This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TTCGGA -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 67.71 s (27 us/read; 2.26 M reads/minute). === Summary === Total reads processed: 2,546,118 Reads with adapters: 297,845 (11.7%) Reads that were too short: 35,907 (1.4%) Reads written (passing filters): 261,938 (10.3%) Total basepairs processed: 766,381,518 bp Total written (filtered): 56,552,691 bp (7.4%) === Adapter 1 === Sequence: TTCGGA; Type: regular 5'; Length: 6; Trimmed: 297845 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 218 621.6 0 218 7 531 621.6 0 531 8 4766 621.6 0 4766 9 7552 621.6 0 7552 10 30784 621.6 0 30784 11 64 621.6 0 64 12 134 621.6 0 134 13 27 621.6 0 27 14 19 621.6 0 19 15 31 621.6 0 31 16 33 621.6 0 33 17 39 621.6 0 39 18 18 621.6 0 18 19 50 621.6 0 50 20 24 621.6 0 24 21 33 621.6 0 33 22 30 621.6 0 30 23 45 621.6 0 45 24 75 621.6 0 75 25 45 621.6 0 45 26 57 621.6 0 57 27 54 621.6 0 54 28 42 621.6 0 42 29 17 621.6 0 17 30 48 621.6 0 48 31 58 621.6 0 58 32 50 621.6 0 50 33 31 621.6 0 31 34 23 621.6 0 23 35 38 621.6 0 38 36 41 621.6 0 41 37 33 621.6 0 33 38 81 621.6 0 81 39 153 621.6 0 153 40 223 621.6 0 223 41 301 621.6 0 301 42 44 621.6 0 44 43 45 621.6 0 45 44 41 621.6 0 41 45 26 621.6 0 26 46 40 621.6 0 40 47 48 621.6 0 48 48 83 621.6 0 83 49 80 621.6 0 80 50 77 621.6 0 77 51 147 621.6 0 147 52 390 621.6 0 390 53 244 621.6 0 244 54 209 621.6 0 209 55 26 621.6 0 26 56 42 621.6 0 42 57 58 621.6 0 58 58 45 621.6 0 45 59 36 621.6 0 36 60 70 621.6 0 70 61 32 621.6 0 32 62 45 621.6 0 45 63 53 621.6 0 53 64 38 621.6 0 38 65 49 621.6 0 49 66 75 621.6 0 75 67 82 621.6 0 82 68 126 621.6 0 126 69 72 621.6 0 72 70 121 621.6 0 121 71 269 621.6 0 269 72 455 621.6 0 455 73 240 621.6 0 240 74 125 621.6 0 125 75 136 621.6 0 136 76 199 621.6 0 199 77 274 621.6 0 274 78 542 621.6 0 542 79 994 621.6 0 994 80 249 621.6 0 249 81 412 621.6 0 412 82 578 621.6 0 578 83 328 621.6 0 328 84 400 621.6 0 400 85 683 621.6 0 683 86 600 621.6 0 600 87 849 621.6 0 849 88 799 621.6 0 799 89 1273 621.6 0 1273 90 2125 621.6 0 2125 91 3133 621.6 0 3133 92 56372 621.6 0 56372 93 46589 621.6 0 46589 94 75498 621.6 0 75498 95 871 621.6 0 871 96 43 621.6 0 43 97 55 621.6 0 55 98 69 621.6 0 69 99 58 621.6 0 58 100 26 621.6 0 26 101 16 621.6 0 16 102 39 621.6 0 39 103 29 621.6 0 29 104 20 621.6 0 20 105 25 621.6 0 25 106 20 621.6 0 20 107 31 621.6 0 31 108 66 621.6 0 66 109 70 621.6 0 70 110 47 621.6 0 47 111 48 621.6 0 48 112 85 621.6 0 85 113 25 621.6 0 25 114 62 621.6 0 62 115 59 621.6 0 59 116 60 621.6 0 60 117 60 621.6 0 60 118 50 621.6 0 50 119 30 621.6 0 30 120 20 621.6 0 20 121 17 621.6 0 17 122 14 621.6 0 14 123 25 621.6 0 25 124 18 621.6 0 18 125 30 621.6 0 30 126 28 621.6 0 28 127 14 621.6 0 14 128 25 621.6 0 25 129 