This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AACGCG -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 102.96 s (32 us/read; 1.86 M reads/minute). === Summary === Total reads processed: 3,184,960 Reads with adapters: 100,901 (3.2%) Reads that were too short: 34,676 (1.1%) Reads written (passing filters): 66,225 (2.1%) Total basepairs processed: 958,672,960 bp Total written (filtered): 18,614,398 bp (1.9%) === Adapter 1 === Sequence: AACGCG; Type: regular 5'; Length: 6; Trimmed: 100901 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 57088 777.6 0 57088 7 166 777.6 0 166 8 1037 777.6 0 1037 9 44 777.6 0 44 10 7 777.6 0 7 11 15 777.6 0 15 12 15 777.6 0 15 13 13 777.6 0 13 14 4 777.6 0 4 15 10 777.6 0 10 16 7 777.6 0 7 17 12 777.6 0 12 18 16 777.6 0 16 19 18 777.6 0 18 20 14 777.6 0 14 21 14 777.6 0 14 22 9 777.6 0 9 23 12 777.6 0 12 24 13 777.6 0 13 25 10 777.6 0 10 26 16 777.6 0 16 27 10 777.6 0 10 28 12 777.6 0 12 29 14 777.6 0 14 30 18 777.6 0 18 31 7 777.6 0 7 32 11 777.6 0 11 33 102 777.6 0 102 34 12 777.6 0 12 35 14 777.6 0 14 36 7 777.6 0 7 37 11 777.6 0 11 38 9 777.6 0 9 39 14 777.6 0 14 40 11 777.6 0 11 41 15 777.6 0 15 42 75 777.6 0 75 43 18 777.6 0 18 44 11 777.6 0 11 45 10 777.6 0 10 46 1713 777.6 0 1713 47 41 777.6 0 41 48 16 777.6 0 16 49 15 777.6 0 15 50 8 777.6 0 8 51 11 777.6 0 11 52 7 777.6 0 7 53 27 777.6 0 27 54 10 777.6 0 10 55 10 777.6 0 10 56 9 777.6 0 9 57 10 777.6 0 10 58 8 777.6 0 8 59 15 777.6 0 15 60 14 777.6 0 14 61 8 777.6 0 8 62 14 777.6 0 14 63 11 777.6 0 11 64 10 777.6 0 10 65 8 777.6 0 8 66 6 777.6 0 6 67 5 777.6 0 5 68 18 777.6 0 18 69 12 777.6 0 12 70 26 777.6 0 26 71 37 777.6 0 37 72 15 777.6 0 15 73 21 777.6 0 21 74 10 777.6 0 10 75 14 777.6 0 14 76 3 777.6 0 3 77 6 777.6 0 6 78 17 777.6 0 17 79 8 777.6 0 8 80 16 777.6 0 16 81 11 777.6 0 11 82 23 777.6 0 23 83 13 777.6 0 13 84 25 777.6 0 25 85 9 777.6 0 9 86 6 777.6 0 6 87 15 777.6 0 15 88 8 777.6 0 8 89 7 777.6 0 7 90 17 777.6 0 17 91 6 777.6 0 6 92 14 777.6 0 14 93 32 777.6 0 32 94 37 777.6 0 37 95 16 777.6 0 16 96 9 777.6 0 9 97 9 777.6 0 9 98 12 777.6 0 12 99 33 777.6 0 33 100 49 777.6 0 49 101 26 777.6 0 26 102 6 777.6 0 6 103 10 777.6 0 10 104 14 777.6 0 14 105 10 777.6 0 10 106 11 777.6 0 11 107 9 777.6 0 9 108 9 777.6 0 9 109 9 777.6 0 9 110 19 777.6 0 19 111 20 777.6 0 20 112 8 777.6 0 8 113 13 777.6 0 13 114 17 777.6 0 17 115 26 777.6 0 26 116 21 777.6 0 21 117 60 777.6 0 60 118 37 777.6 0 37 119 45 777.6 0 45 120 18 777.6 0 18 121 24 777.6 0 24 122 34 777.6 0 34 123 50 777.6 0 50 124 38 777.6 0 38 125 58 777.6 0 58 126 8 777.6 0 8 127 103 777.6 0 103 128 45 777.6 0 45 129 50 777.6 0 50 130 27 777.6 0 27 131 20 777.6 0 20 132 26 777.6 0 26 133 16 777.6 0 16 134 58 777.6 0 58 135 37 777.6 0 37 136 62 777.6 0 62 137 23 777.6 0 23 138 21 777.6 0 21 139 33 777.6 0 33 140 9 777.6 0 9 141 12 777.6 0 12 142 20 777.6 0 20 143 22 777.6 0 22 144 26 777.6 0 26 145 25 777.6 0 25 146 17 777.6 0 17 147 9 777.6 0 9 148 8 777.6 0 8 149 13 777.6 0 13 150 8 777.6 0 8 151 8 777.6 0 8 152 14 777.6 0 14 153 10 777.6 0 10 154 22 777.6 0 22 155 19 777.6 0 19 156 19 777.6 0 19 157 27 777.6 0 27 158 24 777.6 0 24 159 30 777.6 0 30 160 16 777.6 0 16 161 21 777.6 0 21 162 20 777.6 0 20 163 36 777.6 0 36 164 41 777.6 0 41 165 40 777.6 0 40 166 29 777.6 0 29 167 26 777.6 0 26 168 24 777.6 0 24 169 15 777.6 0 15 170 35 777.6 0 35 171 17 777.6 0 17 172 31 777.6 0 31 173 43 777.6 0 43 174 26 777.6 0 26 175 9 777.6 0 9 176 15 777.6 0 15 177 33 777.6 0 33 178 321 777.6 0 321 179 163 777.6 0 163 180 67 777.6 0 67 181 33 777.6 0 33 182 141 777.6 0 141 183 65 777.6 0 65 184 