This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AGAAGA -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 71.59 s (26 us/read; 2.27 M reads/minute). === Summary === Total reads processed: 2,708,680 Reads with adapters: 485,214 (17.9%) Reads that were too short: 71,884 (2.7%) Reads written (passing filters): 413,330 (15.3%) Total basepairs processed: 815,312,680 bp Total written (filtered): 69,707,768 bp (8.5%) === Adapter 1 === Sequence: AGAAGA; Type: regular 5'; Length: 6; Trimmed: 485214 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 172 661.3 0 172 7 9591 661.3 0 9591 8 109 661.3 0 109 9 169 661.3 0 169 10 79 661.3 0 79 11 80 661.3 0 80 12 138 661.3 0 138 13 122 661.3 0 122 14 73 661.3 0 73 15 79 661.3 0 79 16 103 661.3 0 103 17 69 661.3 0 69 18 89 661.3 0 89 19 64 661.3 0 64 20 51 661.3 0 51 21 46 661.3 0 46 22 76 661.3 0 76 23 65 661.3 0 65 24 74 661.3 0 74 25 65 661.3 0 65 26 102 661.3 0 102 27 107 661.3 0 107 28 98 661.3 0 98 29 133 661.3 0 133 30 561 661.3 0 561 31 60 661.3 0 60 32 67 661.3 0 67 33 54 661.3 0 54 34 71 661.3 0 71 35 77 661.3 0 77 36 76 661.3 0 76 37 111 661.3 0 111 38 55 661.3 0 55 39 67 661.3 0 67 40 101 661.3 0 101 41 69 661.3 0 69 42 72 661.3 0 72 43 76 661.3 0 76 44 61 661.3 0 61 45 49 661.3 0 49 46 58 661.3 0 58 47 42 661.3 0 42 48 67 661.3 0 67 49 70 661.3 0 70 50 61 661.3 0 61 51 78 661.3 0 78 52 67 661.3 0 67 53 107 661.3 0 107 54 91 661.3 0 91 55 68 661.3 0 68 56 81 661.3 0 81 57 80 661.3 0 80 58 82 661.3 0 82 59 88 661.3 0 88 60 78 661.3 0 78 61 101 661.3 0 101 62 77 661.3 0 77 63 84 661.3 0 84 64 97 661.3 0 97 65 83 661.3 0 83 66 87 661.3 0 87 67 96 661.3 0 96 68 171 661.3 0 171 69 247 661.3 0 247 70 196 661.3 0 196 71 473 661.3 0 473 72 136 661.3 0 136 73 102 661.3 0 102 74 112 661.3 0 112 75 109 661.3 0 109 76 132 661.3 0 132 77 122 661.3 0 122 78 158 661.3 0 158 79 299 661.3 0 299 80 468 661.3 0 468 81 1374 661.3 0 1374 82 1262 661.3 0 1262 83 1671 661.3 0 1671 84 1860 661.3 0 1860 85 3018 661.3 0 3018 86 4857 661.3 0 4857 87 551 661.3 0 551 88 291 661.3 0 291 89 284 661.3 0 284 90 574 661.3 0 574 91 267 661.3 0 267 92 470 661.3 0 470 93 1013 661.3 0 1013 94 686 661.3 0 686 95 980 661.3 0 980 96 794 661.3 0 794 97 664 661.3 0 664 98 1392 661.3 0 1392 99 789 661.3 0 789 100 608 661.3 0 608 101 1468 661.3 0 1468 102 994 661.3 0 994 103 677 661.3 0 677 104 722 661.3 0 722 105 1254 661.3 0 1254 106 613 661.3 0 613 107 633 661.3 0 633 108 1155 661.3 0 1155 109 865 661.3 0 865 110 1014 661.3 0 1014 111 1374 661.3 0 1374 112 1200 661.3 0 1200 113 1520 661.3 0 1520 114 1384 661.3 0 1384 115 1530 661.3 0 1530 116 1582 661.3 0 1582 117 2318 661.3 0 2318 118 14897 661.3 0 14897 119 29664 661.3 0 29664 120 56832 661.3 0 56832 121 2366 661.3 0 2366 122 2557 661.3 0 2557 123 4107 661.3 0 4107 124 1177 661.3 0 1177 125 907 661.3 0 907 126 1353 661.3 0 1353 127 1224 661.3 0 1224 128 1039 661.3 0 1039 129 1531 661.3 0 1531 130 1314 661.3 0 1314 131 1304 661.3 0 1304 132 2132 661.3 0 2132 133 1438 661.3 0 1438 134 1606 661.3 0 1606 135 1779 661.3 0 1779 136 1622 661.3 0 1622 137 1872 661.3 0 1872 138 1812 661.3 