This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g ACAGGT -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 65.37 s (27 us/read; 2.24 M reads/minute). === Summary === Total reads processed: 2,442,494 Reads with adapters: 208,317 (8.5%) Reads that were too short: 6,681 (0.3%) Reads written (passing filters): 201,636 (8.3%) Total basepairs processed: 735,190,694 bp Total written (filtered): 57,471,695 bp (7.8%) === Adapter 1 === Sequence: ACAGGT; Type: regular 5'; Length: 6; Trimmed: 208317 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1240 596.3 0 1240 7 85989 596.3 0 85989 8 96544 596.3 0 96544 9 79 596.3 0 79 10 35 596.3 0 35 11 25 596.3 0 25 12 106 596.3 0 106 13 15 596.3 0 15 14 26 596.3 0 26 15 21 596.3 0 21 16 13 596.3 0 13 17 28 596.3 0 28 18 39 596.3 0 39 19 28 596.3 0 28 20 56 596.3 0 56 21 22 596.3 0 22 22 25 596.3 0 25 23 23 596.3 0 23 24 31 596.3 0 31 25 20 596.3 0 20 26 21 596.3 0 21 27 21 596.3 0 21 28 20 596.3 0 20 29 20 596.3 0 20 30 34 596.3 0 34 31 21 596.3 0 21 32 33 596.3 0 33 33 25 596.3 0 25 34 34 596.3 0 34 35 29 596.3 0 29 36 33 596.3 0 33 37 23 596.3 0 23 38 22 596.3 0 22 39 29 596.3 0 29 40 21 596.3 0 21 41 38 596.3 0 38 42 25 596.3 0 25 43 23 596.3 0 23 44 35 596.3 0 35 45 30 596.3 0 30 46 25 596.3 0 25 47 34 596.3 0 34 48 33 596.3 0 33 49 25 596.3 0 25 50 29 596.3 0 29 51 23 596.3 0 23 52 20 596.3 0 20 53 23 596.3 0 23 54 38 596.3 0 38 55 31 596.3 0 31 56 32 596.3 0 32 57 16 596.3 0 16 58 34 596.3 0 34 59 41 596.3 0 41 60 26 596.3 0 26 61 37 596.3 0 37 62 18 596.3 0 18 63 23 596.3 0 23 64 42 596.3 0 42 65 48 596.3 0 48 66 39 596.3 0 39 67 64 596.3 0 64 68 61 596.3 0 61 69 100 596.3 0 100 70 172 596.3 0 172 71 2885 596.3 0 2885 72 919 596.3 0 919 73 2503 596.3 0 2503 74 32 596.3 0 32 75 26 596.3 0 26 76 29 596.3 0 29 77 126 596.3 0 126 78 60 596.3 0 60 79 164 596.3 0 164 80 27 596.3 0 27 81 22 596.3 0 22 82 28 596.3 0 28 83 23 596.3 0 23 84 33 596.3 0 33 85 29 596.3 0 29 86 37 596.3 0 37 87 47 596.3 0 47 88 30 596.3 0 30 89 35 596.3 0 35 90 41 596.3 0 41 91 31 596.3 0 31 92 40 596.3 0 40 93 50 596.3 0 50 94 63 596.3 0 63 95 89 596.3 0 89 96 892 596.3 0 892 97 351 596.3 0 351 98 731 596.3 0 731 99 310 596.3 0 310 100 23 596.3 0 23 101 21 596.3 0 21 102 36 596.3 0 36 103 64 596.3 0 64 104 32 596.3 0 32 105 14 596.3 0 14 106 25 596.3 0 25 107 27 596.3 0 27 108 44 596.3 0 44 109 36 596.3 0 36 110 19 596.3 0 19 111 26 596.3 0 26 112 34 596.3 0 34 113 37 596.3 0 37 114 29 596.3 0 29 115 30 596.3 0 30 116 31 596.3 0 31 117 44 596.3 0 44 118 70 596.3 0 70 119 49 596.3 0 49 120 34 596.3 0 34 121 39 596.3 0 39 122 31 596.3 0 31 123 29 596.3 0 29 124 51 596.3 0 51 125 67 596.3 0 67 126 