This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AGAGAC -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 172.78 s (32 us/read; 1.85 M reads/minute). === Summary === Total reads processed: 5,333,634 Reads with adapters: 436,753 (8.2%) Reads that were too short: 171,064 (3.2%) Reads written (passing filters): 265,689 (5.0%) Total basepairs processed: 1,605,423,834 bp Total written (filtered): 49,143,327 bp (3.1%) === Adapter 1 === Sequence: AGAGAC; Type: regular 5'; Length: 6; Trimmed: 436753 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 75 1302.2 0 75 7 2803 1302.2 0 2803 8 3260 1302.2 0 3260 9 6 1302.2 0 6 10 37 1302.2 0 37 11 76 1302.2 0 76 12 201 1302.2 0 201 13 55 1302.2 0 55 14 7 1302.2 0 7 15 4 1302.2 0 4 16 2 1302.2 0 2 17 5 1302.2 0 5 18 3 1302.2 0 3 19 2 1302.2 0 2 20 3 1302.2 0 3 21 5 1302.2 0 5 22 1 1302.2 0 1 23 4 1302.2 0 4 24 6 1302.2 0 6 25 1 1302.2 0 1 26 3 1302.2 0 3 27 4 1302.2 0 4 28 7 1302.2 0 7 29 3 1302.2 0 3 30 19 1302.2 0 19 31 7 1302.2 0 7 32 15 1302.2 0 15 33 9 1302.2 0 9 34 9 1302.2 0 9 35 8 1302.2 0 8 36 4 1302.2 0 4 37 4 1302.2 0 4 38 4 1302.2 0 4 39 61 1302.2 0 61 40 349 1302.2 0 349 41 102 1302.2 0 102 42 33 1302.2 0 33 43 19 1302.2 0 19 44 13 1302.2 0 13 45 18 1302.2 0 18 46 9 1302.2 0 9 47 10 1302.2 0 10 48 9 1302.2 0 9 49 31 1302.2 0 31 50 9 1302.2 0 9 51 28 1302.2 0 28 52 126 1302.2 0 126 53 19 1302.2 0 19 54 9 1302.2 0 9 55 33 1302.2 0 33 56 13 1302.2 0 13 57 116 1302.2 0 116 58 8 1302.2 0 8 59 25 1302.2 0 25 60 11 1302.2 0 11 61 60 1302.2 0 60 62 158 1302.2 0 158 63 27 1302.2 0 27 64 72 1302.2 0 72 65 37 1302.2 0 37 66 112 1302.2 0 112 67 119 1302.2 0 119 68 58 1302.2 0 58 69 54 1302.2 0 54 70 27 1302.2 0 27 71 43 1302.2 0 43 72 172 1302.2 0 172 73 153 1302.2 0 153 74 358 1302.2 0 358 75 703 1302.2 0 703 76 784 1302.2 0 784 77 2270 1302.2 0 2270 78 3887 1302.2 0 3887 79 60550 1302.2 0 60550 80 7094 1302.2 0 7094 81 40409 1302.2 0 40409 82 1102 1302.2 0 1102 83 911 1302.2 0 911 84 521 1302.2 0 521 85 299 1302.2 0 299 86 376 1302.2 0 376 87 268 1302.2 0 268 88 97 1302.2 0 97 89 271 1302.2 0 271 90 80 1302.2 0 80 91 587 1302.2 0 587 92 147 1302.2 0 147 93 414 1302.2 0 414 94 266 1302.2 0 266 95 836 1302.2 0 836 96 451 1302.2 0 451 97 350 1302.2 0 350 98 256 1302.2 0 256 99 579 1302.2 0 579 100 453 1302.2 0 453 101 1738 1302.2 0 1738 102 815 1302.2 0 815 103 706 1302.2 0 706 104 248 1302.2 0 248 105 443 1302.2 0 443 106 214 1302.2 0 214 107 299 1302.2 0 299 108 406 1302.2 0 406 109 263 1302.2 0 263 110 324 1302.2 0 324 111 576 1302.2 0 576 112 340 1302.2 0 340 113 498 1302.2 0 498 114 334 1302.2 0 334 115 741 1302.2 0 741 116 840 1302.2 0 840 117 3977 1302.2 0 3977 118 2330 1302.2 0 2330 119 1973 1302.2 0 1973 120 1409 1302.2 0 1409 121 1207 1302.2 0 1207 122 1344 1302.2 0 1344 123 1110 1302.2 0 1110 124 1023 1302.2 0 1023 125 1033 1302.2 0 1033 126 909 1302.2 0 909 127 647 1302.2 0 647 128 751 1302.2 0 751 129 1032 1302.2 0 1032 130 2231 1302.2 0 2231 131 1336 1302.2 0 1336 132 3049 1302.2 0 