This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AACAAC -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 104.41 s (33 us/read; 1.83 M reads/minute). === Summary === Total reads processed: 3,184,960 Reads with adapters: 572,217 (18.0%) Reads that were too short: 243,756 (7.7%) Reads written (passing filters): 328,461 (10.3%) Total basepairs processed: 958,672,960 bp Total written (filtered): 61,049,995 bp (6.4%) === Adapter 1 === Sequence: AACAAC; Type: regular 5'; Length: 6; Trimmed: 572217 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 617 777.6 0 617 7 1257 777.6 0 1257 8 42461 777.6 0 42461 9 44 777.6 0 44 10 22 777.6 0 22 11 27 777.6 0 27 12 9 777.6 0 9 13 12 777.6 0 12 14 16 777.6 0 16 15 13 777.6 0 13 16 12 777.6 0 12 17 14 777.6 0 14 18 9 777.6 0 9 19 15 777.6 0 15 20 15 777.6 0 15 21 5 777.6 0 5 22 14 777.6 0 14 23 5 777.6 0 5 24 17 777.6 0 17 25 7 777.6 0 7 26 13 777.6 0 13 27 12 777.6 0 12 28 9 777.6 0 9 29 9 777.6 0 9 30 7 777.6 0 7 31 6 777.6 0 6 32 13 777.6 0 13 33 10 777.6 0 10 34 5 777.6 0 5 35 8 777.6 0 8 36 10 777.6 0 10 37 5 777.6 0 5 38 13 777.6 0 13 39 8 777.6 0 8 40 10 777.6 0 10 41 10 777.6 0 10 42 16 777.6 0 16 43 7 777.6 0 7 44 8 777.6 0 8 45 9 777.6 0 9 46 13 777.6 0 13 47 12 777.6 0 12 48 12 777.6 0 12 49 11 777.6 0 11 50 15 777.6 0 15 51 10 777.6 0 10 52 15 777.6 0 15 53 9 777.6 0 9 54 12 777.6 0 12 55 9 777.6 0 9 56 9 777.6 0 9 57 13 777.6 0 13 58 7 777.6 0 7 59 6 777.6 0 6 60 14 777.6 0 14 61 13 777.6 0 13 62 49 777.6 0 49 63 100 777.6 0 100 64 147 777.6 0 147 65 266 777.6 0 266 66 161 777.6 0 161 67 540 777.6 0 540 68 158 777.6 0 158 69 245 777.6 0 245 70 874 777.6 0 874 71 3852 777.6 0 3852 72 4110 777.6 0 4110 73 2215 777.6 0 2215 74 3767 777.6 0 3767 75 1257 777.6 0 1257 76 1462 777.6 0 1462 77 3379 777.6 0 3379 78 2585 777.6 0 2585 79 1843 777.6 0 1843 80 2616 777.6 0 2616 81 2308 777.6 0 2308 82 1376 777.6 0 1376 83 2501 777.6 0 2501 84 1417 777.6 0 1417 85 881 777.6 0 881 86 1068 777.6 0 1068 87 4020 777.6 0 4020 88 531 777.6 0 531 89 1059 777.6 0 1059 90 9476 777.6 0 9476 91 2025 777.6 0 2025 92 1294 777.6 0 1294 93 2142 777.6 0 2142 94 1547 777.6 0 1547 95 1009 777.6 0 1009 96 654 777.6 0 654 97 1277 777.6 0 1277 98 1290 777.6 0 1290 99 782 777.6 0 782 100 2331 777.6 0 2331 101 2516 777.6 0 2516 102 1403 777.6 0 1403 103 2939 777.6 0 2939 104 3868 777.6 0 3868 105 1572 777.6 0 1572 106 2297 777.6 0 2297 107 4006 777.6 0 4006 108 1234 777.6 0 1234 109 1625 777.6 0 1625 110 3428 777.6 0 3428 111 2915 777.6 0 2915 112 2947 777.6 0 2947 