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 74.93 s (26 us/read; 2.27 M reads/minute). === Summary === Total reads processed: 2,834,615 Reads with adapters: 665,818 (23.5%) Reads that were too short: 11,029 (0.4%) Reads written (passing filters): 654,789 (23.1%) Total basepairs processed: 853,219,115 bp Total written (filtered): 122,693,888 bp (14.4%) === Adapter 1 === Sequence: CTCTGC; Type: regular 5'; Length: 6; Trimmed: 665818 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 361 692.0 0 361 7 10082 692.0 0 10082 8 417 692.0 0 417 9 9643 692.0 0 9643 10 20 692.0 0 20 11 13 692.0 0 13 12 27 692.0 0 27 13 25 692.0 0 25 14 23 692.0 0 23 15 50 692.0 0 50 16 27 692.0 0 27 17 24 692.0 0 24 18 11 692.0 0 11 19 22 692.0 0 22 20 32 692.0 0 32 21 30 692.0 0 30 22 27 692.0 0 27 23 32 692.0 0 32 24 32 692.0 0 32 25 47 692.0 0 47 26 35 692.0 0 35 27 29 692.0 0 29 28 28 692.0 0 28 29 21 692.0 0 21 30 34 692.0 0 34 31 44 692.0 0 44 32 34 692.0 0 34 33 51 692.0 0 51 34 34 692.0 0 34 35 36 692.0 0 36 36 61 692.0 0 61 37 43 692.0 0 43 38 37 692.0 0 37 39 45 692.0 0 45 40 47 692.0 0 47 41 37 692.0 0 37 42 40 692.0 0 40 43 40 692.0 0 40 44 27 692.0 0 27 45 49 692.0 0 49 46 37 692.0 0 37 47 40 692.0 0 40 48 43 692.0 0 43 49 32 692.0 0 32 50 44 692.0 0 44 51 75 692.0 0 75 52 81 692.0 0 81 53 100 692.0 0 100 54 49 692.0 0 49 55 48 692.0 0 48 56 51 692.0 0 51 57 81 692.0 0 81 58 99 692.0 0 99 59 1886 692.0 0 1886 60 244 692.0 0 244 61 101 692.0 0 101 62 84 692.0 0 84 63 282 692.0 0 282 64 54 692.0 0 54 65 35 692.0 0 35 66 53 692.0 0 53 67 83 692.0 0 83 68 47 692.0 0 47 69 40 692.0 0 40 70 51 692.0 0 51 71 92 692.0 0 92 72 46 692.0 0 46 73 62 692.0 0 62 74 67 692.0 0 67 75 59 692.0 0 59 76 126 692.0 0 126 77 1011 692.0 0 1011 78 279 692.0 0 279 79 77 692.0 0 77 80 120 692.0 0 120 81 84 692.0 0 84 82 60 692.0 0 60 83 116 692.0 0 116 84 203 692.0 0 203 85 85 692.0 0 85 86 215 692.0 0 215 87 796 692.0 0 796 88 526 692.0 0 526 89 82 692.0 0 82 90 81 692.0 0 81 91 80 692.0 0 80 92 95 692.0 0 95 93 77 692.0 0 77 94 169 692.0 0 169 95 121 692.0 0 121 96 417 692.0 0 417 97 1248 692.0 0 1248 98 341 692.0 0 341 99 860 692.0 0 860 100 623 692.0 0 623 101 293 692.0 0 293 102 775 692.0 0 775 103 243 692.0 0 243 104 167 692.0 0 167 105 152 692.0 0 152 106 443 692.0 0 443 107 751 692.0 0 751 108 991 692.0 0 991 109 1352 692.0 0 1352 110 2226 692.0 0 2226 111 3939 692.0 0 3939 112 10140 692.0 0 10140 113 28591 692.0 0 28591 114 316630 692.0 0 316630 115 70466 692.0 0 70466 116 125367 692.0 0 125367 117 493 692.0 0 493 118 140 692.0 0 140 119 50 692.0 0 50 120 59 692.0 0 59 121 41 692.0 0 41 122 49 692.0 0 49 123 54 692.0 0 54 124 75 692.0 0 75 125 69 692.0 0 69 126 142 692.0 0 142 127 166 692.0 0 166 128 204 692.0 0 204 129 168 692.0 0 168 130 93 692.0 0 93 131 68 692.0 0 68 132 61 692.0 0 61 133 47 692.0 0 47 134 53 692.0 0 53 135 118 692.0 0 118 136 130 692.0 0 130 137 69 692.0 0 69 138 119 692.0 0 119 139 190 692.0 0 190 140 244 692.0 0 244 141 401 692.0 0 401 142 1052 692.0 0 1052 143 500 692.0 0 500 144 453 692.0 0 453 145 323 692.0 0 323 146 332 692.0 0 332 147 5230 692.0 0 5230 148 7805 692.0 0 7805 149 3739 692.0 0 3739 150 404 692.0 0 404 151 521 692.0 0 521 152 937 692.0 0 937 153 18938 692.0 0 18938 154 5972 