This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TGTATA -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 170.70 s (32 us/read; 1.87 M reads/minute). === Summary === Total reads processed: 5,333,634 Reads with adapters: 249,186 (4.7%) Reads that were too short: 105,288 (2.0%) Reads written (passing filters): 143,898 (2.7%) Total basepairs processed: 1,605,423,834 bp Total written (filtered): 30,498,593 bp (1.9%) === Adapter 1 === Sequence: TGTATA; Type: regular 5'; Length: 6; Trimmed: 249186 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1100 1302.2 0 1100 7 27458 1302.2 0 27458 8 311 1302.2 0 311 9 18914 1302.2 0 18914 10 24 1302.2 0 24 11 11 1302.2 0 11 12 4 1302.2 0 4 13 8 1302.2 0 8 14 2 1302.2 0 2 15 1 1302.2 0 1 16 1 1302.2 0 1 17 13 1302.2 0 13 18 12 1302.2 0 12 19 21 1302.2 0 21 20 19 1302.2 0 19 21 107 1302.2 0 107 22 16 1302.2 0 16 23 48 1302.2 0 48 24 9 1302.2 0 9 25 159 1302.2 0 159 26 17 1302.2 0 17 27 4 1302.2 0 4 28 10 1302.2 0 10 29 3 1302.2 0 3 30 9 1302.2 0 9 31 11 1302.2 0 11 32 148 1302.2 0 148 33 69 1302.2 0 69 34 10767 1302.2 0 10767 35 524 1302.2 0 524 36 195 1302.2 0 195 37 19 1302.2 0 19 38 33 1302.2 0 33 39 8 1302.2 0 8 40 8 1302.2 0 8 41 6 1302.2 0 6 42 9 1302.2 0 9 43 6 1302.2 0 6 44 16 1302.2 0 16 45 5 1302.2 0 5 46 10 1302.2 0 10 47 3 1302.2 0 3 48 4 1302.2 0 4 49 13 1302.2 0 13 50 6 1302.2 0 6 51 4 1302.2 0 4 52 3 1302.2 0 3 53 231 1302.2 0 231 54 4 1302.2 0 4 55 5 1302.2 0 5 56 7 1302.2 0 7 57 14 1302.2 0 14 58 12 1302.2 0 12 59 28 1302.2 0 28 60 20 1302.2 0 20 61 11 1302.2 0 11 62 9 1302.2 0 9 63 3 1302.2 0 3 64 3 1302.2 0 3 65 6 1302.2 0 6 66 5 1302.2 0 5 67 6 1302.2 0 6 68 65 1302.2 0 65 69 79 1302.2 0 79 70 15 1302.2 0 15 71 3 1302.2 0 3 72 9 1302.2 0 9 73 6 1302.2 0 6 74 124 1302.2 0 124 75 46 1302.2 0 46 76 14 1302.2 0 14 77 86 1302.2 0 86 78 246 1302.2 0 246 79 450 1302.2 0 450 80 361 1302.2 0 361 81 336 1302.2 0 336 82 551 1302.2 0 551 83 489 1302.2 0 489 84 299 1302.2 0 299 85 631 1302.2 0 631 86 522 1302.2 0 522 87 813 1302.2 0 813 88 473 1302.2 0 473 89 146 1302.2 0 146 90 326 1302.2 0 326 91 210 1302.2 0 210 92 110 1302.2 0 110 93 314 1302.2 0 314 94 446 1302.2 0 446 95 1149 1302.2 0 1149 96 1748 1302.2 0 1748 97 1564 1302.2 0 1564 98 1075 1302.2 0 1075 99 1036 1302.2 0 1036 100 710 1302.2 0 710 101 1525 1302.2 0 1525 102 460 1302.2 0 460 103 174 1302.2 0 174 104 183 1302.2 0 183 105 165 1302.2 0 165 106 84 1302.2 0 84 107 198 1302.2 0 198 108 231 1302.2 0 231 109 135 1302.2 0 135 110 103 1302.2 0 103 111 664 1302.2 0 664 112 1154 1302.2 0 1154 113 1879 1302.2 0 1879 114 982 1302.2 0 982 115 558 1302.2 0 558 116 448 1302.2 0 448 117 340 1302.2 0 340 118 268 1302.2 0 268 119 345 1302.2 0 345 120 432 1302.2 0 432 121 370 1302.2 0 370 122 263 1302.2 0 263 123 296 1302.2 0 296 124 220 1302.2 0 220 125 410 1302.2 0 410 126 419 1302.2 0 419 127 551 1302.2 0 551 128 496 1302.2 0 496 129 1218 1302.2 0 1218 130 1087 1302.2 0 1087 131 1856 1302.2 0 1856 132 782 1302.2 0 782 133 1102 1302.2 0 1102 134 906 1302.2 0 906 135 602 1302.2 0 602 136 576 1302.2 0 576 137 487 1302.2 0 487 138 637 1302.2 0 637 139 654 1302.2 0 654 140 