This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AGAAGA -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 94.01 s (30 us/read; 1.98 M reads/minute). === Summary === Total reads processed: 3,094,653 Reads with adapters: 563,067 (18.2%) Reads that were too short: 82,308 (2.7%) Reads written (passing filters): 480,759 (15.5%) Total basepairs processed: 931,490,553 bp Total written (filtered): 79,440,324 bp (8.5%) === Adapter 1 === Sequence: AGAAGA; Type: regular 5'; Length: 6; Trimmed: 563067 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 193 755.5 0 193 7 125 755.5 0 125 8 2482 755.5 0 2482 9 73 755.5 0 73 10 101 755.5 0 101 11 32 755.5 0 32 12 31 755.5 0 31 13 29 755.5 0 29 14 24 755.5 0 24 15 43 755.5 0 43 16 36 755.5 0 36 17 49 755.5 0 49 18 577 755.5 0 577 19 470 755.5 0 470 20 505 755.5 0 505 21 21 755.5 0 21 22 19 755.5 0 19 23 33 755.5 0 33 24 36 755.5 0 36 25 51 755.5 0 51 26 40 755.5 0 40 27 109 755.5 0 109 28 45 755.5 0 45 29 27 755.5 0 27 30 52 755.5 0 52 31 19 755.5 0 19 32 25 755.5 0 25 33 36 755.5 0 36 34 25 755.5 0 25 35 29 755.5 0 29 36 29 755.5 0 29 37 30 755.5 0 30 38 23 755.5 0 23 39 29 755.5 0 29 40 23 755.5 0 23 41 25 755.5 0 25 42 35 755.5 0 35 43 18 755.5 0 18 44 27 755.5 0 27 45 23 755.5 0 23 46 31 755.5 0 31 47 20 755.5 0 20 48 33 755.5 0 33 49 23 755.5 0 23 50 25 755.5 0 25 51 43 755.5 0 43 52 21 755.5 0 21 53 72 755.5 0 72 54 48 755.5 0 48 55 37 755.5 0 37 56 45 755.5 0 45 57 127 755.5 0 127 58 26 755.5 0 26 59 100 755.5 0 100 60 29 755.5 0 29 61 99 755.5 0 99 62 38 755.5 0 38 63 50 755.5 0 50 64 52 755.5 0 52 65 87 755.5 0 87 66 39 755.5 0 39 67 49 755.5 0 49 68 184 755.5 0 184 69 116 755.5 0 116 70 134 755.5 0 134 71 77 755.5 0 77 72 439 755.5 0 439 73 224 755.5 0 224 74 531 755.5 0 531 75 1775 755.5 0 1775 76 241 755.5 0 241 77 667 755.5 0 667 78 1305 755.5 0 1305 79 1122 755.5 0 1122 80 1764 755.5 0 1764 81 2757 755.5 0 2757 82 1582 755.5 0 1582 83 4996 755.5 0 4996 84 5097 755.5 0 5097 85 6213 755.5 0 6213 86 5035 755.5 0 5035 87 1897 755.5 0 1897 88 3854 755.5 0 3854 89 332 755.5 0 332 90 1285 755.5 0 1285 91 2135 755.5 0 2135 92 577 755.5 0 577 93 1485 755.5 0 1485 94 1468 755.5 0 1468 95 981 755.5 0 981 96 739 755.5 0 739 97 676 755.5 0 676 98 1142 755.5 0 1142 99 575 755.5 0 575 100 454 755.5 0 454 101 873 755.5 0 873 102 716 755.5 0 716 103 432 755.5 0 432 104 773 755.5 0 773 105 1115 755.5 0 1115 106 241 755.5 0 241 