This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AATGAA -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 96.18 s (31 us/read; 1.93 M reads/minute). === Summary === Total reads processed: 3,094,653 Reads with adapters: 256,756 (8.3%) Reads that were too short: 80,959 (2.6%) Reads written (passing filters): 175,797 (5.7%) Total basepairs processed: 931,490,553 bp Total written (filtered): 35,717,129 bp (3.8%) === Adapter 1 === Sequence: AATGAA; Type: regular 5'; Length: 6; Trimmed: 256756 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 289 755.5 0 289 7 363 755.5 0 363 8 1561 755.5 0 1561 9 52631 755.5 0 52631 10 69 755.5 0 69 11 17 755.5 0 17 12 13 755.5 0 13 13 15 755.5 0 15 14 20 755.5 0 20 15 9 755.5 0 9 16 10 755.5 0 10 17 10 755.5 0 10 18 9 755.5 0 9 19 10 755.5 0 10 20 15 755.5 0 15 21 7 755.5 0 7 22 7 755.5 0 7 23 8 755.5 0 8 24 6 755.5 0 6 25 11 755.5 0 11 26 15 755.5 0 15 27 12 755.5 0 12 28 7 755.5 0 7 29 17 755.5 0 17 30 45 755.5 0 45 31 11 755.5 0 11 32 19 755.5 0 19 33 12 755.5 0 12 34 9 755.5 0 9 35 38 755.5 0 38 36 108 755.5 0 108 37 20 755.5 0 20 38 20 755.5 0 20 39 22 755.5 0 22 40 21 755.5 0 21 41 10 755.5 0 10 42 26 755.5 0 26 43 45 755.5 0 45 44 8 755.5 0 8 45 14 755.5 0 14 46 12 755.5 0 12 47 47 755.5 0 47 48 10 755.5 0 10 49 12 755.5 0 12 50 13 755.5 0 13 51 9 755.5 0 9 52 4 755.5 0 4 53 10 755.5 0 10 54 14 755.5 0 14 55 13 755.5 0 13 56 13 755.5 0 13 57 15 755.5 0 15 58 17 755.5 0 17 59 10 755.5 0 10 60 7 755.5 0 7 61 23 755.5 0 23 62 19 755.5 0 19 63 13 755.5 0 13 64 10 755.5 0 10 65 22 755.5 0 22 66 23 755.5 0 23 67 12 755.5 0 12 68 21 755.5 0 21 69 31 755.5 0 31 70 35 755.5 0 35 71 59 755.5 0 59 72 24 755.5 0 24 73 34 755.5 0 34 74 40 755.5 0 40 75 26 755.5 0 26 76 64 755.5 0 64 77 539 755.5 0 539 78 246 755.5 0 246 79 2032 755.5 0 2032 80 1439 755.5 0 1439 81 2343 755.5 0 2343 82 837 755.5 0 837 83 880 755.5 0 880 84 1517 755.5 0 1517 85 608 755.5 0 608 86 1180 755.5 0 1180 87 90 755.5 0 90 88 79 755.5 0 79 89 471 755.5 0 471 90 794 755.5 0 794 91 90 755.5 0 90 92 77 755.5 0 77 93 561 755.5 0 561 94 2002 755.5 0 2002 95 1668 755.5 0 1668 96 1854 755.5 0 1854 97 233 755.5 0 233 98 89 755.5 0 89 99 731 755.5 0 731 100 4445 755.5 0 4445 101 1940 755.5 0 1940 102 568 755.5 0 568 103 462 755.5 0 462 104 111 755.5 0 111 105 379 755.5 0 379 106 1440 755.5 0 1440 107 309 755.5 0 309 108 139 755.5 0 139 109 339 755.5 0 339 110 620 755.5 0 620 111 550 755.5 0 550 112 608 755.5 0 608 113 409 755.5 0 409 114 381 755.5 0 381 115 1006 755.5 0 1006 116 683 755.5 0 683 117 635 755.5 0 635 118 1783 755.5 0 1783 119 1374 755.5 0 1374 120 972 755.5 0 972 121 768 755.5 0 768 122 713 755.5 0 713 123 603 755.5 0 603 124 924 755.5 0 924 125 1620 755.5 0 1620 126 2793 755.5 0 2793 127 2132 755.5 0 2132 128 473 755.5 0 473 129 444 755.5 