This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g ACCATA -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 90.54 s (26 us/read; 2.30 M reads/minute). === Summary === Total reads processed: 3,465,239 Reads with adapters: 305,271 (8.8%) Reads that were too short: 140,703 (4.1%) Reads written (passing filters): 164,568 (4.7%) Total basepairs processed: 1,043,036,939 bp Total written (filtered): 26,859,485 bp (2.6%) === Adapter 1 === Sequence: ACCATA; Type: regular 5'; Length: 6; Trimmed: 305271 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 98 846.0 0 98 7 5859 846.0 0 5859 8 56 846.0 0 56 9 43 846.0 0 43 10 57 846.0 0 57 11 48 846.0 0 48 12 43 846.0 0 43 13 57 846.0 0 57 14 55 846.0 0 55 15 36 846.0 0 36 16 41 846.0 0 41 17 45 846.0 0 45 18 55 846.0 0 55 19 53 846.0 0 53 20 55 846.0 0 55 21 52 846.0 0 52 22 63 846.0 0 63 23 48 846.0 0 48 24 51 846.0 0 51 25 57 846.0 0 57 26 47 846.0 0 47 27 47 846.0 0 47 28 59 846.0 0 59 29 50 846.0 0 50 30 36 846.0 0 36 31 48 846.0 0 48 32 51 846.0 0 51 33 40 846.0 0 40 34 51 846.0 0 51 35 51 846.0 0 51 36 47 846.0 0 47 37 40 846.0 0 40 38 39 846.0 0 39 39 50 846.0 0 50 40 57 846.0 0 57 41 59 846.0 0 59 42 605 846.0 0 605 43 70 846.0 0 70 44 56 846.0 0 56 45 57 846.0 0 57 46 46 846.0 0 46 47 45 846.0 0 45 48 55 846.0 0 55 49 40 846.0 0 40 50 39 846.0 0 39 51 64 846.0 0 64 52 57 846.0 0 57 53 35 846.0 0 35 54 37 846.0 0 37 55 53 846.0 0 53 56 267 846.0 0 267 57 304 846.0 0 304 58 61 846.0 0 61 59 48 846.0 0 48 60 48 846.0 0 48 61 39 846.0 0 39 62 45 846.0 0 45 63 39 846.0 0 39 64 44 846.0 0 44 65 49 846.0 0 49 66 110 846.0 0 110 67 64 846.0 0 64 68 77 846.0 0 77 69 84 846.0 0 84 70 69 846.0 0 69 71 72 846.0 0 72 72 323 846.0 0 323 73 369 846.0 0 369 74 673 846.0 0 673 75 427 846.0 0 427 76 817 846.0 0 817 77 934 846.0 0 934 78 953 846.0 0 953 79 259 846.0 0 259 80 228 846.0 0 228 81 294 846.0 0 294 82 405 846.0 0 405 83 528 846.0 0 528 84 478 846.0 0 478 85 478 846.0 0 478 86 363 846.0 0 363 87 1498 846.0 0 1498 88 822 846.0 0 822 89 811 846.0 0 811 90 653 846.0 0 653 91 432 846.0 0 432 92 278 846.0 0 278 93 1473 846.0 0 1473 94 1434 846.0 0 1434 95 1100 846.0 0 1100 96 571 846.0 0 571 97 307 846.0 0 307 98 567 846.0 0 567 99 359 846.0 0 359 100 166 846.0 0 166 101 337 846.0 0 337 102 458 846.0 0 458 103 639 846.0 0 639 104 712 846.0 0 712 105 821 846.0 0 821 106 718 846.0 0 718 107 1592 846.0 0 1592 108 1841 846.0 0 1841 109 1580 846.0 0 1580 110 512 846.0 0 512 111 576 846.0 0 576 112 558 846.0 0 558 113 695 846.0 0 695 114 686 846.0 0 686 115 525 846.0 0 525 116 420 846.0 0 420 117 360 846.0 0 360 118 381 846.0 0 381 119 621 846.0 0 621 120 1170 846.0 0 1170 121 1061 846.0 0 1061 122 585 846.0 0 585 123 655 846.0 0 655 124 667 846.0 0 667 125 806 846.0 0 806 126 1110 846.0 0 1110 127 1265 846.0 0 1265 128 1254 846.0 0 1254 129 1317 846.0 0 1317 130 578 846.0 0 578 131 455 846.0 0 455 132 521 846.0 0 521 133 1993 846.0 0 1993 134 2842 846.0 0 2842 135 3387 846.0 0 3387 136 4596 846.0 0 4596 137 891 846.0 0 891 138 650 846.0 0 650 139 937 846.0 0 937 