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 71.73 s (26 us/read; 2.27 M reads/minute). === Summary === Total reads processed: 2,708,680 Reads with adapters: 237,096 (8.8%) Reads that were too short: 80,212 (3.0%) Reads written (passing filters): 156,884 (5.8%) Total basepairs processed: 815,312,680 bp Total written (filtered): 29,433,342 bp (3.6%) === Adapter 1 === Sequence: AATGAA; Type: regular 5'; Length: 6; Trimmed: 237096 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 177 661.3 0 177 7 299 661.3 0 299 8 7829 661.3 0 7829 9 18453 661.3 0 18453 10 75 661.3 0 75 11 63 661.3 0 63 12 51 661.3 0 51 13 50 661.3 0 50 14 50 661.3 0 50 15 47 661.3 0 47 16 47 661.3 0 47 17 43 661.3 0 43 18 29 661.3 0 29 19 46 661.3 0 46 20 55 661.3 0 55 21 62 661.3 0 62 22 48 661.3 0 48 23 44 661.3 0 44 24 45 661.3 0 45 25 56 661.3 0 56 26 61 661.3 0 61 27 59 661.3 0 59 28 66 661.3 0 66 29 63 661.3 0 63 30 60 661.3 0 60 31 105 661.3 0 105 32 65 661.3 0 65 33 51 661.3 0 51 34 43 661.3 0 43 35 87 661.3 0 87 36 58 661.3 0 58 37 57 661.3 0 57 38 62 661.3 0 62 39 46 661.3 0 46 40 46 661.3 0 46 41 47 661.3 0 47 42 65 661.3 0 65 43 68 661.3 0 68 44 55 661.3 0 55 45 72 661.3 0 72 46 68 661.3 0 68 47 89 661.3 0 89 48 67 661.3 0 67 49 73 661.3 0 73 50 63 661.3 0 63 51 51 661.3 0 51 52 54 661.3 0 54 53 49 661.3 0 49 54 47 661.3 0 47 55 51 661.3 0 51 56 58 661.3 0 58 57 55 661.3 0 55 58 40 661.3 0 40 59 53 661.3 0 53 60 68 661.3 0 68 61 38 661.3 0 38 62 60 661.3 0 60 63 59 661.3 0 59 64 63 661.3 0 63 65 67 661.3 0 67 66 125 661.3 0 125 67 63 661.3 0 63 68 118 661.3 0 118 69 105 661.3 0 105 70 90 661.3 0 90 71 172 661.3 0 172 72 307 661.3 0 307 73 109 661.3 0 109 74 99 661.3 0 99 75 81 661.3 0 81 76 76 661.3 0 76 77 131 661.3 0 131 78 146 661.3 0 146 79 1804 661.3 0 1804 80 2811 661.3 0 2811 81 4110 661.3 0 4110 82 1528 661.3 0 1528 83 1202 661.3 0 1202 84 1937 661.3 0 1937 85 1019 661.3 0 1019 86 667 661.3 0 667 87 183 661.3 0 183 88 252 661.3 0 252 89 165 661.3 0 165 90 288 661.3 0 288 91 435 661.3 0 435 92 506 661.3 0 506 93 772 661.3 0 772 94 1350 661.3 0 1350 95 1561 661.3 0 1561 96 1644 661.3 0 1644 97 774 661.3 0 774 98 413 661.3 0 413 99 782 661.3 0 782 100 1925 661.3 0 1925 101 1459 661.3 0 1459 102 1285 661.3 0 1285 103 997 661.3 0 997 104 477 661.3 0 477 105 218 661.3 0 218 106 148 661.3 0 148 107 266 661.3 0 266 108 845 661.3 0 845 109 844 661.3 0 844 110 780 661.3 0 780 111 777 661.3 0 777 112 616 661.3 0 616 113 556 661.3 0 556 114 745 661.3 0 745 115 1081 661.3 0 1081 116 1564 661.3 0 1564 117 1258 661.3 0 1258 118 886 661.3 0 886 119 809 661.3 0 809 120 986 661.3 0 986 121 1087 661.3 0 1087 122 805 661.3 0 805 123 782 661.3 0 782 124 1076 661.3 0 1076 125 1448 661.3 0 1448 126 1045 661.3 0 1045 127 1124 661.3 0 1124 128 1003 661.3 0 1003 129 1004 661.3 0 1004 130 1353 661.3 0 1353 131 1545 661.3 0 1545 132 1069 661.3 0 1069 133 727 661.3 0 727 134 842 661.3 0 842 135 901 661.3 0 901 136 1430 661.3 