0 444 130 840 755.5 0 840 131 1591 755.5 0 1591 132 1142 755.5 0 1142 133 733 755.5 0 733 134 733 755.5 0 733 135 749 755.5 0 749 136 1446 755.5 0 1446 137 1639 755.5 0 1639 138 1305 755.5 0 1305 139 1350 755.5 0 1350 140 963 755.5 0 963 141 1950 755.5 0 1950 142 642 755.5 0 642 143 1491 755.5 0 1491 144 689 755.5 0 689 145 1473 755.5 0 1473 146 1045 755.5 0 1045 147 687 755.5 0 687 148 619 755.5 0 619 149 697 755.5 0 697 150 630 755.5 0 630 151 446 755.5 0 446 152 693 755.5 0 693 153 769 755.5 0 769 154 1062 755.5 0 1062 155 592 755.5 0 592 156 664 755.5 0 664 157 1295 755.5 0 1295 158 1038 755.5 0 1038 159 1303 755.5 0 1303 160 942 755.5 0 942 161 685 755.5 0 685 162 740 755.5 0 740 163 706 755.5 0 706 164 779 755.5 0 779 165 1002 755.5 0 1002 166 833 755.5 0 833 167 673 755.5 0 673 168 707 755.5 0 707 169 1272 755.5 0 1272 170 1307 755.5 0 1307 171 466 755.5 0 466 172 420 755.5 0 420 173 934 755.5 0 934 174 1269 755.5 0 1269 175 683 755.5 0 683 176 457 755.5 0 457 177 388 755.5 0 388 178 504 755.5 0 504 179 919 755.5 0 919 180 1240 755.5 0 1240 181 1112 755.5 0 1112 182 2482 755.5 0 2482 183 1373 755.5 0 1373 184 1696 755.5 0 1696 185 1144 755.5 0 1144 186 1074 755.5 0 1074 187 841 755.5 0 841 188 408 755.5 0 408 189 333 755.5 0 333 190 674 755.5 0 674 191 1411 755.5 0 1411 192 1332 755.5 0 1332 193 1186 755.5 0 1186 194 821 755.5 0 821 195 404 755.5 0 404 196 367 755.5 0 367 197 1088 755.5 0 1088 198 2569 755.5 0 2569 199 1410 755.5 0 1410 200 459 755.5 0 459 201 207 755.5 0 207 202 406 755.5 0 406 203 1155 755.5 0 1155 204 1459 755.5 0 1459 205 1171 755.5 0 1171 206 1178 755.5 0 1178 207 675 755.5 0 675 208 491 755.5 0 491 209 580 755.5 0 580 210 828 755.5 0 828 211 1049 755.5 0 1049 212 942 755.5 0 942 213 855 755.5 0 855 214 860 755.5 0 860 215 692 755.5 0 692 216 596 755.5 0 596 217 904 755.5 0 904 218 994 755.5 0 994 219 1080 755.5 0 1080 220 611 755.5 0 611 221 324 755.5 0 324 222 466 755.5 0 466 223 964 755.5 0 964 224 856 755.5 0 856 225 598 755.5 0 598 226 693 755.5 0 693 227 708 755.5 0 708 228 774 755.5 0 774 229 707 755.5 0 707 230 835 755.5 0 835 231 777 755.5 0 777 232 380 755.5 0 380 233 422 755.5 0 422 234 1010 755.5 0 1010 235 1445 755.5 0 1445 236 956 755.5 0 956 237 992 755.5 0 992 238 1042 755.5 0 1042 239 1400 755.5 0 1400 240 533 755.5 0 533 241 491 755.5 0 491 242 530 755.5 0 530 243 751 755.5 0 751 244 699 755.5 0 699 245 685 755.5 0 685 246 1005 755.5 0 1005 247 902 755.5 0 902 248 709 755.5 0 709 249 359 755.5 0 359 250 527 755.5 0 527 251 2095 755.5 0 2095 252 1302 755.5 0 1302 253 999 755.5 0 999 254 1101 755.5 0 1101 255 938 755.5 0 938 256 707 755.5 0 707 257 774 755.5 0 774 258 583 755.5 0 583 259 427 755.5 0 427 260 359 755.5 0 359 261 484 755.5 0 484 262 658 755.5 0 658 263 750 755.5 0 750 264 670 755.5 0 670 265 648 755.5 