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 68.14 s (27 us/read; 2.24 M reads/minute). === Summary === Total reads processed: 2,546,118 Reads with adapters: 232,463 (9.1%) Reads that were too short: 14,518 (0.6%) Reads written (passing filters): 217,945 (8.6%) Total basepairs processed: 766,381,518 bp Total written (filtered): 39,472,594 bp (5.2%) === Adapter 1 === Sequence: CTCTGC; Type: regular 5'; Length: 6; Trimmed: 232463 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 260 621.6 0 260 7 7720 621.6 0 7720 8 333 621.6 0 333 9 8055 621.6 0 8055 10 41 621.6 0 41 11 39 621.6 0 39 12 40 621.6 0 40 13 31 621.6 0 31 14 46 621.6 0 46 15 50 621.6 0 50 16 33 621.6 0 33 17 47 621.6 0 47 18 35 621.6 0 35 19 40 621.6 0 40 20 35 621.6 0 35 21 63 621.6 0 63 22 46 621.6 0 46 23 49 621.6 0 49 24 55 621.6 0 55 25 70 621.6 0 70 26 49 621.6 0 49 27 46 621.6 0 46 28 48 621.6 0 48 29 33 621.6 0 33 30 53 621.6 0 53 31 62 621.6 0 62 32 71 621.6 0 71 33 67 621.6 0 67 34 63 621.6 0 63 35 45 621.6 0 45 36 56 621.6 0 56 37 40 621.6 0 40 38 51 621.6 0 51 39 55 621.6 0 55 40 60 621.6 0 60 41 49 621.6 0 49 42 48 621.6 0 48 43 45 621.6 0 45 44 47 621.6 0 47 45 35 621.6 0 35 46 67 621.6 0 67 47 41 621.6 0 41 48 53 621.6 0 53 49 53 621.6 0 53 50 55 621.6 0 55 51 111 621.6 0 111 52 67 621.6 0 67 53 61 621.6 0 61 54 52 621.6 0 52 55 46 621.6 0 46 56 78 621.6 0 78 57 92 621.6 0 92 58 105 621.6 0 105 59 180 621.6 0 180 60 79 621.6 0 79 61 1061 621.6 0 1061 62 78 621.6 0 78 63 52 621.6 0 52 64 62 621.6 0 62 65 65 621.6 0 65 66 53 621.6 0 53 67 50 621.6 0 50 68 53 621.6 0 53 69 40 621.6 0 40 70 68 621.6 0 68 71 59 621.6 0 59 72 48 621.6 0 48 73 63 621.6 0 63 74 55 621.6 0 55 75 46 621.6 0 46 76 57 621.6 0 57 77 250 621.6 0 250 78 55 621.6 0 55 79 62 621.6 0 62 80 52 621.6 0 52 81 68 621.6 0 68 82 46 621.6 0 46 83 57 621.6 0 57 84 92 621.6 0 92 85 97 621.6 0 97 86 122 621.6 0 122 87 207 621.6 0 207 88 80 621.6 0 80 89 55 621.6 0 55 90 57 621.6 0 57 91 66 621.6 0 66 92 73 621.6 0 73 93 56 621.6 0 56 94 102 621.6 0 102 95 69 621.6 0 69 96 139 621.6 0 139 97 314 621.6 0 314 98 99 621.6 0 99 99 164 621.6 0 164 100 115 621.6 0 115 101 134 621.6 0 134 102 215 621.6 0 215 103 126 621.6 0 126 104 114 621.6 0 114 105 83 621.6 0 83 106 221 621.6 0 221 107 264 621.6 0 264 108 417 621.6 0 417 109 401 621.6 0 401 110 618 621.6 0 618 111 772 621.6 0 772 112 1627 621.6 0 1627 113 2928 621.6 0 2928 114 40687 621.6 0 40687 115 22041 621.6 0 22041 116 36718 621.6 0 36718 117 207 621.6 0 207 118 92 621.6 0 92 119 