This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AAGACA -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 98.21 s (31 us/read; 1.95 M reads/minute). === Summary === Total reads processed: 3,193,041 Reads with adapters: 260,802 (8.2%) Reads that were too short: 113,376 (3.6%) Reads written (passing filters): 147,426 (4.6%) Total basepairs processed: 961,105,341 bp Total written (filtered): 24,599,050 bp (2.6%) === Adapter 1 === Sequence: AAGACA; Type: regular 5'; Length: 6; Trimmed: 260802 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 404 779.6 0 404 7 13795 779.6 0 13795 8 30 779.6 0 30 9 116 779.6 0 116 10 6 779.6 0 6 11 23 779.6 0 23 12 9 779.6 0 9 13 7 779.6 0 7 14 4 779.6 0 4 15 15 779.6 0 15 16 14 779.6 0 14 17 10 779.6 0 10 18 5 779.6 0 5 19 4 779.6 0 4 20 6 779.6 0 6 21 4 779.6 0 4 22 5 779.6 0 5 23 5 779.6 0 5 24 1 779.6 0 1 25 12 779.6 0 12 26 5 779.6 0 5 27 15 779.6 0 15 28 6 779.6 0 6 29 6 779.6 0 6 30 4 779.6 0 4 31 10 779.6 0 10 32 11 779.6 0 11 33 5 779.6 0 5 34 3 779.6 0 3 35 7 779.6 0 7 36 3 779.6 0 3 37 6 779.6 0 6 38 8 779.6 0 8 39 6 779.6 0 6 40 8 779.6 0 8 41 13 779.6 0 13 42 27 779.6 0 27 43 11 779.6 0 11 44 7 779.6 0 7 45 8 779.6 0 8 46 9 779.6 0 9 47 7 779.6 0 7 48 4 779.6 0 4 49 2 779.6 0 2 50 4 779.6 0 4 51 4 779.6 0 4 52 4 779.6 0 4 53 6 779.6 0 6 54 3 779.6 0 3 55 7 779.6 0 7 56 95 779.6 0 95 57 119 779.6 0 119 58 5 779.6 0 5 59 4 779.6 0 4 60 4 779.6 0 4 61 4 779.6 0 4 62 39 779.6 0 39 63 9 779.6 0 9 64 8 779.6 0 8 65 5 779.6 0 5 66 10 779.6 0 10 67 29 779.6 0 29 68 11 779.6 0 11 69 8 779.6 0 8 70 11 779.6 0 11 71 18 779.6 0 18 72 29 779.6 0 29 73 48 779.6 0 48 74 213 779.6 0 213 75 33 779.6 0 33 76 31 779.6 0 31 77 79 779.6 0 79 78 449 779.6 0 449 79 547 779.6 0 547 80 1412 779.6 0 1412 81 606 779.6 0 606 82 914 779.6 0 914 83 1574 779.6 0 1574 84 1064 779.6 0 1064 85 1179 779.6 0 1179 86 860 779.6 0 860 87 662 779.6 0 662 88 1695 779.6 0 1695 89 316 779.6 0 316 90 1535 779.6 0 1535 91 324 779.6 0 324 92 281 779.6 0 281 93 515 779.6 0 515 94 1325 779.6 0 1325 95 522 779.6 0 522 96 430 779.6 0 430 97 255 779.6 0 255 98 188 779.6 0 188 99 214 779.6 0 214 100 1694 779.6 0 1694 101 1352 779.6 0 1352 102 706 779.6 0 706 103 388 779.6 0 388 104 534 779.6 0 534 105 298 779.6 0 298 106 614 779.6 0 614 107 769 779.6 0 769 108 419 779.6 0 419 109 481 779.6 0 481 110 1051 779.6 0 1051 111 542 779.6 0 542 112 666 779.6 0 666 113 463 779.6 0 463 114 553 779.6 0 553 115 301 779.6 0 301 116 952 779.6 0 952 117 637 779.6 0 637 118 1295 779.6 0 1295 119 1456 779.6 0 1456 120 1443 779.6 0 1443 121 1012 779.6 0 1012 122 1055 779.6 0 1055 123 753 779.6 0 753 124 633 779.6 0 633 125 937 779.6 0 937 126 633 779.6 0 633 127 666 779.6 0 666 128 527 779.6 0 527 129 559 779.6 