0 648 266 735 755.5 0 735 267 892 755.5 0 892 268 735 755.5 0 735 269 389 755.5 0 389 270 350 755.5 0 350 271 675 755.5 0 675 272 828 755.5 0 828 273 1154 755.5 0 1154 274 1149 755.5 0 1149 275 703 755.5 0 703 276 364 755.5 0 364 277 508 755.5 0 508 278 708 755.5 0 708 279 1022 755.5 0 1022 280 806 755.5 0 806 281 420 755.5 0 420 282 348 755.5 0 348 283 513 755.5 0 513 284 656 755.5 0 656 285 702 755.5 0 702 286 956 755.5 0 956 287 766 755.5 0 766 288 810 755.5 0 810 289 675 755.5 0 675 290 688 755.5 0 688 291 647 755.5 0 647 292 1269 755.5 0 1269 293 1579 755.5 0 1579 294 864 755.5 0 864 295 526 755.5 0 526 296 760 755.5 0 760 297 892 755.5 0 892 298 692 755.5 0 692 299 782 755.5 0 782 300 1545 755.5 0 1545 301 2290 755.5 0 2290 Finished in 7.53 s (43 us/read; 1.40 M reads/minute). === Summary === Total reads processed: 175,797 Reads with adapters: 54,759 (31.1%) Reads that were too short: 26 (0.0%) Reads written (passing filters): 54,733 (31.1%) Total basepairs processed: 35,717,129 bp Total written (filtered): 14,889,088 bp (41.7%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 54759 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 16 1 0.0 3 0 0 0 0 1 17 2 0.0 3 0 0 0 1 1 18 28 0.0 3 0 0 26 2 19 630 0.0 3 0 616 6 4 4 20 53886 0.0 4 53080 778 24 4 21 144 0.0 4 30 113 1 22 5 0.0 4 0 0 3 0 2 23 18 0.0 4 0 0 0 17 1 24 2 0.0 4 0 0 0 1 1 26 3 0.0 4 0 0 0 0 3 30 2 0.0 4 1 0 0 0 1 33 1 0.0 4 0 0 0 0 1 35 1 0.0 4 0 0 0 0 1 41 1 0.0 4 1 42 1 0.0 4 1 45 1 0.0 4 0 0 0 0 1 53 1 0.0 4 1 54 1 0.0 4 0 0 0 0 1 55 2 0.0 4 0 0 0 0 2 78 2 0.0 4 0 0 0 0 2 81 1 0.0 4 0 0 0 0 1 82 1 0.0 4 0 0 0 0 1 85 1 0.0 4 0 0 0 0 1 87 1 0.0 4 0 0 0 0 1 90 1 0.0 4 0 0 0 0 1 101 1 0.0 4 0 0 0 0 1 102 1 0.0 4 0 0 0 0 1 106 1 0.0 4 0 0 0 0 1 107 1 0.0 4 0 0 0 0 1 111 2 0.0 4 0 0 0 0 2 114 2 0.0 4 0 0 0 0 2 116 1 0.0 4 0 0 0 0 1 117 1 0.0 4 0 0 0 1 118 1 0.0 4 0 0 0 0 1 123 1 0.0 4 0 0 0 0 1 128 1 0.0 4 0 0 0 0 1 142 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 1 159 1 0.0 4 0 0 0 0 1 163 1 0.0 4 0 0 0 0 1 167 1 0.0 4 0 0 0 0 1 173 1 0.0 4 0 0 0 0 1 197 1 0.0 4 0 0 0 0 1 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 2.14 s (39 us/read; 1.53 M reads/minute). === Summary === Total reads processed: 54,733 Reads with adapters: 610 (1.1%) Reads written (passing filters): 54,733 (100.0%) Total basepairs processed: 14,889,088 bp Total written (filtered): 14,882,488 bp (100.0%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 610 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 2.5% C: 1.6% G: 93.4% T: 2.5% 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 1 855.2 0 1 4 7 213.8 0 7 6 2 13.4 0 2 8 1 0.8 0 1 9 119 0.2 0 4 115 10 339 0.1 1 11 328 11 136 0.0 1 1 135 12 1 0.0 1 0 1 13 1 0.0 1 0 1 150 2 0.0 1 0 2 267 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.