93 777.6 0 93 185 24 777.6 0 24 186 19 777.6 0 19 187 13 777.6 0 13 188 200 777.6 0 200 189 189 777.6 0 189 190 110 777.6 0 110 191 103 777.6 0 103 192 33 777.6 0 33 193 16 777.6 0 16 194 14 777.6 0 14 195 12 777.6 0 12 196 121 777.6 0 121 197 355 777.6 0 355 198 695 777.6 0 695 199 18 777.6 0 18 200 9 777.6 0 9 201 20 777.6 0 20 202 54 777.6 0 54 203 94 777.6 0 94 204 90 777.6 0 90 205 17 777.6 0 17 206 19 777.6 0 19 207 12 777.6 0 12 208 22 777.6 0 22 209 20 777.6 0 20 210 39 777.6 0 39 211 54 777.6 0 54 212 27 777.6 0 27 213 29 777.6 0 29 214 35 777.6 0 35 215 59 777.6 0 59 216 41 777.6 0 41 217 75 777.6 0 75 218 70 777.6 0 70 219 108 777.6 0 108 220 431 777.6 0 431 221 308 777.6 0 308 222 622 777.6 0 622 223 556 777.6 0 556 224 123 777.6 0 123 225 118 777.6 0 118 226 74 777.6 0 74 227 51 777.6 0 51 228 40 777.6 0 40 229 28 777.6 0 28 230 21 777.6 0 21 231 32 777.6 0 32 232 23 777.6 0 23 233 60 777.6 0 60 234 138 777.6 0 138 235 270 777.6 0 270 236 962 777.6 0 962 237 107 777.6 0 107 238 159 777.6 0 159 239 72 777.6 0 72 240 45 777.6 0 45 241 51 777.6 0 51 242 66 777.6 0 66 243 238 777.6 0 238 244 956 777.6 0 956 245 611 777.6 0 611 246 1899 777.6 0 1899 247 217 777.6 0 217 248 297 777.6 0 297 249 67 777.6 0 67 250 139 777.6 0 139 251 115 777.6 0 115 252 68 777.6 0 68 253 66 777.6 0 66 254 77 777.6 0 77 255 53 777.6 0 53 256 61 777.6 0 61 257 22 777.6 0 22 258 18 777.6 0 18 259 52 777.6 0 52 260 30 777.6 0 30 261 239 777.6 0 239 262 90 777.6 0 90 263 431 777.6 0 431 264 65 777.6 0 65 265 48 777.6 0 48 266 44 777.6 0 44 267 61 777.6 0 61 268 65 777.6 0 65 269 61 777.6 0 61 270 69 777.6 0 69 271 128 777.6 0 128 272 108 777.6 0 108 273 49 777.6 0 49 274 33 777.6 0 33 275 144 777.6 0 144 276 30 777.6 0 30 277 47 777.6 0 47 278 78 777.6 0 78 279 39 777.6 0 39 280 29 777.6 0 29 281 47 777.6 0 47 282 30 777.6 0 30 283 182 777.6 0 182 284 131 777.6 0 131 285 79 777.6 0 79 286 100 777.6 0 100 287 207 777.6 0 207 288 1441 777.6 0 1441 289 3684 777.6 0 3684 290 13170 777.6 0 13170 291 3328 777.6 0 3328 292 40 777.6 0 40 293 21 777.6 0 21 294 11 777.6 0 11 295 8 777.6 0 8 296 13 777.6 0 13 297 9 777.6 0 9 298 14 777.6 0 14 299 32 777.6 0 32 300 46 777.6 0 46 301 17 777.6 0 17 Finished in 3.37 s (51 us/read; 1.18 M reads/minute). === Summary === Total reads processed: 66,225 Reads with adapters: 57,182 (86.3%) Reads that were too short: 4 (0.0%) Reads written (passing filters): 57,178 (86.3%) Total basepairs processed: 18,614,398 bp Total written (filtered): 15,665,796 bp (84.2%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 57182 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 3 0.0 3 0 0 0 2 1 19 9 0.0 3 0 0 6 2 1 20 396 0.0 4 12 360 9 7 8 21 56579 0.0 4 55683 868 23 1 4 22 130 0.0 4 27 103 23 14 0.0 4 6 0 8 24 35 0.0 4 0 0 0 33 2 25 2 0.0 4 1 0 0 1 44 1 0.0 4 0 1 65 1 0.0 4 0 0 0 0 1 69 1 0.0 4 1 89 1 0.0 4 0 0 0 0 1 91 1 0.0 4 0 0 0 0 1 115 2 0.0 4 0 0 0 0 2 128 6 0.0 4 0 0 0 0 6 244 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 2.42 s (42 us/read; 1.42 M reads/minute). === Summary === Total reads processed: 57,178 Reads with adapters: 437 (0.8%) Reads written (passing filters): 57,178 (100.0%) Total basepairs processed: 15,665,796 bp Total written (filtered): 15,607,349 bp (99.6%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 437 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 8.7% C: 46.7% G: 43.9% T: 0.7% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 5 893.4 0 5 5 1 55.8 0 1 11 178 0.0 1 0 178 12 8 0.0 1 0 8 152 4 0.0 1 0 4 224 1 0.0 1 1 225 195 0.0 1 178 17 226 1 0.0 1 1 234 2 0.0 1 2 261 32 0.0 1 29 3 262 10 0.0 1 9 1