113 2853 777.6 0 2853 114 1826 777.6 0 1826 115 2276 777.6 0 2276 116 4306 777.6 0 4306 117 1656 777.6 0 1656 118 1798 777.6 0 1798 119 4149 777.6 0 4149 120 2667 777.6 0 2667 121 1897 777.6 0 1897 122 3855 777.6 0 3855 123 2563 777.6 0 2563 124 2502 777.6 0 2502 125 3327 777.6 0 3327 126 2444 777.6 0 2444 127 1864 777.6 0 1864 128 2456 777.6 0 2456 129 1804 777.6 0 1804 130 1689 777.6 0 1689 131 2576 777.6 0 2576 132 2190 777.6 0 2190 133 1715 777.6 0 1715 134 1657 777.6 0 1657 135 1683 777.6 0 1683 136 1483 777.6 0 1483 137 1560 777.6 0 1560 138 1636 777.6 0 1636 139 1411 777.6 0 1411 140 1322 777.6 0 1322 141 2088 777.6 0 2088 142 2790 777.6 0 2790 143 1603 777.6 0 1603 144 1799 777.6 0 1799 145 2313 777.6 0 2313 146 2054 777.6 0 2054 147 1828 777.6 0 1828 148 1594 777.6 0 1594 149 2306 777.6 0 2306 150 2678 777.6 0 2678 151 3050 777.6 0 3050 152 2495 777.6 0 2495 153 2643 777.6 0 2643 154 3451 777.6 0 3451 155 1951 777.6 0 1951 156 1507 777.6 0 1507 157 1860 777.6 0 1860 158 1839 777.6 0 1839 159 1834 777.6 0 1834 160 1590 777.6 0 1590 161 1722 777.6 0 1722 162 2020 777.6 0 2020 163 1915 777.6 0 1915 164 1495 777.6 0 1495 165 1371 777.6 0 1371 166 1245 777.6 0 1245 167 1461 777.6 0 1461 168 1397 777.6 0 1397 169 1588 777.6 0 1588 170 2752 777.6 0 2752 171 2644 777.6 0 2644 172 1637 777.6 0 1637 173 2316 777.6 0 2316 174 2348 777.6 0 2348 175 2032 777.6 0 2032 176 1918 777.6 0 1918 177 2319 777.6 0 2319 178 2732 777.6 0 2732 179 2791 777.6 0 2791 180 2193 777.6 0 2193 181 1870 777.6 0 1870 182 2098 777.6 0 2098 183 1815 777.6 0 1815 184 1390 777.6 0 1390 185 1217 777.6 0 1217 186 1324 777.6 0 1324 187 1744 777.6 0 1744 188 2102 777.6 0 2102 189 2054 777.6 0 2054 190 1991 777.6 0 1991 191 2322 777.6 0 2322 192 1914 777.6 0 1914 193 1233 777.6 0 1233 194 1980 777.6 0 1980 195 2396 777.6 0 2396 196 1424 777.6 0 1424 197 1629 777.6 0 1629 198 1977 777.6 0 1977 199 1944 777.6 0 1944 200 1951 777.6 0 1951 201 1429 777.6 0 1429 202 1384 777.6 0 1384 203 2022 777.6 0 2022 204 2003 777.6 0 2003 205 1166 777.6 0 1166 206 1129 777.6 0 1129 207 2159 777.6 0 2159 208 1186 777.6 0 1186 209 1085 777.6 0 1085 210 1938 777.6 0 1938 211 1366 777.6 0 1366 212 1359 777.6 0 1359 213 1703 777.6 0 1703 214 1899 777.6 0 1899 215 2115 777.6 0 2115 216 1403 777.6 0 1403 217 1994 777.6 0 1994 218 1351 777.6 0 1351 219 1686 777.6 0 1686 220 1858 777.6 0 1858 221 1620 777.6 0 1620 222 1234 777.6 0 1234 223 1728 777.6 0 1728 224 2301 777.6 0 2301 225 2105 777.6 0 2105 226 3010 777.6 0 3010 227 2093 777.6 0 2093 228 2977 