This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AGCTGG -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 93.83 s (27 us/read; 2.22 M reads/minute). === Summary === Total reads processed: 3,465,239 Reads with adapters: 323,733 (9.3%) Reads that were too short: 61,714 (1.8%) Reads written (passing filters): 262,019 (7.6%) Total basepairs processed: 1,043,036,939 bp Total written (filtered): 52,838,454 bp (5.1%) === Adapter 1 === Sequence: AGCTGG; Type: regular 5'; Length: 6; Trimmed: 323733 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 369 846.0 0 369 7 5379 846.0 0 5379 8 325 846.0 0 325 9 7196 846.0 0 7196 10 505 846.0 0 505 11 19042 846.0 0 19042 12 113 846.0 0 113 13 53 846.0 0 53 14 45 846.0 0 45 15 40 846.0 0 40 16 35 846.0 0 35 17 33 846.0 0 33 18 46 846.0 0 46 19 54 846.0 0 54 20 52 846.0 0 52 21 45 846.0 0 45 22 62 846.0 0 62 23 47 846.0 0 47 24 46 846.0 0 46 25 38 846.0 0 38 26 57 846.0 0 57 27 50 846.0 0 50 28 51 846.0 0 51 29 51 846.0 0 51 30 68 846.0 0 68 31 66 846.0 0 66 32 85 846.0 0 85 33 55 846.0 0 55 34 65 846.0 0 65 35 171 846.0 0 171 36 81 846.0 0 81 37 65 846.0 0 65 38 80 846.0 0 80 39 81 846.0 0 81 40 75 846.0 0 75 41 51 846.0 0 51 42 55 846.0 0 55 43 64 846.0 0 64 44 1198 846.0 0 1198 45 74 846.0 0 74 46 54 846.0 0 54 47 59 846.0 0 59 48 64 846.0 0 64 49 44 846.0 0 44 50 59 846.0 0 59 51 59 846.0 0 59 52 75 846.0 0 75 53 57 846.0 0 57 54 48 846.0 0 48 55 210 846.0 0 210 56 75 846.0 0 75 57 86 846.0 0 86 58 47 846.0 0 47 59 55 846.0 0 55 60 44 846.0 0 44 61 64 846.0 0 64 62 56 846.0 0 56 63 61 846.0 0 61 64 67 846.0 0 67 65 51 846.0 0 51 66 31 846.0 0 31 67 78 846.0 0 78 68 53 846.0 0 53 69 65 846.0 0 65 70 49 846.0 0 49 71 91 846.0 0 91 72 68 846.0 0 68 73 45 846.0 0 45 74 47 846.0 0 47 75 57 846.0 0 57 76 43 846.0 0 43 77 45 846.0 0 45 78 58 846.0 0 58 79 337 846.0 0 337 80 89 846.0 0 89 81 165 846.0 0 165 82 78 846.0 0 78 83 224 846.0 0 224 84 135 846.0 0 135 85 177 846.0 0 177 86 73 846.0 0 73 87 107 846.0 0 107 88 68 846.0 0 68 89 283 846.0 0 283 90 137 846.0 0 137 91 85 846.0 0 85 92 94 846.0 0 94 93 233 846.0 0 233 94 118 846.0 0 118 95 152 846.0 0 152 96 211 846.0 0 211 97 351 846.0 0 351 98 861 846.0 0 861 99 1923 846.0 0 1923 100 1368 846.0 0 1368 101 225 846.0 0 225 102 250 846.0 0 250 103 397 846.0 0 397 104 1388 846.0 0 1388 105 789 846.0 0 789 106 429 846.0 0 429 107 645 846.0 0 645 108 642 846.0 0 642 109 861 846.0 0 861 110 1272 846.0 0 1272 111 1447 846.0 0 1447 112 5719 846.0 0 5719 113 184102 846.0 0 184102 114 2957 846.0 0 2957 115 7181 846.0 0 7181 116 117 846.0 0 117 117 55 846.0 0 55 118 47 846.0 0 47 119 61 846.0 0 61 120 47 846.0 0 47 121 27 846.0 0 27 122 47 846.0 0 47 123 62 846.0 0 62 124 57 846.0 