This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CTCTGC -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 140.80 s (44 us/read; 1.35 M reads/minute). === Summary === Total reads processed: 3,166,434 Reads with adapters: 234,868 (7.4%) Reads that were too short: 31,364 (1.0%) Reads written (passing filters): 203,504 (6.4%) Total basepairs processed: 953,096,634 bp Total written (filtered): 37,253,403 bp (3.9%) === Adapter 1 === Sequence: CTCTGC; Type: regular 5'; Length: 6; Trimmed: 234868 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 210 773.1 0 210 7 4233 773.1 0 4233 8 161 773.1 0 161 9 3874 773.1 0 3874 10 29 773.1 0 29 11 28 773.1 0 28 12 35 773.1 0 35 13 38 773.1 0 38 14 78 773.1 0 78 15 69 773.1 0 69 16 78 773.1 0 78 17 32 773.1 0 32 18 8 773.1 0 8 19 29 773.1 0 29 20 27 773.1 0 27 21 39 773.1 0 39 22 43 773.1 0 43 23 28 773.1 0 28 24 74 773.1 0 74 25 43 773.1 0 43 26 28 773.1 0 28 27 39 773.1 0 39 28 36 773.1 0 36 29 43 773.1 0 43 30 36 773.1 0 36 31 39 773.1 0 39 32 57 773.1 0 57 33 49 773.1 0 49 34 50 773.1 0 50 35 52 773.1 0 52 36 42 773.1 0 42 37 50 773.1 0 50 38 46 773.1 0 46 39 85 773.1 0 85 40 64 773.1 0 64 41 65 773.1 0 65 42 34 773.1 0 34 43 44 773.1 0 44 44 25 773.1 0 25 45 52 773.1 0 52 46 70 773.1 0 70 47 42 773.1 0 42 48 49 773.1 0 49 49 27 773.1 0 27 50 49 773.1 0 49 51 57 773.1 0 57 52 77 773.1 0 77 53 55 773.1 0 55 54 48 773.1 0 48 55 76 773.1 0 76 56 208 773.1 0 208 57 196 773.1 0 196 58 279 773.1 0 279 59 495 773.1 0 495 60 168 773.1 0 168 61 269 773.1 0 269 62 40 773.1 0 40 63 54 773.1 0 54 64 56 773.1 0 56 65 54 773.1 0 54 66 40 773.1 0 40 67 60 773.1 0 60 68 37 773.1 0 37 69 82 773.1 0 82 70 68 773.1 0 68 71 41 773.1 0 41 72 71 773.1 0 71 73 60 773.1 0 60 74 74 773.1 0 74 75 41 773.1 0 41 76 41 773.1 0 41 77 197 773.1 0 197 78 60 773.1 0 60 79 49 773.1 0 49 80 46 773.1 0 46 81 65 773.1 0 65 82 50 773.1 0 50 83 97 773.1 0 97 84 97 773.1 0 97 85 101 773.1 0 101 86 69 773.1 0 69 87 588 773.1 0 588 88 54 773.1 0 54 89 120 773.1 0 120 90 85 773.1 0 85 91 120 773.1 0 120 92 120 773.1 0 120 93 64 773.1 0 64 94 100 773.1 0 100 95 86 773.1 0 86 96 121 773.1 0 121 97 234 773.1 0 234 98 89 773.1 0 89 99 151 773.1 0 151 100 143 773.1 0 143 101 168 773.1 0 168 102 412 773.1 0 412 103 226 773.1 0 226 104 94 773.1 0 94 105 81 773.1 0 81 106 555 773.1 0 555 107 495 773.1 0 495 108 572 773.1 0 572 109 393 773.1 0 393 110 519 773.1 0 519 111 577 773.1 0 577 112 1253 773.1 0 1253 113 2651 773.1 0 2651 114 40368 773.1 0 40368 115 26370 773.1 0 26370 116 62120 773.1 0 62120 117 449 773.1 0 449 118 192 773.1 0 192 119 35 773.1 0 35 120 48 773.1 0 48 121 37 773.1 0 37 122 31 773.1 0 