This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AAGCAG -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 77.33 s (26 us/read; 2.27 M reads/minute). === Summary === Total reads processed: 2,926,947 Reads with adapters: 303,383 (10.4%) Reads that were too short: 80,730 (2.8%) Reads written (passing filters): 222,653 (7.6%) Total basepairs processed: 881,011,047 bp Total written (filtered): 45,451,242 bp (5.2%) === Adapter 1 === Sequence: AAGCAG; Type: regular 5'; Length: 6; Trimmed: 303383 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1712 714.6 0 1712 7 60539 714.6 0 60539 8 270 714.6 0 270 9 3734 714.6 0 3734 10 103 714.6 0 103 11 111 714.6 0 111 12 85 714.6 0 85 13 84 714.6 0 84 14 59 714.6 0 59 15 80 714.6 0 80 16 75 714.6 0 75 17 107 714.6 0 107 18 85 714.6 0 85 19 79 714.6 0 79 20 83 714.6 0 83 21 125 714.6 0 125 22 141 714.6 0 141 23 170 714.6 0 170 24 217 714.6 0 217 25 366 714.6 0 366 26 259 714.6 0 259 27 84 714.6 0 84 28 88 714.6 0 88 29 94 714.6 0 94 30 79 714.6 0 79 31 78 714.6 0 78 32 93 714.6 0 93 33 102 714.6 0 102 34 58 714.6 0 58 35 84 714.6 0 84 36 89 714.6 0 89 37 66 714.6 0 66 38 93 714.6 0 93 39 102 714.6 0 102 40 84 714.6 0 84 41 82 714.6 0 82 42 64 714.6 0 64 43 82 714.6 0 82 44 86 714.6 0 86 45 92 714.6 0 92 46 79 714.6 0 79 47 83 714.6 0 83 48 82 714.6 0 82 49 89 714.6 0 89 50 97 714.6 0 97 51 96 714.6 0 96 52 73 714.6 0 73 53 86 714.6 0 86 54 81 714.6 0 81 55 138 714.6 0 138 56 86 714.6 0 86 57 74 714.6 0 74 58 81 714.6 0 81 59 76 714.6 0 76 60 97 714.6 0 97 61 259 714.6 0 259 62 438 714.6 0 438 63 417 714.6 0 417 64 84 714.6 0 84 65 64 714.6 0 64 66 77 714.6 0 77 67 75 714.6 0 75 68 87 714.6 0 87 69 135 714.6 0 135 70 295 714.6 0 295 71 896 714.6 0 896 72 299 714.6 0 299 73 515 714.6 0 515 74 409 714.6 0 409 75 213 714.6 0 213 76 467 714.6 0 467 77 772 714.6 0 772 78 1000 714.6 0 1000 79 664 714.6 0 664 80 1317 714.6 0 1317 81 1003 714.6 0 1003 82 1877 714.6 0 1877 83 3565 714.6 0 3565 84 1912 714.6 0 1912 85 1216 714.6 0 1216 86 1199 714.6 0 1199 87 564 714.6 0 564 88 464 714.6 0 464 89 1099 714.6 0 1099 90 524 714.6 0 524 91 669 714.6 0 669 92 1306 714.6 0 1306 93 800 714.6 0 800 94 606 714.6 0 606 95 791 714.6 0 791 96 471 714.6 0 471 97 442 714.6 0 442 98 419 714.6 0 419 99 540 714.6 0 540 100 548 714.6 0 548 101 569 714.6 0 569 102 485 714.6 0 485 103 325 714.6 0 325 104 263 714.6 0 263 105 349 714.6 0 349 106 313 714.6 0 313 107 346 714.6 0 346 108 500 714.6 0 500 109 685 714.6 0 685 110 918 714.6 0 918 111 884 714.6 0 884 112 4227 714.6 0 4227 113 5901 714.6 0 5901 114 8860 714.6 0 8860 115 654 714.6 0 654 116 736 714.6 0 736 117 890 714.6 0 890 118 1179 714.6 0 1179 119 1318 714.6 0 1318 120 1419 714.6 0 1419 121 1805 714.6 0 1805 122 1926 714.6 0 1926 123 708 714.6 0 708 124 765 714.6 0 765 125 973 714.6 0 973 126 836 714.6 0 836 127 1131 714.6 0 1131 128 758 714.6 0 758 129 653 714.6 0 653 130 743 714.6 0 743 131 769 714.6 0 769 132 859 714.6 0 859 133 709 714.6 0 709 134 793 714.6 0 793 135 825 714.6 0 825 136 1094 714.6 0 1094 137 772 714.6 0 772 138 790 714.6 0 790 139 963 714.6 0 963 140 833 714.6 0 833 141 867 714.6 0 867 142 1266 714.6 0 