This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AATGAA -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 72.51 s (27 us/read; 2.24 M reads/minute). === Summary === Total reads processed: 2,708,680 Reads with adapters: 237,975 (8.8%) Reads that were too short: 77,609 (2.9%) Reads written (passing filters): 160,366 (5.9%) Total basepairs processed: 815,312,680 bp Total written (filtered): 30,756,400 bp (3.8%) === Adapter 1 === Sequence: AATGAA; Type: regular 5'; Length: 6; Trimmed: 237975 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 216 661.3 0 216 7 348 661.3 0 348 8 7963 661.3 0 7963 9 16924 661.3 0 16924 10 105 661.3 0 105 11 53 661.3 0 53 12 35 661.3 0 35 13 53 661.3 0 53 14 44 661.3 0 44 15 31 661.3 0 31 16 39 661.3 0 39 17 33 661.3 0 33 18 36 661.3 0 36 19 31 661.3 0 31 20 41 661.3 0 41 21 42 661.3 0 42 22 44 661.3 0 44 23 52 661.3 0 52 24 52 661.3 0 52 25 46 661.3 0 46 26 38 661.3 0 38 27 28 661.3 0 28 28 45 661.3 0 45 29 27 661.3 0 27 30 37 661.3 0 37 31 94 661.3 0 94 32 56 661.3 0 56 33 33 661.3 0 33 34 29 661.3 0 29 35 55 661.3 0 55 36 35 661.3 0 35 37 29 661.3 0 29 38 47 661.3 0 47 39 39 661.3 0 39 40 46 661.3 0 46 41 39 661.3 0 39 42 63 661.3 0 63 43 46 661.3 0 46 44 44 661.3 0 44 45 58 661.3 0 58 46 56 661.3 0 56 47 61 661.3 0 61 48 29 661.3 0 29 49 28 661.3 0 28 50 34 661.3 0 34 51 30 661.3 0 30 52 20 661.3 0 20 53 25 661.3 0 25 54 26 661.3 0 26 55 33 661.3 0 33 56 36 661.3 0 36 57 41 661.3 0 41 58 76 661.3 0 76 59 78 661.3 0 78 60 55 661.3 0 55 61 37 661.3 0 37 62 66 661.3 0 66 63 59 661.3 0 59 64 53 661.3 0 53 65 46 661.3 0 46 66 101 661.3 0 101 67 59 661.3 0 59 68 93 661.3 0 93 69 95 661.3 0 95 70 86 661.3 0 86 71 245 661.3 0 245 72 689 661.3 0 689 73 535 661.3 0 535 74 565 661.3 0 565 75 482 661.3 0 482 76 833 661.3 0 833 77 2737 661.3 0 2737 78 943 661.3 0 943 79 2243 661.3 0 2243 80 3277 661.3 0 3277 81 3990 661.3 0 3990 82 2067 661.3 0 2067 83 2147 661.3 0 2147 84 2025 661.3 0 2025 85 1309 661.3 0 1309 86 1983 661.3 0 1983 87 879 661.3 0 879 88 598 661.3 0 598 89 485 661.3 0 485 90 893 661.3 0 893 91 915 661.3 0 915 92 859 661.3 0 859 93 1058 661.3 0 1058 94 1131 661.3 0 1131 95 1185 661.3 0 1185 96 1259 661.3 0 1259 97 1035 661.3 0 1035 98 502 661.3 0 502 99 777 661.3 0 777 100 2329 661.3 0 2329 101 1432 661.3 0 1432 102 711 661.3 0 711 103 1015 661.3 0 1015 104 670 661.3 0 670 105 283 661.3 0 283 106 169 661.3 0 169 107 368 661.3 0 368 108 777 661.3 0 777 109 886 661.3 0 886 110 791 661.3 0 791 111 896 661.3 0 896 112 898 661.3 0 898 113 881 661.3 0 881 114 1005 661.3 0 1005 115 1266 661.3 0 1266 116 1532 661.3 0 1532 117 1212 661.3 0 1212 118 1036 661.3 0 1036 119 899 661.3 0 899 120 978 661.3 0 978 121 996 661.3 0 996 122 834 661.3 0 834 123 809 661.3 0 809 124 986 661.3 0 986 125 1292 661.3 0 1292 126 973 661.3 0 973 127 921 661.3 0 921 128 1054 661.3 0 1054 129 1180 661.3 0 1180 130 1417 661.3 0 1417 131 1359 661.3 0 1359 132 1000 661.3 0 1000 133 698 661.3 0 698 134 826 661.3 0 826 135 793 661.3 0 793 136 1289 661.3 0 1289 137 1563 661.3 0 1563 138 1206 661.3 0 1206 139 870 661.3 0 870 140 1028 661.3 0 1028 141 1434 661.3 0 1434 142 1104 661.3 0 1104 143 936 