3049 133 953 1302.2 0 953 134 1214 1302.2 0 1214 135 1113 1302.2 0 1113 136 1360 1302.2 0 1360 137 1561 1302.2 0 1561 138 1598 1302.2 0 1598 139 1571 1302.2 0 1571 140 957 1302.2 0 957 141 1283 1302.2 0 1283 142 1007 1302.2 0 1007 143 956 1302.2 0 956 144 925 1302.2 0 925 145 1062 1302.2 0 1062 146 1855 1302.2 0 1855 147 1087 1302.2 0 1087 148 1359 1302.2 0 1359 149 834 1302.2 0 834 150 1099 1302.2 0 1099 151 1306 1302.2 0 1306 152 1845 1302.2 0 1845 153 1280 1302.2 0 1280 154 1123 1302.2 0 1123 155 1143 1302.2 0 1143 156 1697 1302.2 0 1697 157 1613 1302.2 0 1613 158 1802 1302.2 0 1802 159 1906 1302.2 0 1906 160 1321 1302.2 0 1321 161 1863 1302.2 0 1863 162 1246 1302.2 0 1246 163 1732 1302.2 0 1732 164 1101 1302.2 0 1101 165 1469 1302.2 0 1469 166 1382 1302.2 0 1382 167 1596 1302.2 0 1596 168 1756 1302.2 0 1756 169 1264 1302.2 0 1264 170 1933 1302.2 0 1933 171 1212 1302.2 0 1212 172 2268 1302.2 0 2268 173 841 1302.2 0 841 174 1714 1302.2 0 1714 175 951 1302.2 0 951 176 1426 1302.2 0 1426 177 1135 1302.2 0 1135 178 1276 1302.2 0 1276 179 1631 1302.2 0 1631 180 1346 1302.2 0 1346 181 1839 1302.2 0 1839 182 1441 1302.2 0 1441 183 1531 1302.2 0 1531 184 1529 1302.2 0 1529 185 1450 1302.2 0 1450 186 1843 1302.2 0 1843 187 1557 1302.2 0 1557 188 2632 1302.2 0 2632 189 1144 1302.2 0 1144 190 1156 1302.2 0 1156 191 1010 1302.2 0 1010 192 1414 1302.2 0 1414 193 1068 1302.2 0 1068 194 1441 1302.2 0 1441 195 1139 1302.2 0 1139 196 1449 1302.2 0 1449 197 1202 1302.2 0 1202 198 2479 1302.2 0 2479 199 2357 1302.2 0 2357 200 1736 1302.2 0 1736 201 1040 1302.2 0 1040 202 903 1302.2 0 903 203 1164 1302.2 0 1164 204 1562 1302.2 0 1562 205 1637 1302.2 0 1637 206 1863 1302.2 0 1863 207 1293 1302.2 0 1293 208 1374 1302.2 0 1374 209 1137 1302.2 0 1137 210 1356 1302.2 0 1356 211 1528 1302.2 0 1528 212 1786 1302.2 0 1786 213 2269 1302.2 0 2269 214 2180 1302.2 0 2180 215 1768 1302.2 0 1768 216 1949 1302.2 0 1949 217 1875 1302.2 0 1875 218 1759 1302.2 0 1759 219 1920 1302.2 0 1920 220 1833 1302.2 0 1833 221 1852 1302.2 0 1852 222 2762 1302.2 0 2762 223 1650 1302.2 0 1650 224 2248 1302.2 0 2248 225 1655 1302.2 0 1655 226 1405 1302.2 0 1405 227 1490 1302.2 0 1490 228 1451 1302.2 0 1451 229 1311 1302.2 0 1311 230 1203 1302.2 0 1203 231 1242 1302.2 0 1242 232 1572 1302.2 0 1572 233 1395 1302.2 0 1395 234 1450 1302.2 0 1450 235 1500 1302.2 0 1500 236 1706 1302.2 0 1706 237 1390 1302.2 0 1390 238 1696 1302.2 0 1696 239 1660 1302.2 0 1660 240 1885 1302.2 0 1885 241 1991 1302.2 0 1991 242 1810 1302.2 0 1810 243 1985 1302.2 0 1985 244 1521 1302.2 0 1521 245 1601 1302.2 0 1601 246 957 1302.2 0 957 247 1279 1302.2 0 1279 248 1291 1302.2 0 1291 249 1711 1302.2 0 1711 250 1271 1302.2 0 1271 251 2349 1302.2 0 2349 252 1971 1302.2 0 1971 253 2152 1302.2 0 2152 254 1428 1302.2 0 1428 255 1239 1302.2 0 1239 256 1139 1302.2 0 1139 257 1158 1302.2 0 1158 258 1198 1302.2 0 1198 259 1192 1302.2 0 1192 260 1149 1302.2 0 1149 261 1471 1302.2 0 1471 262 1953 1302.2 0 1953 263 2077 1302.2 0 2077 264 