745 1302.2 0 745 141 528 1302.2 0 528 142 744 1302.2 0 744 143 906 1302.2 0 906 144 1425 1302.2 0 1425 145 765 1302.2 0 765 146 701 1302.2 0 701 147 1142 1302.2 0 1142 148 869 1302.2 0 869 149 811 1302.2 0 811 150 611 1302.2 0 611 151 448 1302.2 0 448 152 314 1302.2 0 314 153 303 1302.2 0 303 154 344 1302.2 0 344 155 471 1302.2 0 471 156 505 1302.2 0 505 157 533 1302.2 0 533 158 750 1302.2 0 750 159 791 1302.2 0 791 160 812 1302.2 0 812 161 634 1302.2 0 634 162 618 1302.2 0 618 163 535 1302.2 0 535 164 683 1302.2 0 683 165 737 1302.2 0 737 166 719 1302.2 0 719 167 768 1302.2 0 768 168 1003 1302.2 0 1003 169 1067 1302.2 0 1067 170 557 1302.2 0 557 171 737 1302.2 0 737 172 423 1302.2 0 423 173 394 1302.2 0 394 174 320 1302.2 0 320 175 1035 1302.2 0 1035 176 727 1302.2 0 727 177 587 1302.2 0 587 178 353 1302.2 0 353 179 275 1302.2 0 275 180 369 1302.2 0 369 181 706 1302.2 0 706 182 873 1302.2 0 873 183 853 1302.2 0 853 184 808 1302.2 0 808 185 1179 1302.2 0 1179 186 1140 1302.2 0 1140 187 1087 1302.2 0 1087 188 846 1302.2 0 846 189 428 1302.2 0 428 190 470 1302.2 0 470 191 324 1302.2 0 324 192 677 1302.2 0 677 193 1697 1302.2 0 1697 194 1268 1302.2 0 1268 195 1785 1302.2 0 1785 196 703 1302.2 0 703 197 442 1302.2 0 442 198 373 1302.2 0 373 199 902 1302.2 0 902 200 1117 1302.2 0 1117 201 937 1302.2 0 937 202 298 1302.2 0 298 203 264 1302.2 0 264 204 592 1302.2 0 592 205 1265 1302.2 0 1265 206 1438 1302.2 0 1438 207 1513 1302.2 0 1513 208 975 1302.2 0 975 209 632 1302.2 0 632 210 489 1302.2 0 489 211 640 1302.2 0 640 212 987 1302.2 0 987 213 1309 1302.2 0 1309 214 1106 1302.2 0 1106 215 1094 1302.2 0 1094 216 1002 1302.2 0 1002 217 916 1302.2 0 916 218 1127 1302.2 0 1127 219 1548 1302.2 0 1548 220 1438 1302.2 0 1438 221 1127 1302.2 0 1127 222 548 1302.2 0 548 223 416 1302.2 0 416 224 760 1302.2 0 760 225 979 1302.2 0 979 226 1049 1302.2 0 1049 227 1223 1302.2 0 1223 228 1261 1302.2 0 1261 229 1775 1302.2 0 1775 230 1485 1302.2 0 1485 231 1110 1302.2 0 1110 232 919 1302.2 0 919 233 549 1302.2 0 549 234 573 1302.2 0 573 235 942 1302.2 0 942 236 1634 1302.2 0 1634 237 1503 1302.2 0 1503 238 1136 1302.2 0 1136 239 1262 1302.2 0 1262 240 1073 1302.2 0 1073 241 814 1302.2 0 814 242 519 1302.2 0 519 243 510 1302.2 0 510 244 636 1302.2 0 636 245 1054 1302.2 0 1054 246 1440 1302.2 0 1440 247 1566 1302.2 0 1566 248 1845 1302.2 0 1845 249 990 1302.2 0 990 250 616 1302.2 0 616 251 296 1302.2 0 296 252 250 1302.2 0 250 253 323 1302.2 0 323 254 715 1302.2 0 715 255 863 1302.2 0 863 256 933 1302.2 0 933 257 1202 1302.2 0 1202 258 1730 1302.2 0 1730 259 1507 1302.2 0 1507 260 949 1302.2 0 949 261 572 1302.2 0 572 262 463 1302.2 0 463 263 506 1302.2 0 506 264 376 1302.2 0 376 265 501 1302.2 0 501 266 1016 1302.2 0 1016 267 1848 1302.2 0 1848 268 2210 1302.2 0 2210 269 2509 1302.2 0 2509 270 1506 1302.2 0 1506 271 645 1302.2 0 645 272 662 1302.2 0 662 273 855 1302.2 0 855 274 1324 1302.2 0 1324 275 1457 1302.2 0 1457 276 985 1302.2 0 985 277 646 1302.2 0 646 278 475 1302.2 0 475 279 826 1302.2 0 826 280 1452 1302.2 0 1452 281 1767 1302.2 0 1767 282 1524 1302.2 0 1524 283 888 1302.2 0 888 284 921 1302.2 