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 58.95 s (26 us/read; 2.28 M reads/minute). === Summary === Total reads processed: 2,238,925 Reads with adapters: 347,477 (15.5%) Reads that were too short: 273,692 (12.2%) Reads written (passing filters): 73,785 (3.3%) Total basepairs processed: 673,916,425 bp Total written (filtered): 18,617,471 bp (2.8%) === Adapter 1 === Sequence: ACGCGC; Type: regular 5'; Length: 6; Trimmed: 347477 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1230 546.6 0 1230 7 23268 546.6 0 23268 8 977 546.6 0 977 9 27590 546.6 0 27590 10 67 546.6 0 67 11 41 546.6 0 41 12 26 546.6 0 26 13 33 546.6 0 33 14 20 546.6 0 20 15 25 546.6 0 25 16 18 546.6 0 18 17 26 546.6 0 26 18 37 546.6 0 37 19 35 546.6 0 35 20 29 546.6 0 29 21 42 546.6 0 42 22 27 546.6 0 27 23 26 546.6 0 26 24 12 546.6 0 12 25 16 546.6 0 16 26 12 546.6 0 12 27 10 546.6 0 10 28 20 546.6 0 20 29 20 546.6 0 20 30 11 546.6 0 11 31 22 546.6 0 22 32 23 546.6 0 23 33 19 546.6 0 19 34 18 546.6 0 18 35 20 546.6 0 20 36 28 546.6 0 28 37 15 546.6 0 15 38 22 546.6 0 22 39 18 546.6 0 18 40 22 546.6 0 22 41 24 546.6 0 24 42 22 546.6 0 22 43 25 546.6 0 25 44 25 546.6 0 25 45 35 546.6 0 35 46 52 546.6 0 52 47 201 546.6 0 201 48 89 546.6 0 89 49 55 546.6 0 55 50 20 546.6 0 20 51 28 546.6 0 28 52 23 546.6 0 23 53 41 546.6 0 41 54 48 546.6 0 48 55 93 546.6 0 93 56 28 546.6 0 28 57 19 546.6 0 19 58 30 546.6 0 30 59 36 546.6 0 36 60 15 546.6 0 15 61 25 546.6 0 25 62 29 546.6 0 29 63 51 546.6 0 51 64 24 546.6 0 24 65 19 546.6 0 19 66 23 546.6 0 23 67 18 546.6 0 18 68 24 546.6 0 24 69 37 546.6 0 37 70 36 546.6 0 36 71 94 546.6 0 94 72 131 546.6 0 131 73 125 546.6 0 125 74 192 546.6 0 192 75 19 546.6 0 19 76 20 546.6 0 20 77 18 546.6 0 18 78 18 546.6 0 18 79 11 546.6 0 11 80 26 546.6 0 26 81 12 546.6 0 12 82 18 546.6 0 18 83 24 546.6 0 24 84 41 546.6 0 41 85 76 546.6 0 76 86 47 546.6 0 47 87 37 546.6 0 37 88 31 546.6 0 31 89 31 546.6 0 31 90 18 546.6 0 18 91 23 546.6 0 23 92 14 546.6 0 14 93 17 546.6 0 17 94 14 546.6 0 14 95 18 546.6 0 18 96 11 546.6 0 11 97 13 546.6 0 13 98 15 546.6 0 15 99 16 546.6 0 16 100 13 546.6 0 13 101 10 546.6 0 10 102 10 546.6 0 10 103 19 546.6 0 19 104 28 546.6 0 28 105 31 546.6 0 31 106 18 546.6 0 18 107 22 546.6 0 22 108 16 546.6 0 16 109 25 546.6 0 25 110 12 546.6 0 12 111 14 546.6 0 14 112 25 546.6 0 25 113 89 546.6 0 89 114 66 546.6 0 66 115 39 546.6 0 39 116 107 546.6 0 107 117 60 546.6 0 60 118 56 546.6 0 56 119 20 546.6 0 20 120 30 546.6 0 30 121 26 546.6 0 26 122 50 546.6 0 50 123 123 546.6 0 123 124 213 546.6 0 213 125 844 546.6 0 844 126 126 546.6 0 126 127 53 546.6 0 53 128 71 546.6 0 71 129 37 546.6 0 37 130 55 546.6 0 55 131 43 546.6 0 43 132 22 546.6 