This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AAGACA -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 97.71 s (31 us/read; 1.96 M reads/minute). === Summary === Total reads processed: 3,193,041 Reads with adapters: 307,261 (9.6%) Reads that were too short: 135,300 (4.2%) Reads written (passing filters): 171,961 (5.4%) Total basepairs processed: 961,105,341 bp Total written (filtered): 29,035,578 bp (3.0%) === Adapter 1 === Sequence: AAGACA; Type: regular 5'; Length: 6; Trimmed: 307261 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 430 779.6 0 430 7 12882 779.6 0 12882 8 16 779.6 0 16 9 123 779.6 0 123 10 16 779.6 0 16 11 14 779.6 0 14 12 6 779.6 0 6 13 4 779.6 0 4 14 4 779.6 0 4 15 3 779.6 0 3 16 5 779.6 0 5 17 6 779.6 0 6 18 5 779.6 0 5 19 1 779.6 0 1 20 8 779.6 0 8 21 3 779.6 0 3 22 8 779.6 0 8 23 9 779.6 0 9 24 3 779.6 0 3 25 2 779.6 0 2 26 3 779.6 0 3 27 2 779.6 0 2 28 3 779.6 0 3 29 8 779.6 0 8 30 10 779.6 0 10 31 1 779.6 0 1 32 5 779.6 0 5 33 2 779.6 0 2 34 6 779.6 0 6 35 8 779.6 0 8 36 7 779.6 0 7 37 11 779.6 0 11 38 5 779.6 0 5 39 14 779.6 0 14 40 6 779.6 0 6 41 10 779.6 0 10 42 28 779.6 0 28 43 4 779.6 0 4 44 10 779.6 0 10 45 4 779.6 0 4 46 6 779.6 0 6 47 5 779.6 0 5 48 3 779.6 0 3 49 2 779.6 0 2 50 10 779.6 0 10 51 5 779.6 0 5 52 5 779.6 0 5 53 6 779.6 0 6 54 8 779.6 0 8 55 13 779.6 0 13 56 108 779.6 0 108 57 128 779.6 0 128 58 7 779.6 0 7 59 6 779.6 0 6 60 3 779.6 0 3 61 4 779.6 0 4 62 35 779.6 0 35 63 25 779.6 0 25 64 23 779.6 0 23 65 41 779.6 0 41 66 19 779.6 0 19 67 35 779.6 0 35 68 21 779.6 0 21 69 14 779.6 0 14 70 77 779.6 0 77 71 339 779.6 0 339 72 971 779.6 0 971 73 710 779.6 0 710 74 1407 779.6 0 1407 75 314 779.6 0 314 76 445 779.6 0 445 77 1129 779.6 0 1129 78 1262 779.6 0 1262 79 1007 779.6 0 1007 80 1028 779.6 0 1028 81 553 779.6 0 553 82 1169 779.6 0 1169 83 1629 779.6 0 1629 84 995 779.6 0 995 85 2625 779.6 0 2625 86 1688 779.6 0 1688 87 1022 779.6 0 1022 88 1840 779.6 0 1840 89 1077 779.6 0 1077 90 1527 779.6 0 1527 91 400 779.6 0 400 92 986 779.6 0 986 93 1035 779.6 0 1035 94 1567 779.6 0 1567 95 797 779.6 0 797 96 549 779.6 0 549 97 245 779.6 0 245 98 364 779.6 0 364 99 442 779.6 0 442 100 1396 779.6 0 1396 101 889 779.6 0 889 102 753 779.6 0 753 103 595 779.6 0 595 104 829 779.6 0 829 105 606 779.6 0 606 106 725 779.6 0 725 107 843 779.6 0 843 108 443 779.6 0 443 109 466 779.6 0 466 110 1414 779.6 0 1414 111 930 779.6 0 930 112 833 779.6 0 833 113 820 779.6 0 820 114 815 779.6 0 815 115 474 779.6 0 474 116 1229 779.6 0 1229 117 791 779.6 0 791 118 1687 779.6 0 1687 119 1269 779.6 0 1269 120 2046 779.6 0 2046 121 1259 779.6 0 1259 122 1061 779.6 0 1061 123 1035 779.6 0 1035 124 855 779.6 0 855 125 1154 779.6 0 1154 126 941 779.6 0 941 127 801 779.6 0 801 128 788 779.6 0 788 129 726 779.6 0 726 130 687 779.6 0 687 131 1790 779.6 0 1790 132 925 779.6 0 925 133 910 779.6 0 910 134 792 779.6 0 792 135 785 779.6 0 785 136 858 779.6 0 858 137 831 779.6 0 831 138 820 779.6 0 820 139 863 