0 559 130 646 779.6 0 646 131 1580 779.6 0 1580 132 729 779.6 0 729 133 762 779.6 0 762 134 560 779.6 0 560 135 656 779.6 0 656 136 863 779.6 0 863 137 858 779.6 0 858 138 998 779.6 0 998 139 912 779.6 0 912 140 1047 779.6 0 1047 141 599 779.6 0 599 142 694 779.6 0 694 143 683 779.6 0 683 144 623 779.6 0 623 145 1287 779.6 0 1287 146 957 779.6 0 957 147 1428 779.6 0 1428 148 721 779.6 0 721 149 806 779.6 0 806 150 522 779.6 0 522 151 646 779.6 0 646 152 1133 779.6 0 1133 153 1415 779.6 0 1415 154 957 779.6 0 957 155 865 779.6 0 865 156 698 779.6 0 698 157 1161 779.6 0 1161 158 1096 779.6 0 1096 159 756 779.6 0 756 160 1008 779.6 0 1008 161 609 779.6 0 609 162 926 779.6 0 926 163 774 779.6 0 774 164 793 779.6 0 793 165 792 779.6 0 792 166 1499 779.6 0 1499 167 2041 779.6 0 2041 168 6740 779.6 0 6740 169 1010 779.6 0 1010 170 1217 779.6 0 1217 171 7913 779.6 0 7913 172 1145 779.6 0 1145 173 1089 779.6 0 1089 174 727 779.6 0 727 175 767 779.6 0 767 176 716 779.6 0 716 177 879 779.6 0 879 178 1007 779.6 0 1007 179 978 779.6 0 978 180 2111 779.6 0 2111 181 3814 779.6 0 3814 182 1810 779.6 0 1810 183 7379 779.6 0 7379 184 1413 779.6 0 1413 185 1550 779.6 0 1550 186 769 779.6 0 769 187 825 779.6 0 825 188 751 779.6 0 751 189 958 779.6 0 958 190 731 779.6 0 731 191 913 779.6 0 913 192 790 779.6 0 790 193 768 779.6 0 768 194 495 779.6 0 495 195 631 779.6 0 631 196 667 779.6 0 667 197 827 779.6 0 827 198 1372 779.6 0 1372 199 1466 779.6 0 1466 200 1359 779.6 0 1359 201 977 779.6 0 977 202 608 779.6 0 608 203 781 779.6 0 781 204 1098 779.6 0 1098 205 1205 779.6 0 1205 206 844 779.6 0 844 207 831 779.6 0 831 208 565 779.6 0 565 209 693 779.6 0 693 210 806 779.6 0 806 211 797 779.6 0 797 212 834 779.6 0 834 213 2453 779.6 0 2453 214 1789 779.6 0 1789 215 4502 779.6 0 4502 216 907 779.6 0 907 217 772 779.6 0 772 218 1255 779.6 0 1255 219 1170 779.6 0 1170 220 589 779.6 0 589 221 567 779.6 0 567 222 569 779.6 0 569 223 1124 779.6 0 1124 224 940 779.6 0 940 225 632 779.6 0 632 226 552 779.6 0 552 227 506 779.6 0 506 228 651 779.6 0 651 229 723 779.6 0 723 230 735 779.6 0 735 231 618 779.6 0 618 232 548 779.6 0 548 233 708 779.6 0 708 234 810 779.6 0 810 235 1032 779.6 0 1032 236 656 779.6 0 656 237 603 779.6 0 603 238 833 779.6 0 833 239 1014 779.6 0 1014 240 704 779.6 0 704 241 736 779.6 0 736 242 1133 779.6 0 1133 243 944 779.6 0 944 244 1487 779.6 0 1487 245 614 779.6 0 614 246 754 779.6 0 754 247 600 779.6 0 600 248 862 779.6 0 862 249 684 779.6 0 684 250 1039 779.6 0 1039 251 629 779.6 0 629 252 1180 779.6 0 1180 253 1056 779.6 0 1056 254 816 779.6 0 816 255 543 779.6 0 543 256 643 779.6 0 643 257 683 779.6 0 683 258 608 779.6 0 608 259 520 779.6 0 520 260 622 779.6 0 622 261 824 779.6 0 824 262 1061 779.6 0 