This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CCTAAT -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 58.92 s (26 us/read; 2.28 M reads/minute). === Summary === Total reads processed: 2,238,925 Reads with adapters: 273,826 (12.2%) Reads that were too short: 5,597 (0.2%) Reads written (passing filters): 268,229 (12.0%) Total basepairs processed: 673,916,425 bp Total written (filtered): 42,393,087 bp (6.3%) === Adapter 1 === Sequence: CCTAAT; Type: regular 5'; Length: 6; Trimmed: 273826 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 105 546.6 0 105 7 6130 546.6 0 6130 8 366 546.6 0 366 9 5901 546.6 0 5901 10 45 546.6 0 45 11 28 546.6 0 28 12 24 546.6 0 24 13 24 546.6 0 24 14 32 546.6 0 32 15 52 546.6 0 52 16 23 546.6 0 23 17 15 546.6 0 15 18 21 546.6 0 21 19 34 546.6 0 34 20 38 546.6 0 38 21 27 546.6 0 27 22 20 546.6 0 20 23 36 546.6 0 36 24 39 546.6 0 39 25 37 546.6 0 37 26 36 546.6 0 36 27 154 546.6 0 154 28 108 546.6 0 108 29 99 546.6 0 99 30 27 546.6 0 27 31 33 546.6 0 33 32 27 546.6 0 27 33 23 546.6 0 23 34 38 546.6 0 38 35 33 546.6 0 33 36 25 546.6 0 25 37 54 546.6 0 54 38 37 546.6 0 37 39 26 546.6 0 26 40 31 546.6 0 31 41 37 546.6 0 37 42 35 546.6 0 35 43 40 546.6 0 40 44 41 546.6 0 41 45 36 546.6 0 36 46 37 546.6 0 37 47 64 546.6 0 64 48 29 546.6 0 29 49 49 546.6 0 49 50 64 546.6 0 64 51 57 546.6 0 57 52 37 546.6 0 37 53 36 546.6 0 36 54 33 546.6 0 33 55 24 546.6 0 24 56 35 546.6 0 35 57 75 546.6 0 75 58 97 546.6 0 97 59 198 546.6 0 198 60 51 546.6 0 51 61 37 546.6 0 37 62 31 546.6 0 31 63 39 546.6 0 39 64 20 546.6 0 20 65 33 546.6 0 33 66 24 546.6 0 24 67 43 546.6 0 43 68 31 546.6 0 31 69 30 546.6 0 30 70 41 546.6 0 41 71 39 546.6 0 39 72 27 546.6 0 27 73 37 546.6 0 37 74 29 546.6 0 29 75 38 546.6 0 38 76 19 546.6 0 19 77 40 546.6 0 40 78 44 546.6 0 44 79 27 546.6 0 27 80 30 546.6 0 30 81 94 546.6 0 94 82 39 546.6 0 39 83 33 546.6 0 33 84 54 546.6 0 54 85 62 546.6 0 62 86 46 546.6 0 46 87 35 546.6 0 35 88 66 546.6 0 66 89 73 546.6 0 73 90 70 546.6 0 70 91 157 546.6 0 157 92 90 546.6 0 90 93 89 546.6 0 89 94 108 546.6 0 108 95 89 546.6 0 89 96 110 546.6 0 110 97 50 546.6 0 50 98 58 546.6 0 58 99 55 546.6 0 55 100 41 546.6 0 41 101 89 546.6 0 89 102 66 546.6 0 66 103 109 546.6 0 109 104 216 546.6 0 216 105 275 546.6 0 275 106 488 546.6 0 488 107 1229 546.6 0 1229 108 20701 546.6 0 20701 109 5673 546.6 0 5673 110 13224 546.6 0 13224 111 146 546.6 0 146 112 39 546.6 0 39 113 42 546.6 0 42 114 36 546.6 0 36 115 63 546.6 0 63 116 108 