779.6 0 863 140 1049 779.6 0 1049 141 829 779.6 0 829 142 947 779.6 0 947 143 909 779.6 0 909 144 850 779.6 0 850 145 1405 779.6 0 1405 146 1039 779.6 0 1039 147 1579 779.6 0 1579 148 889 779.6 0 889 149 981 779.6 0 981 150 756 779.6 0 756 151 807 779.6 0 807 152 1432 779.6 0 1432 153 1524 779.6 0 1524 154 1222 779.6 0 1222 155 863 779.6 0 863 156 705 779.6 0 705 157 1146 779.6 0 1146 158 1189 779.6 0 1189 159 820 779.6 0 820 160 892 779.6 0 892 161 719 779.6 0 719 162 872 779.6 0 872 163 831 779.6 0 831 164 817 779.6 0 817 165 805 779.6 0 805 166 1469 779.6 0 1469 167 2151 779.6 0 2151 168 7598 779.6 0 7598 169 1144 779.6 0 1144 170 1334 779.6 0 1334 171 9159 779.6 0 9159 172 1461 779.6 0 1461 173 1249 779.6 0 1249 174 852 779.6 0 852 175 842 779.6 0 842 176 792 779.6 0 792 177 958 779.6 0 958 178 1213 779.6 0 1213 179 1163 779.6 0 1163 180 2256 779.6 0 2256 181 3668 779.6 0 3668 182 1740 779.6 0 1740 183 7424 779.6 0 7424 184 1447 779.6 0 1447 185 1563 779.6 0 1563 186 828 779.6 0 828 187 843 779.6 0 843 188 726 779.6 0 726 189 1072 779.6 0 1072 190 922 779.6 0 922 191 1020 779.6 0 1020 192 840 779.6 0 840 193 826 779.6 0 826 194 511 779.6 0 511 195 680 779.6 0 680 196 748 779.6 0 748 197 930 779.6 0 930 198 1442 779.6 0 1442 199 1521 779.6 0 1521 200 1424 779.6 0 1424 201 1108 779.6 0 1108 202 743 779.6 0 743 203 988 779.6 0 988 204 1019 779.6 0 1019 205 1151 779.6 0 1151 206 932 779.6 0 932 207 812 779.6 0 812 208 815 779.6 0 815 209 624 779.6 0 624 210 759 779.6 0 759 211 741 779.6 0 741 212 847 779.6 0 847 213 2560 779.6 0 2560 214 1785 779.6 0 1785 215 4701 779.6 0 4701 216 920 779.6 0 920 217 784 779.6 0 784 218 1121 779.6 0 1121 219 1029 779.6 0 1029 220 623 779.6 0 623 221 572 779.6 0 572 222 719 779.6 0 719 223 1030 779.6 0 1030 224 713 779.6 0 713 225 704 779.6 0 704 226 556 779.6 0 556 227 591 779.6 0 591 228 626 779.6 0 626 229 757 779.6 0 757 230 766 779.6 0 766 231 733 779.6 0 733 232 657 779.6 0 657 233 997 779.6 0 997 234 976 779.6 0 976 235 1076 779.6 0 1076 236 651 779.6 0 651 237 696 779.6 0 696 238 1034 779.6 0 1034 239 1475 779.6 0 1475 240 1018 779.6 0 1018 241 1134 779.6 0 1134 242 1292 779.6 0 1292 243 1090 779.6 0 1090 244 1704 779.6 0 1704 245 579 779.6 0 579 246 927 779.6 0 927 247 777 779.6 0 777 248 960 779.6 0 960 249 1049 779.6 0 1049 250 1204 779.6 0 1204 251 869 779.6 0 869 252 1194 779.6 0 1194 253 1111 779.6 0 1111 254 760 779.6 0 760 255 398 779.6 0 398 256 480 779.6 0 480 257 711 779.6 0 711 258 550 779.6 0 550 259 621 779.6 0 621 260 1242 779.6 0 1242 261 1673 779.6 0 1673 262 1733 779.6 0 1733 263 1837 779.6 0 1837 264 1298 779.6 0 1298 265 913 779.6 0 913 266 963 779.6 0 963 267 3307 779.6 0 3307 268 9998 779.6 0 9998 269 10627 779.6 0 10627 270 1638 779.6 0 1638 271 772 779.6 0 772 272 946 779.6 0 946 273 877 779.6 0 877 274 865 779.6 0 865 275 747 779.6 0 747 276 787 779.6 0 787 277 1249 779.6 0 1249 278 1269 779.6 0 1269 279 1219 779.6 0 1219 280 2019 779.6 0 2019 281 8432 779.6 0 8432 282 