1061 263 1285 779.6 0 1285 264 962 779.6 0 962 265 617 779.6 0 617 266 965 779.6 0 965 267 4320 779.6 0 4320 268 9271 779.6 0 9271 269 12313 779.6 0 12313 270 1199 779.6 0 1199 271 703 779.6 0 703 272 962 779.6 0 962 273 924 779.6 0 924 274 838 779.6 0 838 275 622 779.6 0 622 276 525 779.6 0 525 277 646 779.6 0 646 278 808 779.6 0 808 279 937 779.6 0 937 280 713 779.6 0 713 281 1937 779.6 0 1937 282 826 779.6 0 826 283 618 779.6 0 618 284 624 779.6 0 624 285 565 779.6 0 565 286 604 779.6 0 604 287 595 779.6 0 595 288 662 779.6 0 662 289 469 779.6 0 469 290 758 779.6 0 758 291 1088 779.6 0 1088 292 1239 779.6 0 1239 293 1015 779.6 0 1015 294 737 779.6 0 737 295 432 779.6 0 432 296 707 779.6 0 707 297 950 779.6 0 950 298 1220 779.6 0 1220 299 1333 779.6 0 1333 300 1401 779.6 0 1401 301 1924 779.6 0 1924 Finished in 5.96 s (40 us/read; 1.48 M reads/minute). === Summary === Total reads processed: 147,426 Reads with adapters: 14,219 (9.6%) Reads that were too short: 30 (0.0%) Reads written (passing filters): 14,189 (9.6%) Total basepairs processed: 24,599,050 bp Total written (filtered): 3,885,848 bp (15.8%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 14219 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 10 0.0 3 0 0 7 1 2 19 129 0.0 3 0 128 1 20 13978 0.0 4 13769 200 6 0 3 21 33 0.0 4 5 28 22 10 0.0 4 3 0 6 1 23 10 0.0 4 0 0 0 10 25 1 0.0 4 1 26 1 0.0 4 0 0 0 0 1 28 1 0.0 4 0 0 0 0 1 36 1 0.0 4 0 0 0 0 1 38 2 0.0 4 0 0 0 0 2 42 1 0.0 4 0 0 0 0 1 48 9 0.0 4 0 0 0 0 9 51 1 0.0 4 0 0 0 0 1 53 1 0.0 4 0 0 0 0 1 57 1 0.0 4 0 0 0 0 1 60 1 0.0 4 0 0 0 0 1 61 1 0.0 4 0 0 0 0 1 64 1 0.0 4 0 0 0 1 70 1 0.0 4 0 0 0 0 1 73 1 0.0 4 0 0 0 0 1 79 1 0.0 4 0 0 0 0 1 96 2 0.0 4 0 0 0 0 2 102 1 0.0 4 0 0 0 0 1 103 1 0.0 4 0 0 0 0 1 104 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 1 113 1 0.0 4 0 0 0 0 1 114 1 0.0 4 0 0 0 0 1 119 1 0.0 4 0 0 0 0 1 122 1 0.0 4 0 0 0 0 1 130 1 0.0 4 0 0 0 0 1 131 1 0.0 4 0 0 0 0 1 132 4 0.0 4 0 0 0 0 4 142 1 0.0 4 0 0 0 0 1 143 1 0.0 4 0 0 0 0 1 144 1 0.0 4 0 0 0 0 1 156 1 0.0 4 0 0 0 0 1 157 1 0.0 4 0 0 0 0 1 163 1 0.0 4 0 0 0 0 1 238 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 0.53 s (37 us/read; 1.61 M reads/minute). === Summary === Total reads processed: 14,189 Reads with adapters: 99 (0.7%) Reads written (passing filters): 14,189 (100.0%) Total basepairs processed: 3,885,848 bp Total written (filtered): 3,883,254 bp (99.9%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 99 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 9.1% C: 0.0% G: 89.9% T: 1.0% 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 2 221.7 0 2 4 1 55.4 0 1 11 86 0.0 1 0 86 12 2 0.0 1 1 1 124 1 0.0 1 1 210 6 0.0 1 4 2 230 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.