1266 143 1434 714.6 0 1434 144 1252 714.6 0 1252 145 947 714.6 0 947 146 906 714.6 0 906 147 935 714.6 0 935 148 1466 714.6 0 1466 149 1287 714.6 0 1287 150 865 714.6 0 865 151 1328 714.6 0 1328 152 1078 714.6 0 1078 153 1012 714.6 0 1012 154 1111 714.6 0 1111 155 848 714.6 0 848 156 718 714.6 0 718 157 836 714.6 0 836 158 798 714.6 0 798 159 745 714.6 0 745 160 748 714.6 0 748 161 834 714.6 0 834 162 780 714.6 0 780 163 913 714.6 0 913 164 974 714.6 0 974 165 910 714.6 0 910 166 1408 714.6 0 1408 167 1243 714.6 0 1243 168 1318 714.6 0 1318 169 1350 714.6 0 1350 170 1137 714.6 0 1137 171 1893 714.6 0 1893 172 2545 714.6 0 2545 173 1859 714.6 0 1859 174 1340 714.6 0 1340 175 1263 714.6 0 1263 176 902 714.6 0 902 177 994 714.6 0 994 178 1041 714.6 0 1041 179 925 714.6 0 925 180 1013 714.6 0 1013 181 958 714.6 0 958 182 920 714.6 0 920 183 1968 714.6 0 1968 184 2232 714.6 0 2232 185 1422 714.6 0 1422 186 932 714.6 0 932 187 919 714.6 0 919 188 968 714.6 0 968 189 918 714.6 0 918 190 1156 714.6 0 1156 191 2606 714.6 0 2606 192 2372 714.6 0 2372 193 1963 714.6 0 1963 194 1461 714.6 0 1461 195 930 714.6 0 930 196 722 714.6 0 722 197 1213 714.6 0 1213 198 1213 714.6 0 1213 199 1678 714.6 0 1678 200 919 714.6 0 919 201 668 714.6 0 668 202 730 714.6 0 730 203 964 714.6 0 964 204 861 714.6 0 861 205 837 714.6 0 837 206 766 714.6 0 766 207 736 714.6 0 736 208 689 714.6 0 689 209 728 714.6 0 728 210 732 714.6 0 732 211 877 714.6 0 877 212 729 714.6 0 729 213 809 714.6 0 809 214 730 714.6 0 730 215 893 714.6 0 893 216 878 714.6 0 878 217 815 714.6 0 815 218 967 714.6 0 967 219 989 714.6 0 989 220 970 714.6 0 970 221 516 714.6 0 516 222 530 714.6 0 530 223 956 714.6 0 956 224 851 714.6 0 851 225 856 714.6 0 856 226 727 714.6 0 727 227 798 714.6 0 798 228 918 714.6 0 918 229 909 714.6 0 909 230 752 714.6 0 752 231 618 714.6 0 618 232 733 714.6 0 733 233 733 714.6 0 733 234 812 714.6 0 812 235 900 714.6 0 900 236 868 714.6 0 868 237 505 714.6 0 505 238 586 714.6 0 586 239 965 714.6 0 965 240 706 714.6 0 706 241 558 714.6 0 558 242 660 714.6 0 660 243 927 714.6 0 927 244 786 714.6 0 786 245 821 714.6 0 821 246 868 714.6 0 868 247 833 714.6 0 833 248 445 714.6 0 445 249 490 714.6 0 490 250 458 714.6 0 458 251 893 714.6 0 893 252 2289 714.6 0 2289 253 1286 714.6 0 1286 254 759 714.6 0 759 255 715 714.6 0 715 256 763 714.6 0 763 257 711 714.6 0 711 258 485 714.6 0 485 259 363 714.6 0 363 260 365 714.6 0 365 261 543 714.6 0 543 262 984 714.6 0 984 263 1016 714.6 0 1016 264 919 714.6 0 919 265 1029 714.6 0 1029 266 703 714.6 0 703 267 921 714.6 0 921 268 1461 714.6 0 1461 269 922 714.6 0 922 270 671 714.6 0 671 271 756 714.6 0 756 272 785 714.6 0 785 273 646 714.6 0 646 274 609 714.6 0 609 275 529 714.6 0 529 276 361 714.6 0 361 277 596 714.6 0 596 278 1161 714.6 0 1161 279 974 714.6 0 974 280 778 714.6 0 778 281 603 714.6 0 603 282 590 714.6 0 590 283 1073 714.6 0 1073 284 1001 714.6 0 1001 285 722 714.6 0 722 286 818 714.6 0 818 287 684 714.6 0 684 288 468 714.6 0 468 289 747 714.6 0 747 290 982 714.6 0 982 291 1005 714.6 0 1005 292 1152 714.6 0 1152 293 1169 714.6 0 1169 294 683 714.6 0 683 295 675 714.6 0 675 296 732 