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 ... 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 93.79 s (30 us/read; 1.98 M reads/minute). === Summary === Total reads processed: 3,094,653 Reads with adapters: 482,352 (15.6%) Reads that were too short: 86,006 (2.8%) Reads written (passing filters): 396,346 (12.8%) Total basepairs processed: 931,490,553 bp Total written (filtered): 64,588,064 bp (6.9%) === Adapter 1 === Sequence: AGAAGA; Type: regular 5'; Length: 6; Trimmed: 482352 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 195 755.5 0 195 7 119 755.5 0 119 8 2657 755.5 0 2657 9 135 755.5 0 135 10 260 755.5 0 260 11 49 755.5 0 49 12 47 755.5 0 47 13 128 755.5 0 128 14 34 755.5 0 34 15 39 755.5 0 39 16 53 755.5 0 53 17 51 755.5 0 51 18 494 755.5 0 494 19 366 755.5 0 366 20 442 755.5 0 442 21 24 755.5 0 24 22 24 755.5 0 24 23 40 755.5 0 40 24 50 755.5 0 50 25 56 755.5 0 56 26 28 755.5 0 28 27 69 755.5 0 69 28 132 755.5 0 132 29 47 755.5 0 47 30 86 755.5 0 86 31 22 755.5 0 22 32 17 755.5 0 17 33 21 755.5 0 21 34 20 755.5 0 20 35 22 755.5 0 22 36 22 755.5 0 22 37 22 755.5 0 22 38 39 755.5 0 39 39 21 755.5 0 21 40 30 755.5 0 30 41 40 755.5 0 40 42 27 755.5 0 27 43 28 755.5 0 28 44 26 755.5 0 26 45 24 755.5 0 24 46 21 755.5 0 21 47 24 755.5 0 24 48 29 755.5 0 29 49 27 755.5 0 27 50 18 755.5 0 18 51 26 755.5 0 26 52 28 755.5 0 28 53 79 755.5 0 79 54 35 755.5 0 35 55 34 755.5 0 34 56 41 755.5 0 41 57 105 755.5 0 105 58 27 755.5 0 27 59 123 755.5 0 123 60 28 755.5 0 28 61 110 755.5 0 110 62 29 755.5 0 29 63 35 755.5 0 35 64 40 755.5 0 40 65 91 755.5 0 91 66 29 755.5 0 29 67 36 755.5 0 36 68 160 755.5 0 160 69 72 755.5 0 72 70 43 755.5 0 43 71 24 755.5 0 24 72 39 755.5 0 39 73 33 755.5 0 33 74 25 755.5 0 25 75 49 755.5 0 49 76 48 755.5 0 48 77 51 755.5 0 51 78 206 755.5 0 206 79 483 755.5 0 483 80 606 755.5 0 606 81 1449 755.5 0 1449 82 739 755.5 0 739 83 1727 755.5 0 1727 84 2032 755.5 0 2032 85 4475 755.5 0 4475 86 5919 755.5 0 5919 87 175 755.5 0 175 88 1341 755.5 0 1341 89 127 755.5 0 127 90 102 755.5 0 102 91 536 755.5 0 536 92 408 755.5 0 408 93 284 755.5 0 284 94 359 755.5 0 359 95 890 755.5 0 890 96 317 755.5 0 317 97 339 755.5 0 339 98 1425 755.5 0 1425 99 442 755.5 0 442 100 281 755.5 0 281 101 1020 755.5 0 1020 102 786 755.5 0 786 103 322 755.5 0 322 104 731 755.5 0 731 105 907 755.5 0 907 106 194 755.5 0 194 107 460 755.5 0 460 108 929 755.5 0 929 109 301 755.5 0 301 110 418 755.5 0 418 111 692 755.5 0 692 112 546 755.5 0 546 113 616 755.5 0 616 114 1173 755.5 0 1173 115 737 755.5 0 737 116 1086 755.5 0 1086 117 2790 755.5 0 2790 118 7999 755.5 0 7999 119 11542 755.5 0 11542 120 22492 755.5 0 22492 121 1910 755.5 0 1910 122 2065 755.5 0 2065 123 2751 755.5 0 2751 124 835 755.5 0 835 125 866 755.5 0 866 126 1210 755.5 0 1210 127 750 755.5 0 750 128 977 755.5 0 977 