79 621.6 0 79 120 98 621.6 0 98 121 66 621.6 0 66 122 45 621.6 0 45 123 70 621.6 0 70 124 48 621.6 0 48 125 76 621.6 0 76 126 170 621.6 0 170 127 324 621.6 0 324 128 101 621.6 0 101 129 169 621.6 0 169 130 152 621.6 0 152 131 87 621.6 0 87 132 62 621.6 0 62 133 69 621.6 0 69 134 83 621.6 0 83 135 171 621.6 0 171 136 263 621.6 0 263 137 88 621.6 0 88 138 87 621.6 0 87 139 90 621.6 0 90 140 204 621.6 0 204 141 626 621.6 0 626 142 299 621.6 0 299 143 704 621.6 0 704 144 279 621.6 0 279 145 405 621.6 0 405 146 843 621.6 0 843 147 8629 621.6 0 8629 148 4503 621.6 0 4503 149 12509 621.6 0 12509 150 320 621.6 0 320 151 686 621.6 0 686 152 1574 621.6 0 1574 153 13336 621.6 0 13336 154 11365 621.6 0 11365 155 23709 621.6 0 23709 156 236 621.6 0 236 157 139 621.6 0 139 158 90 621.6 0 90 159 38 621.6 0 38 160 67 621.6 0 67 161 78 621.6 0 78 162 115 621.6 0 115 163 92 621.6 0 92 164 44 621.6 0 44 165 74 621.6 0 74 166 59 621.6 0 59 167 76 621.6 0 76 168 122 621.6 0 122 169 107 621.6 0 107 170 226 621.6 0 226 171 140 621.6 0 140 172 64 621.6 0 64 173 49 621.6 0 49 174 37 621.6 0 37 175 39 621.6 0 39 176 36 621.6 0 36 177 59 621.6 0 59 178 43 621.6 0 43 179 39 621.6 0 39 180 58 621.6 0 58 181 69 621.6 0 69 182 71 621.6 0 71 183 312 621.6 0 312 184 230 621.6 0 230 185 307 621.6 0 307 186 228 621.6 0 228 187 81 621.6 0 81 188 64 621.6 0 64 189 45 621.6 0 45 190 51 621.6 0 51 191 154 621.6 0 154 192 61 621.6 0 61 193 65 621.6 0 65 194 43 621.6 0 43 195 50 621.6 0 50 196 30 621.6 0 30 197 60 621.6 0 60 198 61 621.6 0 61 199 42 621.6 0 42 200 39 621.6 0 39 201 43 621.6 0 43 202 56 621.6 0 56 203 61 621.6 0 61 204 51 621.6 0 51 205 57 621.6 0 57 206 41 621.6 0 41 207 44 621.6 0 44 208 47 621.6 0 47 209 40 621.6 0 40 210 30 621.6 0 30 211 32 621.6 0 32 212 53 621.6 0 53 213 44 621.6 0 44 214 41 621.6 0 41 215 86 621.6 0 86 216 137 621.6 0 137 217 119 621.6 0 119 218 215 621.6 0 215 219 43 621.6 0 43 220 46 621.6 0 46 221 40 621.6 0 40 222 61 621.6 0 61 223 40 621.6 0 40 224 38 621.6 0 38 225 61 621.6 0 61 226 91 621.6 0 91 227 68 621.6 0 68 228 77 621.6 0 77 229 48 621.6 0 48 230 62 621.6 0 62 231 55 621.6 0 55 232 49 621.6 0 49 233 82 621.6 0 82 234 101 621.6 0 101 235 110 621.6 0 110 236 88 621.6 0 88 237 55 621.6 0 55 238 65 621.6 0 65 239 46 621.6 0 46 240 48 621.6 0 48 241 49 621.6 0 49 242 33 621.6 0 33 243 41 621.6 0 41 244 47 621.6 0 47 245 56 621.6 0 56 246 60 621.6 0 60 247 44 621.6 0 44 248 53 621.6 0 53 249 70 621.6 0 70 250 50 621.6 0 50 251 62 621.6 0 62 252 38 621.6 0 38 253 70 