This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g ATAATT -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 78.11 s (27 us/read; 2.25 M reads/minute). === Summary === Total reads processed: 2,926,947 Reads with adapters: 447,976 (15.3%) Reads that were too short: 245,235 (8.4%) Reads written (passing filters): 202,741 (6.9%) Total basepairs processed: 881,011,047 bp Total written (filtered): 40,120,151 bp (4.6%) === Adapter 1 === Sequence: ATAATT; Type: regular 5'; Length: 6; Trimmed: 447976 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 547 714.6 0 547 7 13859 714.6 0 13859 8 1146 714.6 0 1146 9 38878 714.6 0 38878 10 73 714.6 0 73 11 22 714.6 0 22 12 40 714.6 0 40 13 17 714.6 0 17 14 29 714.6 0 29 15 35 714.6 0 35 16 23 714.6 0 23 17 19 714.6 0 19 18 31 714.6 0 31 19 29 714.6 0 29 20 34 714.6 0 34 21 23 714.6 0 23 22 33 714.6 0 33 23 29 714.6 0 29 24 36 714.6 0 36 25 33 714.6 0 33 26 36 714.6 0 36 27 27 714.6 0 27 28 44 714.6 0 44 29 33 714.6 0 33 30 41 714.6 0 41 31 24 714.6 0 24 32 30 714.6 0 30 33 31 714.6 0 31 34 17 714.6 0 17 35 35 714.6 0 35 36 53 714.6 0 53 37 68 714.6 0 68 38 161 714.6 0 161 39 23 714.6 0 23 40 28 714.6 0 28 41 26 714.6 0 26 42 37 714.6 0 37 43 21 714.6 0 21 44 34 714.6 0 34 45 33 714.6 0 33 46 26 714.6 0 26 47 19 714.6 0 19 48 28 714.6 0 28 49 32 714.6 0 32 50 28 714.6 0 28 51 29 714.6 0 29 52 24 714.6 0 24 53 33 714.6 0 33 54 22 714.6 0 22 55 27 714.6 0 27 56 15 714.6 0 15 57 25 714.6 0 25 58 23 714.6 0 23 59 38 714.6 0 38 60 25 714.6 0 25 61 27 714.6 0 27 62 24 714.6 0 24 63 19 714.6 0 19 64 21 714.6 0 21 65 17 714.6 0 17 66 31 714.6 0 31 67 33 714.6 0 33 68 31 714.6 0 31 69 117 714.6 0 117 70 180 714.6 0 180 71 53 714.6 0 53 72 155 714.6 0 155 73 103 714.6 0 103 74 78 714.6 0 78 75 42 714.6 0 42 76 48 714.6 0 48 77 321 714.6 0 321 78 1179 714.6 0 1179 79 335 714.6 0 335 80 1185 714.6 0 1185 81 860 714.6 0 860 82 913 714.6 0 913 83 411 714.6 0 411 84 416 714.6 0 416 85 260 714.6 0 260 86 342 714.6 0 342 87 492 714.6 0 492 88 688 714.6 0 688 89 632 714.6 0 632 90 1168 714.6 0 1168 91 1092 714.6 0 1092 92 1424 714.6 0 1424 93 1680 714.6 0 1680 94 1336 714.6 0 1336 95 1064 714.6 0 1064 96 1075 714.6 0 1075 97 2301 714.6 0 2301 98 5215 714.6 0 5215 99 2134 714.6 0 2134 100 1055 714.6 0 1055 101 1245 714.6 0 1245 102 460 714.6 0 460 103 342 714.6 0 342 104 196 714.6 0 196 105 534 714.6 0 534 106 2379 714.6 0 2379 107 1703 714.6 0 1703 108 1137 714.6 0 1137 109 932 714.6 0 932 110 1430 714.6 0 1430 111 1357 714.6 0 1357 112 1116 714.6 0 1116 113 1087 714.6 0 1087 114 1077 714.6 0 1077 115 796 714.6 0 796 116 463 714.6 0 463 117 596 714.6 0 596 118 547 714.6 0 547 119 1759 714.6 0 1759 120 1799 714.6 0 1799 121 1195 714.6 0 1195 122 621 714.6 0 621 123 1709 714.6 0 1709 124 1199 714.6 0 1199 125 960 714.6 0 960 126 826 714.6 0 826 127 818 714.6 0 818 128 1315 714.6 0 1315 129 1489 714.6 0 1489 130 1065 714.6 0 1065 131 1076 714.6 0 1076 132 1400 714.6 0 1400 133 1032 714.6 0 1032 134 1160 714.6 0 1160 135 811 714.6 0 811 