96 596.3 0 96 127 57 596.3 0 57 128 32 596.3 0 32 129 58 596.3 0 58 130 65 596.3 0 65 131 30 596.3 0 30 132 154 596.3 0 154 133 25 596.3 0 25 134 46 596.3 0 46 135 81 596.3 0 81 136 50 596.3 0 50 137 55 596.3 0 55 138 36 596.3 0 36 139 39 596.3 0 39 140 40 596.3 0 40 141 45 596.3 0 45 142 43 596.3 0 43 143 50 596.3 0 50 144 36 596.3 0 36 145 96 596.3 0 96 146 39 596.3 0 39 147 36 596.3 0 36 148 35 596.3 0 35 149 39 596.3 0 39 150 40 596.3 0 40 151 48 596.3 0 48 152 31 596.3 0 31 153 32 596.3 0 32 154 37 596.3 0 37 155 33 596.3 0 33 156 41 596.3 0 41 157 36 596.3 0 36 158 40 596.3 0 40 159 22 596.3 0 22 160 32 596.3 0 32 161 40 596.3 0 40 162 30 596.3 0 30 163 29 596.3 0 29 164 33 596.3 0 33 165 33 596.3 0 33 166 30 596.3 0 30 167 36 596.3 0 36 168 27 596.3 0 27 169 40 596.3 0 40 170 25 596.3 0 25 171 40 596.3 0 40 172 45 596.3 0 45 173 126 596.3 0 126 174 107 596.3 0 107 175 154 596.3 0 154 176 29 596.3 0 29 177 35 596.3 0 35 178 45 596.3 0 45 179 30 596.3 0 30 180 41 596.3 0 41 181 33 596.3 0 33 182 48 596.3 0 48 183 39 596.3 0 39 184 26 596.3 0 26 185 39 596.3 0 39 186 51 596.3 0 51 187 150 596.3 0 150 188 30 596.3 0 30 189 32 596.3 0 32 190 53 596.3 0 53 191 83 596.3 0 83 192 632 596.3 0 632 193 314 596.3 0 314 194 533 596.3 0 533 195 192 596.3 0 192 196 22 596.3 0 22 197 29 596.3 0 29 198 27 596.3 0 27 199 48 596.3 0 48 200 47 596.3 0 47 201 27 596.3 0 27 202 26 596.3 0 26 203 36 596.3 0 36 204 33 596.3 0 33 205 61 596.3 0 61 206 76 596.3 0 76 207 84 596.3 0 84 208 43 596.3 0 43 209 29 596.3 0 29 210 25 596.3 0 25 211 61 596.3 0 61 212 44 596.3 0 44 213 44 596.3 0 44 214 27 596.3 0 27 215 38 596.3 0 38 216 32 596.3 0 32 217 68 596.3 0 68 218 38 596.3 0 38 219 41 596.3 0 41 220 38 596.3 0 38 221 40 596.3 0 40 222 54 596.3 0 54 223 36 596.3 0 36 224 22 596.3 0 22 225 132 596.3 0 132 226 62 596.3 0 62 227 378 596.3 0 378 228 41 596.3 0 41 229 49 596.3 0 49 230 25 596.3 0 25 231 16 596.3 0 16 232 30 596.3 0 30 233 30 596.3 0 30 234 36 596.3 0 36 235 40 596.3 0 40 236 41 596.3 0 41 237 40 596.3 0 40 238 61 596.3 0 61 239 44 596.3 0 44 240 62 596.3 0 62 241 68 596.3 0 68 242 61 596.3 0 61 243 92 596.3 0 92 244 37 596.3 0 37 245 36 596.3 0 36 246 65 596.3 0 65 247 63 596.3 0 63 248 58 596.3 0 58 249 74 596.3 0 74 250 41 596.3 0 41 251 30 596.3 0 30 252 37 596.3 0 37 253 44 596.3 0 44 254 66 596.3 0 66 255 63 596.3 0 63 256 37 596.3 0 37 257 45 596.3 0 45 258 41 596.3 0 41 259 74 596.3 0 74 260 48 596.3 0 48 261 48 596.3 0 48 262 46 596.3 0 46 263 56 596.3 0 56 264 47 596.3 0 47 265 163 596.3 0 163 266 455 596.3 0 455 267 66 596.3 0 66 268 58 596.3 0 58 269 64 596.3 0 64 270 108 596.3 0 108 271 108 596.3 0 108 272 251 596.3 