777.6 0 2977 229 2773 777.6 0 2773 230 3172 777.6 0 3172 231 4983 777.6 0 4983 232 5084 777.6 0 5084 233 1752 777.6 0 1752 234 1506 777.6 0 1506 235 2514 777.6 0 2514 236 1448 777.6 0 1448 237 1234 777.6 0 1234 238 1720 777.6 0 1720 239 1942 777.6 0 1942 240 2057 777.6 0 2057 241 2134 777.6 0 2134 242 1621 777.6 0 1621 243 1886 777.6 0 1886 244 1576 777.6 0 1576 245 1365 777.6 0 1365 246 1068 777.6 0 1068 247 1253 777.6 0 1253 248 1395 777.6 0 1395 249 1787 777.6 0 1787 250 1891 777.6 0 1891 251 2348 777.6 0 2348 252 2630 777.6 0 2630 253 2029 777.6 0 2029 254 1778 777.6 0 1778 255 1182 777.6 0 1182 256 1041 777.6 0 1041 257 867 777.6 0 867 258 1168 777.6 0 1168 259 1203 777.6 0 1203 260 1869 777.6 0 1869 261 2595 777.6 0 2595 262 3299 777.6 0 3299 263 12098 777.6 0 12098 264 22082 777.6 0 22082 265 15959 777.6 0 15959 266 14852 777.6 0 14852 267 1818 777.6 0 1818 268 1676 777.6 0 1676 269 1295 777.6 0 1295 270 1541 777.6 0 1541 271 1793 777.6 0 1793 272 1684 777.6 0 1684 273 1629 777.6 0 1629 274 2220 777.6 0 2220 275 2859 777.6 0 2859 276 2084 777.6 0 2084 277 2285 777.6 0 2285 278 2056 777.6 0 2056 279 2121 777.6 0 2121 280 2065 777.6 0 2065 281 1902 777.6 0 1902 282 1499 777.6 0 1499 283 2636 777.6 0 2636 284 1973 777.6 0 1973 285 1555 777.6 0 1555 286 2227 777.6 0 2227 287 1605 777.6 0 1605 288 1330 777.6 0 1330 289 2041 777.6 0 2041 290 4150 777.6 0 4150 291 2363 777.6 0 2363 292 1952 777.6 0 1952 293 1625 777.6 0 1625 294 1427 777.6 0 1427 295 1168 777.6 0 1168 296 1510 777.6 0 1510 297 1031 777.6 0 1031 298 1094 777.6 0 1094 299 1088 777.6 0 1088 300 871 777.6 0 871 301 548 777.6 0 548 Finished in 14.81 s (45 us/read; 1.33 M reads/minute). === Summary === Total reads processed: 328,461 Reads with adapters: 44,342 (13.5%) Reads that were too short: 101 (0.0%) Reads written (passing filters): 44,241 (13.5%) Total basepairs processed: 61,049,995 bp Total written (filtered): 12,073,833 bp (19.8%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 44342 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 34 0.0 3 0 0 29 5 19 540 0.0 3 0 504 19 12 5 20 43243 0.0 4 41813 1251 142 25 12 21 117 0.0 4 27 85 4 1 22 17 0.0 4 1 4 5 0 7 23 246 0.0 4 188 6 3 33 16 24 5 0.0 4 1 1 0 0 3 25 2 0.0 4 0 0 0 0 2 26 1 0.0 4 0 0 0 1 27 1 0.0 4 0 0 0 0 1 28 1 0.0 4 0 0 0 0 1 30 2 0.0 4 0 0 0 1 1 32 1 0.0 4 0 0 0 0 1 36 1 0.0 4 0 0 0 0 1 37 3 0.0 4 0 0 0 0 3 39 1 0.0 4 0 0 0 0 1 40 3 0.0 4 0 0 0 1 2 41 1 0.0 4 0 0 0 0 1 43 1 0.0 4 0 0 0 0 1 44 1 0.0 4 0 0 0 0 1 45 1 0.0 4 0 0 0 0 1 48 1 0.0 4 0 0 0 0 1 