This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TGTGGC -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 136.48 s (43 us/read; 1.39 M reads/minute). === Summary === Total reads processed: 3,166,434 Reads with adapters: 110,824 (3.5%) Reads that were too short: 76,518 (2.4%) Reads written (passing filters): 34,306 (1.1%) Total basepairs processed: 953,096,634 bp Total written (filtered): 8,792,367 bp (0.9%) === Adapter 1 === Sequence: TGTGGC; Type: regular 5'; Length: 6; Trimmed: 110824 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 483 773.1 0 483 7 9476 773.1 0 9476 8 348 773.1 0 348 9 12022 773.1 0 12022 10 42 773.1 0 42 11 40 773.1 0 40 12 42 773.1 0 42 13 31 773.1 0 31 14 35 773.1 0 35 15 44 773.1 0 44 16 36 773.1 0 36 17 56 773.1 0 56 18 54 773.1 0 54 19 78 773.1 0 78 20 34 773.1 0 34 21 38 773.1 0 38 22 31 773.1 0 31 23 39 773.1 0 39 24 38 773.1 0 38 25 32 773.1 0 32 26 30 773.1 0 30 27 32 773.1 0 32 28 38 773.1 0 38 29 59 773.1 0 59 30 128 773.1 0 128 31 61 773.1 0 61 32 47 773.1 0 47 33 53 773.1 0 53 34 31 773.1 0 31 35 61 773.1 0 61 36 36 773.1 0 36 37 42 773.1 0 42 38 48 773.1 0 48 39 28 773.1 0 28 40 57 773.1 0 57 41 45 773.1 0 45 42 53 773.1 0 53 43 34 773.1 0 34 44 33 773.1 0 33 45 28 773.1 0 28 46 35 773.1 0 35 47 54 773.1 0 54 48 52 773.1 0 52 49 69 773.1 0 69 50 48 773.1 0 48 51 56 773.1 0 56 52 49 773.1 0 49 53 62 773.1 0 62 54 87 773.1 0 87 55 36 773.1 0 36 56 36 773.1 0 36 57 35 773.1 0 35 58 64 773.1 0 64 59 56 773.1 0 56 60 54 773.1 0 54 61 56 773.1 0 56 62 44 773.1 0 44 63 58 773.1 0 58 64 54 773.1 0 54 65 31 773.1 0 31 66 41 773.1 0 41 67 31 773.1 0 31 68 43 773.1 0 43 69 45 773.1 0 45 70 53 773.1 0 53 71 103 773.1 0 103 72 135 773.1 0 135 73 114 773.1 0 114 74 80 773.1 0 80 75 32 773.1 0 32 76 29 773.1 0 29 77 37 773.1 0 37 78 30 773.1 0 30 79 43 773.1 0 43 80 50 773.1 0 50 81 58 773.1 0 58 82 53 773.1 0 53 83 33 773.1 0 33 84 54 773.1 0 54 85 45 773.1 0 45 86 33 773.1 0 33 87 41 773.1 0 41 88 32 773.1 0 32 89 38 773.1 0 38 90 28 773.1 0 28 91 49 773.1 0 49 92 67 773.1 0 67 93 63 773.1 0 63 94 66 773.1 0 66 95 62 773.1 0 62 96 61 773.1 0 61 97 89 773.1 0 89 98 35 773.1 0 35 99 40 773.1 0 40 100 27 773.1 0 27 101 43 773.1 0 43 102 34 773.1 0 34 103 67 773.1 0 67 104 38 773.1 0 38 105 38 773.1 0 38 106 33 773.1 0 33 107 39 773.1 0 39 108 42 773.1 0 42 109 35 773.1 0 35 110 32 773.1 0 32 111 40 773.1 0 40 112 39 773.1 0 39 113 35 773.1 0 35 114 31 773.1 0 31 115 48 773.1 0 48 116 33 773.1 0 33 117 67 773.1 0 67 118 35 773.1 0 35 119 132 773.1 0 132 120 68 773.1 0 68 121 37 