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 64.96 s (27 us/read; 2.26 M reads/minute). === Summary === Total reads processed: 2,442,494 Reads with adapters: 173,767 (7.1%) Reads that were too short: 24,743 (1.0%) Reads written (passing filters): 149,024 (6.1%) Total basepairs processed: 735,190,694 bp Total written (filtered): 28,490,668 bp (3.9%) === Adapter 1 === Sequence: CTCTGC; Type: regular 5'; Length: 6; Trimmed: 173767 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 393 596.3 0 393 7 11233 596.3 0 11233 8 335 596.3 0 335 9 9646 596.3 0 9646 10 24 596.3 0 24 11 21 596.3 0 21 12 20 596.3 0 20 13 21 596.3 0 21 14 122 596.3 0 122 15 29 596.3 0 29 16 52 596.3 0 52 17 13 596.3 0 13 18 13 596.3 0 13 19 24 596.3 0 24 20 17 596.3 0 17 21 21 596.3 0 21 22 23 596.3 0 23 23 29 596.3 0 29 24 39 596.3 0 39 25 34 596.3 0 34 26 21 596.3 0 21 27 30 596.3 0 30 28 19 596.3 0 19 29 19 596.3 0 19 30 26 596.3 0 26 31 27 596.3 0 27 32 34 596.3 0 34 33 39 596.3 0 39 34 24 596.3 0 24 35 30 596.3 0 30 36 47 596.3 0 47 37 27 596.3 0 27 38 36 596.3 0 36 39 117 596.3 0 117 40 56 596.3 0 56 41 36 596.3 0 36 42 22 596.3 0 22 43 19 596.3 0 19 44 24 596.3 0 24 45 31 596.3 0 31 46 47 596.3 0 47 47 33 596.3 0 33 48 41 596.3 0 41 49 27 596.3 0 27 50 19 596.3 0 19 51 41 596.3 0 41 52 28 596.3 0 28 53 34 596.3 0 34 54 33 596.3 0 33 55 45 596.3 0 45 56 135 596.3 0 135 57 169 596.3 0 169 58 229 596.3 0 229 59 311 596.3 0 311 60 86 596.3 0 86 61 244 596.3 0 244 62 23 596.3 0 23 63 38 596.3 0 38 64 38 596.3 0 38 65 24 596.3 0 24 66 19 596.3 0 19 67 36 596.3 0 36 68 24 596.3 0 24 69 51 596.3 0 51 70 52 596.3 0 52 71 69 596.3 0 69 72 97 596.3 0 97 73 40 596.3 0 40 74 44 596.3 0 44 75 33 596.3 0 33 76 51 596.3 0 51 77 132 596.3 0 132 78 51 596.3 0 51 79 38 596.3 0 38 80 30 596.3 0 30 81 37 596.3 0 37 82 47 596.3 0 47 83 63 596.3 0 63 84 72 596.3 0 72 85 89 596.3 0 89 86 59 596.3 0 59 87 146 596.3 0 146 88 47 596.3 0 47 89 85 596.3 0 85 90 65 596.3 0 65 91 119 596.3 0 119 92 72 596.3 0 72 93 71 596.3 0 71 94 281 596.3 0 281 95 69 596.3 0 69 96 102 596.3 0 102 97 250 596.3 0 250 98 80 596.3 0 80 99 109 596.3 0 109 100 65 596.3 0 65 101 81 596.3 0 81 102 180 596.3 0 180 103 93 596.3 0 93 104 98 596.3 0 98 105 92 596.3 0 92 106 359 596.3 0 359 107 354 596.3 0 354 108 462 596.3 0 462 109 326 596.3 0 326 110 434 596.3 0 434 111 453 596.3 0 453 112 927 596.3 0 927 113 1779 596.3 0 1779 114 23978 596.3 0 23978 115 12436 596.3 0 12436 116 32642 596.3 0 32642 117 277 596.3 0 277 118 218 596.3 0 218 119 34 596.3 0 34 120 38 596.3 0 38 121 25 596.3 0 25 122 26 596.3 0 26 123 33 596.3 0 33 124 40 596.3 0 40 125 30 596.3 0 30 126 116 596.3 0 116 127 158 596.3 0 158 128 166 596.3 0 166 