50 2 0.0 4 0 0 0 0 2 51 2 0.0 4 0 0 0 0 2 52 1 0.0 4 0 0 0 0 1 53 2 0.0 4 0 0 0 0 2 56 2 0.0 4 0 0 0 0 2 58 1 0.0 4 0 0 0 0 1 59 2 0.0 4 0 0 0 0 2 60 1 0.0 4 0 0 0 0 1 61 3 0.0 4 0 0 0 0 3 64 1 0.0 4 0 0 0 0 1 66 2 0.0 4 0 0 0 0 2 67 1 0.0 4 0 0 0 0 1 71 2 0.0 4 0 0 0 0 2 72 1 0.0 4 0 0 0 0 1 74 3 0.0 4 0 0 0 0 3 75 2 0.0 4 0 0 0 1 1 77 1 0.0 4 0 0 0 0 1 80 3 0.0 4 0 0 0 0 3 81 2 0.0 4 0 0 0 0 2 82 2 0.0 4 0 0 0 0 2 83 1 0.0 4 0 0 0 0 1 84 2 0.0 4 0 0 0 0 2 87 2 0.0 4 0 0 0 1 1 92 3 0.0 4 0 0 0 0 3 93 1 0.0 4 0 0 0 0 1 94 1 0.0 4 0 0 0 0 1 95 1 0.0 4 0 0 0 0 1 96 2 0.0 4 0 0 0 0 2 100 1 0.0 4 0 0 0 0 1 101 2 0.0 4 0 0 0 0 2 102 1 0.0 4 0 0 0 0 1 105 2 0.0 4 0 0 0 0 2 110 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 2 0.0 4 0 0 0 0 2 118 3 0.0 4 0 0 0 0 3 119 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 3 0.0 4 0 0 0 0 3 126 1 0.0 4 0 0 0 0 1 127 1 0.0 4 0 0 0 0 1 131 1 0.0 4 0 0 0 0 1 132 2 0.0 4 0 0 0 0 2 133 1 0.0 4 0 0 0 0 1 134 2 0.0 4 0 0 0 0 2 135 1 0.0 4 0 0 0 0 1 137 1 0.0 4 0 0 0 0 1 139 2 0.0 4 0 0 0 0 2 141 1 0.0 4 0 0 0 0 1 142 1 0.0 4 0 0 0 0 1 145 1 0.0 4 0 0 0 0 1 146 1 0.0 4 0 0 0 0 1 151 1 0.0 4 0 0 0 0 1 153 2 0.0 4 0 0 0 0 2 155 1 0.0 4 0 0 0 0 1 159 2 0.0 4 0 0 0 0 2 160 2 0.0 4 0 0 0 0 2 165 1 0.0 4 0 0 0 0 1 172 1 0.0 4 0 0 0 0 1 174 2 0.0 4 0 0 0 0 2 176 1 0.0 4 0 0 0 0 1 178 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 1 186 1 0.0 4 0 0 0 0 1 188 1 0.0 4 0 0 0 0 1 189 2 0.0 4 0 0 0 0 2 190 1 0.0 4 0 0 0 0 1 194 1 0.0 4 0 0 0 0 1 197 1 0.0 4 0 0 0 0 1 198 1 0.0 4 0 0 0 0 1 200 1 0.0 4 0 0 0 0 1 201 1 0.0 4 0 0 0 0 1 203 1 0.0 4 0 0 0 0 1 206 1 0.0 4 0 0 0 1 207 1 0.0 4 0 0 0 0 1 208 2 0.0 4 0 0 0 0 2 218 1 0.0 4 0 0 0 0 1 221 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 2.03 s (46 us/read; 1.31 M reads/minute). === Summary === Total reads processed: 44,241 Reads with adapters: 9,641 (21.8%) Reads written (passing filters): 44,241 (100.0%) Total basepairs processed: 12,073,833 bp Total written (filtered): 11,920,895 bp (98.7%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 9641 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 3.6% C: 1.7% G: 93.1% T: 1.6% 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 1 691.3 0 1 4 7 172.8 0 7 6 2 10.8 0 2 9 3 0.2 0 1 2 10 72 0.0 1 5 67 11 9307 0.0 1 22 9285 12 4 0.0 1 0 4 13 1 0.0 1 0 1 15 1 0.0 1 0 1 151 18 0.0 1 16 2 153 1 0.0 1 0 1 170 1 0.0 1 1 190 1 0.0 1 0 1 208 3 0.0 1 3 209 210 0.0 1 189 21 210 7 0.0 1 5 2 211 1 0.0 1 1 269 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.