136 634 714.6 0 634 137 663 714.6 0 663 138 866 714.6 0 866 139 3580 714.6 0 3580 140 2673 714.6 0 2673 141 1551 714.6 0 1551 142 641 714.6 0 641 143 736 714.6 0 736 144 654 714.6 0 654 145 762 714.6 0 762 146 1007 714.6 0 1007 147 718 714.6 0 718 148 853 714.6 0 853 149 642 714.6 0 642 150 712 714.6 0 712 151 592 714.6 0 592 152 579 714.6 0 579 153 707 714.6 0 707 154 766 714.6 0 766 155 1016 714.6 0 1016 156 841 714.6 0 841 157 832 714.6 0 832 158 1106 714.6 0 1106 159 3914 714.6 0 3914 160 13146 714.6 0 13146 161 5497 714.6 0 5497 162 621 714.6 0 621 163 827 714.6 0 827 164 818 714.6 0 818 165 1156 714.6 0 1156 166 765 714.6 0 765 167 910 714.6 0 910 168 912 714.6 0 912 169 599 714.6 0 599 170 479 714.6 0 479 171 441 714.6 0 441 172 607 714.6 0 607 173 1060 714.6 0 1060 174 1603 714.6 0 1603 175 659 714.6 0 659 176 682 714.6 0 682 177 563 714.6 0 563 178 677 714.6 0 677 179 638 714.6 0 638 180 935 714.6 0 935 181 852 714.6 0 852 182 652 714.6 0 652 183 878 714.6 0 878 184 1019 714.6 0 1019 185 1207 714.6 0 1207 186 716 714.6 0 716 187 713 714.6 0 713 188 725 714.6 0 725 189 825 714.6 0 825 190 764 714.6 0 764 191 870 714.6 0 870 192 1017 714.6 0 1017 193 1105 714.6 0 1105 194 1306 714.6 0 1306 195 1373 714.6 0 1373 196 965 714.6 0 965 197 611 714.6 0 611 198 512 714.6 0 512 199 587 714.6 0 587 200 1626 714.6 0 1626 201 1458 714.6 0 1458 202 907 714.6 0 907 203 1244 714.6 0 1244 204 1381 714.6 0 1381 205 1185 714.6 0 1185 206 1865 714.6 0 1865 207 2514 714.6 0 2514 208 2141 714.6 0 2141 209 1733 714.6 0 1733 210 1485 714.6 0 1485 211 1686 714.6 0 1686 212 1301 714.6 0 1301 213 1388 714.6 0 1388 214 976 714.6 0 976 215 756 714.6 0 756 216 749 714.6 0 749 217 632 714.6 0 632 218 692 714.6 0 692 219 1230 714.6 0 1230 220 1361 714.6 0 1361 221 1730 714.6 0 1730 222 969 714.6 0 969 223 920 714.6 0 920 224 1251 714.6 0 1251 225 808 714.6 0 808 226 594 714.6 0 594 227 698 714.6 0 698 228 769 714.6 0 769 229 1127 714.6 0 1127 230 1120 714.6 0 1120 231 1064 714.6 0 1064 232 1209 714.6 0 1209 233 1703 714.6 0 1703 234 1561 714.6 0 1561 235 966 714.6 0 966 236 820 714.6 0 820 237 819 714.6 0 819 238 1006 714.6 0 1006 239 655 714.6 0 655 240 1141 714.6 0 1141 241 1267 714.6 0 1267 242 1525 714.6 0 1525 243 1354 714.6 0 1354 244 924 714.6 0 924 245 617 714.6 0 617 246 399 714.6 0 399 247 343 714.6 0 343 248 467 714.6 0 467 249 1126 714.6 0 1126 250 1676 714.6 0 1676 251 1591 714.6 0 1591 252 1584 714.6 0 1584 253 3257 714.6 0 3257 254 8926 714.6 0 8926 255 66253 714.6 0 66253 256 58280 714.6 0 58280 257 16861 714.6 0 16861 258 829 714.6 0 829 259 896 714.6 0 896 260 1384 714.6 0 1384 261 1331 714.6 0 1331 262 1081 714.6 0 1081 263 976 714.6 0 976 264 473 714.6 0 473 265 650 714.6 0 650 266 540 714.6 0 540 267 340 714.6 0 340 268 479 714.6 0 479 269 845 714.6 0 845 270 842 714.6 0 842 271 812 714.6 0 812 272 772 714.6 0 772 273 794 714.6 0 794 274 575 714.6 0 575 275 453 714.6 0 453 276 470 714.6 0 470 277 521 714.6 0 521 278 533 714.6 0 533 279 532 714.6 0 532 280 658 714.6 