This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AGCACT -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 174.01 s (33 us/read; 1.84 M reads/minute). === Summary === Total reads processed: 5,333,634 Reads with adapters: 296,145 (5.6%) Reads that were too short: 113,185 (2.1%) Reads written (passing filters): 182,960 (3.4%) Total basepairs processed: 1,605,423,834 bp Total written (filtered): 30,825,846 bp (1.9%) === Adapter 1 === Sequence: AGCACT; Type: regular 5'; Length: 6; Trimmed: 296145 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 62 1302.2 0 62 7 3429 1302.2 0 3429 8 274 1302.2 0 274 9 18 1302.2 0 18 10 7 1302.2 0 7 11 22 1302.2 0 22 12 92 1302.2 0 92 13 24 1302.2 0 24 14 175 1302.2 0 175 15 10 1302.2 0 10 16 9 1302.2 0 9 17 18 1302.2 0 18 18 6 1302.2 0 6 19 7 1302.2 0 7 20 11 1302.2 0 11 21 9 1302.2 0 9 22 11 1302.2 0 11 23 11 1302.2 0 11 24 18 1302.2 0 18 25 23 1302.2 0 23 26 65 1302.2 0 65 27 55 1302.2 0 55 28 10 1302.2 0 10 29 15 1302.2 0 15 30 12 1302.2 0 12 31 12 1302.2 0 12 32 21 1302.2 0 21 33 13 1302.2 0 13 34 13 1302.2 0 13 35 18 1302.2 0 18 36 10 1302.2 0 10 37 71 1302.2 0 71 38 11 1302.2 0 11 39 36 1302.2 0 36 40 22 1302.2 0 22 41 10 1302.2 0 10 42 15 1302.2 0 15 43 26 1302.2 0 26 44 15 1302.2 0 15 45 7 1302.2 0 7 46 11 1302.2 0 11 47 13 1302.2 0 13 48 14 1302.2 0 14 49 19 1302.2 0 19 50 13 1302.2 0 13 51 6 1302.2 0 6 52 18 1302.2 0 18 53 19 1302.2 0 19 54 23 1302.2 0 23 55 36 1302.2 0 36 56 344 1302.2 0 344 57 23 1302.2 0 23 58 21 1302.2 0 21 59 13 1302.2 0 13 60 12 1302.2 0 12 61 20 1302.2 0 20 62 18 1302.2 0 18 63 20 1302.2 0 20 64 11 1302.2 0 11 65 96 1302.2 0 96 66 41 1302.2 0 41 67 37 1302.2 0 37 68 19 1302.2 0 19 69 14 1302.2 0 14 70 12 1302.2 0 12 71 10 1302.2 0 10 72 28 1302.2 0 28 73 69 1302.2 0 69 74 127 1302.2 0 127 75 160 1302.2 0 160 76 28 1302.2 0 28 77 267 1302.2 0 267 78 250 1302.2 0 250 79 371 1302.2 0 371 80 327 1302.2 0 327 81 849 1302.2 0 849 82 188 1302.2 0 188 83 386 1302.2 0 386 84 536 1302.2 0 536 85 163 1302.2 0 163 86 491 1302.2 0 491 87 1303 1302.2 0 1303 88 994 1302.2 0 994 89 346 1302.2 0 346 90 1550 1302.2 0 1550 91 998 1302.2 0 998 92 385 1302.2 0 385 93 1061 1302.2 0 1061 94 1071 1302.2 0 1071 95 421 1302.2 0 421 96 478 1302.2 0 478 97 622 1302.2 0 622 98 373 1302.2 0 373 99 435 1302.2 0 435 100 359 1302.2 0 359 101 720 1302.2 0 720 102 580 1302.2 0 580 103 901 1302.2 0 901 104 12725 1302.2 0 12725 105 18080 1302.2 0 18080 106 25659 1302.2 0 25659 107 358 1302.2 0 358 108 159 1302.2 0 159 109 47 1302.2 0 47 110 344 1302.2 0 344 111 462 1302.2 0 462 112 500 1302.2 0 500 113 521 1302.2 0 521 114 336 1302.2 0 336 115 189 1302.2 0 189 116 248 1302.2 0 248 117 376 1302.2 0 376 118 305 1302.2 0 305 119 1506 1302.2 0 1506 120 1743 1302.2 0 1743 121 779 1302.2 0 779 122 748 1302.2 0 748 123 448 1302.2 0 448 124 512 1302.2 0 512 125 740 1302.2 0 740 126 656 1302.2 0 656 127 656 1302.2 0 656 128 671 1302.2 0 671 129 721 1302.2 0 721 130 229 1302.2 0 229 131 384 1302.2 0 384 132 751 1302.2 0 751 133 665 1302.2 0 665 134 684 1302.2 0 684 135 