661.3 0 936 144 958 661.3 0 958 145 1109 661.3 0 1109 146 1147 661.3 0 1147 147 791 661.3 0 791 148 941 661.3 0 941 149 985 661.3 0 985 150 818 661.3 0 818 151 681 661.3 0 681 152 804 661.3 0 804 153 833 661.3 0 833 154 922 661.3 0 922 155 829 661.3 0 829 156 771 661.3 0 771 157 858 661.3 0 858 158 1093 661.3 0 1093 159 1274 661.3 0 1274 160 1862 661.3 0 1862 161 631 661.3 0 631 162 746 661.3 0 746 163 704 661.3 0 704 164 727 661.3 0 727 165 819 661.3 0 819 166 986 661.3 0 986 167 757 661.3 0 757 168 696 661.3 0 696 169 765 661.3 0 765 170 837 661.3 0 837 171 700 661.3 0 700 172 563 661.3 0 563 173 629 661.3 0 629 174 737 661.3 0 737 175 687 661.3 0 687 176 689 661.3 0 689 177 705 661.3 0 705 178 691 661.3 0 691 179 763 661.3 0 763 180 666 661.3 0 666 181 685 661.3 0 685 182 1725 661.3 0 1725 183 1243 661.3 0 1243 184 1359 661.3 0 1359 185 782 661.3 0 782 186 881 661.3 0 881 187 766 661.3 0 766 188 536 661.3 0 536 189 558 661.3 0 558 190 731 661.3 0 731 191 821 661.3 0 821 192 869 661.3 0 869 193 1041 661.3 0 1041 194 912 661.3 0 912 195 456 661.3 0 456 196 504 661.3 0 504 197 1058 661.3 0 1058 198 1588 661.3 0 1588 199 1186 661.3 0 1186 200 466 661.3 0 466 201 378 661.3 0 378 202 673 661.3 0 673 203 1058 661.3 0 1058 204 951 661.3 0 951 205 822 661.3 0 822 206 801 661.3 0 801 207 838 661.3 0 838 208 750 661.3 0 750 209 655 661.3 0 655 210 786 661.3 0 786 211 781 661.3 0 781 212 796 661.3 0 796 213 721 661.3 0 721 214 595 661.3 0 595 215 620 661.3 0 620 216 575 661.3 0 575 217 545 661.3 0 545 218 749 661.3 0 749 219 878 661.3 0 878 220 572 661.3 0 572 221 486 661.3 0 486 222 581 661.3 0 581 223 759 661.3 0 759 224 695 661.3 0 695 225 593 661.3 0 593 226 560 661.3 0 560 227 783 661.3 0 783 228 771 661.3 0 771 229 624 661.3 0 624 230 497 661.3 0 497 231 643 661.3 0 643 232 604 661.3 0 604 233 588 661.3 0 588 234 715 661.3 0 715 235 1086 661.3 0 1086 236 797 661.3 0 797 237 580 661.3 0 580 238 786 661.3 0 786 239 900 661.3 0 900 240 616 661.3 0 616 241 540 661.3 0 540 242 732 661.3 0 732 243 792 661.3 0 792 244 570 661.3 0 570 245 527 661.3 0 527 246 808 661.3 0 808 247 866 661.3 0 866 248 771 661.3 0 771 249 430 661.3 0 430 250 505 661.3 0 505 251 601 661.3 0 601 252 1159 661.3 0 1159 253 1116 661.3 0 1116 254 1410 661.3 0 1410 255 1225 661.3 0 1225 256 1218 661.3 0 1218 257 696 661.3 0 696 258 712 661.3 0 712 259 551 661.3 0 551 260 491 661.3 0 491 261 595 661.3 0 595 262 647 661.3 0 647 263 752 661.3 0 752 264 729 661.3 0 729 265 628 661.3 0 628 266 603 661.3 0 603 267 611 661.3 0 611 268 642 661.3 0 642 269 441 661.3 0 441 270 504 661.3 0 504 271 905 661.3 0 905 272 1129 661.3 0 1129 273 967 661.3 0 967 274 1075 661.3 0 1075 275 753 661.3 0 753 276 377 661.3 0 377 277 753 661.3 0 753 278 1073 661.3 0 1073 279 1073 661.3 0 1073 280 693 661.3 0 693 281 421 661.3 0 421 282 498 661.3 0 498 283 582 661.3 0 582 284 608 661.3 0 608 285 754 661.3 0 754 286 1118 661.3 0 1118 287 703 661.3 0 703 288 444 661.3 0 444 289 1039 661.3 0 1039 290 777 661.3 0 777 291 1119 661.3 0 1119 292 1267 661.3 0 1267 293 959 661.3 0 959 294 691 661.3 0 691 295 845 661.3 0 845 296 1022 661.3 0 1022 297 1150 661.3 0 1150 298 1025 661.3 