129 1434 755.5 0 1434 130 875 755.5 0 875 131 994 755.5 0 994 132 1901 755.5 0 1901 133 1213 755.5 0 1213 134 1395 755.5 0 1395 135 1509 755.5 0 1509 136 1686 755.5 0 1686 137 1775 755.5 0 1775 138 2371 755.5 0 2371 139 15407 755.5 0 15407 140 11398 755.5 0 11398 141 43294 755.5 0 43294 142 5985 755.5 0 5985 143 2237 755.5 0 2237 144 2116 755.5 0 2116 145 12796 755.5 0 12796 146 18556 755.5 0 18556 147 96437 755.5 0 96437 148 13913 755.5 0 13913 149 1998 755.5 0 1998 150 1594 755.5 0 1594 151 1693 755.5 0 1693 152 1128 755.5 0 1128 153 855 755.5 0 855 154 891 755.5 0 891 155 1732 755.5 0 1732 156 902 755.5 0 902 157 708 755.5 0 708 158 1334 755.5 0 1334 159 898 755.5 0 898 160 1005 755.5 0 1005 161 784 755.5 0 784 162 751 755.5 0 751 163 921 755.5 0 921 164 997 755.5 0 997 165 2442 755.5 0 2442 166 4000 755.5 0 4000 167 4219 755.5 0 4219 168 1080 755.5 0 1080 169 1230 755.5 0 1230 170 554 755.5 0 554 171 1153 755.5 0 1153 172 1086 755.5 0 1086 173 607 755.5 0 607 174 959 755.5 0 959 175 847 755.5 0 847 176 924 755.5 0 924 177 658 755.5 0 658 178 923 755.5 0 923 179 624 755.5 0 624 180 772 755.5 0 772 181 965 755.5 0 965 182 787 755.5 0 787 183 970 755.5 0 970 184 919 755.5 0 919 185 1039 755.5 0 1039 186 866 755.5 0 866 187 859 755.5 0 859 188 821 755.5 0 821 189 795 755.5 0 795 190 798 755.5 0 798 191 706 755.5 0 706 192 895 755.5 0 895 193 1320 755.5 0 1320 194 1114 755.5 0 1114 195 1017 755.5 0 1017 196 1266 755.5 0 1266 197 830 755.5 0 830 198 860 755.5 0 860 199 812 755.5 0 812 200 903 755.5 0 903 201 911 755.5 0 911 202 761 755.5 0 761 203 580 755.5 0 580 204 786 755.5 0 786 205 988 755.5 0 988 206 684 755.5 0 684 207 759 755.5 0 759 208 756 755.5 0 756 209 666 755.5 0 666 210 920 755.5 0 920 211 707 755.5 0 707 212 836 755.5 0 836 213 882 755.5 0 882 214 664 755.5 0 664 215 739 755.5 0 739 216 871 755.5 0 871 217 974 755.5 0 974 218 968 755.5 0 968 219 1133 755.5 0 1133 220 609 755.5 0 609 221 887 755.5 0 887 222 594 755.5 0 594 223 419 755.5 0 419 224 567 755.5 0 567 225 583 755.5 0 583 226 587 755.5 0 587 227 536 755.5 0 536 228 492 755.5 0 492 229 689 755.5 0 689 230 628 755.5 0 628 231 598 755.5 0 598 232 745 755.5 0 745 233 845 755.5 0 845 234 579 755.5 0 579 235 619 755.5 0 619 236 849 755.5 0 849 237 873 755.5 0 873 238 805 755.5 0 805 239 885 755.5 0 885 240 822 755.5 0 822 241 688 755.5 0 688 242 671 755.5 0 671 243 463 755.5 0 463 244 578 755.5 0 578 245 546 755.5 0 546 246 2762 755.5 0 2762 247 1947 755.5 0 1947 248 5321 755.5 0 5321 249 582 755.5 0 582 250 633 755.5 0 633 251 562 755.5 0 562 252 336 755.5 0 336 253 446 755.5 0 446 254 339 755.5 0 339 255 368 755.5 0 368 256 406 755.5 0 406 257 421 755.5 0 421 258 549 755.5 0 549 259 557 755.5 0 557 260 569 755.5 0 569 261 666 755.5 0 666 262 533 755.5 0 533 263 488 755.5 0 488 264 499 755.5 0 499 265 415 755.5 0 415 