0 57 125 57 846.0 0 57 126 72 846.0 0 72 127 65 846.0 0 65 128 51 846.0 0 51 129 102 846.0 0 102 130 311 846.0 0 311 131 868 846.0 0 868 132 66 846.0 0 66 133 52 846.0 0 52 134 53 846.0 0 53 135 66 846.0 0 66 136 84 846.0 0 84 137 49 846.0 0 49 138 61 846.0 0 61 139 63 846.0 0 63 140 76 846.0 0 76 141 106 846.0 0 106 142 60 846.0 0 60 143 242 846.0 0 242 144 179 846.0 0 179 145 52 846.0 0 52 146 48 846.0 0 48 147 57 846.0 0 57 148 128 846.0 0 128 149 69 846.0 0 69 150 50 846.0 0 50 151 56 846.0 0 56 152 52 846.0 0 52 153 63 846.0 0 63 154 119 846.0 0 119 155 427 846.0 0 427 156 703 846.0 0 703 157 160 846.0 0 160 158 364 846.0 0 364 159 46 846.0 0 46 160 45 846.0 0 45 161 50 846.0 0 50 162 46 846.0 0 46 163 58 846.0 0 58 164 63 846.0 0 63 165 53 846.0 0 53 166 48 846.0 0 48 167 154 846.0 0 154 168 266 846.0 0 266 169 241 846.0 0 241 170 45 846.0 0 45 171 36 846.0 0 36 172 49 846.0 0 49 173 36 846.0 0 36 174 37 846.0 0 37 175 34 846.0 0 34 176 39 846.0 0 39 177 39 846.0 0 39 178 57 846.0 0 57 179 45 846.0 0 45 180 53 846.0 0 53 181 51 846.0 0 51 182 42 846.0 0 42 183 54 846.0 0 54 184 42 846.0 0 42 185 40 846.0 0 40 186 58 846.0 0 58 187 46 846.0 0 46 188 46 846.0 0 46 189 78 846.0 0 78 190 64 846.0 0 64 191 47 846.0 0 47 192 47 846.0 0 47 193 43 846.0 0 43 194 36 846.0 0 36 195 31 846.0 0 31 196 60 846.0 0 60 197 48 846.0 0 48 198 52 846.0 0 52 199 36 846.0 0 36 200 133 846.0 0 133 201 168 846.0 0 168 202 377 846.0 0 377 203 109 846.0 0 109 204 73 846.0 0 73 205 54 846.0 0 54 206 47 846.0 0 47 207 40 846.0 0 40 208 41 846.0 0 41 209 71 846.0 0 71 210 48 846.0 0 48 211 70 846.0 0 70 212 81 846.0 0 81 213 111 846.0 0 111 214 66 846.0 0 66 215 55 846.0 0 55 216 68 846.0 0 68 217 79 846.0 0 79 218 117 846.0 0 117 219 38 846.0 0 38 220 23 846.0 0 23 221 43 846.0 0 43 222 43 846.0 0 43 223 50 846.0 0 50 224 57 846.0 0 57 225 65 846.0 0 65 226 50 846.0 0 50 227 60 846.0 0 60 228 270 846.0 0 270 229 76 846.0 0 76 230 213 846.0 0 213 231 65 846.0 0 65 232 58 846.0 0 58 233 216 846.0 0 216 234 107 846.0 0 107 235 89 846.0 0 89 236 73 846.0 0 73 237 74 846.0 0 74 238 42 846.0 0 42 239 47 846.0 0 47 240 69 846.0 0 69 241 27 846.0 0 27 242 41 846.0 0 41 243 76 846.0 0 76 244 44 846.0 0 44 245 46 846.0 0 46 246 54 846.0 0 54 247 29 846.0 0 29 248 52 846.0 0 52 249 21 846.0 0 21 250 34 846.0 0 34 251 59 846.0 0 59 252 339 846.0 0 339 253 114 846.0 0 114 254 99 846.0 0 99 255 392 846.0 0 392 256 114 846.0 0 114 257 62 846.0 0 62 258 42 846.0 0 42 259 32 846.0 0 32 260 29 846.0 0 29 261 70 846.0 0 70 262 50 846.0 0 50 263 57 846.0 0 57 264 66 846.0 0 66 265 47 846.0 0 47 266 47 846.0 0 47 267 30 846.0 0 30 268 34 846.0 0 34 269 77 846.0 0 77 270 119 846.0 0 119 271 90 846.0 0 90 272 87 