1930 1302.2 0 1930 265 1553 1302.2 0 1553 266 1236 1302.2 0 1236 267 1575 1302.2 0 1575 268 1328 1302.2 0 1328 269 1863 1302.2 0 1863 270 1325 1302.2 0 1325 271 2106 1302.2 0 2106 272 2055 1302.2 0 2055 273 2058 1302.2 0 2058 274 1606 1302.2 0 1606 275 1988 1302.2 0 1988 276 1874 1302.2 0 1874 277 1912 1302.2 0 1912 278 1827 1302.2 0 1827 279 1498 1302.2 0 1498 280 2293 1302.2 0 2293 281 1503 1302.2 0 1503 282 1765 1302.2 0 1765 283 1299 1302.2 0 1299 284 1608 1302.2 0 1608 285 1355 1302.2 0 1355 286 1230 1302.2 0 1230 287 1282 1302.2 0 1282 288 1500 1302.2 0 1500 289 2208 1302.2 0 2208 290 3347 1302.2 0 3347 291 3391 1302.2 0 3391 292 2762 1302.2 0 2762 293 2204 1302.2 0 2204 294 1633 1302.2 0 1633 295 1821 1302.2 0 1821 296 1468 1302.2 0 1468 297 2436 1302.2 0 2436 298 2831 1302.2 0 2831 299 2688 1302.2 0 2688 300 2434 1302.2 0 2434 301 700 1302.2 0 700 Finished in 12.37 s (47 us/read; 1.29 M reads/minute). === Summary === Total reads processed: 265,689 Reads with adapters: 4,246 (1.6%) Reads that were too short: 40 (0.0%) Reads written (passing filters): 4,206 (1.6%) Total basepairs processed: 49,143,327 bp Total written (filtered): 1,145,044 bp (2.3%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 4246 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 18 2 0.0 3 0 0 0 1 1 19 37 0.0 3 0 35 1 0 1 20 3236 0.0 4 3188 41 2 1 4 21 23 0.0 4 2 19 1 0 1 22 890 0.0 4 876 11 2 0 1 24 1 0.0 4 0 0 0 0 1 25 1 0.0 4 0 0 0 0 1 29 2 0.0 4 0 0 0 0 2 30 1 0.0 4 0 0 0 0 1 34 1 0.0 4 0 0 0 0 1 35 1 0.0 4 0 0 0 0 1 41 1 0.0 4 0 0 0 0 1 42 1 0.0 4 0 0 0 0 1 44 5 0.0 4 0 0 0 0 5 57 3 0.0 4 0 0 0 2 1 60 1 0.0 4 0 0 0 0 1 71 1 0.0 4 0 0 0 0 1 72 1 0.0 4 0 0 0 0 1 75 1 0.0 4 0 0 0 0 1 76 1 0.0 4 0 0 0 0 1 77 1 0.0 4 0 0 0 0 1 80 1 0.0 4 0 0 0 0 1 82 1 0.0 4 0 0 0 0 1 83 1 0.0 4 0 0 0 1 92 1 0.0 4 0 0 0 0 1 97 1 0.0 4 0 0 0 0 1 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 1 108 1 0.0 4 0 0 0 0 1 110 3 0.0 4 0 0 0 0 3 112 1 0.0 4 0 0 0 1 114 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 2 0.0 4 0 0 0 0 2 122 2 0.0 4 0 0 0 0 2 127 1 0.0 4 0 0 0 1 130 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 1 137 1 0.0 4 0 0 0 0 1 142 1 0.0 4 0 0 0 0 1 151 1 0.0 4 1 152 2 0.0 4 0 0 0 0 2 154 1 0.0 4 0 0 0 0 1 155 1 0.0 4 0 0 0 0 1 161 1 0.0 4 0 0 0 0 1 215 1 0.0 4 0 0 0 0 1 216 1 0.0 4 0 0 0 0 1 250 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 0.18 s (43 us/read; 1.40 M reads/minute). === Summary === Total reads processed: 4,206 Reads with adapters: 182 (4.3%) Reads written (passing filters): 4,206 (100.0%) Total basepairs processed: 1,145,044 bp Total written (filtered): 1,121,366 bp (97.9%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 182 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 46.7% C: 1.6% G: 51.1% T: 0.5% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 4 1 16.4 0 1 6 1 1.0 0 1 9 2 0.0 0 0 2 10 5 0.0 1 0 5 11 85 0.0 1 0 85 256 1 0.0 1 1 257 68 0.0 1 62 6 258 5 0.0 1 5 259 12 0.0 1 11 1 263 1 0.0 1 1 272 1 0.0 1 1