0 1812 139 3297 661.3 0 3297 140 19209 661.3 0 19209 141 9566 661.3 0 9566 142 10724 661.3 0 10724 143 2544 661.3 0 2544 144 2575 661.3 0 2575 145 14592 661.3 0 14592 146 23255 661.3 0 23255 147 46770 661.3 0 46770 148 5601 661.3 0 5601 149 6024 661.3 0 6024 150 1939 661.3 0 1939 151 1985 661.3 0 1985 152 1899 661.3 0 1899 153 2326 661.3 0 2326 154 1183 661.3 0 1183 155 1230 661.3 0 1230 156 1143 661.3 0 1143 157 1203 661.3 0 1203 158 1521 661.3 0 1521 159 1367 661.3 0 1367 160 1199 661.3 0 1199 161 1024 661.3 0 1024 162 975 661.3 0 975 163 1029 661.3 0 1029 164 1353 661.3 0 1353 165 3564 661.3 0 3564 166 5634 661.3 0 5634 167 7840 661.3 0 7840 168 1262 661.3 0 1262 169 1107 661.3 0 1107 170 976 661.3 0 976 171 958 661.3 0 958 172 1163 661.3 0 1163 173 1180 661.3 0 1180 174 1065 661.3 0 1065 175 1064 661.3 0 1064 176 1114 661.3 0 1114 177 814 661.3 0 814 178 1169 661.3 0 1169 179 906 661.3 0 906 180 849 661.3 0 849 181 1128 661.3 0 1128 182 890 661.3 0 890 183 1015 661.3 0 1015 184 1029 661.3 0 1029 185 1230 661.3 0 1230 186 1024 661.3 0 1024 187 901 661.3 0 901 188 1152 661.3 0 1152 189 1017 661.3 0 1017 190 938 661.3 0 938 191 905 661.3 0 905 192 1252 661.3 0 1252 193 1367 661.3 0 1367 194 1072 661.3 0 1072 195 1408 661.3 0 1408 196 1315 661.3 0 1315 197 921 661.3 0 921 198 1218 661.3 0 1218 199 809 661.3 0 809 200 1254 661.3 0 1254 201 1197 661.3 0 1197 202 671 661.3 0 671 203 905 661.3 0 905 204 913 661.3 0 913 205 970 661.3 0 970 206 1026 661.3 0 1026 207 801 661.3 0 801 208 884 661.3 0 884 209 973 661.3 0 973 210 915 661.3 0 915 211 789 661.3 0 789 212 741 661.3 0 741 213 704 661.3 0 704 214 746 661.3 0 746 215 720 661.3 0 720 216 1027 661.3 0 1027 217 1098 661.3 0 1098 218 1027 661.3 0 1027 219 1087 661.3 0 1087 220 810 661.3 0 810 221 841 661.3 0 841 222 675 661.3 0 675 223 588 661.3 0 588 224 622 661.3 0 622 225 640 661.3 0 640 226 658 661.3 0 658 227 615 661.3 0 615 228 624 661.3 0 624 229 698 661.3 0 698 230 689 661.3 0 689 231 698 661.3 0 698 232 679 661.3 0 679 233 762 661.3 0 762 234 675 661.3 0 675 235 668 661.3 0 668 236 711 661.3 0 711 237 871 661.3 0 871 238 825 661.3 0 825 239 790 661.3 0 790 240 838 661.3 0 838 241 769 661.3 0 769 242 595 661.3 0 595 243 542 661.3 0 542 244 674 661.3 0 674 245 565 661.3 0 565 246 667 661.3 0 667 247 1060 661.3 0 1060 248 854 661.3 0 854 249 638 661.3 0 638 250 842 661.3 0 842 251 549 661.3 0 549 252 452 661.3 0 452 253 573 661.3 0 573 254 493 661.3 0 493 255 487 661.3 0 487 256 471 661.3 0 471 257 573 661.3 0 573 258 495 661.3 0 495 259 579 661.3 0 579 260 762 661.3 0 762 261 727 661.3 0 727 262 587 661.3 0 587 263 625 661.3 0 625 264 558 661.3 0 558 265 481 661.3 0 481 266 567 661.3 0 567 267 491 661.3 0 491 268 607 661.3 0 607 269 667 661.3 0 667 270 712 661.3 0 712 271 681 661.3 0 681 272 485 661.3 0 485 273 650 661.3 0 650 274 628 661.3 0 628 275 522 661.3 0 522 276 545 661.3 0 545 277 491 661.3 0 491 278 494 661.3 0 494 279 662 661.3 0 662 280 382 661.3 0 382 281 498 661.3 0 498 282 518 661.3 0 518 283 346 661.3 0 346 284 525 661.3 0 525 285 459 661.3 0 459 286 509 661.3 0 509 287 583 661.3 