266 545 755.5 0 545 267 433 755.5 0 433 268 544 755.5 0 544 269 646 755.5 0 646 270 659 755.5 0 659 271 703 755.5 0 703 272 646 755.5 0 646 273 618 755.5 0 618 274 579 755.5 0 579 275 497 755.5 0 497 276 518 755.5 0 518 277 475 755.5 0 475 278 401 755.5 0 401 279 564 755.5 0 564 280 406 755.5 0 406 281 519 755.5 0 519 282 473 755.5 0 473 283 386 755.5 0 386 284 533 755.5 0 533 285 476 755.5 0 476 286 504 755.5 0 504 287 634 755.5 0 634 288 863 755.5 0 863 289 855 755.5 0 855 290 1065 755.5 0 1065 291 1221 755.5 0 1221 292 956 755.5 0 956 293 765 755.5 0 765 294 1154 755.5 0 1154 295 1141 755.5 0 1141 296 956 755.5 0 956 297 1244 755.5 0 1244 298 1734 755.5 0 1734 299 1150 755.5 0 1150 300 1152 755.5 0 1152 301 9761 755.5 0 9761 Finished in 16.07 s (41 us/read; 1.48 M reads/minute). === Summary === Total reads processed: 396,346 Reads with adapters: 3,156 (0.8%) Reads that were too short: 41 (0.0%) Reads written (passing filters): 3,115 (0.8%) Total basepairs processed: 64,588,064 bp Total written (filtered): 810,301 bp (1.3%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 3156 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 17 3 0.0 3 0 0 0 0 3 18 2 0.0 3 0 0 1 0 1 19 31 0.0 3 0 28 1 0 2 20 2572 0.0 4 2522 48 0 1 1 21 10 0.0 4 3 5 2 22 5 0.0 4 0 1 1 3 23 167 0.0 4 164 2 0 1 24 1 0.0 4 0 0 0 0 1 29 1 0.0 4 1 30 1 0.0 4 1 37 1 0.0 4 0 0 0 0 1 38 1 0.0 4 0 0 0 0 1 40 136 0.0 4 0 0 0 1 135 41 19 0.0 4 0 0 0 0 19 42 12 0.0 4 0 0 0 0 12 50 124 0.0 4 0 0 0 0 124 53 2 0.0 4 0 0 0 0 2 58 5 0.0 4 0 0 0 0 5 63 1 0.0 4 0 0 0 0 1 67 1 0.0 4 0 0 0 0 1 72 1 0.0 4 0 0 0 0 1 74 2 0.0 4 0 0 0 0 2 75 2 0.0 4 0 0 0 0 2 76 13 0.0 4 0 0 0 0 13 78 1 0.0 4 0 0 0 0 1 79 2 0.0 4 0 0 0 0 2 82 1 0.0 4 0 0 0 0 1 83 2 0.0 4 0 0 0 0 2 97 2 0.0 4 0 0 0 0 2 101 2 0.0 4 0 0 0 0 2 107 2 0.0 4 0 0 0 1 1 108 2 0.0 4 0 0 0 0 2 109 2 0.0 4 0 0 0 0 2 114 1 0.0 4 0 0 0 0 1 116 1 0.0 4 0 0 0 0 1 118 1 0.0 4 0 0 0 0 1 120 1 0.0 4 0 0 0 1 121 1 0.0 4 0 0 0 0 1 124 3 0.0 4 0 0 0 0 3 126 7 0.0 4 0 0 0 0 7 129 1 0.0 4 0 0 0 0 1 133 1 0.0 4 0 0 0 0 1 142 1 0.0 4 0 0 0 0 1 146 1 0.0 4 0 0 0 0 1 152 1 0.0 4 0 0 0 0 1 157 2 0.0 4 0 0 0 0 2 158 1 0.0 4 0 0 0 1 169 1 0.0 4 0 0 0 0 1 172 1 0.0 4 0 0 0 0 1 177 1 0.0 4 0 0 0 0 1 209 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 0.13 s (42 us/read; 1.44 M reads/minute). === Summary === Total reads processed: 3,115 Reads with adapters: 152 (4.9%) Reads written (passing filters): 3,115 (100.0%) Total basepairs processed: 810,301 bp Total written (filtered): 793,283 bp (97.9%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 152 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 2.0% C: 38.8% G: 56.6% T: 2.6% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 2 48.7 0 2 4 1 12.2 0 1 10 4 0.0 1 1 3 11 84 0.0 1 0 84 256 1 0.0 1 1 263 56 0.0 1 51 5 264 3 0.0 1 3 268 1 0.0 1 1