This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CACTCT -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 78.31 s (26 us/read; 2.31 M reads/minute). === Summary === Total reads processed: 3,009,659 Reads with adapters: 251,135 (8.3%) Reads that were too short: 31,422 (1.0%) Reads written (passing filters): 219,713 (7.3%) Total basepairs processed: 905,907,359 bp Total written (filtered): 34,086,162 bp (3.8%) === Adapter 1 === Sequence: CACTCT; Type: regular 5'; Length: 6; Trimmed: 251135 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 194 734.8 0 194 7 1629 734.8 0 1629 8 93 734.8 0 93 9 8667 734.8 0 8667 10 61 734.8 0 61 11 15 734.8 0 15 12 32 734.8 0 32 13 22 734.8 0 22 14 23 734.8 0 23 15 24 734.8 0 24 16 21 734.8 0 21 17 22 734.8 0 22 18 30 734.8 0 30 19 15 734.8 0 15 20 27 734.8 0 27 21 28 734.8 0 28 22 25 734.8 0 25 23 27 734.8 0 27 24 24 734.8 0 24 25 23 734.8 0 23 26 29 734.8 0 29 27 30 734.8 0 30 28 35 734.8 0 35 29 24 734.8 0 24 30 21 734.8 0 21 31 21 734.8 0 21 32 27 734.8 0 27 33 21 734.8 0 21 34 57 734.8 0 57 35 60 734.8 0 60 36 31 734.8 0 31 37 33 734.8 0 33 38 75 734.8 0 75 39 28 734.8 0 28 40 36 734.8 0 36 41 47 734.8 0 47 42 31 734.8 0 31 43 113 734.8 0 113 44 41 734.8 0 41 45 33 734.8 0 33 46 694 734.8 0 694 47 134 734.8 0 134 48 65 734.8 0 65 49 30 734.8 0 30 50 25 734.8 0 25 51 24 734.8 0 24 52 35 734.8 0 35 53 36 734.8 0 36 54 47 734.8 0 47 55 66 734.8 0 66 56 28 734.8 0 28 57 19 734.8 0 19 58 22 734.8 0 22 59 22 734.8 0 22 60 18 734.8 0 18 61 27 734.8 0 27 62 23 734.8 0 23 63 29 734.8 0 29 64 29 734.8 0 29 65 24 734.8 0 24 66 16 734.8 0 16 67 30 734.8 0 30 68 28 734.8 0 28 69 24 734.8 0 24 70 25 734.8 0 25 71 43 734.8 0 43 72 74 734.8 0 74 73 53 734.8 0 53 74 51 734.8 0 51 75 37 734.8 0 37 76 43 734.8 0 43 77 32 734.8 0 32 78 30 734.8 0 30 79 61 734.8 0 61 80 57 734.8 0 57 81 63 734.8 0 63 82 70 734.8 0 70 83 59 734.8 0 59 84 57 734.8 0 57 85 46 734.8 0 46 86 62 734.8 0 62 87 87 734.8 0 87 88 125 734.8 0 125 89 156 734.8 0 156 90 165 734.8 0 165 91 154 734.8 0 154 92 199 734.8 0 199 93 112 734.8 0 112 94 242 734.8 0 242 95 299 734.8 0 299 96 178 734.8 0 178 97 81 734.8 0 81 98 67 734.8 0 67 99 57 734.8 0 57 100 47 734.8 0 47 101 32 734.8 0 32 102 55 734.8 0 55 103 46 734.8 0 46 104 422 734.8 0 422 105 880 734.8 0 880 106 729 734.8 0 729 107 215 734.8 0 215 108 227 734.8 0 227 109 113 734.8 0 113 110 229 734.8 0 229 111 136 734.8 0 136 112 485 734.8 0 485 113 398 734.8 0 398 114 207 734.8 0 207 115 82 734.8 0 82 116 67 734.8 0 67 117 59 734.8 0 59 118 72 734.8 0 72 119 145 734.8 0 145 120 107 734.8 0 107 121 132 734.8 0 132 122 109 734.8 0 109 123 93 734.8 0 93 124 173 734.8 0 173 125 166 734.8 0 