0 658 281 926 714.6 0 926 282 1327 714.6 0 1327 283 1143 714.6 0 1143 284 1173 714.6 0 1173 285 402 714.6 0 402 286 231 714.6 0 231 287 249 714.6 0 249 288 382 714.6 0 382 289 802 714.6 0 802 290 762 714.6 0 762 291 557 714.6 0 557 292 474 714.6 0 474 293 330 714.6 0 330 294 325 714.6 0 325 295 706 714.6 0 706 296 1056 714.6 0 1056 297 1399 714.6 0 1399 298 1137 714.6 0 1137 299 891 714.6 0 891 300 954 714.6 0 954 301 617 714.6 0 617 Finished in 8.14 s (40 us/read; 1.49 M reads/minute). === Summary === Total reads processed: 202,741 Reads with adapters: 14,026 (6.9%) Reads that were too short: 60 (0.0%) Reads written (passing filters): 13,966 (6.9%) Total basepairs processed: 40,120,151 bp Total written (filtered): 3,823,038 bp (9.5%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 14026 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 3 0.0 3 0 0 3 19 85 0.0 3 0 81 3 0 1 20 13806 0.0 4 13599 200 6 0 1 21 35 0.0 4 4 29 1 0 1 22 2 0.0 4 0 1 1 23 6 0.0 4 0 0 0 5 1 24 1 0.0 4 0 0 0 0 1 28 6 0.0 4 0 0 0 3 3 34 1 0.0 4 0 0 0 0 1 35 1 0.0 4 0 0 0 0 1 41 1 0.0 4 0 0 0 0 1 43 1 0.0 4 0 0 0 0 1 44 2 0.0 4 0 0 0 0 2 46 2 0.0 4 0 0 0 0 2 47 1 0.0 4 0 0 0 0 1 50 2 0.0 4 0 0 0 0 2 51 1 0.0 4 0 0 0 0 1 53 1 0.0 4 0 0 0 0 1 54 1 0.0 4 0 0 0 0 1 57 1 0.0 4 0 0 0 0 1 59 1 0.0 4 0 0 0 0 1 60 1 0.0 4 0 0 0 0 1 63 2 0.0 4 0 0 0 1 1 65 1 0.0 4 0 0 0 0 1 66 2 0.0 4 0 0 0 0 2 68 1 0.0 4 0 0 0 0 1 69 1 0.0 4 0 0 0 0 1 71 1 0.0 4 0 0 0 0 1 73 1 0.0 4 0 0 0 0 1 75 1 0.0 4 0 0 0 0 1 80 3 0.0 4 0 0 0 0 3 83 3 0.0 4 0 0 0 1 2 87 1 0.0 4 0 0 0 0 1 89 1 0.0 4 0 0 0 0 1 90 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 95 1 0.0 4 0 0 0 0 1 96 1 0.0 4 0 0 0 0 1 98 1 0.0 4 0 0 0 0 1 99 1 0.0 4 0 0 0 0 1 102 1 0.0 4 0 0 0 0 1 104 1 0.0 4 0 0 0 0 1 105 1 0.0 4 0 0 0 0 1 108 3 0.0 4 0 0 0 0 3 111 2 0.0 4 0 0 0 1 1 113 1 0.0 4 0 0 0 0 1 117 1 0.0 4 0 0 0 0 1 120 1 0.0 4 0 0 0 0 1 125 1 0.0 4 0 0 0 0 1 126 2 0.0 4 0 0 0 0 2 127 2 0.0 4 0 0 0 0 2 128 1 0.0 4 0 0 0 0 1 129 1 0.0 4 0 0 0 0 1 131 1 0.0 4 0 0 0 0 1 134 1 0.0 4 0 0 0 0 1 135 1 0.0 4 0 0 0 0 1 137 2 0.0 4 0 0 0 1 1 138 2 0.0 4 0 0 0 0 2 139 1 0.0 4 0 0 0 0 1 141 1 0.0 4 0 0 0 0 1 151 1 0.0 4 0 0 0 0 1 160 1 0.0 4 0 0 0 0 1 162 1 0.0 4 0 0 0 0 1 170 1 0.0 4 0 0 0 0 1 172 1 0.0 4 0 0 0 0 1 228 4 0.0 4 0 0 0 0 4 238 1 0.0 4 0 0 0 0 1 239 1 0.0 4 0 0 0 0 1 259 1 0.0 4 0 0 0 0 1 271 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 0.49 s (35 us/read; 1.71 M reads/minute). === Summary === Total reads processed: 13,966 Reads with adapters: 408 (2.9%) Reads written (passing filters): 13,966 (100.0%) Total basepairs processed: 3,823,038 bp Total written (filtered): 3,817,133 bp (99.8%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 408 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 2.5% C: 1.2% G: 94.9% T: 1.5% 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 3 218.2 0 3 4 1 54.6 0 1 11 392 0.0 1 1 391 12 5 0.0 1 0 5 152 3 0.0 1 0 3 261 2 0.0 1 2 271 2 0.0 1 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.