This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CCAAGG -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 102.41 s (32 us/read; 1.87 M reads/minute). === Summary === Total reads processed: 3,184,960 Reads with adapters: 45,668 (1.4%) Reads that were too short: 15,093 (0.5%) Reads written (passing filters): 30,575 (1.0%) Total basepairs processed: 958,672,960 bp Total written (filtered): 5,902,855 bp (0.6%) === Adapter 1 === Sequence: CCAAGG; Type: regular 5'; Length: 6; Trimmed: 45668 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 321 777.6 0 321 7 98 777.6 0 98 8 511 777.6 0 511 9 9150 777.6 0 9150 10 20 777.6 0 20 11 13 777.6 0 13 12 3 777.6 0 3 13 4 777.6 0 4 14 1 777.6 0 1 15 2 777.6 0 2 16 2 777.6 0 2 17 5 777.6 0 5 18 21 777.6 0 21 19 10 777.6 0 10 20 16 777.6 0 16 21 7 777.6 0 7 22 3 777.6 0 3 23 3 777.6 0 3 24 4 777.6 0 4 25 2 777.6 0 2 26 2 777.6 0 2 27 1 777.6 0 1 28 2 777.6 0 2 29 2 777.6 0 2 30 2 777.6 0 2 31 2 777.6 0 2 33 4 777.6 0 4 34 4 777.6 0 4 35 3 777.6 0 3 36 6 777.6 0 6 37 1 777.6 0 1 38 3 777.6 0 3 39 3 777.6 0 3 40 2 777.6 0 2 41 5 777.6 0 5 42 3 777.6 0 3 43 1 777.6 0 1 44 14 777.6 0 14 45 14 777.6 0 14 46 16 777.6 0 16 47 4 777.6 0 4 48 4 777.6 0 4 49 2 777.6 0 2 50 8 777.6 0 8 51 2 777.6 0 2 52 1 777.6 0 1 53 1 777.6 0 1 54 2 777.6 0 2 55 6 777.6 0 6 56 3 777.6 0 3 57 5 777.6 0 5 58 2 777.6 0 2 59 5 777.6 0 5 60 15 777.6 0 15 61 1 777.6 0 1 62 10 777.6 0 10 64 5 777.6 0 5 65 7 777.6 0 7 66 4 777.6 0 4 67 15 777.6 0 15 68 12 777.6 0 12 69 11 777.6 0 11 70 17 777.6 0 17 71 201 777.6 0 201 72 76 777.6 0 76 73 21 777.6 0 21 74 20 777.6 0 20 75 37 777.6 0 37 76 118 777.6 0 118 77 992 777.6 0 992 78 1612 777.6 0 1612 79 713 777.6 0 713 80 12 777.6 0 12 81 16 777.6 0 16 82 24 777.6 0 24 83 5 777.6 0 5 84 7 777.6 0 7 85 2 777.6 0 2 86 1 777.6 0 1 87 3 777.6 0 3 88 16 777.6 0 16 89 5 777.6 0 5 90 15 777.6 0 15 91 276 777.6 0 276 92 99 777.6 0 99 93 34 777.6 0 34 94 22 777.6 0 22 95 10 777.6 0 10 96 23 777.6 0 23 97 35 777.6 0 35 98 28 777.6 0 28 99 10 777.6 0 10 100 16 777.6 0 16 101 6 777.6 0 6 102 4 777.6 0 4 103 7 777.6 0 7 104 12 777.6 0 12 105 5 777.6 0 5 106 5 777.6 0 5 107 26 777.6 0 26 108 8 777.6 0 8 109 5 777.6 0 5 110 5 777.6 0 5 111 6 777.6 0 6 112 5 777.6 0 5 113 10 777.6 0 10 114 56 777.6 0 56 115 43 777.6 0 43 116 83 777.6 0 83 117 18 777.6 0 18 118 8 777.6 0 8 119 1 777.6 0 1 120 10 777.6 0 10 121 13 777.6 0 13 122 23 777.6 0 23 123 27 777.6 0 27 124 13 777.6 0 13 125 15 777.6 0 15 126 29 777.6 0 29 127 20 777.6 0 20 128 32 777.6 0 32 129 47 777.6 0 47 130 23 777.6 0 23 131 13 777.6 0 13 132 7 777.6 0 7 133 14 777.6 0 14 134 31 777.6 0 31 135 119 777.6 0 119 136 94 777.6 0 94 137 226 777.6 0 226 138 553 777.6 0 553 139 56 777.6 0 56 140 12 777.6 0 12 141 134 777.6 0 134 142 25 777.6 0 25 143 53 777.6 0 53 144 22 777.6 0 22 145 8 777.6 0 8 146 7 777.6 0 7 147 3 777.6 0 3 148 13 777.6 0 13 149 32 777.6 0 32 150 36 777.6 0 36 151 20 777.6 0 20 152 16 777.6 0 16 153 11 777.6 0 11 154 15 777.6 0 15 155 17 777.6 0 17 156 31 777.6 0 31 157 39 777.6 0 39 158 61 777.6 0 61 159 7 777.6 0 7 160 29 777.6 0 29 161 17 777.6 0 17 162 16 777.6 0 16 163 28 777.6 0 28 164 81 777.6 0 81 165 18 777.6 0 18 166 16 777.6 0 16 167 25 777.6 0 25 168 28 777.6 0 28 169 7 777.6 0 7 170 13 777.6 0 13 171 82 777.6 0 82 172 46 777.6 0 46 173 140 777.6 0 140 174 237 777.6 0 237 175 958 777.6 0 958 176 79 777.6 0 79 177 71 777.6 0 71 178 67 777.6 0 67 179 49 777.6 0 49 180 126 777.6 0 126 181 85 