45 621.6 0 45 130 36 621.6 0 36 131 42 621.6 0 42 132 34 621.6 0 34 133 30 621.6 0 30 134 30 621.6 0 30 135 35 621.6 0 35 136 52 621.6 0 52 137 45 621.6 0 45 138 53 621.6 0 53 139 40 621.6 0 40 140 37 621.6 0 37 141 17 621.6 0 17 142 27 621.6 0 27 143 45 621.6 0 45 144 49 621.6 0 49 145 43 621.6 0 43 146 31 621.6 0 31 147 23 621.6 0 23 148 24 621.6 0 24 149 32 621.6 0 32 150 20 621.6 0 20 151 30 621.6 0 30 152 34 621.6 0 34 153 25 621.6 0 25 154 33 621.6 0 33 155 26 621.6 0 26 156 23 621.6 0 23 157 39 621.6 0 39 158 33 621.6 0 33 159 44 621.6 0 44 160 34 621.6 0 34 161 29 621.6 0 29 162 22 621.6 0 22 163 34 621.6 0 34 164 25 621.6 0 25 165 34 621.6 0 34 166 29 621.6 0 29 167 23 621.6 0 23 168 14 621.6 0 14 169 23 621.6 0 23 170 26 621.6 0 26 171 43 621.6 0 43 172 27 621.6 0 27 173 41 621.6 0 41 174 33 621.6 0 33 175 36 621.6 0 36 176 37 621.6 0 37 177 123 621.6 0 123 178 287 621.6 0 287 179 139 621.6 0 139 180 230 621.6 0 230 181 43 621.6 0 43 182 38 621.6 0 38 183 55 621.6 0 55 184 61 621.6 0 61 185 63 621.6 0 63 186 99 621.6 0 99 187 162 621.6 0 162 188 267 621.6 0 267 189 124 621.6 0 124 190 130 621.6 0 130 191 308 621.6 0 308 192 174 621.6 0 174 193 83 621.6 0 83 194 103 621.6 0 103 195 139 621.6 0 139 196 208 621.6 0 208 197 191 621.6 0 191 198 228 621.6 0 228 199 384 621.6 0 384 200 713 621.6 0 713 201 12510 621.6 0 12510 202 6041 621.6 0 6041 203 12970 621.6 0 12970 204 234 621.6 0 234 205 489 621.6 0 489 206 750 621.6 0 750 207 717 621.6 0 717 208 354 621.6 0 354 209 167 621.6 0 167 210 90 621.6 0 90 211 170 621.6 0 170 212 87 621.6 0 87 213 96 621.6 0 96 214 70 621.6 0 70 215 111 621.6 0 111 216 133 621.6 0 133 217 158 621.6 0 158 218 86 621.6 0 86 219 40 621.6 0 40 220 80 621.6 0 80 221 168 621.6 0 168 222 90 621.6 0 90 223 213 621.6 0 213 224 100 621.6 0 100 225 346 621.6 0 346 226 1311 621.6 0 1311 227 1149 621.6 0 1149 228 745 621.6 0 745 229 214 621.6 0 214 230 30 621.6 0 30 231 24 621.6 0 24 232 27 621.6 0 27 233 25 621.6 0 25 234 23 621.6 0 23 235 28 621.6 0 28 236 74 621.6 0 74 237 69 621.6 0 69 238 109 621.6 0 109 239 17 621.6 0 17 240 23 621.6 0 23 241 20 621.6 0 20 242 23 621.6 0 23 243 41 621.6 0 41 244 35 621.6 0 35 245 39 621.6 0 39 246 56 621.6 0 56 247 56 621.6 0 56 248 59 621.6 0 59 249 62 621.6 0 62 250 44 621.6 0 44 251 47 621.6 0 47 252 34 621.6 0 34 253 29 621.6 0 29 254 31 621.6 0 31 255 44 621.6 0 44 256 33 621.6 0 33 257 54 621.6 0 54 258 84 621.6 0 84 259 403 621.6 0 403 260 678 621.6 0 678 261 907 621.6 0 907 262 461 621.6 0 461 263 111 621.6 0 111 264 61 621.6 0 61 265 78 621.6 0 78 266 39 621.6 0 39 267 32 621.6 0 32 268 36 621.6 0 36 269 38 621.6 0 38 270 174 621.6 0 174 271 263 621.6 0 263 272 199 621.6 0 199 273 81 621.6 0 81 274 42 621.6 0 42 275 69 621.6 0 69 276 38 621.6 0 38 277 55 621.6 0 55 