3543 779.6 0 3543 283 1255 779.6 0 1255 284 881 779.6 0 881 285 566 779.6 0 566 286 809 779.6 0 809 287 1012 779.6 0 1012 288 1195 779.6 0 1195 289 936 779.6 0 936 290 854 779.6 0 854 291 1069 779.6 0 1069 292 938 779.6 0 938 293 936 779.6 0 936 294 783 779.6 0 783 295 626 779.6 0 626 296 966 779.6 0 966 297 1098 779.6 0 1098 298 810 779.6 0 810 299 2161 779.6 0 2161 300 2147 779.6 0 2147 301 1593 779.6 0 1593 Finished in 7.03 s (41 us/read; 1.47 M reads/minute). === Summary === Total reads processed: 171,961 Reads with adapters: 13,290 (7.7%) Reads that were too short: 53 (0.0%) Reads written (passing filters): 13,237 (7.7%) Total basepairs processed: 29,035,578 bp Total written (filtered): 3,623,247 bp (12.5%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 13290 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 1 0.0 3 0 0 0 0 1 18 4 0.0 3 0 0 1 1 2 19 133 0.0 3 0 129 3 0 1 20 13020 0.0 4 12779 213 23 4 1 21 40 0.0 4 10 27 0 3 22 2 0.0 4 0 0 0 0 2 23 11 0.0 4 0 0 0 8 3 24 2 0.0 4 0 0 0 0 2 25 1 0.0 4 0 0 0 0 1 28 1 0.0 4 0 0 0 0 1 29 1 0.0 4 0 0 0 0 1 33 1 0.0 4 0 0 0 0 1 37 2 0.0 4 0 0 0 0 2 38 1 0.0 4 0 0 0 0 1 39 2 0.0 4 0 0 0 0 2 40 1 0.0 4 0 0 0 0 1 43 1 0.0 4 0 0 0 0 1 47 1 0.0 4 0 0 0 0 1 48 2 0.0 4 0 0 0 0 2 51 1 0.0 4 0 0 0 0 1 56 1 0.0 4 0 0 0 0 1 57 2 0.0 4 0 0 0 0 2 62 2 0.0 4 0 0 0 0 2 68 1 0.0 4 0 0 0 0 1 69 1 0.0 4 0 0 0 1 70 2 0.0 4 0 0 0 0 2 72 1 0.0 4 0 0 0 0 1 73 1 0.0 4 0 0 0 0 1 77 2 0.0 4 0 0 0 0 2 78 1 0.0 4 0 0 0 0 1 79 1 0.0 4 0 0 0 0 1 80 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 87 1 0.0 4 0 0 0 0 1 88 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 2 0.0 4 0 0 0 0 2 95 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 2 100 3 0.0 4 0 0 0 0 3 105 1 0.0 4 0 0 0 0 1 106 1 0.0 4 0 0 0 0 1 109 1 0.0 4 0 0 0 0 1 112 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 1 117 1 0.0 4 0 0 0 0 1 122 1 0.0 4 0 0 0 0 1 131 1 0.0 4 0 0 0 0 1 132 4 0.0 4 0 0 0 0 4 133 1 0.0 4 0 0 0 0 1 138 1 0.0 4 0 0 0 0 1 143 1 0.0 4 0 0 0 0 1 144 1 0.0 4 0 0 0 0 1 156 1 0.0 4 0 0 0 0 1 157 2 0.0 4 0 0 0 0 2 160 1 0.0 4 0 0 0 0 1 161 1 0.0 4 0 0 0 0 1 169 1 0.0 4 0 0 0 0 1 180 1 0.0 4 0 0 0 0 1 181 1 0.0 4 0 0 0 0 1 184 1 0.0 4 0 0 0 0 1 208 1 0.0 4 0 0 0 0 1 210 1 0.0 4 0 0 0 0 1 212 1 0.0 4 0 0 0 0 1 230 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 0.56 s (42 us/read; 1.42 M reads/minute). === Summary === Total reads processed: 13,237 Reads with adapters: 697 (5.3%) Reads written (passing filters): 13,237 (100.0%) Total basepairs processed: 3,623,247 bp Total written (filtered): 3,609,675 bp (99.6%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 697 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 6.6% C: 3.0% G: 89.0% T: 1.4% 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 5 206.8 0 5 4 3 51.7 0 3 5 1 12.9 0 1 9 1 0.1 0 0 1 11 622 0.0 1 3 619 12 34 0.0 1 1 33 152 3 0.0 1 1 2 153 1 0.0 1 1 210 25 0.0 1 19 6 211 2 0.0 1 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.