This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g ACGCGC -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 106.18 s (33 us/read; 1.80 M reads/minute). === Summary === Total reads processed: 3,184,960 Reads with adapters: 516,579 (16.2%) Reads that were too short: 229,461 (7.2%) Reads written (passing filters): 287,118 (9.0%) Total basepairs processed: 958,672,960 bp Total written (filtered): 83,789,199 bp (8.7%) === Adapter 1 === Sequence: ACGCGC; Type: regular 5'; Length: 6; Trimmed: 516579 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 8743 777.6 0 8743 7 268593 777.6 0 268593 8 435 777.6 0 435 9 4462 777.6 0 4462 10 27 777.6 0 27 11 21 777.6 0 21 12 19 777.6 0 19 13 22 777.6 0 22 14 13 777.6 0 13 15 16 777.6 0 16 16 15 777.6 0 15 17 14 777.6 0 14 18 24 777.6 0 24 19 24 777.6 0 24 20 14 777.6 0 14 21 24 777.6 0 24 22 21 777.6 0 21 23 16 777.6 0 16 24 15 777.6 0 15 25 18 777.6 0 18 26 9 777.6 0 9 27 11 777.6 0 11 28 11 777.6 0 11 29 14 777.6 0 14 30 12 777.6 0 12 31 18 777.6 0 18 32 19 777.6 0 19 33 11 777.6 0 11 34 13 777.6 0 13 35 15 777.6 0 15 36 125 777.6 0 125 37 11 777.6 0 11 38 16 777.6 0 16 39 16 777.6 0 16 40 15 777.6 0 15 41 30 777.6 0 30 42 11 777.6 0 11 43 66 777.6 0 66 44 13 777.6 0 13 45 19 777.6 0 19 46 13 777.6 0 13 47 22 777.6 0 22 48 5 777.6 0 5 49 23 777.6 0 23 50 9 777.6 0 9 51 29 777.6 0 29 52 14 777.6 0 14 53 26 777.6 0 26 54 17 777.6 0 17 55 29 777.6 0 29 56 15 777.6 0 15 57 12 777.6 0 12 58 17 777.6 0 17 59 7 777.6 0 7 60 7 777.6 0 7 61 12 777.6 0 12 62 10 777.6 0 10 63 8 777.6 0 8 64 14 777.6 0 14 65 10 777.6 0 10 66 10 777.6 0 10 67 6 777.6 0 6 68 6 777.6 0 6 69 8 777.6 0 8 70 10 777.6 0 10 71 8 777.6 0 8 72 17 777.6 0 17 73 8 777.6 0 8 74 9 777.6 0 9 75 4 777.6 0 4 76 12 777.6 0 12 77 5 777.6 0 5 78 6 777.6 0 6 79 7 777.6 0 7 80 5 777.6 0 5 81 13 777.6 0 13 82 9 777.6 0 9 83 27 777.6 0 27 84 8 777.6 0 8 85 25 777.6 0 25 86 8 777.6 0 8 87 5 777.6 0 5 88 4 777.6 0 4 89 7 777.6 0 7 90 7 777.6 0 7 91 8 777.6 0 8 92 9 777.6 0 9 93 4 777.6 0 4 94 11 777.6 0 11 95 7 777.6 0 7 96 2 777.6 0 2 97 5 777.6 0 5 98 10 777.6 0 10 99 21 777.6 0 21 100 9 777.6 0 9 101 14 777.6 0 14 102 13 777.6 0 13 103 7 777.6 0 7 104 11 777.6 0 11 105 11 777.6 0 11 106 4 777.6 0 4 107 10 777.6 0 10 108 9 777.6 0 9 109 6 777.6 0 6 110 6 777.6 0 6 111 5 777.6 0 5 112 9 777.6 0 9 113 14 777.6 0 14 114 12 777.6 0 12 115 10 777.6 0 10 116 18 777.6 0 18 117 18 777.6 0 18 118 12 777.6 0 12 119 21 777.6 0 21 120 15 