166 126 274 734.8 0 274 127 569 734.8 0 569 128 583 734.8 0 583 129 422 734.8 0 422 130 175 734.8 0 175 131 183 734.8 0 183 132 108 734.8 0 108 133 151 734.8 0 151 134 496 734.8 0 496 135 585 734.8 0 585 136 244 734.8 0 244 137 121 734.8 0 121 138 226 734.8 0 226 139 300 734.8 0 300 140 349 734.8 0 349 141 406 734.8 0 406 142 470 734.8 0 470 143 622 734.8 0 622 144 1052 734.8 0 1052 145 1429 734.8 0 1429 146 27708 734.8 0 27708 147 31230 734.8 0 31230 148 4529 734.8 0 4529 149 405 734.8 0 405 150 259 734.8 0 259 151 630 734.8 0 630 152 1073 734.8 0 1073 153 544 734.8 0 544 154 792 734.8 0 792 155 595 734.8 0 595 156 680 734.8 0 680 157 728 734.8 0 728 158 992 734.8 0 992 159 1526 734.8 0 1526 160 2357 734.8 0 2357 161 47968 734.8 0 47968 162 51868 734.8 0 51868 163 6145 734.8 0 6145 164 281 734.8 0 281 165 310 734.8 0 310 166 320 734.8 0 320 167 258 734.8 0 258 168 145 734.8 0 145 169 136 734.8 0 136 170 89 734.8 0 89 171 102 734.8 0 102 172 224 734.8 0 224 173 196 734.8 0 196 174 321 734.8 0 321 175 377 734.8 0 377 176 311 734.8 0 311 177 210 734.8 0 210 178 155 734.8 0 155 179 215 734.8 0 215 180 206 734.8 0 206 181 602 734.8 0 602 182 1055 734.8 0 1055 183 813 734.8 0 813 184 256 734.8 0 256 185 181 734.8 0 181 186 165 734.8 0 165 187 187 734.8 0 187 188 161 734.8 0 161 189 158 734.8 0 158 190 187 734.8 0 187 191 170 734.8 0 170 192 307 734.8 0 307 193 160 734.8 0 160 194 154 734.8 0 154 195 101 734.8 0 101 196 130 734.8 0 130 197 162 734.8 0 162 198 122 734.8 0 122 199 139 734.8 0 139 200 133 734.8 0 133 201 219 734.8 0 219 202 363 734.8 0 363 203 183 734.8 0 183 204 165 734.8 0 165 205 202 734.8 0 202 206 281 734.8 0 281 207 167 734.8 0 167 208 181 734.8 0 181 209 168 734.8 0 168 210 141 734.8 0 141 211 131 734.8 0 131 212 137 734.8 0 137 213 232 734.8 0 232 214 277 734.8 0 277 215 276 734.8 0 276 216 217 734.8 0 217 217 244 734.8 0 244 218 314 734.8 0 314 219 255 734.8 0 255 220 202 734.8 0 202 221 317 734.8 0 317 222 258 734.8 0 258 223 289 734.8 0 289 224 186 734.8 0 186 225 187 734.8 0 187 226 224 734.8 0 224 227 197 734.8 0 197 228 236 734.8 0 236 229 195 734.8 0 195 230 250 734.8 0 250 231 259 734.8 0 259 232 284 734.8 0 284 233 265 734.8 0 265 234 173 734.8 0 173 235 163 734.8 0 163 236 159 734.8 0 159 237 142 734.8 0 142 238 251 734.8 0 251 239 434 734.8 0 434 240 1039 734.8 0 1039 241 2354 734.8 0 2354 242 1302 734.8 0 1302 243 618 734.8 0 618 244 395 734.8 0 395 245 249 734.8 0 249 246 145 734.8 0 145 247 100 734.8 0 100 248 91 734.8 0 91 249 137 734.8 0 137 250 170 734.8 0 170 251 383 734.8 0 383 252 391 734.8 0 391 253 336 734.8 0 336 254 426 734.8 0 426 255 405 734.8 0 405 256 256 734.8 0 256 257 171 734.8 0 171 258 