31 123 38 773.1 0 38 124 55 773.1 0 55 125 49 773.1 0 49 126 98 773.1 0 98 127 74 773.1 0 74 128 183 773.1 0 183 129 184 773.1 0 184 130 133 773.1 0 133 131 137 773.1 0 137 132 324 773.1 0 324 133 70 773.1 0 70 134 57 773.1 0 57 135 83 773.1 0 83 136 87 773.1 0 87 137 131 773.1 0 131 138 88 773.1 0 88 139 54 773.1 0 54 140 404 773.1 0 404 141 817 773.1 0 817 142 659 773.1 0 659 143 288 773.1 0 288 144 189 773.1 0 189 145 278 773.1 0 278 146 440 773.1 0 440 147 9797 773.1 0 9797 148 4308 773.1 0 4308 149 8655 773.1 0 8655 150 252 773.1 0 252 151 213 773.1 0 213 152 384 773.1 0 384 153 5202 773.1 0 5202 154 3417 773.1 0 3417 155 4829 773.1 0 4829 156 461 773.1 0 461 157 377 773.1 0 377 158 251 773.1 0 251 159 49 773.1 0 49 160 86 773.1 0 86 161 122 773.1 0 122 162 153 773.1 0 153 163 165 773.1 0 165 164 111 773.1 0 111 165 103 773.1 0 103 166 65 773.1 0 65 167 120 773.1 0 120 168 571 773.1 0 571 169 364 773.1 0 364 170 372 773.1 0 372 171 163 773.1 0 163 172 54 773.1 0 54 173 41 773.1 0 41 174 35 773.1 0 35 175 96 773.1 0 96 176 44 773.1 0 44 177 46 773.1 0 46 178 66 773.1 0 66 179 50 773.1 0 50 180 59 773.1 0 59 181 98 773.1 0 98 182 127 773.1 0 127 183 525 773.1 0 525 184 345 773.1 0 345 185 671 773.1 0 671 186 475 773.1 0 475 187 276 773.1 0 276 188 116 773.1 0 116 189 110 773.1 0 110 190 135 773.1 0 135 191 357 773.1 0 357 192 93 773.1 0 93 193 42 773.1 0 42 194 48 773.1 0 48 195 70 773.1 0 70 196 39 773.1 0 39 197 46 773.1 0 46 198 134 773.1 0 134 199 40 773.1 0 40 200 69 773.1 0 69 201 59 773.1 0 59 202 172 773.1 0 172 203 133 773.1 0 133 204 164 773.1 0 164 205 51 773.1 0 51 206 46 773.1 0 46 207 31 773.1 0 31 208 27 773.1 0 27 209 42 773.1 0 42 210 38 773.1 0 38 211 39 773.1 0 39 212 42 773.1 0 42 213 56 773.1 0 56 214 51 773.1 0 51 215 92 773.1 0 92 216 349 773.1 0 349 217 295 773.1 0 295 218 254 773.1 0 254 219 42 773.1 0 42 220 39 773.1 0 39 221 43 773.1 0 43 222 62 773.1 0 62 223 50 773.1 0 50 224 48 773.1 0 48 225 43 773.1 0 43 226 107 773.1 0 107 227 79 773.1 0 79 228 56 773.1 0 56 229 35 773.1 0 35 230 71 773.1 0 71 231 70 773.1 0 70 232 72 773.1 0 72 233 124 773.1 0 124 234 147 773.1 0 147 235 271 773.1 0 271 236 158 773.1 0 158 237 125 773.1 0 125 238 68 773.1 0 68 239 62 773.1 0 62 240 62 773.1 0 62 241 37 773.1 0 37 242 73 773.1 0 73 243 54 773.1 0 54 244 75 773.1 0 75 245 91 773.1 0 91 246 159 773.1 0 159 247 73 773.1 0 73 248 78 773.1 0 78 249 155 773.1 0 155 250 125 773.1 0 125 251 166 773.1 0 166 252 66 773.1 0 66 253 92 773.1 0 92 254 150 773.1 0 150 255 117 773.1 0 117 256 71 773.1 0 71 257 65 773.1 0 65 258 61 773.1 0 61 259 65 773.1 0 65 260 75 773.1 0 75 261 68 773.1 0 68 262 94 773.1 