0 251 273 257 596.3 0 257 274 159 596.3 0 159 275 66 596.3 0 66 276 34 596.3 0 34 277 39 596.3 0 39 278 47 596.3 0 47 279 63 596.3 0 63 280 82 596.3 0 82 281 57 596.3 0 57 282 58 596.3 0 58 283 42 596.3 0 42 284 30 596.3 0 30 285 54 596.3 0 54 286 66 596.3 0 66 287 64 596.3 0 64 288 72 596.3 0 72 289 61 596.3 0 61 290 98 596.3 0 98 291 64 596.3 0 64 292 58 596.3 0 58 293 55 596.3 0 55 294 72 596.3 0 72 295 85 596.3 0 85 296 87 596.3 0 87 297 49 596.3 0 49 298 46 596.3 0 46 299 45 596.3 0 45 300 72 596.3 0 72 301 66 596.3 0 66 Finished in 9.80 s (49 us/read; 1.23 M reads/minute). === Summary === Total reads processed: 201,636 Reads with adapters: 99,324 (49.3%) Reads that were too short: 38 (0.0%) Reads written (passing filters): 99,286 (49.2%) Total basepairs processed: 57,471,695 bp Total written (filtered): 27,025,757 bp (47.0%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 99324 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 4 0.0 3 0 0 0 3 1 18 50 0.0 3 0 0 49 1 19 1361 0.0 3 0 1331 28 1 1 20 96765 0.0 4 95002 1698 58 6 1 21 214 0.0 4 28 181 5 22 15 0.0 4 1 1 12 1 23 97 0.0 4 19 0 0 71 7 24 3 0.0 4 1 0 0 1 1 26 1 0.0 4 0 0 1 29 1 0.0 4 1 35 1 0.0 4 1 36 1 0.0 4 1 43 1 0.0 4 0 0 0 0 1 76 1 0.0 4 0 0 0 0 1 88 1 0.0 4 0 0 0 0 1 120 1 0.0 4 0 0 0 0 1 126 8 0.0 4 0 0 0 0 8 127 756 0.0 4 0 0 0 0 756 128 4 0.0 4 0 0 0 0 4 129 2 0.0 4 0 0 0 0 2 153 1 0.0 4 0 0 0 0 1 175 1 0.0 4 0 0 0 0 1 200 2 0.0 4 1 0 0 0 1 202 2 0.0 4 0 0 0 0 2 222 1 0.0 4 0 0 0 0 1 228 10 0.0 4 0 0 0 0 10 229 4 0.0 4 0 0 0 0 4 231 2 0.0 4 0 0 0 0 2 232 1 0.0 4 0 0 0 0 1 235 3 0.0 4 0 0 0 0 3 236 1 0.0 4 0 0 0 0 1 237 6 0.0 4 0 0 0 0 6 263 1 0.0 4 0 0 0 0 1 265 1 0.0 4 0 0 0 0 1 283 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 3.46 s (35 us/read; 1.72 M reads/minute). === Summary === Total reads processed: 99,286 Reads with adapters: 5,780 (5.8%) Reads written (passing filters): 99,286 (100.0%) Total basepairs processed: 27,025,757 bp Total written (filtered): 26,961,821 bp (99.8%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 5780 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 2.2% C: 3.8% G: 91.6% T: 2.4% 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 79 1551.3 0 79 4 20 387.8 0 20 5 6 97.0 0 6 7 1 6.1 0 1 8 3 1.5 0 3 9 156 0.4 0 4 152 10 1134 0.1 1 45 1089 11 4306 0.0 1 35 4271 12 21 0.0 1 1 20 13 3 0.0 1 0 3 14 4 0.0 1 1 3 15 3 0.0 1 1 2 16 1 0.0 1 0 1 19 7 0.0 1 6 1 20 17 0.0 1 14 3 21 2 0.0 1 2 26 1 0.0 1 0 1 41 1 0.0 1 1 42 1 0.0 1 1 105 1 0.0 1 1 148 2 0.0 1 2 151 3 0.0 1 0 3 154 1 0.0 1 1 157 1 0.0 1 1 161 1 0.0 1 1 194 1 0.0 1 1 209 3 0.0 1 1 2 269 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.