773.1 0 37 122 32 773.1 0 32 123 87 773.1 0 87 124 356 773.1 0 356 125 53 773.1 0 53 126 60 773.1 0 60 127 78 773.1 0 78 128 32 773.1 0 32 129 43 773.1 0 43 130 137 773.1 0 137 131 404 773.1 0 404 132 244 773.1 0 244 133 214 773.1 0 214 134 183 773.1 0 183 135 64 773.1 0 64 136 180 773.1 0 180 137 444 773.1 0 444 138 376 773.1 0 376 139 238 773.1 0 238 140 72 773.1 0 72 141 54 773.1 0 54 142 54 773.1 0 54 143 50 773.1 0 50 144 31 773.1 0 31 145 40 773.1 0 40 146 65 773.1 0 65 147 27 773.1 0 27 148 41 773.1 0 41 149 35 773.1 0 35 150 52 773.1 0 52 151 147 773.1 0 147 152 95 773.1 0 95 153 90 773.1 0 90 154 37 773.1 0 37 155 44 773.1 0 44 156 34 773.1 0 34 157 32 773.1 0 32 158 48 773.1 0 48 159 31 773.1 0 31 160 27 773.1 0 27 161 33 773.1 0 33 162 33 773.1 0 33 163 38 773.1 0 38 164 31 773.1 0 31 165 49 773.1 0 49 166 65 773.1 0 65 167 37 773.1 0 37 168 37 773.1 0 37 169 32 773.1 0 32 170 28 773.1 0 28 171 22 773.1 0 22 172 26 773.1 0 26 173 30 773.1 0 30 174 38 773.1 0 38 175 28 773.1 0 28 176 39 773.1 0 39 177 73 773.1 0 73 178 232 773.1 0 232 179 60 773.1 0 60 180 30 773.1 0 30 181 40 773.1 0 40 182 20 773.1 0 20 183 39 773.1 0 39 184 52 773.1 0 52 185 48 773.1 0 48 186 136 773.1 0 136 187 129 773.1 0 129 188 119 773.1 0 119 189 99 773.1 0 99 190 66 773.1 0 66 191 37 773.1 0 37 192 43 773.1 0 43 193 43 773.1 0 43 194 36 773.1 0 36 195 38 773.1 0 38 196 46 773.1 0 46 197 75 773.1 0 75 198 40 773.1 0 40 199 48 773.1 0 48 200 41 773.1 0 41 201 34 773.1 0 34 202 47 773.1 0 47 203 47 773.1 0 47 204 47 773.1 0 47 205 63 773.1 0 63 206 56 773.1 0 56 207 43 773.1 0 43 208 43 773.1 0 43 209 32 773.1 0 32 210 61 773.1 0 61 211 73 773.1 0 73 212 458 773.1 0 458 213 502 773.1 0 502 214 346 773.1 0 346 215 78 773.1 0 78 216 120 773.1 0 120 217 125 773.1 0 125 218 338 773.1 0 338 219 113 773.1 0 113 220 141 773.1 0 141 221 49 773.1 0 49 222 48 773.1 0 48 223 50 773.1 0 50 224 45 773.1 0 45 225 64 773.1 0 64 226 63 773.1 0 63 227 47 773.1 0 47 228 65 773.1 0 65 229 54 773.1 0 54 230 54 773.1 0 54 231 58 773.1 0 58 232 95 773.1 0 95 233 89 773.1 0 89 234 108 773.1 0 108 235 197 773.1 0 197 236 694 773.1 0 694 237 416 773.1 0 416 238 534 773.1 0 534 239 158 773.1 0 158 240 58 773.1 0 58 241 229 773.1 0 229 242 217 773.1 0 217 243 1142 773.1 0 1142 244 1141 773.1 0 1141 245 1206 773.1 0 1206 246 426 773.1 0 426 247 161 773.1 0 161 248 121 773.1 0 121 249 112 773.1 0 112 250 183 773.1 0 183 251 159 773.1 0 159 252 169 773.1 0 169 253 99 773.1 0 99 254 141 773.1 0 141 255 368 773.1 0 368 256 612 773.1 0 612 257 742 773.1 0 742 258 527 