546.6 0 108 117 79 546.6 0 79 118 89 546.6 0 89 119 63 546.6 0 63 120 52 546.6 0 52 121 59 546.6 0 59 122 42 546.6 0 42 123 56 546.6 0 56 124 58 546.6 0 58 125 107 546.6 0 107 126 62 546.6 0 62 127 90 546.6 0 90 128 128 546.6 0 128 129 89 546.6 0 89 130 95 546.6 0 95 131 99 546.6 0 99 132 65 546.6 0 65 133 108 546.6 0 108 134 1031 546.6 0 1031 135 1237 546.6 0 1237 136 2183 546.6 0 2183 137 105 546.6 0 105 138 81 546.6 0 81 139 56 546.6 0 56 140 120 546.6 0 120 141 72 546.6 0 72 142 165 546.6 0 165 143 143 546.6 0 143 144 187 546.6 0 187 145 336 546.6 0 336 146 636 546.6 0 636 147 1300 546.6 0 1300 148 384 546.6 0 384 149 420 546.6 0 420 150 789 546.6 0 789 151 391 546.6 0 391 152 339 546.6 0 339 153 764 546.6 0 764 154 751 546.6 0 751 155 2950 546.6 0 2950 156 2382 546.6 0 2382 157 2948 546.6 0 2948 158 1699 546.6 0 1699 159 2276 546.6 0 2276 160 77278 546.6 0 77278 161 19502 546.6 0 19502 162 85047 546.6 0 85047 163 300 546.6 0 300 164 56 546.6 0 56 165 49 546.6 0 49 166 46 546.6 0 46 167 46 546.6 0 46 168 28 546.6 0 28 169 57 546.6 0 57 170 36 546.6 0 36 171 59 546.6 0 59 172 38 546.6 0 38 173 28 546.6 0 28 174 57 546.6 0 57 175 64 546.6 0 64 176 27 546.6 0 27 177 38 546.6 0 38 178 34 546.6 0 34 179 49 546.6 0 49 180 58 546.6 0 58 181 38 546.6 0 38 182 39 546.6 0 39 183 45 546.6 0 45 184 37 546.6 0 37 185 23 546.6 0 23 186 34 546.6 0 34 187 44 546.6 0 44 188 28 546.6 0 28 189 34 546.6 0 34 190 46 546.6 0 46 191 82 546.6 0 82 192 61 546.6 0 61 193 77 546.6 0 77 194 36 546.6 0 36 195 32 546.6 0 32 196 29 546.6 0 29 197 26 546.6 0 26 198 42 546.6 0 42 199 28 546.6 0 28 200 25 546.6 0 25 201 35 546.6 0 35 202 51 546.6 0 51 203 77 546.6 0 77 204 39 546.6 0 39 205 32 546.6 0 32 206 38 546.6 0 38 207 32 546.6 0 32 208 36 546.6 0 36 209 36 546.6 0 36 210 34 546.6 0 34 211 19 546.6 0 19 212 21 546.6 0 21 213 9 546.6 0 9 214 29 546.6 0 29 215 30 546.6 0 30 216 35 546.6 0 35 217 43 546.6 0 43 218 53 546.6 0 53 219 54 546.6 0 54 220 49 546.6 0 49 221 48 546.6 0 48 222 150 546.6 0 150 223 95 546.6 0 95 224 137 546.6 0 137 225 57 546.6 0 57 226 35 546.6 0 35 227 49 546.6 0 49 228 23 546.6 0 23 229 39 546.6 0 39 230 42 546.6 0 42 231 44 546.6 0 44 232 46 546.6 0 46 233 54 546.6 0 54 234 108 546.6 0 108 235 65 546.6 0 65 236 86 546.6 0 86 237 38 546.6 0 38 238 32 546.6 0 32 239 25 546.6 0 25 240 29 546.6 0 29 241 45 546.6 0 45 242 46 546.6 0 46 243 37 546.6 0 37 244 39 546.6 0 39 245 25 546.6 0 25 246 26 546.6 0 26 247 37 546.6 0 37 248 40 546.6 0 40 249 43 546.6 0 43 250 