846.0 0 87 273 58 846.0 0 58 274 59 846.0 0 59 275 35 846.0 0 35 276 53 846.0 0 53 277 45 846.0 0 45 278 85 846.0 0 85 279 95 846.0 0 95 280 92 846.0 0 92 281 93 846.0 0 93 282 76 846.0 0 76 283 126 846.0 0 126 284 231 846.0 0 231 285 371 846.0 0 371 286 98 846.0 0 98 287 109 846.0 0 109 288 121 846.0 0 121 289 68 846.0 0 68 290 161 846.0 0 161 291 296 846.0 0 296 292 317 846.0 0 317 293 286 846.0 0 286 294 383 846.0 0 383 295 680 846.0 0 680 296 5085 846.0 0 5085 297 22781 846.0 0 22781 298 11431 846.0 0 11431 299 4714 846.0 0 4714 300 7865 846.0 0 7865 301 85 846.0 0 85 Finished in 10.53 s (40 us/read; 1.49 M reads/minute). === Summary === Total reads processed: 262,019 Reads with adapters: 7,273 (2.8%) Reads that were too short: 43 (0.0%) Reads written (passing filters): 7,230 (2.8%) Total basepairs processed: 52,838,454 bp Total written (filtered): 1,965,025 bp (3.7%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 7273 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 3 19 105 0.0 3 0 100 2 2 1 20 7068 0.0 4 6760 267 22 11 8 21 18 0.0 4 3 14 1 22 1 0.0 4 0 0 1 23 4 0.0 4 0 0 0 4 24 1 0.0 4 0 0 0 0 1 26 1 0.0 4 0 1 35 7 0.0 4 0 0 0 0 7 45 1 0.0 4 0 0 0 0 1 46 2 0.0 4 0 2 47 8 0.0 4 0 0 0 0 8 48 3 0.0 4 0 0 0 0 3 49 1 0.0 4 1 83 1 0.0 4 0 0 0 0 1 90 2 0.0 4 0 0 0 0 2 102 3 0.0 4 0 0 0 0 3 103 1 0.0 4 0 0 0 0 1 109 1 0.0 4 0 0 0 0 1 110 1 0.0 4 0 0 0 1 114 3 0.0 4 0 0 0 2 1 117 1 0.0 4 0 0 0 0 1 121 6 0.0 4 0 0 0 0 6 123 1 0.0 4 0 0 0 0 1 127 3 0.0 4 0 0 0 0 3 140 1 0.0 4 0 0 0 0 1 151 12 0.0 4 0 0 0 0 12 152 1 0.0 4 0 0 0 0 1 153 2 0.0 4 0 0 0 0 2 154 2 0.0 4 0 0 0 0 2 173 1 0.0 4 0 0 0 0 1 176 3 0.0 4 0 0 0 0 3 186 1 0.0 4 0 0 0 0 1 202 2 0.0 4 0 0 0 0 2 227 1 0.0 4 0 0 0 0 1 273 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 (32 us/read; 1.89 M reads/minute). === Summary === Total reads processed: 7,230 Reads with adapters: 5,346 (73.9%) Reads written (passing filters): 7,230 (100.0%) Total basepairs processed: 1,965,025 bp Total written (filtered): 563,014 bp (28.7%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 5346 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 11.5% C: 0.2% G: 88.1% T: 0.2% 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 4 1 28.2 0 1 6 2 1.8 0 2 9 10 0.0 0 1 9 10 64 0.0 1 4 60 11 27 0.0 1 0 27 228 7 0.0 1 7 230 7 0.0 1 7 231 2 0.0 1 2 232 1 0.0 1 1 234 1 0.0 1 0 1 236 1 0.0 1 1 238 4 0.0 1 4 256 1 0.0 1 1 257 560 0.0 1 528 32 258 17 0.0 1 17 259 7 0.0 1 6 1 260 6 0.0 1 6 261 4 0.0 1 4 262 2 0.0 1 2 263 1 0.0 1 1 266 3 0.0 1 3 267 698 0.0 1 668 30 268 45 0.0 1 41 4 269 3692 0.0 1 3523 169 270 114 0.0 1 110 4 271 42 0.0 1 36 6 272 25 0.0 1 22 3 273 2 0.0 1 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.