107 552 755.5 0 552 108 1281 755.5 0 1281 109 403 755.5 0 403 110 579 755.5 0 579 111 1198 755.5 0 1198 112 804 755.5 0 804 113 1096 755.5 0 1096 114 1831 755.5 0 1831 115 1084 755.5 0 1084 116 1608 755.5 0 1608 117 2686 755.5 0 2686 118 8773 755.5 0 8773 119 11263 755.5 0 11263 120 23351 755.5 0 23351 121 2091 755.5 0 2091 122 2383 755.5 0 2383 123 2947 755.5 0 2947 124 1071 755.5 0 1071 125 1171 755.5 0 1171 126 1692 755.5 0 1692 127 1063 755.5 0 1063 128 1269 755.5 0 1269 129 1884 755.5 0 1884 130 1148 755.5 0 1148 131 1343 755.5 0 1343 132 2450 755.5 0 2450 133 1548 755.5 0 1548 134 1727 755.5 0 1727 135 1844 755.5 0 1844 136 2125 755.5 0 2125 137 2057 755.5 0 2057 138 2534 755.5 0 2534 139 14993 755.5 0 14993 140 12058 755.5 0 12058 141 47247 755.5 0 47247 142 6756 755.5 0 6756 143 3052 755.5 0 3052 144 2544 755.5 0 2544 145 13529 755.5 0 13529 146 20571 755.5 0 20571 147 129210 755.5 0 129210 148 16362 755.5 0 16362 149 2325 755.5 0 2325 150 2092 755.5 0 2092 151 1812 755.5 0 1812 152 1394 755.5 0 1394 153 1125 755.5 0 1125 154 1149 755.5 0 1149 155 1972 755.5 0 1972 156 978 755.5 0 978 157 837 755.5 0 837 158 1235 755.5 0 1235 159 986 755.5 0 986 160 1025 755.5 0 1025 161 816 755.5 0 816 162 798 755.5 0 798 163 836 755.5 0 836 164 1081 755.5 0 1081 165 2319 755.5 0 2319 166 3692 755.5 0 3692 167 3902 755.5 0 3902 168 1011 755.5 0 1011 169 1266 755.5 0 1266 170 698 755.5 0 698 171 1039 755.5 0 1039 172 1145 755.5 0 1145 173 730 755.5 0 730 174 1015 755.5 0 1015 175 1023 755.5 0 1023 176 1050 755.5 0 1050 177 818 755.5 0 818 178 975 755.5 0 975 179 728 755.5 0 728 180 828 755.5 0 828 181 832 755.5 0 832 182 718 755.5 0 718 183 817 755.5 0 817 184 761 755.5 0 761 185 964 755.5 0 964 186 846 755.5 0 846 187 915 755.5 0 915 188 949 755.5 0 949 189 915 755.5 0 915 190 988 755.5 0 988 191 798 755.5 0 798 192 873 755.5 0 873 193 1324 755.5 0 1324 194 1448 755.5 0 1448 195 944 755.5 0 944 196 1396 755.5 0 1396 197 964 755.5 0 964 198 870 755.5 0 870 199 858 755.5 0 858 200 916 755.5 0 916 201 1083 755.5 0 1083 202 793 755.5 0 793 203 564 755.5 0 564 204 707 755.5 0 707 205 962 755.5 0 962 206 595 755.5 0 595 207 698 755.5 0 698 208 731 755.5 0 731 209 668 755.5 0 668 210 937 755.5 0 937 211 543 755.5 0 543 212 774 755.5 0 774 213 967 755.5 0 967 214 610 755.5 0 610 215 720 755.5 0 720 216 799 755.5 0 799 217 885 755.5 0 885 218 909 755.5 0 909 219 1032 755.5 0 1032 220 