278 44 621.6 0 44 279 56 621.6 0 56 280 162 621.6 0 162 281 152 621.6 0 152 282 177 621.6 0 177 283 174 621.6 0 174 284 195 621.6 0 195 285 180 621.6 0 180 286 208 621.6 0 208 287 495 621.6 0 495 288 42 621.6 0 42 289 33 621.6 0 33 290 25 621.6 0 25 291 43 621.6 0 43 292 41 621.6 0 41 293 61 621.6 0 61 294 42 621.6 0 42 295 62 621.6 0 62 296 175 621.6 0 175 297 682 621.6 0 682 298 252 621.6 0 252 299 373 621.6 0 373 300 37 621.6 0 37 301 12 621.6 0 12 Finished in 11.12 s (42 us/read; 1.41 M reads/minute). === Summary === Total reads processed: 261,938 Reads with adapters: 3,445 (1.3%) Reads that were too short: 103 (0.0%) Reads written (passing filters): 3,342 (1.3%) Total basepairs processed: 56,552,691 bp Total written (filtered): 901,879 bp (1.6%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 3445 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 2 0.0 3 0 0 0 2 18 3 0.0 3 0 0 3 19 63 0.0 3 0 55 5 2 1 20 3186 0.0 4 2984 162 27 8 5 21 15 0.0 4 3 9 2 1 22 1 0.0 4 0 0 0 0 1 23 11 0.0 4 1 0 1 7 2 32 1 0.0 4 1 34 1 0.0 4 1 38 1 0.0 4 0 0 0 0 1 41 3 0.0 4 1 0 0 0 2 42 3 0.0 4 1 0 0 0 2 43 4 0.0 4 0 0 0 0 4 44 1 0.0 4 0 0 0 0 1 63 2 0.0 4 0 0 0 0 2 65 1 0.0 4 0 0 0 0 1 66 1 0.0 4 0 0 0 0 1 67 3 0.0 4 0 0 0 0 3 68 33 0.0 4 0 0 0 2 31 90 1 0.0 4 0 0 0 0 1 91 1 0.0 4 0 0 0 0 1 92 2 0.0 4 0 0 0 0 2 94 8 0.0 4 0 0 0 0 8 96 1 0.0 4 0 0 0 0 1 97 3 0.0 4 0 0 0 0 3 104 1 0.0 4 0 1 105 1 0.0 4 0 0 0 0 1 106 1 0.0 4 0 0 1 107 1 0.0 4 0 0 0 0 1 112 1 0.0 4 0 0 0 0 1 113 1 0.0 4 0 0 0 0 1 122 2 0.0 4 0 0 0 0 2 123 6 0.0 4 0 0 0 0 6 124 1 0.0 4 0 0 0 1 129 2 0.0 4 0 0 0 1 1 134 1 0.0 4 0 0 0 0 1 136 4 0.0 4 0 0 0 0 4 138 1 0.0 4 0 0 0 0 1 148 5 0.0 4 0 0 0 0 5 149 15 0.0 4 0 0 0 1 14 150 8 0.0 4 0 0 0 1 7 151 13 0.0 4 0 0 0 0 13 152 1 0.0 4 0 0 0 0 1 153 1 0.0 4 0 0 0 0 1 168 3 0.0 4 0 0 0 0 3 170 1 0.0 4 0 0 0 0 1 171 1 0.0 4 0 0 0 0 1 172 2 0.0 4 0 0 0 0 2 173 3 0.0 4 0 0 0 0 3 180 1 0.0 4 0 0 1 182 2 0.0 4 0 0 0 0 2 197 3 0.0 4 0 0 0 0 3 198 4 0.0 4 0 0 0 0 4 203 3 0.0 4 0 0 1 0 2 219 2 0.0 4 0 0 0 0 2 234 1 0.0 4 0 0 0 0 1 257 1 0.0 4 0 0 0 0 1 263 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 0.12 s (36 us/read; 1.67 M reads/minute). === Summary === Total reads processed: 3,342 Reads with adapters: 908 (27.2%) Reads written (passing filters): 3,342 (100.0%) Total basepairs processed: 901,879 bp Total written (filtered): 892,684 bp (99.0%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 908 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.8% C: 11.8% G: 84.4% T: 2.1% 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 3 52.2 0 3 4 1 13.1 0 1 8 1 0.1 0 1 9 434 0.0 0 53 381 10 365 0.0 1 27 338 11 96 0.0 1 2 94 12 1 0.0 1 0 1 13 3 0.0 1 0 3 42 1 0.0 1 1 150 2 0.0 1 2 169 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.