773.1 0 527 259 256 773.1 0 256 260 1356 773.1 0 1356 261 746 773.1 0 746 262 1043 773.1 0 1043 263 327 773.1 0 327 264 79 773.1 0 79 265 206 773.1 0 206 266 207 773.1 0 207 267 225 773.1 0 225 268 119 773.1 0 119 269 102 773.1 0 102 270 124 773.1 0 124 271 178 773.1 0 178 272 204 773.1 0 204 273 287 773.1 0 287 274 163 773.1 0 163 275 234 773.1 0 234 276 407 773.1 0 407 277 226 773.1 0 226 278 159 773.1 0 159 279 379 773.1 0 379 280 485 773.1 0 485 281 798 773.1 0 798 282 558 773.1 0 558 283 455 773.1 0 455 284 564 773.1 0 564 285 847 773.1 0 847 286 15983 773.1 0 15983 287 13704 773.1 0 13704 288 19415 773.1 0 19415 289 160 773.1 0 160 290 91 773.1 0 91 291 118 773.1 0 118 292 168 773.1 0 168 293 126 773.1 0 126 294 122 773.1 0 122 295 162 773.1 0 162 296 539 773.1 0 539 297 473 773.1 0 473 298 600 773.1 0 600 299 467 773.1 0 467 300 160 773.1 0 160 301 62 773.1 0 62 Finished in 2.41 s (70 us/read; 0.85 M reads/minute). === Summary === Total reads processed: 34,306 Reads with adapters: 9,985 (29.1%) Reads that were too short: 17 (0.0%) Reads written (passing filters): 9,968 (29.1%) Total basepairs processed: 8,792,367 bp Total written (filtered): 2,686,669 bp (30.6%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 9985 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 5 0.0 3 0 0 3 1 1 19 111 0.0 3 0 99 7 5 20 9395 0.0 4 8962 355 60 12 6 21 26 0.0 4 3 19 0 2 2 22 5 0.0 4 1 0 2 0 2 23 15 0.0 4 1 1 0 9 4 41 2 0.0 4 0 0 0 0 2 43 1 0.0 4 0 0 0 0 1 69 1 0.0 4 0 0 0 1 75 1 0.0 4 0 1 98 2 0.0 4 0 0 0 0 2 99 3 0.0 4 0 0 0 0 3 103 1 0.0 4 0 0 0 0 1 125 2 0.0 4 0 0 0 0 2 126 5 0.0 4 0 0 0 0 5 127 397 0.0 4 0 0 0 0 397 130 1 0.0 4 0 0 0 0 1 141 1 0.0 4 0 0 0 0 1 143 1 0.0 4 0 0 0 0 1 160 1 0.0 4 0 0 0 0 1 163 1 0.0 4 0 0 0 0 1 180 1 0.0 4 0 0 0 0 1 182 1 0.0 4 0 0 0 1 228 1 0.0 4 0 0 0 0 1 229 2 0.0 4 0 0 0 0 2 240 1 0.0 4 0 0 0 0 1 260 2 0.0 4 0 0 0 0 2 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 0.54 s (54 us/read; 1.11 M reads/minute). === Summary === Total reads processed: 9,968 Reads with adapters: 441 (4.4%) Reads written (passing filters): 9,968 (100.0%) Total basepairs processed: 2,686,669 bp Total written (filtered): 2,682,009 bp (99.8%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 441 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 6.1% C: 9.5% G: 81.4% T: 2.9% 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 42 155.8 0 42 4 2 38.9 0 2 5 1 9.7 0 1 9 5 0.0 0 0 5 10 6 0.0 1 0 6 11 269 0.0 1 8 261 12 112 0.0 1 1 111 13 3 0.0 1 0 3 74 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.