644 755.5 0 644 221 760 755.5 0 760 222 610 755.5 0 610 223 498 755.5 0 498 224 542 755.5 0 542 225 472 755.5 0 472 226 438 755.5 0 438 227 526 755.5 0 526 228 457 755.5 0 457 229 729 755.5 0 729 230 630 755.5 0 630 231 667 755.5 0 667 232 801 755.5 0 801 233 913 755.5 0 913 234 625 755.5 0 625 235 700 755.5 0 700 236 955 755.5 0 955 237 848 755.5 0 848 238 927 755.5 0 927 239 1107 755.5 0 1107 240 1004 755.5 0 1004 241 840 755.5 0 840 242 772 755.5 0 772 243 477 755.5 0 477 244 577 755.5 0 577 245 574 755.5 0 574 246 2490 755.5 0 2490 247 2119 755.5 0 2119 248 6747 755.5 0 6747 249 958 755.5 0 958 250 646 755.5 0 646 251 604 755.5 0 604 252 290 755.5 0 290 253 225 755.5 0 225 254 259 755.5 0 259 255 206 755.5 0 206 256 253 755.5 0 253 257 404 755.5 0 404 258 558 755.5 0 558 259 707 755.5 0 707 260 832 755.5 0 832 261 793 755.5 0 793 262 759 755.5 0 759 263 659 755.5 0 659 264 406 755.5 0 406 265 319 755.5 0 319 266 423 755.5 0 423 267 379 755.5 0 379 268 461 755.5 0 461 269 603 755.5 0 603 270 564 755.5 0 564 271 767 755.5 0 767 272 756 755.5 0 756 273 692 755.5 0 692 274 1160 755.5 0 1160 275 733 755.5 0 733 276 666 755.5 0 666 277 562 755.5 0 562 278 479 755.5 0 479 279 564 755.5 0 564 280 530 755.5 0 530 281 494 755.5 0 494 282 471 755.5 0 471 283 446 755.5 0 446 284 633 755.5 0 633 285 427 755.5 0 427 286 503 755.5 0 503 287 750 755.5 0 750 288 836 755.5 0 836 289 840 755.5 0 840 290 852 755.5 0 852 291 1015 755.5 0 1015 292 704 755.5 0 704 293 694 755.5 0 694 294 876 755.5 0 876 295 841 755.5 0 841 296 901 755.5 0 901 297 892 755.5 0 892 298 1506 755.5 0 1506 299 1108 755.5 0 1108 300 1363 755.5 0 1363 301 4596 755.5 0 4596 Finished in 19.59 s (41 us/read; 1.47 M reads/minute). === Summary === Total reads processed: 480,759 Reads with adapters: 3,133 (0.7%) Reads that were too short: 158 (0.0%) Reads written (passing filters): 2,975 (0.6%) Total basepairs processed: 79,440,324 bp Total written (filtered): 771,208 bp (1.0%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 3133 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 19 35 0.0 3 0 27 2 2 4 20 2433 0.0 4 2352 70 8 0 3 21 13 0.0 4 5 8 22 5 0.0 4 1 2 0 1 1 23 168 0.0 4 159 1 0 7 1 24 1 0.0 4 0 0 0 0 1 25 1 0.0 4 1 26 1 0.0 4 0 0 0 1 31 1 0.0 4 0 0 0 0 1 35 1 0.0 4 0 0 0 0 1 36 2 0.0 4 0 0 0 1 1 39 1 0.0 4 0 0 0 0 1 40 178 0.0 4 0 0 0 1 177 41 23 0.0 4 0 0 0 0 23 42 5 0.0 4 0 0 0 0 5 43 1 0.0 4 0 0 0 0 1 