777.6 0 85 182 203 777.6 0 203 183 35 777.6 0 35 184 27 777.6 0 27 185 39 777.6 0 39 186 34 777.6 0 34 187 48 777.6 0 48 188 112 777.6 0 112 189 262 777.6 0 262 190 631 777.6 0 631 191 2562 777.6 0 2562 192 4517 777.6 0 4517 193 2199 777.6 0 2199 194 237 777.6 0 237 195 26 777.6 0 26 196 40 777.6 0 40 197 41 777.6 0 41 198 16 777.6 0 16 199 34 777.6 0 34 200 53 777.6 0 53 201 124 777.6 0 124 202 1201 777.6 0 1201 203 211 777.6 0 211 204 163 777.6 0 163 205 185 777.6 0 185 206 10 777.6 0 10 207 13 777.6 0 13 208 50 777.6 0 50 209 36 777.6 0 36 210 37 777.6 0 37 211 21 777.6 0 21 212 10 777.6 0 10 213 10 777.6 0 10 214 7 777.6 0 7 215 18 777.6 0 18 216 16 777.6 0 16 217 12 777.6 0 12 218 11 777.6 0 11 220 10 777.6 0 10 221 30 777.6 0 30 222 15 777.6 0 15 223 7 777.6 0 7 224 5 777.6 0 5 225 12 777.6 0 12 226 22 777.6 0 22 227 16 777.6 0 16 228 15 777.6 0 15 229 9 777.6 0 9 230 3 777.6 0 3 231 8 777.6 0 8 232 14 777.6 0 14 233 22 777.6 0 22 234 22 777.6 0 22 235 7 777.6 0 7 236 11 777.6 0 11 237 11 777.6 0 11 238 3 777.6 0 3 239 6 777.6 0 6 240 7 777.6 0 7 241 11 777.6 0 11 242 11 777.6 0 11 243 7 777.6 0 7 244 6 777.6 0 6 245 6 777.6 0 6 246 11 777.6 0 11 247 13 777.6 0 13 248 31 777.6 0 31 249 56 777.6 0 56 250 55 777.6 0 55 251 28 777.6 0 28 252 37 777.6 0 37 253 24 777.6 0 24 254 49 777.6 0 49 255 36 777.6 0 36 256 23 777.6 0 23 257 98 777.6 0 98 258 59 777.6 0 59 259 525 777.6 0 525 260 1499 777.6 0 1499 261 671 777.6 0 671 262 487 777.6 0 487 263 156 777.6 0 156 264 327 777.6 0 327 265 262 777.6 0 262 266 198 777.6 0 198 267 10 777.6 0 10 268 44 777.6 0 44 269 502 777.6 0 502 270 218 777.6 0 218 271 140 777.6 0 140 272 31 777.6 0 31 273 22 777.6 0 22 274 13 777.6 0 13 275 50 777.6 0 50 276 106 777.6 0 106 277 122 777.6 0 122 278 42 777.6 0 42 279 10 777.6 0 10 280 57 777.6 0 57 281 60 777.6 0 60 282 44 777.6 0 44 283 76 777.6 0 76 284 315 777.6 0 315 285 332 777.6 0 332 286 516 777.6 0 516 287 25 777.6 0 25 288 173 777.6 0 173 289 1454 777.6 0 1454 290 1682 777.6 0 1682 291 377 777.6 0 377 292 13 777.6 0 13 293 3 777.6 0 3 294 43 777.6 0 43 295 413 777.6 0 413 296 406 777.6 0 406 297 806 777.6 0 806 298 24 777.6 0 24 299 3 777.6 0 3 300 4 777.6 0 4 301 5 777.6 0 5 Finished in 1.45 s (47 us/read; 1.27 M reads/minute). === Summary === Total reads processed: 30,575 Reads with adapters: 9,625 (31.5%) Reads that were too short: 3 (0.0%) Reads written (passing filters): 9,622 (31.5%) Total basepairs processed: 5,902,855 bp Total written (filtered): 2,618,094 bp (44.4%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 9625 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 29 0.0 3 0 0 0 0 29 18 7 0.0 3 0 0 6 0 1 19 201 0.0 3 0 197 2 1 1 20 9353 0.0 4 9202 148 2 0 1 21 25 0.0 4 9 12 0 0 4 22 3 0.0 4 0 0 2 0 1 23 2 0.0 4 0 0 0 2 25 2 0.0 4 2 34 1 0.0 4 0 0 0 0 1 63 1 0.0 4 0 0 0 0 1 191 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 0.42 s (44 us/read; 1.37 M reads/minute). === Summary === Total reads processed: 9,622 Reads with adapters: 96 (1.0%) Reads written (passing filters): 9,622 (100.0%) Total basepairs processed: 2,618,094 bp Total written (filtered): 2,617,151 bp (100.0%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 96 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 3.1% C: 1.0% G: 95.8% T: 0.0% 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 1 150.3 0 1 4 3 37.6 0 3 5 2 9.4 0 2 9 12 0.0 0 0 12 10 48 0.0 1 1 47 11 30 0.0 1 0 30 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.