108 734.8 0 108 259 89 734.8 0 89 260 108 734.8 0 108 261 137 734.8 0 137 262 178 734.8 0 178 263 173 734.8 0 173 264 188 734.8 0 188 265 239 734.8 0 239 266 181 734.8 0 181 267 546 734.8 0 546 268 590 734.8 0 590 269 540 734.8 0 540 270 511 734.8 0 511 271 427 734.8 0 427 272 278 734.8 0 278 273 165 734.8 0 165 274 225 734.8 0 225 275 175 734.8 0 175 276 247 734.8 0 247 277 2125 734.8 0 2125 278 2467 734.8 0 2467 279 701 734.8 0 701 280 188 734.8 0 188 281 246 734.8 0 246 282 270 734.8 0 270 283 345 734.8 0 345 284 227 734.8 0 227 285 142 734.8 0 142 286 156 734.8 0 156 287 70 734.8 0 70 288 143 734.8 0 143 289 182 734.8 0 182 290 223 734.8 0 223 291 212 734.8 0 212 292 200 734.8 0 200 293 117 734.8 0 117 294 151 734.8 0 151 295 134 734.8 0 134 296 94 734.8 0 94 297 91 734.8 0 91 298 56 734.8 0 56 299 80 734.8 0 80 300 52 734.8 0 52 301 72 734.8 0 72 Finished in 7.40 s (34 us/read; 1.78 M reads/minute). === Summary === Total reads processed: 219,713 Reads with adapters: 1,676 (0.8%) Reads that were too short: 19 (0.0%) Reads written (passing filters): 1,657 (0.8%) Total basepairs processed: 34,086,162 bp Total written (filtered): 448,944 bp (1.3%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 1676 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 3 0.0 3 0 0 1 1 1 19 12 0.0 3 0 12 20 1506 0.0 4 1472 30 1 3 21 4 0.0 4 0 4 22 3 0.0 4 2 1 23 77 0.0 4 72 2 0 2 1 24 1 0.0 4 0 1 28 11 0.0 4 0 0 0 0 11 29 1 0.0 4 1 34 1 0.0 4 0 0 0 0 1 44 1 0.0 4 0 0 0 0 1 53 1 0.0 4 0 0 0 0 1 54 1 0.0 4 0 0 0 0 1 56 1 0.0 4 0 0 0 0 1 79 1 0.0 4 0 0 0 0 1 83 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 94 2 0.0 4 0 0 0 0 2 96 1 0.0 4 0 0 0 0 1 108 4 0.0 4 0 0 0 4 109 3 0.0 4 0 0 0 0 3 110 1 0.0 4 0 0 0 1 111 17 0.0 4 0 0 0 15 2 112 1 0.0 4 0 1 120 1 0.0 4 0 0 0 0 1 122 1 0.0 4 0 0 0 0 1 124 1 0.0 4 0 0 0 0 1 127 7 0.0 4 0 0 0 0 7 134 1 0.0 4 0 0 0 0 1 136 1 0.0 4 0 0 0 0 1 144 1 0.0 4 0 0 0 0 1 159 1 0.0 4 0 0 0 0 1 161 1 0.0 4 0 0 0 0 1 181 1 0.0 4 0 0 0 0 1 191 1 0.0 4 0 0 0 0 1 196 1 0.0 4 0 0 0 0 1 226 1 0.0 4 0 0 0 0 1 228 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 0.05 s (30 us/read; 1.99 M reads/minute). === Summary === Total reads processed: 1,657 Reads with adapters: 55 (3.3%) Reads written (passing filters): 1,657 (100.0%) Total basepairs processed: 448,944 bp Total written (filtered): 437,960 bp (97.6%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 55 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 69.1% C: 14.5% G: 7.3% T: 9.1% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 7 25.9 0 7 11 4 0.0 1 0 4 12 2 0.0 1 0 2 254 2 0.0 1 2 256 1 0.0 1 1 257 28 0.0 1 26 2 259 1 0.0 1 1 267 4 0.0 1 4 268 6 0.0 1 5 1