0 0 0 2 211 1 0.0 4 0 0 0 0 1 225 2 0.0 4 0 0 0 0 2 230 1 0.0 4 0 0 0 0 1 231 1 0.0 4 0 0 0 0 1 233 1 0.0 4 0 0 0 0 1 234 1 0.0 4 0 0 0 0 1 248 1 0.0 4 0 0 0 0 1 249 1 0.0 4 0 0 0 0 1 255 3 0.0 4 0 0 0 0 3 266 1 0.0 4 0 0 0 0 1 279 4 0.0 4 0 0 0 0 4 280 1 0.0 4 0 0 0 0 1 282 2 0.0 4 0 0 0 0 2 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 0.35 s (39 us/read; 1.55 M reads/minute). === Summary === Total reads processed: 9,015 Reads with adapters: 273 (3.0%) Reads written (passing filters): 9,015 (100.0%) Total basepairs processed: 2,445,033 bp Total written (filtered): 2,398,300 bp (98.1%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 273 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 2.9% C: 65.6% G: 30.0% T: 1.5% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 5 140.9 0 5 4 1 35.2 0 1 11 63 0.0 1 0 63 12 26 0.0 1 2 24 215 33 0.0 1 27 6 216 1 0.0 1 1 217 1 0.0 1 1 218 1 0.0 1 1 220 1 0.0 1 1 242 7 0.0 1 7 269 131 0.0 1 127 4 270 3 0.0 1 2 1