This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CGACGT -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 91.47 s (30 us/read; 2.03 M reads/minute). === Summary === Total reads processed: 3,094,653 Reads with adapters: 28,989 (0.9%) Reads that were too short: 16,237 (0.5%) Reads written (passing filters): 12,752 (0.4%) Total basepairs processed: 931,490,553 bp Total written (filtered): 3,227,026 bp (0.3%) === Adapter 1 === Sequence: CGACGT; Type: regular 5'; Length: 6; Trimmed: 28989 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 223 755.5 0 223 7 7288 755.5 0 7288 8 18 755.5 0 18 9 25 755.5 0 25 10 14 755.5 0 14 11 10 755.5 0 10 12 11 755.5 0 11 13 13 755.5 0 13 14 18 755.5 0 18 15 12 755.5 0 12 16 14 755.5 0 14 17 8 755.5 0 8 18 10 755.5 0 10 19 18 755.5 0 18 20 11 755.5 0 11 21 10 755.5 0 10 22 19 755.5 0 19 23 10 755.5 0 10 24 16 755.5 0 16 25 4 755.5 0 4 26 10 755.5 0 10 27 8 755.5 0 8 28 17 755.5 0 17 29 16 755.5 0 16 30 12 755.5 0 12 31 17 755.5 0 17 32 17 755.5 0 17 33 7 755.5 0 7 34 22 755.5 0 22 35 17 755.5 0 17 36 15 755.5 0 15 37 8 755.5 0 8 38 15 755.5 0 15 39 13 755.5 0 13 40 15 755.5 0 15 41 12 755.5 0 12 42 10 755.5 0 10 43 17 755.5 0 17 44 23 755.5 0 23 45 21 755.5 0 21 46 12 755.5 0 12 47 16 755.5 0 16 48 13 755.5 0 13 49 17 755.5 0 17 50 11 755.5 0 11 51 26 755.5 0 26 52 18 755.5 0 18 53 10 755.5 0 10 54 25 755.5 0 25 55 16 755.5 0 16 56 12 755.5 0 12 57 19 755.5 0 19 58 12 755.5 0 12 59 16 755.5 0 16 60 16 755.5 0 16 61 30 755.5 0 30 62 12 755.5 0 12 63 19 755.5 0 19 64 19 755.5 0 19 65 20 755.5 0 20 66 26 755.5 0 26 67 127 755.5 0 127 68 130 755.5 0 130 69 1176 755.5 0 1176 70 11 755.5 0 11 71 14 755.5 0 14 72 55 755.5 0 55 73 10 755.5 0 10 74 13 755.5 0 13 75 6 755.5 0 6 76 7 755.5 0 7 77 6 755.5 0 6 78 9 755.5 0 9 79 10 755.5 0 10 80 10 755.5 0 10 81 14 755.5 0 14 82 9 755.5 0 9 83 6 755.5 0 6 84 9 755.5 0 9 85 11 755.5 0 11 86 12 755.5 0 12 87 16 755.5 0 16 88 13 755.5 0 13 89 8 755.5 0 8 90 5 755.5 0 5 91 8 755.5 0 8 92 110 755.5 0 110 93 9 755.5 0 9 94 10 755.5 0 10 95 10 755.5 0 10 96 7 755.5 0 7 97 11 755.5 0 11 98 91 755.5 0 91 99 28 755.5 0 28 100 35 755.5 0 35 101 12 755.5 0 12 102 7 755.5 0 7 103 9 755.5 0 9 104 3 755.5 0 3 105 9 755.5 0 9 106 11 755.5 0 11 107 7 755.5 0 7 108 5 755.5 0 5 109 5 755.5 0 5 110 6 755.5 0 6 111 8 755.5 0 8 112 2 755.5 0 2 113 7 755.5 0 7 114 7 755.5 0 7 115 8 755.5 0 8 116 7 755.5 0 7 117 17 755.5 0 17 118 8 755.5 0 8 119 16 755.5 0 16 120 26 755.5 0 26 121 20 755.5 0 20 122 13 755.5 0 13 123 25 755.5 0 25 124 11 755.5 0 11 125 9 755.5 0 9 126 6 755.5 0 6 127 5 755.5 0 5 128 8 755.5 0 8 129 12 755.5 0 12 130 12 755.5 0 12 131 9 755.5 0 9 132 111 755.5 0 111 133 33 755.5 0 33 134 84 755.5 0 84 135 14 755.5 0 14 136 17 755.5 0 17 137 9 755.5 0 9 138 14 755.5 0 14 139 18 755.5 0 18 140 10 755.5 0 10 141 7 755.5 0 7 142 8 755.5 0 8 143 10 755.5 0 10 144 10 755.5 0 10 145 14 755.5 0 14 146 13 755.5 0 13 147 6 755.5 0 6 148 16 755.5 0 16 149 13 755.5 0 13 150 13 755.5 0 13 151 8 755.5 0 8 152 18 755.5 0 18 153 22 755.5 0 22 154 45 755.5 0 45 155 32 755.5 0 32 156 14 755.5 0 14 157 15 755.5 0 15 158 30 755.5 0 30 159 32 755.5 0 32 160 325 755.5 0 325 161 20 755.5 0 20 162 10 755.5 0 10 163 21 755.5 0 21 164 19 755.5 0 19 165 42 755.5 0 42 166 29 755.5 0 29 167 19 755.5 0 19 168 13 755.5 0 13 169 9 755.5 0 9 170 5 755.5 0 5 171 14 755.5 0 14 172 36 755.5 0 36 173 13 755.5 0 13 174 20 755.5 0 20 175 17 755.5 0 17 176 