129 167 596.3 0 167 130 137 596.3 0 137 131 136 596.3 0 136 132 53 596.3 0 53 133 33 596.3 0 33 134 45 596.3 0 45 135 97 596.3 0 97 136 142 596.3 0 142 137 92 596.3 0 92 138 87 596.3 0 87 139 68 596.3 0 68 140 411 596.3 0 411 141 737 596.3 0 737 142 522 596.3 0 522 143 404 596.3 0 404 144 164 596.3 0 164 145 197 596.3 0 197 146 277 596.3 0 277 147 2513 596.3 0 2513 148 4609 596.3 0 4609 149 3554 596.3 0 3554 150 267 596.3 0 267 151 348 596.3 0 348 152 847 596.3 0 847 153 9219 596.3 0 9219 154 3388 596.3 0 3388 155 10451 596.3 0 10451 156 354 596.3 0 354 157 240 596.3 0 240 158 186 596.3 0 186 159 97 596.3 0 97 160 219 596.3 0 219 161 157 596.3 0 157 162 184 596.3 0 184 163 59 596.3 0 59 164 65 596.3 0 65 165 89 596.3 0 89 166 65 596.3 0 65 167 121 596.3 0 121 168 414 596.3 0 414 169 410 596.3 0 410 170 547 596.3 0 547 171 177 596.3 0 177 172 44 596.3 0 44 173 24 596.3 0 24 174 23 596.3 0 23 175 42 596.3 0 42 176 74 596.3 0 74 177 48 596.3 0 48 178 55 596.3 0 55 179 42 596.3 0 42 180 118 596.3 0 118 181 150 596.3 0 150 182 78 596.3 0 78 183 457 596.3 0 457 184 395 596.3 0 395 185 386 596.3 0 386 186 599 596.3 0 599 187 224 596.3 0 224 188 145 596.3 0 145 189 83 596.3 0 83 190 156 596.3 0 156 191 108 596.3 0 108 192 80 596.3 0 80 193 33 596.3 0 33 194 34 596.3 0 34 195 26 596.3 0 26 196 45 596.3 0 45 197 47 596.3 0 47 198 44 596.3 0 44 199 52 596.3 0 52 200 35 596.3 0 35 201 40 596.3 0 40 202 140 596.3 0 140 203 71 596.3 0 71 204 190 596.3 0 190 205 48 596.3 0 48 206 44 596.3 0 44 207 30 596.3 0 30 208 31 596.3 0 31 209 34 596.3 0 34 210 32 596.3 0 32 211 36 596.3 0 36 212 45 596.3 0 45 213 52 596.3 0 52 214 44 596.3 0 44 215 86 596.3 0 86 216 610 596.3 0 610 217 314 596.3 0 314 218 639 596.3 0 639 219 45 596.3 0 45 220 35 596.3 0 35 221 31 596.3 0 31 222 36 596.3 0 36 223 35 596.3 0 35 224 43 596.3 0 43 225 41 596.3 0 41 226 74 596.3 0 74 227 64 596.3 0 64 228 91 596.3 0 91 229 34 596.3 0 34 230 59 596.3 0 59 231 57 596.3 0 57 232 78 596.3 0 78 233 110 596.3 0 110 234 121 596.3 0 121 235 187 596.3 0 187 236 121 596.3 0 121 237 100 596.3 0 100 238 59 596.3 0 59 239 43 596.3 0 43 240 35 596.3 0 35 241 33 596.3 0 33 242 43 596.3 0 43 243 63 596.3 0 63 244 120 596.3 0 120 245 99 596.3 0 99 246 147 596.3 0 147 247 95 596.3 0 95 248 85 596.3 0 85 249 198 596.3 0 198 250 342 596.3 0 342 251 290 596.3 0 290 252 80 596.3 0 80 253 65 596.3 0 65 254 94 596.3 0 94 255 94 596.3 0 94 256 85 596.3 0 85 257 66 596.3 0 66 258 45 596.3 0 45 259 89 596.3 0 89 260 51 596.3 0 51 261 72 596.3 0 72 262 87 596.3 0 87 263 90 596.3 0 90 264 75 596.3 0 75 265 77 596.3 0 77 266 81 596.3 0 81 267 118 596.3 0 118 268 109 596.3 0 109 269 148 596.3 0 148 270 214 596.3 0 214 271 376 