140 1265 846.0 0 1265 141 1362 846.0 0 1362 142 851 846.0 0 851 143 527 846.0 0 527 144 767 846.0 0 767 145 1199 846.0 0 1199 146 1363 846.0 0 1363 147 1396 846.0 0 1396 148 1243 846.0 0 1243 149 839 846.0 0 839 150 916 846.0 0 916 151 956 846.0 0 956 152 1516 846.0 0 1516 153 1704 846.0 0 1704 154 1597 846.0 0 1597 155 2019 846.0 0 2019 156 1982 846.0 0 1982 157 10043 846.0 0 10043 158 14641 846.0 0 14641 159 5026 846.0 0 5026 160 1383 846.0 0 1383 161 1310 846.0 0 1310 162 1030 846.0 0 1030 163 730 846.0 0 730 164 1058 846.0 0 1058 165 1586 846.0 0 1586 166 1389 846.0 0 1389 167 977 846.0 0 977 168 674 846.0 0 674 169 756 846.0 0 756 170 716 846.0 0 716 171 871 846.0 0 871 172 844 846.0 0 844 173 1997 846.0 0 1997 174 2293 846.0 0 2293 175 1424 846.0 0 1424 176 811 846.0 0 811 177 544 846.0 0 544 178 534 846.0 0 534 179 616 846.0 0 616 180 1106 846.0 0 1106 181 1628 846.0 0 1628 182 1267 846.0 0 1267 183 844 846.0 0 844 184 813 846.0 0 813 185 1061 846.0 0 1061 186 1845 846.0 0 1845 187 1067 846.0 0 1067 188 764 846.0 0 764 189 693 846.0 0 693 190 1002 846.0 0 1002 191 1510 846.0 0 1510 192 1171 846.0 0 1171 193 1378 846.0 0 1378 194 809 846.0 0 809 195 819 846.0 0 819 196 467 846.0 0 467 197 477 846.0 0 477 198 935 846.0 0 935 199 929 846.0 0 929 200 1126 846.0 0 1126 201 1007 846.0 0 1007 202 918 846.0 0 918 203 1397 846.0 0 1397 204 1030 846.0 0 1030 205 786 846.0 0 786 206 1010 846.0 0 1010 207 1072 846.0 0 1072 208 1052 846.0 0 1052 209 714 846.0 0 714 210 731 846.0 0 731 211 594 846.0 0 594 212 712 846.0 0 712 213 976 846.0 0 976 214 1106 846.0 0 1106 215 942 846.0 0 942 216 1062 846.0 0 1062 217 952 846.0 0 952 218 958 846.0 0 958 219 1303 846.0 0 1303 220 1427 846.0 0 1427 221 1275 846.0 0 1275 222 776 846.0 0 776 223 589 846.0 0 589 224 847 846.0 0 847 225 847 846.0 0 847 226 1015 846.0 0 1015 227 1073 846.0 0 1073 228 1093 846.0 0 1093 229 1017 846.0 0 1017 230 1213 846.0 0 1213 231 1060 846.0 0 1060 232 1131 846.0 0 1131 233 1202 846.0 0 1202 234 1088 846.0 0 1088 235 992 846.0 0 992 236 1136 846.0 0 1136 237 990 846.0 0 990 238 746 846.0 0 746 239 954 846.0 0 954 240 1085 846.0 0 1085 241 963 846.0 0 963 242 972 846.0 0 972 243 942 846.0 0 942 244 952 846.0 0 952 245 811 846.0 0 811 246 995 846.0 0 995 247 1024 846.0 0 1024 248 1083 846.0 0 1083 249 546 846.0 0 546 250 715 846.0 0 715 251 849 846.0 0 849 252 1924 846.0 0 1924 253 2579 846.0 0 2579 254 1162 846.0 0 1162 255 1076 846.0 0 1076 256 1275 846.0 0 1275 257 1410 846.0 0 1410 258 1361 846.0 0 1361 259 952 846.0 0 952 260 870 846.0 0 870 261 867 846.0 0 867 262 828 846.0 0 828 263 814 846.0 0 814 264 794 846.0 0 794 265 666 846.0 0 666 266 1466 846.0 0 1466 267 1711 846.0 0 1711 268 2416 846.0 0 2416 269 2438 846.0 0 2438 270 1272 846.0 0 1272 271 1178 846.0 0 1178 272 1315 846.0 0 1315 273 1249 846.0 0 1249 274 916 846.0 0 916 275 1488 846.0 0 1488 276 4038 846.0 0 4038 277 6929 846.0 0 6929 278 2544 846.0 0 2544 279 2220 846.0 0 2220 280 2599 846.0 0 2599 281 2091 846.0 0 2091 282 1073 846.0 0 1073 283 890 846.0 0 890 284 1396 846.0 