0 22 133 19 546.6 0 19 134 27 546.6 0 27 135 34 546.6 0 34 136 36 546.6 0 36 137 41 546.6 0 41 138 47 546.6 0 47 139 38 546.6 0 38 140 34 546.6 0 34 141 35 546.6 0 35 142 48 546.6 0 48 143 35 546.6 0 35 144 29 546.6 0 29 145 40 546.6 0 40 146 34 546.6 0 34 147 66 546.6 0 66 148 39 546.6 0 39 149 60 546.6 0 60 150 140 546.6 0 140 151 210 546.6 0 210 152 592 546.6 0 592 153 72 546.6 0 72 154 97 546.6 0 97 155 66 546.6 0 66 156 70 546.6 0 70 157 44 546.6 0 44 158 62 546.6 0 62 159 69 546.6 0 69 160 248 546.6 0 248 161 294 546.6 0 294 162 289 546.6 0 289 163 89 546.6 0 89 164 131 546.6 0 131 165 448 546.6 0 448 166 474 546.6 0 474 167 699 546.6 0 699 168 259 546.6 0 259 169 300 546.6 0 300 170 259 546.6 0 259 171 101 546.6 0 101 172 144 546.6 0 144 173 86 546.6 0 86 174 86 546.6 0 86 175 85 546.6 0 85 176 110 546.6 0 110 177 120 546.6 0 120 178 110 546.6 0 110 179 97 546.6 0 97 180 150 546.6 0 150 181 132 546.6 0 132 182 109 546.6 0 109 183 149 546.6 0 149 184 138 546.6 0 138 185 1247 546.6 0 1247 186 634 546.6 0 634 187 2205 546.6 0 2205 188 1412 546.6 0 1412 189 538 546.6 0 538 190 59 546.6 0 59 191 67 546.6 0 67 192 86 546.6 0 86 193 84 546.6 0 84 194 126 546.6 0 126 195 114 546.6 0 114 196 196 546.6 0 196 197 339 546.6 0 339 198 184 546.6 0 184 199 259 546.6 0 259 200 401 546.6 0 401 201 120 546.6 0 120 202 64 546.6 0 64 203 101 546.6 0 101 204 88 546.6 0 88 205 85 546.6 0 85 206 88 546.6 0 88 207 121 546.6 0 121 208 62 546.6 0 62 209 85 546.6 0 85 210 376 546.6 0 376 211 79 546.6 0 79 212 76 546.6 0 76 213 102 546.6 0 102 214 99 546.6 0 99 215 91 546.6 0 91 216 112 546.6 0 112 217 241 546.6 0 241 218 662 546.6 0 662 219 699 546.6 0 699 220 1244 546.6 0 1244 221 4056 546.6 0 4056 222 8306 546.6 0 8306 223 4122 546.6 0 4122 224 2574 546.6 0 2574 225 450 546.6 0 450 226 475 546.6 0 475 227 718 546.6 0 718 228 291 546.6 0 291 229 392 546.6 0 392 230 411 546.6 0 411 231 382 546.6 0 382 232 599 546.6 0 599 233 956 546.6 0 956 234 1289 546.6 0 1289 235 2869 546.6 0 2869 236 6383 546.6 0 6383 237 90143 546.6 0 90143 238 59116 546.6 0 59116 239 49025 546.6 0 49025 240 2597 546.6 0 2597 241 1012 546.6 0 1012 242 197 546.6 0 197 243 193 546.6 0 193 244 217 546.6 0 217 245 3562 546.6 0 3562 246 1859 546.6 0 1859 247 9300 546.6 0 9300 248 2595 546.6 0 2595 249 2383 546.6 0 2383 250 828 546.6 0 828 251 308 546.6 0 308 252 122 546.6 0 122 253 45 546.6 0 45 254 57 546.6 0 57 255 64 546.6 0 64 256 83 546.6 0 83 257 96 546.6 0 96 258 54 546.6 0 54 259 22 546.6 0 22 260 93 546.6 0 93 261 85 546.6 0 85 262 159 546.6 0 159 263 66 546.6 0 66 264 125 546.6 0 125 265 88 546.6 0 88 266 102 546.6 0 102 267 239 546.6 0 239 268 489 546.6 0 489 269 583 546.6 0 583 270 442 546.6 0 442 271 