596.3 0 376 272 225 596.3 0 225 273 89 596.3 0 89 274 191 596.3 0 191 275 147 596.3 0 147 276 192 596.3 0 192 277 231 596.3 0 231 278 248 596.3 0 248 279 1031 596.3 0 1031 280 975 596.3 0 975 281 2559 596.3 0 2559 282 3545 596.3 0 3545 283 2680 596.3 0 2680 284 200 596.3 0 200 285 201 596.3 0 201 286 142 596.3 0 142 287 108 596.3 0 108 288 62 596.3 0 62 289 116 596.3 0 116 290 585 596.3 0 585 291 452 596.3 0 452 292 645 596.3 0 645 293 293 596.3 0 293 294 309 596.3 0 309 295 382 596.3 0 382 296 407 596.3 0 407 297 416 596.3 0 416 298 477 596.3 0 477 299 158 596.3 0 158 300 37 596.3 0 37 301 64 596.3 0 64 Finished in 5.88 s (39 us/read; 1.52 M reads/minute). === Summary === Total reads processed: 149,024 Reads with adapters: 10,220 (6.9%) Reads that were too short: 28 (0.0%) Reads written (passing filters): 10,192 (6.8%) Total basepairs processed: 28,490,668 bp Total written (filtered): 2,762,304 bp (9.7%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 10220 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 8 0.0 3 0 0 7 1 19 106 0.0 3 0 92 7 5 2 20 9901 0.0 4 9329 462 74 26 10 21 34 0.0 4 11 21 1 0 1 22 3 0.0 4 1 0 1 0 1 23 44 0.0 4 0 0 0 34 10 27 1 0.0 4 1 29 1 0.0 4 0 0 0 0 1 30 1 0.0 4 0 0 0 0 1 34 1 0.0 4 0 0 0 0 1 39 1 0.0 4 0 0 0 0 1 40 1 0.0 4 0 0 0 0 1 50 1 0.0 4 0 1 56 1 0.0 4 0 0 0 0 1 60 1 0.0 4 0 0 0 1 65 1 0.0 4 0 0 0 0 1 67 1 0.0 4 0 0 0 0 1 73 1 0.0 4 0 0 0 0 1 75 1 0.0 4 0 0 0 0 1 77 1 0.0 4 1 82 1 0.0 4 0 0 0 1 85 1 0.0 4 0 0 0 0 1 87 1 0.0 4 0 0 0 1 94 1 0.0 4 0 0 0 0 1 112 1 0.0 4 0 0 0 0 1 126 1 0.0 4 0 0 0 0 1 127 80 0.0 4 0 0 0 0 80 129 1 0.0 4 0 0 0 0 1 132 1 0.0 4 0 0 0 0 1 143 3 0.0 4 0 0 0 0 3 144 1 0.0 4 0 0 0 1 159 1 0.0 4 0 0 0 0 1 169 1 0.0 4 0 0 0 0 1 174 1 0.0 4 0 0 0 0 1 179 1 0.0 4 0 0 0 0 1 203 1 0.0 4 0 0 0 0 1 205 1 0.0 4 0 0 0 0 1 214 1 0.0 4 0 0 0 0 1 227 1 0.0 4 0 0 0 0 1 228 4 0.0 4 0 0 0 0 4 229 3 0.0 4 0 0 0 0 3 235 1 0.0 4 0 0 0 0 1 258 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 0.38 s (37 us/read; 1.61 M reads/minute). === Summary === Total reads processed: 10,192 Reads with adapters: 2,231 (21.9%) Reads written (passing filters): 10,192 (100.0%) Total basepairs processed: 2,762,304 bp Total written (filtered): 2,736,761 bp (99.1%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 2231 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 2.1% C: 9.0% G: 86.4% T: 2.5% none/other: 0.1% 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 6 159.2 0 6 4 1 39.8 0 1 7 1 0.6 0 1 9 266 0.0 0 25 241 10 1553 0.0 1 117 1436 11 384 0.0 1 17 367 12 4 0.0 1 0 4 13 3 0.0 1 0 3 150 2 0.0 1 1 1 268 1 0.0 1 1 270 1 0.0 1 1 271 7 0.0 1 6 1 272 2 0.0 1 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.