0 94 263 72 773.1 0 72 264 85 773.1 0 85 265 115 773.1 0 115 266 89 773.1 0 89 267 150 773.1 0 150 268 159 773.1 0 159 269 116 773.1 0 116 270 273 773.1 0 273 271 290 773.1 0 290 272 223 773.1 0 223 273 142 773.1 0 142 274 125 773.1 0 125 275 184 773.1 0 184 276 184 773.1 0 184 277 160 773.1 0 160 278 267 773.1 0 267 279 848 773.1 0 848 280 1361 773.1 0 1361 281 5503 773.1 0 5503 282 4380 773.1 0 4380 283 5944 773.1 0 5944 284 214 773.1 0 214 285 238 773.1 0 238 286 158 773.1 0 158 287 101 773.1 0 101 288 91 773.1 0 91 289 136 773.1 0 136 290 542 773.1 0 542 291 524 773.1 0 524 292 567 773.1 0 567 293 438 773.1 0 438 294 271 773.1 0 271 295 358 773.1 0 358 296 344 773.1 0 344 297 339 773.1 0 339 298 366 773.1 0 366 299 139 773.1 0 139 300 63 773.1 0 63 301 79 773.1 0 79 Finished in 11.25 s (55 us/read; 1.09 M reads/minute). === Summary === Total reads processed: 203,504 Reads with adapters: 4,336 (2.1%) Reads that were too short: 19 (0.0%) Reads written (passing filters): 4,317 (2.1%) Total basepairs processed: 37,253,403 bp Total written (filtered): 1,149,162 bp (3.1%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 4336 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 0 1 18 2 0.0 3 0 0 2 19 43 0.0 3 0 40 1 0 2 20 3984 0.0 4 3771 169 29 9 6 21 26 0.0 4 11 11 3 1 22 4 0.0 4 1 0 2 0 1 23 17 0.0 4 1 0 0 12 4 24 1 0.0 4 0 0 0 1 25 1 0.0 4 1 34 1 0.0 4 0 0 0 0 1 43 1 0.0 4 0 0 0 0 1 49 1 0.0 4 1 51 1 0.0 4 0 0 0 1 58 1 0.0 4 0 0 0 0 1 64 1 0.0 4 0 0 0 0 1 67 1 0.0 4 0 0 0 0 1 68 1 0.0 4 0 0 0 0 1 70 1 0.0 4 0 0 0 0 1 84 1 0.0 4 0 0 0 0 1 90 1 0.0 4 1 100 1 0.0 4 0 0 0 0 1 104 1 0.0 4 0 0 0 0 1 124 1 0.0 4 0 0 0 0 1 125 2 0.0 4 0 0 0 0 2 126 1 0.0 4 0 0 0 0 1 127 226 0.0 4 0 0 0 0 226 128 1 0.0 4 0 0 0 0 1 130 1 0.0 4 0 0 0 0 1 131 1 0.0 4 0 0 0 0 1 139 2 0.0 4 1 0 0 0 1 143 1 0.0 4 0 0 1 144 1 0.0 4 0 0 0 1 157 1 0.0 4 0 0 0 1 160 1 0.0 4 1 179 1 0.0 4 0 0 0 0 1 196 1 0.0 4 0 0 0 0 1 204 1 0.0 4 0 0 0 0 1 228 1 0.0 4 0 0 0 0 1 268 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 0.23 s (53 us/read; 1.13 M reads/minute). === Summary === Total reads processed: 4,317 Reads with adapters: 823 (19.1%) Reads written (passing filters): 4,317 (100.0%) Total basepairs processed: 1,149,162 bp Total written (filtered): 1,140,845 bp (99.3%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 823 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.7% C: 5.8% G: 90.5% T: 1.9% 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 2 67.5 0 2 4 1 16.9 0 1 7 1 0.3 0 1 9 128 0.0 0 11 117 10 585 0.0 1 24 561 11 100 0.0 1 4 96 12 1 0.0 1 0 1 13 4 0.0 1 0 4 134 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.