510 1302.2 0 510 136 473 1302.2 0 473 137 543 1302.2 0 543 138 1328 1302.2 0 1328 139 1078 1302.2 0 1078 140 721 1302.2 0 721 141 445 1302.2 0 445 142 660 1302.2 0 660 143 636 1302.2 0 636 144 625 1302.2 0 625 145 1192 1302.2 0 1192 146 816 1302.2 0 816 147 542 1302.2 0 542 148 551 1302.2 0 551 149 346 1302.2 0 346 150 408 1302.2 0 408 151 648 1302.2 0 648 152 620 1302.2 0 620 153 764 1302.2 0 764 154 885 1302.2 0 885 155 1118 1302.2 0 1118 156 806 1302.2 0 806 157 1079 1302.2 0 1079 158 1684 1302.2 0 1684 159 12114 1302.2 0 12114 160 3272 1302.2 0 3272 161 17730 1302.2 0 17730 162 886 1302.2 0 886 163 949 1302.2 0 949 164 874 1302.2 0 874 165 880 1302.2 0 880 166 606 1302.2 0 606 167 1191 1302.2 0 1191 168 958 1302.2 0 958 169 698 1302.2 0 698 170 581 1302.2 0 581 171 1126 1302.2 0 1126 172 1120 1302.2 0 1120 173 631 1302.2 0 631 174 719 1302.2 0 719 175 385 1302.2 0 385 176 442 1302.2 0 442 177 539 1302.2 0 539 178 723 1302.2 0 723 179 826 1302.2 0 826 180 1297 1302.2 0 1297 181 1374 1302.2 0 1374 182 1056 1302.2 0 1056 183 877 1302.2 0 877 184 1302 1302.2 0 1302 185 1150 1302.2 0 1150 186 647 1302.2 0 647 187 545 1302.2 0 545 188 1167 1302.2 0 1167 189 788 1302.2 0 788 190 998 1302.2 0 998 191 732 1302.2 0 732 192 842 1302.2 0 842 193 435 1302.2 0 435 194 346 1302.2 0 346 195 719 1302.2 0 719 196 855 1302.2 0 855 197 387 1302.2 0 387 198 561 1302.2 0 561 199 809 1302.2 0 809 200 3736 1302.2 0 3736 201 1994 1302.2 0 1994 202 1037 1302.2 0 1037 203 706 1302.2 0 706 204 1022 1302.2 0 1022 205 893 1302.2 0 893 206 788 1302.2 0 788 207 1099 1302.2 0 1099 208 1280 1302.2 0 1280 209 521 1302.2 0 521 210 1001 1302.2 0 1001 211 695 1302.2 0 695 212 825 1302.2 0 825 213 766 1302.2 0 766 214 810 1302.2 0 810 215 1285 1302.2 0 1285 216 1265 1302.2 0 1265 217 1209 1302.2 0 1209 218 886 1302.2 0 886 219 941 1302.2 0 941 220 1481 1302.2 0 1481 221 1941 1302.2 0 1941 222 824 1302.2 0 824 223 803 1302.2 0 803 224 1839 1302.2 0 1839 225 1174 1302.2 0 1174 226 1137 1302.2 0 1137 227 912 1302.2 0 912 228 1225 1302.2 0 1225 229 864 1302.2 0 864 230 690 1302.2 0 690 231 565 1302.2 0 565 232 985 1302.2 0 985 233 566 1302.2 0 566 234 457 1302.2 0 457 235 814 1302.2 0 814 236 1390 1302.2 0 1390 237 522 1302.2 0 522 238 1067 1302.2 0 1067 239 1125 1302.2 0 1125 240 6167 1302.2 0 6167 241 3354 1302.2 0 3354 242 2998 1302.2 0 2998 243 1387 1302.2 0 1387 244 1434 1302.2 0 1434 245 1398 1302.2 0 1398 246 834 1302.2 0 834 247 885 1302.2 0 885 248 926 1302.2 0 926 249 862 1302.2 0 862 250 1278 1302.2 0 1278 251 1026 1302.2 0 1026 252 1199 1302.2 0 1199 253 1921 1302.2 0 1921 254 3098 1302.2 0 3098 255 1715 1302.2 0 1715 256 995 1302.2 0 995 257 708 1302.2 0 708 258 628 1302.2 0 628 259 355 1302.2 0 355 260 313 1302.2 0 313 261 365 1302.2 0 365 262 492 1302.2 0 492 263 929 1302.2 0 929 264 1526 1302.2 0 1526 265 1380 1302.2 0 1380 266 1096 1302.2 0 1096 267 782 1302.2 0 782 268 1017 1302.2 0 1017 269 1028 1302.2 0 1028 270 823 1302.2 0 823 271 1153 1302.2 0 1153 272 974 1302.2 0 974 273 808 1302.2 0 808 274 895 1302.2 0 895 275 