0 921 285 532 1302.2 0 532 286 813 1302.2 0 813 287 1050 1302.2 0 1050 288 1504 1302.2 0 1504 289 912 1302.2 0 912 290 1190 1302.2 0 1190 291 820 1302.2 0 820 292 1147 1302.2 0 1147 293 1302 1302.2 0 1302 294 2116 1302.2 0 2116 295 1872 1302.2 0 1872 296 1173 1302.2 0 1173 297 674 1302.2 0 674 298 1180 1302.2 0 1180 299 1185 1302.2 0 1185 300 1939 1302.2 0 1939 301 1230 1302.2 0 1230 Finished in 7.14 s (50 us/read; 1.21 M reads/minute). === Summary === Total reads processed: 143,898 Reads with adapters: 28,327 (19.7%) Reads that were too short: 65 (0.0%) Reads written (passing filters): 28,262 (19.6%) Total basepairs processed: 30,498,593 bp Total written (filtered): 7,739,270 bp (25.4%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 28327 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 18 7 0.0 3 0 0 3 3 1 19 181 0.0 3 0 162 9 7 3 20 27953 0.0 4 27102 685 112 41 13 21 54 0.0 4 9 44 0 0 1 22 3 0.0 4 1 0 2 23 19 0.0 4 0 0 0 11 8 24 3 0.0 4 0 0 0 0 3 25 1 0.0 4 0 1 27 2 0.0 4 0 0 0 0 2 28 1 0.0 4 0 0 0 0 1 29 1 0.0 4 0 0 0 0 1 31 8 0.0 4 1 0 0 0 7 32 1 0.0 4 0 0 0 0 1 33 1 0.0 4 0 0 0 0 1 34 1 0.0 4 0 0 0 0 1 35 3 0.0 4 0 0 0 0 3 39 3 0.0 4 0 0 0 0 3 43 1 0.0 4 0 0 0 0 1 46 4 0.0 4 0 0 0 1 3 47 1 0.0 4 0 0 0 0 1 48 2 0.0 4 0 0 0 0 2 49 1 0.0 4 0 0 0 0 1 50 1 0.0 4 0 0 0 0 1 54 1 0.0 4 0 0 0 0 1 55 1 0.0 4 0 0 0 0 1 57 2 0.0 4 0 0 0 0 2 59 2 0.0 4 0 0 0 0 2 60 1 0.0 4 0 0 0 0 1 63 1 0.0 4 0 0 0 0 1 64 1 0.0 4 0 0 0 0 1 65 1 0.0 4 0 0 0 0 1 68 1 0.0 4 0 0 0 0 1 69 1 0.0 4 0 0 0 0 1 72 1 0.0 4 0 0 0 0 1 79 1 0.0 4 0 0 0 0 1 83 1 0.0 4 0 0 0 0 1 85 1 0.0 4 0 0 0 0 1 86 2 0.0 4 0 0 0 1 1 87 1 0.0 4 0 0 0 0 1 92 2 0.0 4 0 0 0 0 2 94 2 0.0 4 0 0 0 0 2 97 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 1 101 1 0.0 4 0 0 0 0 1 105 1 0.0 4 0 0 0 0 1 106 1 0.0 4 0 0 0 0 1 109 2 0.0 4 0 0 0 0 2 111 1 0.0 4 0 0 0 0 1 114 2 0.0 4 0 0 0 0 2 123 2 0.0 4 0 0 0 1 1 124 1 0.0 4 0 0 0 0 1 125 1 0.0 4 0 0 0 0 1 126 1 0.0 4 0 0 0 0 1 128 1 0.0 4 0 0 0 0 1 129 2 0.0 4 0 0 0 0 2 131 1 0.0 4 0 0 0 0 1 134 4 0.0 4 0 0 0 0 4 139 3 0.0 4 0 0 0 0 3 144 1 0.0 4 0 0 0 0 1 146 2 0.0 4 0 0 0 0 2 158 1 0.0 4 0 0 0 0 1 170 2 0.0 4 0 0 0 0 2 178 1 0.0 4 0 0 0 0 1 182 1 0.0 4 0 0 0 0 1 184 1 0.0 4 0 0 0 0 1 186 1 0.0 4 0 0 0 0 1 189 1 0.0 4 0 0 0 0 1 201 1 0.0 4 0 0 0 0 1 204 1 0.0 4 0 0 0 0 1 207 1 0.0 4 0 0 0 0 1 221 1 0.0 4 0 0 0 0 1 228 6 0.0 4 0 0 0 0 6 242 1 0.0 4 0 0 0 1 282 1 0.0 4 0 0 0 0 1 285 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 1.18 s (42 us/read; 1.44 M reads/minute). === Summary === Total reads processed: 28,262 Reads with adapters: 224 (0.8%) Reads written (passing filters): 28,262 (100.0%) Total basepairs processed: 7,739,270 bp Total written (filtered): 7,735,838 bp (100.0%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 224 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 6.7% C: 6.2% G: 82.1% T: 4.9% 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 6 441.6 0 6 4 3 110.4 0 3 5 2 27.6 0 2 9 1 0.1 0 0 1 10 1 0.0 1 0 1 11 159 0.0 1 0 159 12 44 0.0 1 1 43 15 2 0.0 1 0 2 16 1 0.0 1 0 1 210 5 0.0 1 5 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.