777.6 0 15 121 6 777.6 0 6 122 13 777.6 0 13 123 23 777.6 0 23 124 25 777.6 0 25 125 29 777.6 0 29 126 19 777.6 0 19 127 62 777.6 0 62 128 144 777.6 0 144 129 20 777.6 0 20 130 18 777.6 0 18 131 14 777.6 0 14 132 14 777.6 0 14 133 11 777.6 0 11 134 9 777.6 0 9 135 16 777.6 0 16 136 14 777.6 0 14 137 22 777.6 0 22 138 24 777.6 0 24 139 14 777.6 0 14 140 9 777.6 0 9 141 7 777.6 0 7 142 7 777.6 0 7 143 8 777.6 0 8 144 6 777.6 0 6 145 9 777.6 0 9 146 8 777.6 0 8 147 5 777.6 0 5 148 8 777.6 0 8 149 11 777.6 0 11 150 17 777.6 0 17 151 10 777.6 0 10 152 10 777.6 0 10 153 8 777.6 0 8 154 16 777.6 0 16 155 11 777.6 0 11 156 8 777.6 0 8 157 15 777.6 0 15 158 21 777.6 0 21 159 19 777.6 0 19 160 54 777.6 0 54 161 44 777.6 0 44 162 46 777.6 0 46 163 14 777.6 0 14 164 19 777.6 0 19 165 75 777.6 0 75 166 118 777.6 0 118 167 152 777.6 0 152 168 39 777.6 0 39 169 29 777.6 0 29 170 33 777.6 0 33 171 31 777.6 0 31 172 39 777.6 0 39 173 4 777.6 0 4 174 11 777.6 0 11 175 14 777.6 0 14 176 16 777.6 0 16 177 10 777.6 0 10 178 22 777.6 0 22 179 34 777.6 0 34 180 36 777.6 0 36 181 24 777.6 0 24 182 27 777.6 0 27 183 29 777.6 0 29 184 21 777.6 0 21 185 206 777.6 0 206 186 97 777.6 0 97 187 255 777.6 0 255 188 488 777.6 0 488 189 65 777.6 0 65 190 9 777.6 0 9 191 18 777.6 0 18 192 13 777.6 0 13 193 17 777.6 0 17 194 15 777.6 0 15 195 17 777.6 0 17 196 4 777.6 0 4 197 45 777.6 0 45 198 66 777.6 0 66 199 48 777.6 0 48 200 226 777.6 0 226 201 43 777.6 0 43 202 21 777.6 0 21 203 50 777.6 0 50 204 40 777.6 0 40 205 24 777.6 0 24 206 38 777.6 0 38 207 88 777.6 0 88 208 33 777.6 0 33 209 73 777.6 0 73 210 461 777.6 0 461 211 42 777.6 0 42 212 24 777.6 0 24 213 28 777.6 0 28 214 18 777.6 0 18 215 32 777.6 0 32 216 31 777.6 0 31 217 144 777.6 0 144 218 140 777.6 0 140 219 272 777.6 0 272 220 549 777.6 0 549 221 445 777.6 0 445 222 880 777.6 0 880 223 725 777.6 0 725 224 494 777.6 0 494 225 372 777.6 0 372 226 328 777.6 0 328 227 310 777.6 0 310 228 84 777.6 0 84 229 162 777.6 0 162 230 231 777.6 0 231 231 329 777.6 0 329 232 743 777.6 0 743 233 1076 777.6 0 1076 234 1826 777.6 0 1826 235 2948 777.6 0 2948 236 4177 777.6 0 4177 237 52410 777.6 0 52410 238 100411 777.6 0 100411 239 52319 777.6 0 52319 240 2129 777.6 0 2129 241 1359 777.6 0 1359 242 82 777.6 0 82 243 58 777.6 0 58 244 144 777.6 0 144 245 325 777.6 0 325 246 280 777.6 0 280 247 707 777.6 0 707 248 90 777.6 0 90 249 307 777.6 0 307 250 80 777.6 0 80 251 250 777.6 0 250 252 122 777.6 0 122 253 21 777.6 