1103 1302.2 0 1103 276 977 1302.2 0 977 277 1016 1302.2 0 1016 278 1080 1302.2 0 1080 279 1586 1302.2 0 1586 280 1569 1302.2 0 1569 281 1223 1302.2 0 1223 282 1109 1302.2 0 1109 283 1497 1302.2 0 1497 284 1202 1302.2 0 1202 285 1258 1302.2 0 1258 286 918 1302.2 0 918 287 895 1302.2 0 895 288 580 1302.2 0 580 289 670 1302.2 0 670 290 1008 1302.2 0 1008 291 1141 1302.2 0 1141 292 1080 1302.2 0 1080 293 886 1302.2 0 886 294 1066 1302.2 0 1066 295 685 1302.2 0 685 296 565 1302.2 0 565 297 1654 1302.2 0 1654 298 1249 1302.2 0 1249 299 1141 1302.2 0 1141 300 805 1302.2 0 805 301 1063 1302.2 0 1063 Finished in 8.18 s (45 us/read; 1.34 M reads/minute). === Summary === Total reads processed: 182,960 Reads with adapters: 2,037 (1.1%) Reads that were too short: 78 (0.0%) Reads written (passing filters): 1,959 (1.1%) Total basepairs processed: 30,825,846 bp Total written (filtered): 343,074 bp (1.1%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 2037 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 19 7 0.0 3 0 1 0 1 5 20 152 0.0 4 135 4 2 5 6 21 6 0.0 4 0 0 0 5 1 22 6 0.0 4 1 1 0 0 4 23 1 0.0 4 1 27 3 0.0 4 0 0 0 0 3 28 1 0.0 4 0 0 0 0 1 30 1736 0.0 4 0 0 0 0 1736 31 1 0.0 4 0 0 0 0 1 32 5 0.0 4 0 0 0 0 5 33 3 0.0 4 0 0 0 0 3 43 1 0.0 4 0 0 0 0 1 46 1 0.0 4 0 0 0 0 1 47 1 0.0 4 0 0 0 0 1 50 1 0.0 4 0 0 0 0 1 52 1 0.0 4 0 0 0 0 1 55 1 0.0 4 0 0 0 0 1 58 2 0.0 4 0 0 0 0 2 59 2 0.0 4 0 0 0 0 2 61 1 0.0 4 0 0 0 0 1 64 1 0.0 4 0 0 0 0 1 68 2 0.0 4 0 0 0 0 2 70 1 0.0 4 0 0 0 0 1 71 2 0.0 4 0 0 0 0 2 73 1 0.0 4 0 0 0 0 1 81 1 0.0 4 0 0 0 0 1 84 2 0.0 4 0 0 0 0 2 85 1 0.0 4 0 0 0 0 1 86 3 0.0 4 0 0 0 0 3 90 1 0.0 4 0 0 0 0 1 98 1 0.0 4 0 0 0 0 1 99 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 1 105 1 0.0 4 0 0 0 0 1 110 1 0.0 4 0 0 0 0 1 111 1 0.0 4 0 0 0 0 1 112 2 0.0 4 0 0 0 0 2 114 1 0.0 4 0 0 0 0 1 118 1 0.0 4 0 0 0 0 1 123 1 0.0 4 0 0 0 0 1 124 1 0.0 4 0 0 0 0 1 125 2 0.0 4 0 0 0 0 2 127 25 0.0 4 0 0 0 0 25 128 3 0.0 4 0 0 0 0 3 130 1 0.0 4 0 0 0 0 1 133 1 0.0 4 0 0 0 0 1 136 4 0.0 4 0 0 0 0 4 138 1 0.0 4 0 0 0 0 1 139 1 0.0 4 0 0 0 0 1 140 1 0.0 4 0 0 0 0 1 143 1 0.0 4 0 0 0 1 153 2 0.0 4 0 0 0 0 2 158 1 0.0 4 0 0 0 0 1 160 1 0.0 4 0 0 0 0 1 161 1 0.0 4 0 0 0 0 1 162 1 0.0 4 0 0 0 0 1 166 1 0.0 4 0 0 0 0 1 185 18 0.0 4 0 0 0 0 18 186 2 0.0 4 0 0 0 0 2 188 2 0.0 4 0 0 0 0 2 192 1 0.0 4 0 0 0 0 1 199 2 0.0 4 0 0 0 0 2 223 1 0.0 4 0 0 0 0 1 238 1 0.0 4 0 0 0 0 1 282 1 0.0 4 0 0 0 0 1 294 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 0.06 s (31 us/read; 1.96 M reads/minute). === Summary === Total reads processed: 1,959 Reads with adapters: 46 (2.3%) Reads written (passing filters): 1,959 (100.0%) Total basepairs processed: 343,074 bp Total written (filtered): 340,331 bp (99.2%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 46 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 26.1% C: 0.0% G: 67.4% T: 6.5% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 4 4 7.7 0 4 5 1 1.9 0 1 10 1 0.0 1 0 1 11 31 0.0 1 0 31 259 5 0.0 1 5 267 1 0.0 1 1 268 1 0.0 1 1 269 1 0.0 1 1 272 1 0.0 1 1