0 1430 137 1812 661.3 0 1812 138 1421 661.3 0 1421 139 972 661.3 0 972 140 1077 661.3 0 1077 141 1386 661.3 0 1386 142 999 661.3 0 999 143 915 661.3 0 915 144 1023 661.3 0 1023 145 1163 661.3 0 1163 146 1173 661.3 0 1173 147 808 661.3 0 808 148 862 661.3 0 862 149 1028 661.3 0 1028 150 892 661.3 0 892 151 744 661.3 0 744 152 774 661.3 0 774 153 821 661.3 0 821 154 1059 661.3 0 1059 155 951 661.3 0 951 156 901 661.3 0 901 157 1061 661.3 0 1061 158 1273 661.3 0 1273 159 1496 661.3 0 1496 160 1914 661.3 0 1914 161 817 661.3 0 817 162 780 661.3 0 780 163 822 661.3 0 822 164 917 661.3 0 917 165 979 661.3 0 979 166 1120 661.3 0 1120 167 848 661.3 0 848 168 829 661.3 0 829 169 992 661.3 0 992 170 991 661.3 0 991 171 779 661.3 0 779 172 647 661.3 0 647 173 823 661.3 0 823 174 825 661.3 0 825 175 798 661.3 0 798 176 831 661.3 0 831 177 888 661.3 0 888 178 754 661.3 0 754 179 917 661.3 0 917 180 909 661.3 0 909 181 904 661.3 0 904 182 1946 661.3 0 1946 183 1567 661.3 0 1567 184 1690 661.3 0 1690 185 956 661.3 0 956 186 1112 661.3 0 1112 187 835 661.3 0 835 188 658 661.3 0 658 189 622 661.3 0 622 190 888 661.3 0 888 191 928 661.3 0 928 192 959 661.3 0 959 193 1177 661.3 0 1177 194 1013 661.3 0 1013 195 534 661.3 0 534 196 647 661.3 0 647 197 1347 661.3 0 1347 198 1702 661.3 0 1702 199 1112 661.3 0 1112 200 518 661.3 0 518 201 412 661.3 0 412 202 783 661.3 0 783 203 1249 661.3 0 1249 204 1101 661.3 0 1101 205 992 661.3 0 992 206 987 661.3 0 987 207 965 661.3 0 965 208 826 661.3 0 826 209 766 661.3 0 766 210 935 661.3 0 935 211 972 661.3 0 972 212 921 661.3 0 921 213 892 661.3 0 892 214 706 661.3 0 706 215 825 661.3 0 825 216 754 661.3 0 754 217 787 661.3 0 787 218 942 661.3 0 942 219 848 661.3 0 848 220 695 661.3 0 695 221 572 661.3 0 572 222 710 661.3 0 710 223 970 661.3 0 970 224 772 661.3 0 772 225 680 661.3 0 680 226 712 661.3 0 712 227 1011 661.3 0 1011 228 855 661.3 0 855 229 663 661.3 0 663 230 652 661.3 0 652 231 767 661.3 0 767 232 658 661.3 0 658 233 622 661.3 0 622 234 740 661.3 0 740 235 1029 661.3 0 1029 236 870 661.3 0 870 237 752 661.3 0 752 238 875 661.3 0 875 239 868 661.3 0 868 240 696 661.3 0 696 241 633 661.3 0 633 242 743 661.3 0 743 243 792 661.3 0 792 244 538 661.3 0 538 245 575 661.3 0 575 246 961 661.3 0 961 247 1210 661.3 0 1210 248 795 661.3 0 795 249 400 661.3 0 400 250 385 661.3 0 385 251 662 661.3 0 662 252 1329 661.3 0 1329 253 1305 661.3 0 1305 254 1705 661.3 0 1705 255 1615 661.3 0 1615 256 1264 661.3 0 1264 257 660 661.3 0 660 258 691 661.3 0 691 259 599 661.3 0 599 260 490 661.3 0 490 261 588 661.3 0 588 262 748 661.3 0 748 263 664 661.3 0 664 264 659 661.3 0 659 265 564 661.3 0 564 266 640 661.3 0 640 267 832 661.3 0 832 268 682 661.3 0 682 269 382 661.3 0 382 270 396 661.3 0 396 271 937 661.3 0 937 272 1129 661.3 0 1129 273 766 661.3 0 766 274 697 661.3 0 697 275 697 661.3 0 697 276 471 661.3 0 471 277 513 661.3 0 513 278 638 661.3 0 638 279 871 661.3 0 871 280 707 661.3 