0 1025 299 1416 661.3 0 1416 300 1370 661.3 0 1370 301 1301 661.3 0 1301 Finished in 6.21 s (39 us/read; 1.55 M reads/minute). === Summary === Total reads processed: 160,366 Reads with adapters: 17,679 (11.0%) Reads that were too short: 76 (0.0%) Reads written (passing filters): 17,603 (11.0%) Total basepairs processed: 30,756,400 bp Total written (filtered): 4,784,475 bp (15.6%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 17679 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 2 0.0 3 0 0 0 0 2 18 6 0.0 3 0 0 5 1 19 217 0.0 3 0 207 7 1 2 20 17272 0.0 4 16414 749 82 17 10 21 59 0.0 4 13 40 2 1 3 22 3 0.0 4 0 0 1 0 2 23 7 0.0 4 0 0 0 6 1 25 3 0.0 4 0 0 0 0 3 26 2 0.0 4 2 27 1 0.0 4 0 0 0 0 1 28 3 0.0 4 0 0 0 0 3 32 1 0.0 4 0 0 0 0 1 35 1 0.0 4 0 0 0 0 1 38 1 0.0 4 0 0 0 1 39 1 0.0 4 0 0 0 0 1 40 1 0.0 4 0 0 0 0 1 42 1 0.0 4 1 43 1 0.0 4 0 0 0 0 1 45 1 0.0 4 0 0 0 0 1 48 2 0.0 4 0 0 0 0 2 52 1 0.0 4 0 0 0 0 1 55 1 0.0 4 0 0 0 0 1 56 1 0.0 4 0 0 0 0 1 58 1 0.0 4 0 0 0 0 1 60 1 0.0 4 0 0 0 0 1 65 1 0.0 4 0 0 0 0 1 66 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 75 2 0.0 4 0 0 0 1 1 76 1 0.0 4 0 0 0 0 1 77 10 0.0 4 0 0 0 0 10 78 2 0.0 4 0 0 0 0 2 81 1 0.0 4 0 0 0 0 1 83 1 0.0 4 0 0 0 0 1 84 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 92 1 0.0 4 0 0 0 0 1 94 1 0.0 4 0 0 0 0 1 95 3 0.0 4 0 0 0 0 3 98 1 0.0 4 0 0 0 0 1 101 1 0.0 4 0 0 0 0 1 102 1 0.0 4 0 0 0 0 1 103 3 0.0 4 0 0 0 0 3 105 2 0.0 4 0 0 0 0 2 111 1 0.0 4 0 0 0 0 1 112 1 0.0 4 0 0 0 0 1 113 3 0.0 4 0 0 0 0 3 114 1 0.0 4 0 0 0 0 1 115 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 1 0.0 4 0 0 0 0 1 119 2 0.0 4 0 0 0 0 2 120 1 0.0 4 0 0 0 0 1 121 1 0.0 4 0 0 0 0 1 123 1 0.0 4 0 0 0 0 1 124 2 0.0 4 0 0 0 0 2 125 1 0.0 4 0 0 0 0 1 127 1 0.0 4 0 0 0 0 1 133 1 0.0 4 0 0 0 0 1 135 1 0.0 4 0 0 0 0 1 137 1 0.0 4 0 0 0 0 1 139 1 0.0 4 0 0 0 0 1 143 1 0.0 4 0 0 0 0 1 146 1 0.0 4 0 0 0 0 1 148 1 0.0 4 0 0 0 0 1 149 1 0.0 4 0 0 0 0 1 152 1 0.0 4 0 0 0 0 1 154 1 0.0 4 0 0 0 0 1 157 2 0.0 4 0 0 0 0 2 159 2 0.0 4 0 0 0 0 2 165 2 0.0 4 0 0 0 0 2 169 1 0.0 4 0 0 0 0 1 170 1 0.0 4 0 0 0 0 1 173 1 0.0 4 0 0 0 0 1 177 1 0.0 4 0 0 0 0 1 192 1 0.0 4 0 0 0 0 1 193 1 0.0 4 0 0 0 0 1 209 1 0.0 4 0 0 0 0 1 210 1 0.0 4 0 0 0 0 1 213 1 0.0 4 0 0 0 0 1 215 1 0.0 4 0 0 0 0 1 228 5 0.0 4 0 0 0 0 5 259 1 0.0 4 0 0 0 0 1 293 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 0.60 s (34 us/read; 1.76 M reads/minute). === Summary === Total reads processed: 17,603 Reads with adapters: 1,510 (8.6%) Reads written (passing filters): 17,603 (100.0%) Total basepairs processed: 4,784,475 bp Total written (filtered): 4,763,968 bp (99.6%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 1510 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 5.0% C: 4.4% G: 88.7% T: 1.8% none/other: 0.1% 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 8 3 0.3 0 3 9 400 0.1 0 46 354 10 345 0.0 1 15 330 11 734 0.0 1 6 728 12 1 0.0 1 0 1 150 11 0.0 1 9 2 151 2 0.0 1 2 153 1 0.0 1 1 208 2 0.0 1 2 218 1 0.0 1 1 256 1 0.0 1 1 257 1 0.0 1 1 258 1 0.0 1 1 259 2 0.0 1 2 260 1 0.0 1 1 261 1 0.0 1 1 263 2 0.0 1 2 272 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.