0 21 254 18 777.6 0 18 255 32 777.6 0 32 256 14 777.6 0 14 257 20 777.6 0 20 258 1 777.6 0 1 260 2 777.6 0 2 261 5 777.6 0 5 262 14 777.6 0 14 263 12 777.6 0 12 264 25 777.6 0 25 265 18 777.6 0 18 266 17 777.6 0 17 267 14 777.6 0 14 268 13 777.6 0 13 269 12 777.6 0 12 270 19 777.6 0 19 271 24 777.6 0 24 272 103 777.6 0 103 273 159 777.6 0 159 274 62 777.6 0 62 275 8 777.6 0 8 276 10 777.6 0 10 277 9 777.6 0 9 278 18 777.6 0 18 279 29 777.6 0 29 280 12 777.6 0 12 281 18 777.6 0 18 282 78 777.6 0 78 283 20 777.6 0 20 284 26 777.6 0 26 285 28 777.6 0 28 286 60 777.6 0 60 287 31 777.6 0 31 288 7 777.6 0 7 289 10 777.6 0 10 290 15 777.6 0 15 291 63 777.6 0 63 292 16 777.6 0 16 293 5 777.6 0 5 294 15 777.6 0 15 295 16 777.6 0 16 296 16 777.6 0 16 297 3 777.6 0 3 298 6 777.6 0 6 299 5 777.6 0 5 300 13 777.6 0 13 301 8 777.6 0 8 Finished in 14.02 s (49 us/read; 1.23 M reads/minute). === Summary === Total reads processed: 287,118 Reads with adapters: 277,310 (96.6%) Reads that were too short: 3 (0.0%) Reads written (passing filters): 277,307 (96.6%) Total basepairs processed: 83,789,199 bp Total written (filtered): 75,987,901 bp (90.7%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 277310 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 22 0.0 3 0 0 0 4 18 18 37 0.0 3 0 0 33 3 1 19 1645 0.0 3 0 1534 49 26 36 20 274645 0.0 4 270326 4170 131 11 7 21 650 0.0 4 90 546 13 0 1 22 78 0.0 4 23 2 42 1 10 23 187 0.0 4 5 0 0 175 7 24 14 0.0 4 5 0 0 4 5 26 1 0.0 4 0 0 0 0 1 30 1 0.0 4 1 33 1 0.0 4 0 0 0 0 1 43 1 0.0 4 0 1 55 1 0.0 4 0 0 0 0 1 68 1 0.0 4 1 114 1 0.0 4 0 0 0 0 1 127 25 0.0 4 0 0 0 0 25 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 11.65 s (42 us/read; 1.43 M reads/minute). === Summary === Total reads processed: 277,307 Reads with adapters: 2,153 (0.8%) Reads written (passing filters): 277,307 (100.0%) Total basepairs processed: 75,987,901 bp Total written (filtered): 75,711,580 bp (99.6%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 2153 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 7.8% C: 46.1% G: 45.1% T: 1.1% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 32 4332.9 0 32 4 8 1083.2 0 8 5 5 270.8 0 5 6 2 67.7 0 2 10 1 0.3 1 0 1 11 907 0.1 1 1 906 12 39 0.0 1 3 36 14 1 0.0 1 0 1 15 2 0.0 1 0 2 152 10 0.0 1 1 9 153 2 0.0 1 1 1 172 1 0.0 1 1 210 2 0.0 1 1 1 224 3 0.0 1 3 225 915 0.0 1 831 84 226 43 0.0 1 41 2 234 3 0.0 1 3 261 127 0.0 1 117 10 262 45 0.0 1 38 7 263 3 0.0 1 2 1 273 2 0.0 1 2