68 546.6 0 68 251 276 546.6 0 276 252 220 546.6 0 220 253 191 546.6 0 191 254 226 546.6 0 226 255 84 546.6 0 84 256 70 546.6 0 70 257 37 546.6 0 37 258 43 546.6 0 43 259 42 546.6 0 42 260 36 546.6 0 36 261 90 546.6 0 90 262 91 546.6 0 91 263 93 546.6 0 93 264 30 546.6 0 30 265 42 546.6 0 42 266 29 546.6 0 29 267 36 546.6 0 36 268 28 546.6 0 28 269 37 546.6 0 37 270 43 546.6 0 43 271 30 546.6 0 30 272 170 546.6 0 170 273 36 546.6 0 36 274 25 546.6 0 25 275 41 546.6 0 41 276 27 546.6 0 27 277 33 546.6 0 33 278 98 546.6 0 98 279 67 546.6 0 67 280 61 546.6 0 61 281 92 546.6 0 92 282 89 546.6 0 89 283 99 546.6 0 99 284 62 546.6 0 62 285 39 546.6 0 39 286 25 546.6 0 25 287 35 546.6 0 35 288 18 546.6 0 18 289 30 546.6 0 30 290 43 546.6 0 43 291 56 546.6 0 56 292 42 546.6 0 42 293 34 546.6 0 34 294 23 546.6 0 23 295 31 546.6 0 31 296 32 546.6 0 32 297 40 546.6 0 40 298 39 546.6 0 39 299 30 546.6 0 30 300 20 546.6 0 20 301 61 546.6 0 61 Finished in 9.07 s (34 us/read; 1.77 M reads/minute). === Summary === Total reads processed: 268,229 Reads with adapters: 6,443 (2.4%) Reads that were too short: 20 (0.0%) Reads written (passing filters): 6,423 (2.4%) Total basepairs processed: 42,393,087 bp Total written (filtered): 1,739,704 bp (4.1%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 6443 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 19 25 0.0 3 0 22 3 20 6302 0.0 4 6184 115 1 1 1 21 18 0.0 4 9 9 23 2 0.0 4 0 0 0 2 24 2 0.0 4 0 0 0 0 2 53 1 0.0 4 0 0 0 0 1 55 1 0.0 4 0 0 0 0 1 77 3 0.0 4 0 0 0 0 3 80 1 0.0 4 0 0 0 0 1 81 2 0.0 4 0 0 0 0 2 86 1 0.0 4 0 0 0 0 1 87 1 0.0 4 0 0 1 89 1 0.0 4 0 1 94 1 0.0 4 1 95 1 0.0 4 1 102 1 0.0 4 0 0 0 0 1 123 1 0.0 4 0 0 0 0 1 127 69 0.0 4 0 0 0 0 69 136 1 0.0 4 1 137 1 0.0 4 0 1 138 1 0.0 4 1 162 1 0.0 4 0 0 0 0 1 178 1 0.0 4 1 228 4 0.0 4 0 0 0 0 4 229 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 0.22 s (34 us/read; 1.75 M reads/minute). === Summary === Total reads processed: 6,423 Reads with adapters: 900 (14.0%) Reads written (passing filters): 6,423 (100.0%) Total basepairs processed: 1,739,704 bp Total written (filtered): 1,728,888 bp (99.4%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 900 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.6% C: 6.4% G: 89.0% T: 3.0% 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 4 100.4 0 4 4 1 25.1 0 1 6 7 1.6 0 7 9 346 0.0 0 9 337 10 441 0.0 1 19 422 11 90 0.0 1 0 90 13 1 0.0 1 0 1 223 9 0.0 1 8 1 224 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.