0 583 288 734 661.3 0 734 289 866 661.3 0 866 290 804 661.3 0 804 291 835 661.3 0 835 292 840 661.3 0 840 293 790 661.3 0 790 294 917 661.3 0 917 295 1033 661.3 0 1033 296 915 661.3 0 915 297 1406 661.3 0 1406 298 1462 661.3 0 1462 299 851 661.3 0 851 300 659 661.3 0 659 301 1158 661.3 0 1158 Finished in 12.72 s (31 us/read; 1.95 M reads/minute). === Summary === Total reads processed: 413,330 Reads with adapters: 10,346 (2.5%) Reads that were too short: 143 (0.0%) Reads written (passing filters): 10,203 (2.5%) Total basepairs processed: 69,707,768 bp Total written (filtered): 2,713,567 bp (3.9%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 10346 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 5 0.0 3 0 0 5 16 62 0.0 3 0 60 1 1 17 9383 0.0 3 9258 122 2 1 18 33 0.0 3 4 24 3 2 19 10 0.0 3 0 0 6 4 20 8 0.0 3 0 0 0 8 22 1 0.0 3 0 0 0 1 23 12 0.0 3 0 0 0 12 24 2 0.0 3 0 0 0 2 25 1 0.0 3 0 0 0 1 26 219 0.0 3 0 0 0 219 27 4 0.0 3 0 0 0 4 28 1 0.0 3 0 0 0 1 29 26 0.0 3 0 0 0 26 32 1 0.0 3 0 0 0 1 36 1 0.0 3 0 0 0 1 37 3 0.0 3 0 0 0 3 39 1 0.0 3 0 0 0 1 42 2 0.0 3 0 0 0 2 44 1 0.0 3 0 0 0 1 45 1 0.0 3 0 0 0 1 46 2 0.0 3 0 0 0 2 47 1 0.0 3 0 0 0 1 49 3 0.0 3 0 0 0 3 50 6 0.0 3 0 0 0 6 51 1 0.0 3 0 0 0 1 52 4 0.0 3 0 0 0 4 53 36 0.0 3 0 0 0 36 54 2 0.0 3 0 0 0 2 56 3 0.0 3 0 0 0 3 57 2 0.0 3 0 0 0 2 58 1 0.0 3 0 0 0 1 61 1 0.0 3 0 0 0 1 62 1 0.0 3 0 0 0 1 68 97 0.0 3 0 0 0 97 69 1 0.0 3 0 0 0 1 70 1 0.0 3 0 0 0 1 72 2 0.0 3 0 0 0 2 73 17 0.0 3 0 0 0 17 74 182 0.0 3 0 0 0 182 75 1 0.0 3 0 0 0 1 76 4 0.0 3 0 0 0 4 77 25 0.0 3 0 0 0 25 78 1 0.0 3 0 0 0 1 82 1 0.0 3 0 0 0 1 86 1 0.0 3 0 0 0 1 89 1 0.0 3 0 0 0 1 90 1 0.0 3 0 0 0 1 92 1 0.0 3 0 0 0 1 93 1 0.0 3 0 0 0 1 94 2 0.0 3 0 0 0 2 95 1 0.0 3 0 0 0 1 97 1 0.0 3 0 0 0 1 106 1 0.0 3 0 0 0 1 107 8 0.0 3 0 0 0 8 108 6 0.0 3 0 0 0 6 110 10 0.0 3 0 0 0 10 113 3 0.0 3 0 0 0 3 114 2 0.0 3 0 0 0 2 117 2 0.0 3 0 0 0 2 119 1 0.0 3 0 0 0 1 125 3 0.0 3 0 0 1 2 126 1 0.0 3 0 0 0 1 128 7 0.0 3 0 0 1 6 129 4 0.0 3 0 0 0 4 132 1 0.0 3 0 0 0 1 133 2 0.0 3 0 0 0 2 135 5 0.0 3 0 0 0 5 138 39 0.0 3 0 0 0 39 139 1 0.0 3 0 0 0 1 140 8 0.0 3 0 0 0 8 141 29 0.0 3 0 0 0 29 142 3 0.0 3 0 0 1 2 143 1 0.0 3 0 0 0 1 147 3 0.0 3 0 0 0 3 148 1 0.0 3 0 0 0 1 152 1 0.0 3 0 0 0 1 153 2 0.0 3 0 0 0 2 159 1 0.0 3 0 0 0 1 162 2 0.0 3 0 0 0 2 163 1 0.0 3 0 0 0 1 165 1 0.0 3 0 0 0 1 173 1 0.0 3 0 0 0 1 174 3 0.0 3 0 0 0 3 180 1 0.0 3 0 0 0 1 182 1 0.0 3 0 0 0 1 186 1 0.0 3 0 0 0 1 197 1 0.0 3 0 0 0 1 205 1 0.0 3 0 0 0 1 208 1 0.0 3 0 0 0 1 209 3 0.0 3 0 0 0 3 222 1 0.0 3 0 0 0 1 231 1 0.0 3 0 0 0 1 246 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 0.35 s (34 us/read; 1.75 M reads/minute). === Summary === Total reads processed: 10,203 Reads with adapters: 717 (7.0%) Reads written (passing filters): 10,203 (100.0%) Total basepairs processed: 2,713,567 bp Total written (filtered): 2,711,411 bp (99.9%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 717 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 7.3% C: 51.2% G: 40.3% T: 1.3% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 713 159.4 0 713 4 3 39.9 0 3 5 1 10.0 0 1