212 546.6 0 212 272 163 546.6 0 163 273 114 546.6 0 114 274 149 546.6 0 149 275 94 546.6 0 94 276 141 546.6 0 141 277 92 546.6 0 92 278 91 546.6 0 91 279 107 546.6 0 107 280 248 546.6 0 248 281 224 546.6 0 224 282 379 546.6 0 379 283 346 546.6 0 346 284 115 546.6 0 115 285 110 546.6 0 110 286 230 546.6 0 230 287 468 546.6 0 468 288 500 546.6 0 500 289 885 546.6 0 885 290 616 546.6 0 616 291 688 546.6 0 688 292 201 546.6 0 201 293 140 546.6 0 140 294 342 546.6 0 342 295 463 546.6 0 463 296 607 546.6 0 607 297 266 546.6 0 266 298 218 546.6 0 218 299 180 546.6 0 180 300 94 546.6 0 94 301 112 546.6 0 112 Finished in 3.63 s (49 us/read; 1.22 M reads/minute). === Summary === Total reads processed: 73,785 Reads with adapters: 24,583 (33.3%) Reads that were too short: 24 (0.0%) Reads written (passing filters): 24,559 (33.3%) Total basepairs processed: 18,617,471 bp Total written (filtered): 6,666,063 bp (35.8%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 24583 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 1 0.0 3 0 0 0 1 18 10 0.0 3 0 0 5 4 1 19 168 0.0 3 0 144 11 11 2 20 23660 0.0 4 22529 937 137 48 9 21 71 0.0 4 9 54 5 2 1 22 21 0.0 4 2 1 4 2 12 23 53 0.0 4 4 1 1 34 13 27 1 0.0 4 0 0 0 0 1 30 1 0.0 4 0 0 0 0 1 33 1 0.0 4 0 0 0 0 1 46 1 0.0 4 0 0 0 0 1 49 1 0.0 4 0 0 0 0 1 56 1 0.0 4 0 0 0 0 1 57 2 0.0 4 0 0 0 0 2 62 1 0.0 4 0 0 0 0 1 74 1 0.0 4 0 0 0 0 1 79 1 0.0 4 0 0 0 0 1 85 1 0.0 4 0 1 88 1 0.0 4 0 0 0 0 1 105 1 0.0 4 0 0 0 0 1 106 1 0.0 4 0 0 0 0 1 117 1 0.0 4 0 0 0 1 125 1 0.0 4 0 0 0 0 1 126 5 0.0 4 0 0 0 0 5 127 558 0.0 4 0 0 0 0 558 128 2 0.0 4 0 0 0 0 2 129 1 0.0 4 0 0 0 0 1 130 1 0.0 4 0 0 0 0 1 140 1 0.0 4 0 0 0 0 1 153 2 0.0 4 0 0 0 0 2 177 1 0.0 4 0 0 0 0 1 184 1 0.0 4 0 0 0 0 1 209 1 0.0 4 0 0 0 0 1 215 1 0.0 4 0 0 0 0 1 229 1 0.0 4 0 0 0 0 1 236 1 0.0 4 0 0 0 0 1 258 2 0.0 4 0 0 0 0 2 262 1 0.0 4 0 0 0 0 1 263 1 0.0 4 0 0 0 0 1 273 1 0.0 4 0 0 1 274 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 0.85 s (35 us/read; 1.73 M reads/minute). === Summary === Total reads processed: 24,559 Reads with adapters: 2,075 (8.4%) Reads written (passing filters): 24,559 (100.0%) Total basepairs processed: 6,666,063 bp Total written (filtered): 6,639,838 bp (99.6%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 2075 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 5.6% C: 11.0% G: 81.0% 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 3 101 383.7 0 101 4 33 95.9 0 33 5 1 24.0 0 1 9 9 0.1 0 1 8 10 17 0.0 1 1 16 11 1529 0.0 1 77 1452 12 332 0.0 1 6 326 13 19 0.0 1 2 17 14 4 0.0 1 0 4 15 5 0.0 1 0 5 20 1 0.0 1 0 1 140 1 0.0 1 0 1 152 11 0.0 1 7 4 191 1 0.0 1 0 1 210 10 0.0 1 7 3 230 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.