12 755.5 0 12 177 9 755.5 0 9 178 24 755.5 0 24 179 20 755.5 0 20 180 42 755.5 0 42 181 19 755.5 0 19 182 18 755.5 0 18 183 38 755.5 0 38 184 114 755.5 0 114 185 59 755.5 0 59 186 21 755.5 0 21 187 9 755.5 0 9 188 14 755.5 0 14 189 27 755.5 0 27 190 20 755.5 0 20 191 33 755.5 0 33 192 47 755.5 0 47 193 30 755.5 0 30 194 17 755.5 0 17 195 13 755.5 0 13 196 18 755.5 0 18 197 13 755.5 0 13 198 14 755.5 0 14 199 22 755.5 0 22 200 69 755.5 0 69 201 57 755.5 0 57 202 46 755.5 0 46 203 15 755.5 0 15 204 21 755.5 0 21 205 26 755.5 0 26 206 23 755.5 0 23 207 40 755.5 0 40 208 26 755.5 0 26 209 44 755.5 0 44 210 29 755.5 0 29 211 28 755.5 0 28 212 45 755.5 0 45 213 31 755.5 0 31 214 36 755.5 0 36 215 82 755.5 0 82 216 78 755.5 0 78 217 132 755.5 0 132 218 281 755.5 0 281 219 3855 755.5 0 3855 220 1761 755.5 0 1761 221 1754 755.5 0 1754 222 54 755.5 0 54 223 18 755.5 0 18 224 17 755.5 0 17 225 24 755.5 0 24 226 27 755.5 0 27 227 20 755.5 0 20 228 24 755.5 0 24 229 25 755.5 0 25 230 9 755.5 0 9 231 14 755.5 0 14 232 26 755.5 0 26 233 37 755.5 0 37 234 41 755.5 0 41 235 22 755.5 0 22 236 21 755.5 0 21 237 34 755.5 0 34 238 15 755.5 0 15 239 19 755.5 0 19 240 31 755.5 0 31 241 31 755.5 0 31 242 37 755.5 0 37 243 25 755.5 0 25 244 15 755.5 0 15 245 21 755.5 0 21 246 18 755.5 0 18 247 16 755.5 0 16 248 27 755.5 0 27 249 737 755.5 0 737 250 1846 755.5 0 1846 251 3465 755.5 0 3465 252 19 755.5 0 19 253 27 755.5 0 27 254 58 755.5 0 58 255 51 755.5 0 51 256 31 755.5 0 31 257 20 755.5 0 20 258 24 755.5 0 24 259 12 755.5 0 12 260 25 755.5 0 25 261 19 755.5 0 19 262 15 755.5 0 15 263 11 755.5 0 11 264 21 755.5 0 21 265 31 755.5 0 31 266 9 755.5 0 9 267 10 755.5 0 10 268 5 755.5 0 5 269 15 755.5 0 15 270 23 755.5 0 23 271 12 755.5 0 12 272 14 755.5 0 14 273 14 755.5 0 14 274 23 755.5 0 23 275 12 755.5 0 12 276 19 755.5 0 19 277 29 755.5 0 29 278 29 755.5 0 29 279 88 755.5 0 88 280 50 755.5 0 50 281 58 755.5 0 58 282 49 755.5 0 49 283 26 755.5 0 26 284 28 755.5 0 28 285 21 755.5 0 21 286 17 755.5 0 17 287 7 755.5 0 7 288 15 755.5 0 15 289 27 755.5 0 27 290 27 755.5 0 27 291 36 755.5 0 36 292 24 755.5 0 24 293 9 755.5 0 9 294 12 755.5 0 12 295 18 755.5 0 18 296 12 755.5 0 12 297 12 755.5 0 12 298 13 755.5 0 13 299 22 755.5 0 22 300 11 755.5 0 11 301 8 755.5 0 8 Finished in 0.63 s (49 us/read; 1.21 M reads/minute). === Summary === Total reads processed: 12,752 Reads with adapters: 7,461 (58.5%) Reads that were too short: 0 (0.0%) Reads written (passing filters): 7,461 (58.5%) Total basepairs processed: 3,227,026 bp Total written (filtered): 2,044,622 bp (63.4%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 7461 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 2 0.0 3 0 0 0 0 2 18 4 0.0 3 0 0 4 19 124 0.0 3 0 121 1 0 2 20 7305 0.0 4 7196 106 3 21 20 0.0 4 7 12 0 1 22 3 0.0 4 0 0 2 0 1 23 3 0.0 4 0 0 0 2 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 0.30 s (40 us/read; 1.49 M reads/minute). === Summary === Total reads processed: 7,461 Reads with adapters: 38 (0.5%) Reads written (passing filters): 7,461 (100.0%) Total basepairs processed: 2,044,622 bp Total written (filtered): 2,043,968 bp (100.0%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 38 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 2.6% C: 0.0% G: 86.8% T: 10.5% 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 2 116.6 0 2 4 1 29.1 0 1 11 33 0.0 1 0 33 12 1 0.0 1 0 1 269 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.