621.6 0 70 254 57 621.6 0 57 255 61 621.6 0 61 256 44 621.6 0 44 257 50 621.6 0 50 258 53 621.6 0 53 259 49 621.6 0 49 260 44 621.6 0 44 261 60 621.6 0 60 262 55 621.6 0 55 263 58 621.6 0 58 264 60 621.6 0 60 265 60 621.6 0 60 266 66 621.6 0 66 267 94 621.6 0 94 268 90 621.6 0 90 269 68 621.6 0 68 270 104 621.6 0 104 271 110 621.6 0 110 272 91 621.6 0 91 273 84 621.6 0 84 274 84 621.6 0 84 275 65 621.6 0 65 276 97 621.6 0 97 277 112 621.6 0 112 278 156 621.6 0 156 279 455 621.6 0 455 280 732 621.6 0 732 281 2770 621.6 0 2770 282 1572 621.6 0 1572 283 1881 621.6 0 1881 284 90 621.6 0 90 285 83 621.6 0 83 286 83 621.6 0 83 287 66 621.6 0 66 288 67 621.6 0 67 289 68 621.6 0 68 290 207 621.6 0 207 291 221 621.6 0 221 292 313 621.6 0 313 293 149 621.6 0 149 294 67 621.6 0 67 295 109 621.6 0 109 296 108 621.6 0 108 297 87 621.6 0 87 298 100 621.6 0 100 299 73 621.6 0 73 300 61 621.6 0 61 301 83 621.6 0 83 Finished in 8.33 s (38 us/read; 1.57 M reads/minute). === Summary === Total reads processed: 217,945 Reads with adapters: 8,543 (3.9%) Reads that were too short: 13 (0.0%) Reads written (passing filters): 8,530 (3.9%) Total basepairs processed: 39,472,594 bp Total written (filtered): 2,315,994 bp (5.9%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 8543 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 9 0.0 3 0 0 9 19 104 0.0 3 0 102 2 20 8341 0.0 4 8205 124 10 2 21 19 0.0 4 9 8 2 22 1 0.0 4 0 0 0 0 1 23 8 0.0 4 0 0 0 7 1 37 1 0.0 4 0 0 0 0 1 57 1 0.0 4 0 0 0 0 1 59 1 0.0 4 0 0 0 0 1 68 1 0.0 4 0 0 0 1 79 1 0.0 4 1 88 1 0.0 4 1 98 1 0.0 4 1 100 1 0.0 4 1 111 1 0.0 4 1 127 44 0.0 4 0 0 0 0 44 130 1 0.0 4 0 0 0 0 1 143 1 0.0 4 0 0 0 0 1 198 1 0.0 4 0 0 0 0 1 199 1 0.0 4 0 0 0 0 1 213 1 0.0 4 0 1 228 1 0.0 4 0 0 0 0 1 232 1 0.0 4 0 0 0 0 1 261 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 0.31 s (36 us/read; 1.65 M reads/minute). === Summary === Total reads processed: 8,530 Reads with adapters: 1,327 (15.6%) Reads written (passing filters): 8,530 (100.0%) Total basepairs processed: 2,315,994 bp Total written (filtered): 2,302,151 bp (99.4%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 1327 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 0.8% C: 2.6% G: 94.5% T: 2.2% 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 3 4 133.3 0 4 4 2 33.3 0 2 5 2 8.3 0 2 7 1 0.5 0 1 8 1 0.1 0 1 9 723 0.0 0 23 700 10 453 0.0 1 24 429 11 134 0.0 1 2 132 12 1 0.0 1 0 1 113 1 0.0 1 0 1 208 3 0.0 1 0 3 269 2 0.0 1 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.