44 1 0.0 4 0 0 0 0 1 48 3 0.0 4 0 0 0 0 3 49 1 0.0 4 0 0 0 0 1 50 75 0.0 4 0 0 0 0 75 51 1 0.0 4 0 0 0 0 1 53 2 0.0 4 0 0 0 0 2 55 1 0.0 4 0 0 0 0 1 56 2 0.0 4 0 0 0 0 2 58 5 0.0 4 0 0 0 0 5 62 1 0.0 4 0 0 0 0 1 64 1 0.0 4 0 0 0 1 67 1 0.0 4 0 0 0 0 1 69 1 0.0 4 0 0 0 0 1 73 1 0.0 4 0 0 0 0 1 74 2 0.0 4 0 0 0 0 2 76 10 0.0 4 0 0 0 0 10 77 1 0.0 4 0 0 0 0 1 78 4 0.0 4 0 0 0 1 3 79 2 0.0 4 0 0 0 0 2 81 1 0.0 4 0 0 0 0 1 85 1 0.0 4 0 0 0 0 1 86 2 0.0 4 0 0 0 0 2 88 2 0.0 4 0 0 0 0 2 89 1 0.0 4 0 0 0 0 1 90 2 0.0 4 0 0 0 0 2 92 1 0.0 4 0 0 0 0 1 93 2 0.0 4 0 0 0 0 2 96 1 0.0 4 0 0 0 1 97 2 0.0 4 0 0 0 0 2 98 1 0.0 4 0 0 0 0 1 99 1 0.0 4 0 0 0 0 1 101 1 0.0 4 0 0 0 0 1 104 2 0.0 4 0 0 0 0 2 106 1 0.0 4 0 0 0 0 1 108 6 0.0 4 0 0 0 0 6 114 1 0.0 4 0 0 0 0 1 116 2 0.0 4 0 0 0 0 2 119 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 2 124 6 0.0 4 0 0 0 0 6 125 4 0.0 4 0 0 0 0 4 126 14 0.0 4 0 0 0 0 14 127 1 0.0 4 0 0 0 0 1 130 2 0.0 4 0 0 0 0 2 132 1 0.0 4 0 0 0 0 1 133 2 0.0 4 0 0 0 0 2 136 1 0.0 4 0 0 0 0 1 143 3 0.0 4 0 0 0 0 3 144 2 0.0 4 0 0 0 0 2 145 3 0.0 4 0 0 0 0 3 146 6 0.0 4 0 0 0 1 5 147 4 0.0 4 0 0 0 0 4 148 1 0.0 4 0 0 0 0 1 151 1 0.0 4 0 0 0 0 1 152 3 0.0 4 0 0 0 0 3 153 3 0.0 4 0 0 0 0 3 154 2 0.0 4 0 0 0 0 2 155 6 0.0 4 0 0 0 0 6 156 6 0.0 4 0 0 0 0 6 157 5 0.0 4 0 0 0 0 5 158 3 0.0 4 0 0 0 0 3 159 5 0.0 4 0 0 0 0 5 162 1 0.0 4 0 0 0 0 1 166 2 0.0 4 0 0 0 0 2 167 1 0.0 4 0 0 0 0 1 170 2 0.0 4 0 0 0 1 1 171 1 0.0 4 0 0 0 0 1 176 1 0.0 4 0 0 0 0 1 177 4 0.0 4 0 0 0 0 4 178 4 0.0 4 0 0 0 0 4 179 3 0.0 4 0 0 0 0 3 180 4 0.0 4 0 0 0 0 4 188 1 0.0 4 0 0 0 0 1 192 1 0.0 4 0 0 0 0 1 196 1 0.0 4 0 0 0 0 1 199 1 0.0 4 0 0 0 0 1 204 1 0.0 4 0 0 0 0 1 206 1 0.0 4 0 0 0 0 1 207 1 0.0 4 0 0 0 0 1 216 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 0.11 s (37 us/read; 1.62 M reads/minute). === Summary === Total reads processed: 2,975 Reads with adapters: 538 (18.1%) Reads written (passing filters): 2,975 (100.0%) Total basepairs processed: 771,208 bp Total written (filtered): 747,659 bp (96.9%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 538 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.7% C: 13.4% G: 83.3% T: 1.7% 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 46.5 0 2 9 2 0.0 0 0 2 10 5 0.0 1 0 5 11 459 0.0 1 1 458 259 1 0.0 1 1 260 1 0.0 1 1 263 61 0.0 1 56 5 264 3 0.0 1 3 268 4 0.0 1 3 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.