714.6 0 732 297 955 714.6 0 955 298 2184 714.6 0 2184 299 784 714.6 0 784 300 764 714.6 0 764 301 161 714.6 0 161 Finished in 9.00 s (40 us/read; 1.48 M reads/minute). === Summary === Total reads processed: 222,653 Reads with adapters: 62,021 (27.9%) Reads that were too short: 93 (0.0%) Reads written (passing filters): 61,928 (27.8%) Total basepairs processed: 45,451,242 bp Total written (filtered): 16,965,686 bp (37.3%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 62021 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 1 2 18 32 0.0 3 0 0 22 4 6 19 540 0.0 3 0 491 28 13 8 20 61089 0.0 4 59503 1345 175 49 17 21 173 0.0 4 45 122 1 4 1 22 16 0.0 4 2 1 9 0 4 23 47 0.0 4 0 0 0 37 10 24 4 0.0 4 0 0 0 0 4 26 1 0.0 4 0 0 0 0 1 29 2 0.0 4 0 0 0 0 2 32 1 0.0 4 0 0 0 0 1 35 1 0.0 4 0 0 0 0 1 37 1 0.0 4 0 0 0 0 1 38 2 0.0 4 0 0 0 0 2 40 1 0.0 4 0 0 0 0 1 41 1 0.0 4 0 0 0 0 1 45 1 0.0 4 0 0 0 1 46 1 0.0 4 0 0 0 0 1 48 2 0.0 4 0 0 0 1 1 49 4 0.0 4 0 0 0 0 4 50 1 0.0 4 0 0 0 0 1 51 3 0.0 4 0 0 0 0 3 58 1 0.0 4 0 0 0 1 59 1 0.0 4 0 0 0 0 1 60 3 0.0 4 0 0 0 1 2 61 1 0.0 4 0 0 0 0 1 64 1 0.0 4 0 0 0 0 1 65 1 0.0 4 0 0 0 0 1 66 3 0.0 4 0 0 0 0 3 67 1 0.0 4 0 0 0 0 1 68 1 0.0 4 0 0 0 0 1 70 2 0.0 4 0 0 0 0 2 71 2 0.0 4 0 0 0 0 2 72 3 0.0 4 0 0 0 0 3 73 2 0.0 4 0 0 0 0 2 74 3 0.0 4 0 0 0 0 3 77 1 0.0 4 0 0 0 1 78 2 0.0 4 0 0 0 0 2 81 1 0.0 4 0 0 0 0 1 82 1 0.0 4 0 0 0 0 1 85 1 0.0 4 0 0 0 0 1 87 2 0.0 4 0 0 0 0 2 90 1 0.0 4 0 0 0 0 1 96 1 0.0 4 0 0 0 0 1 98 2 0.0 4 0 0 0 0 2 99 2 0.0 4 0 0 0 1 1 101 1 0.0 4 0 0 0 0 1 102 1 0.0 4 0 0 0 0 1 103 1 0.0 4 0 0 0 0 1 109 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 1 117 1 0.0 4 0 0 0 0 1 118 1 0.0 4 0 0 0 0 1 119 1 0.0 4 0 0 0 0 1 120 1 0.0 4 0 0 0 0 1 121 1 0.0 4 0 0 0 0 1 122 2 0.0 4 0 0 0 0 2 123 1 0.0 4 0 0 0 0 1 127 5 0.0 4 0 0 0 0 5 128 1 0.0 4 0 0 0 0 1 129 1 0.0 4 0 0 0 0 1 130 1 0.0 4 0 0 0 1 131 1 0.0 4 0 0 0 0 1 132 1 0.0 4 0 0 0 0 1 134 1 0.0 4 0 0 0 0 1 135 1 0.0 4 0 0 0 0 1 136 1 0.0 4 0 0 0 0 1 138 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 1 0.0 4 0 0 0 0 1 144 2 0.0 4 0 0 0 0 2 145 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 2 158 1 0.0 4 0 0 0 0 1 159 1 0.0 4 0 0 0 0 1 160 1 0.0 4 0 0 0 0 1 165 2 0.0 4 0 0 0 0 2 166 1 0.0 4 0 0 0 0 1 169 1 0.0 4 0 0 0 0 1 177 4 0.0 4 0 0 0 0 4 178 2 0.0 4 0 0 0 0 2 180 1 0.0 4 0 0 0 0 1 192 1 0.0 4 0 0 0 0 1 197 1 0.0 4 0 0 0 0 1 206 1 0.0 4 0 0 0 0 1 208 1 0.0 4 0 0 0 0 1 228 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 2.18 s (35 us/read; 1.70 M reads/minute). === Summary === Total reads processed: 61,928 Reads with adapters: 6,203 (10.0%) Reads written (passing filters): 61,928 (100.0%) Total basepairs processed: 16,965,686 bp Total written (filtered): 16,895,785 bp (99.6%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 6203 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 2.8% C: 3.6% G: 92.5% T: 1.1% 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 22 967.6 0 22 4 1 241.9 0 1 9 1 0.2 0 0 1 10 11 0.1 1 0 11 11 6080 0.0 1 48 6032 12 76 0.0 1 0 76 13 3 0.0 1 0 3 152 3 0.0 1 1 2 210 3 0.0 1 1 2 265 3 0.0 1 3 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.