0 1396 285 1465 846.0 0 1465 286 1077 846.0 0 1077 287 1563 846.0 0 1563 288 1334 846.0 0 1334 289 1389 846.0 0 1389 290 1071 846.0 0 1071 291 995 846.0 0 995 292 1222 846.0 0 1222 293 1779 846.0 0 1779 294 2281 846.0 0 2281 295 3493 846.0 0 3493 296 5130 846.0 0 5130 297 8848 846.0 0 8848 298 746 846.0 0 746 299 803 846.0 0 803 300 1110 846.0 0 1110 301 1867 846.0 0 1867 Finished in 5.74 s (35 us/read; 1.72 M reads/minute). === Summary === Total reads processed: 164,568 Reads with adapters: 3,737 (2.3%) Reads that were too short: 69 (0.0%) Reads written (passing filters): 3,668 (2.2%) Total basepairs processed: 26,859,485 bp Total written (filtered): 1,001,368 bp (3.7%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 3737 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 22 0.0 3 0 22 20 3612 0.0 4 3314 283 12 3 21 3 0.0 4 0 3 22 1 0.0 4 0 0 0 0 1 23 2 0.0 4 0 0 0 1 1 26 1 0.0 4 0 0 0 0 1 27 2 0.0 4 0 0 0 0 2 28 1 0.0 4 0 0 0 0 1 34 3 0.0 4 0 0 0 0 3 35 1 0.0 4 0 0 0 0 1 36 1 0.0 4 0 0 0 0 1 37 1 0.0 4 0 0 0 0 1 39 2 0.0 4 0 0 0 0 2 43 1 0.0 4 0 0 0 0 1 45 1 0.0 4 0 0 0 0 1 47 1 0.0 4 0 0 0 0 1 48 1 0.0 4 0 0 0 0 1 50 1 0.0 4 0 0 0 0 1 51 1 0.0 4 0 0 0 0 1 52 2 0.0 4 0 0 0 0 2 54 1 0.0 4 0 0 0 0 1 58 1 0.0 4 0 0 0 0 1 61 4 0.0 4 0 0 0 0 4 62 2 0.0 4 0 0 0 0 2 63 1 0.0 4 0 0 0 0 1 65 2 0.0 4 0 0 0 0 2 66 1 0.0 4 0 0 0 0 1 69 1 0.0 4 0 0 0 0 1 70 2 0.0 4 0 0 0 0 2 71 1 0.0 4 0 0 0 0 1 74 1 0.0 4 0 0 0 1 76 1 0.0 4 0 0 0 0 1 78 1 0.0 4 0 0 0 0 1 79 1 0.0 4 0 0 0 0 1 81 1 0.0 4 0 0 0 0 1 83 2 0.0 4 0 0 0 0 2 84 1 0.0 4 0 0 0 0 1 87 1 0.0 4 0 0 0 0 1 88 3 0.0 4 0 0 0 0 3 89 1 0.0 4 0 0 0 0 1 93 1 0.0 4 0 0 0 0 1 95 1 0.0 4 0 0 0 0 1 97 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 1 106 1 0.0 4 0 0 0 0 1 107 2 0.0 4 0 0 0 1 1 113 1 0.0 4 0 0 0 0 1 114 2 0.0 4 0 0 0 0 2 115 1 0.0 4 0 0 0 0 1 116 1 0.0 4 0 0 0 0 1 117 1 0.0 4 0 0 0 0 1 118 3 0.0 4 0 0 0 0 3 119 3 0.0 4 0 0 0 0 3 124 1 0.0 4 0 0 0 0 1 125 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 1 136 1 0.0 4 0 0 0 0 1 139 1 0.0 4 0 0 0 0 1 141 1 0.0 4 0 0 0 0 1 142 1 0.0 4 0 0 0 0 1 143 2 0.0 4 0 0 0 0 2 146 1 0.0 4 0 0 0 0 1 150 1 0.0 4 0 0 0 0 1 161 1 0.0 4 0 0 0 0 1 164 1 0.0 4 0 0 0 0 1 165 2 0.0 4 0 0 0 0 2 173 1 0.0 4 0 0 0 0 1 182 1 0.0 4 0 0 0 0 1 198 1 0.0 4 0 0 0 0 1 222 1 0.0 4 0 0 0 0 1 228 2 0.0 4 0 0 0 0 2 243 1 0.0 4 0 0 0 0 1 279 1 0.0 4 0 0 0 0 1 289 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 0.12 s (33 us/read; 1.83 M reads/minute). === Summary === Total reads processed: 3,668 Reads with adapters: 293 (8.0%) Reads written (passing filters): 3,668 (100.0%) Total basepairs processed: 1,001,368 bp Total written (filtered): 990,375 bp (98.9%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 293 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 9.9% C: 5.1% G: 84.6% T: 0.3% 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 57.3 0 6 11 253 0.0 1 1 252 12 1 0.0 1 0 1 13 1 0.0 1 1 152 2 0.0 1 2 261 16 0.0 1 15 1 262 12 0.0 1 12 271 1 0.0 1 1 272 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.