0 707 281 389 661.3 0 389 282 419 661.3 0 419 283 670 661.3 0 670 284 642 661.3 0 642 285 614 661.3 0 614 286 893 661.3 0 893 287 870 661.3 0 870 288 527 661.3 0 527 289 504 661.3 0 504 290 570 661.3 0 570 291 873 661.3 0 873 292 1318 661.3 0 1318 293 1055 661.3 0 1055 294 783 661.3 0 783 295 725 661.3 0 725 296 834 661.3 0 834 297 783 661.3 0 783 298 780 661.3 0 780 299 993 661.3 0 993 300 1001 661.3 0 1001 301 1616 661.3 0 1616 Finished in 6.04 s (38 us/read; 1.56 M reads/minute). === Summary === Total reads processed: 156,884 Reads with adapters: 19,223 (12.3%) Reads that were too short: 39 (0.0%) Reads written (passing filters): 19,184 (12.2%) Total basepairs processed: 29,433,342 bp Total written (filtered): 5,215,623 bp (17.7%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 19223 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 19 0.0 3 0 0 0 0 19 18 5 0.0 3 0 0 5 19 270 0.0 3 0 265 3 0 2 20 18806 0.0 4 18563 232 7 4 21 37 0.0 4 10 26 1 22 3 0.0 4 0 0 1 0 2 23 7 0.0 4 1 0 0 5 1 24 3 0.0 4 0 0 0 0 3 25 5 0.0 4 0 0 0 0 5 26 2 0.0 4 2 29 1 0.0 4 0 0 0 0 1 32 1 0.0 4 0 0 0 1 33 1 0.0 4 0 0 0 0 1 39 1 0.0 4 0 0 0 1 41 1 0.0 4 0 0 0 0 1 42 1 0.0 4 1 43 3 0.0 4 0 1 0 0 2 44 1 0.0 4 0 0 0 0 1 49 1 0.0 4 0 0 0 0 1 51 1 0.0 4 0 0 0 0 1 53 2 0.0 4 1 0 0 0 1 54 1 0.0 4 0 0 0 0 1 55 6 0.0 4 0 0 0 0 6 56 2 0.0 4 0 0 0 0 2 57 1 0.0 4 0 0 0 0 1 62 1 0.0 4 0 0 0 0 1 64 1 0.0 4 0 0 0 0 1 69 1 0.0 4 0 0 0 0 1 75 1 0.0 4 0 0 0 0 1 78 2 0.0 4 0 0 0 0 2 79 1 0.0 4 0 0 0 0 1 90 1 0.0 4 0 0 0 0 1 91 1 0.0 4 0 0 0 0 1 99 1 0.0 4 0 0 0 0 1 100 1 0.0 4 0 0 0 0 1 105 1 0.0 4 1 107 2 0.0 4 0 0 0 0 2 109 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 1 124 1 0.0 4 0 0 0 0 1 125 1 0.0 4 0 0 0 0 1 129 1 0.0 4 0 0 0 0 1 137 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 1 146 1 0.0 4 0 0 0 0 1 148 1 0.0 4 0 0 0 0 1 153 2 0.0 4 0 0 0 0 2 154 1 0.0 4 0 0 0 0 1 156 1 0.0 4 0 0 0 0 1 159 1 0.0 4 0 0 0 0 1 163 3 0.0 4 0 0 0 0 3 167 1 0.0 4 0 0 0 0 1 174 1 0.0 4 0 0 0 0 1 179 1 0.0 4 0 0 0 0 1 182 1 0.0 4 0 0 0 0 1 183 1 0.0 4 0 0 0 0 1 184 1 0.0 4 0 0 0 0 1 186 1 0.0 4 0 0 0 1 191 1 0.0 4 0 0 0 0 1 211 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 0.64 s (33 us/read; 1.80 M reads/minute). === Summary === Total reads processed: 19,184 Reads with adapters: 503 (2.6%) Reads written (passing filters): 19,184 (100.0%) Total basepairs processed: 5,215,623 bp Total written (filtered): 5,204,611 bp (99.8%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 503 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 4.4% C: 6.6% G: 88.3% T: 0.8% 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 2 299.8 0 2 4 4 74.9 0 4 6 1 4.7 0 1 9 93 0.1 0 4 89 10 204 0.0 1 6 198 11 170 0.0 1 1 169 12 1 0.0 1 0 1 13 1 0.0 1 0 1 150 6 0.0 1 0 6 151 1 0.0 1 0 1 218 2 0.0 1 1 1 256 1 0.0 1 1 257 1 0.0 1 1 260 2 0.0 1 2 263 12 0.0 1 10 2 267 1 0.0 1 0 1 269 1 0.0 1 0 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.