692.0 0 5972 155 4310 692.0 0 4310 156 368 692.0 0 368 157 235 692.0 0 235 158 114 692.0 0 114 159 29 692.0 0 29 160 71 692.0 0 71 161 41 692.0 0 41 162 59 692.0 0 59 163 101 692.0 0 101 164 60 692.0 0 60 165 40 692.0 0 40 166 26 692.0 0 26 167 62 692.0 0 62 168 135 692.0 0 135 169 106 692.0 0 106 170 374 692.0 0 374 171 67 692.0 0 67 172 34 692.0 0 34 173 30 692.0 0 30 174 31 692.0 0 31 175 35 692.0 0 35 176 73 692.0 0 73 177 43 692.0 0 43 178 44 692.0 0 44 179 25 692.0 0 25 180 39 692.0 0 39 181 150 692.0 0 150 182 97 692.0 0 97 183 136 692.0 0 136 184 408 692.0 0 408 185 159 692.0 0 159 186 691 692.0 0 691 187 75 692.0 0 75 188 55 692.0 0 55 189 35 692.0 0 35 190 33 692.0 0 33 191 35 692.0 0 35 192 42 692.0 0 42 193 34 692.0 0 34 194 30 692.0 0 30 195 30 692.0 0 30 196 34 692.0 0 34 197 51 692.0 0 51 198 50 692.0 0 50 199 280 692.0 0 280 200 44 692.0 0 44 201 58 692.0 0 58 202 161 692.0 0 161 203 238 692.0 0 238 204 99 692.0 0 99 205 43 692.0 0 43 206 23 692.0 0 23 207 31 692.0 0 31 208 33 692.0 0 33 209 27 692.0 0 27 210 28 692.0 0 28 211 42 692.0 0 42 212 39 692.0 0 39 213 43 692.0 0 43 214 44 692.0 0 44 215 66 692.0 0 66 216 449 692.0 0 449 217 102 692.0 0 102 218 109 692.0 0 109 219 41 692.0 0 41 220 19 692.0 0 19 221 27 692.0 0 27 222 76 692.0 0 76 223 25 692.0 0 25 224 33 692.0 0 33 225 33 692.0 0 33 226 82 692.0 0 82 227 30 692.0 0 30 228 44 692.0 0 44 229 33 692.0 0 33 230 34 692.0 0 34 231 43 692.0 0 43 232 44 692.0 0 44 233 60 692.0 0 60 234 77 692.0 0 77 235 112 692.0 0 112 236 82 692.0 0 82 237 111 692.0 0 111 238 54 692.0 0 54 239 56 692.0 0 56 240 37 692.0 0 37 241 50 692.0 0 50 242 31 692.0 0 31 243 42 692.0 0 42 244 42 692.0 0 42 245 35 692.0 0 35 246 57 692.0 0 57 247 77 692.0 0 77 248 32 692.0 0 32 249 74 692.0 0 74 250 49 692.0 0 49 251 92 692.0 0 92 252 48 692.0 0 48 253 53 692.0 0 53 254 50 692.0 0 50 255 34 692.0 0 34 256 38 692.0 0 38 257 32 692.0 0 32 258 41 692.0 0 41 259 47 692.0 0 47 260 51 692.0 0 51 261 55 692.0 0 55 262 52 692.0 0 52 263 83 692.0 0 83 264 69 692.0 0 69 265 67 692.0 0 67 266 57 692.0 0 57 267 54 692.0 0 54 268 66 692.0 0 66 269 79 692.0 0 79 270 93 692.0 0 93 271 166 692.0 0 166 272 87 692.0 0 87 273 63 692.0 0 63 274 134 692.0 0 134 275 101 692.0 0 101 276 83 692.0 0 83 277 78 692.0 0 78 278 106 692.0 0 106 279 279 692.0 0 279 280 515 692.0 0 515 281 1249 692.0 0 1249 282 551 692.0 0 551 283 1027 692.0 0 1027 284 121 692.0 0 121 285 154 692.0 0 154 286 79 692.0 0 79 287 130 692.0 0 130 288 57 692.0 0 57 289 97 692.0 0 97 290 286 692.0 0 286 291 221 692.0 0 221 292 279 692.0 0 279 293 135 692.0 0 135 294 139 692.0 0 139 295 111 692.0 0 111 296 99 692.0 0 99 297 102 692.0 0 102 298 83 692.0 0 83 299 52 692.0 0 52 300 24 692.0 0 24 301 41 692.0 0 41 Finished in 23.77 s (36 us/read; 1.65 M reads/minute). === Summary === Total reads processed: 654,789 Reads with adapters: 10,375 (1.6%) Reads that were too short: 23 (0.0%) Reads written (passing filters): 10,352 (1.6%) Total basepairs processed: 122,693,888 bp Total written (filtered): 2,811,691 bp (2.3%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 10375 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 4 0.0 3 0 0 0 2 2 18 10 0.0 3 0 0 8 2 19 164 0.0 3 0 159 4 0 1 20 10083 0.0 4 9885 192 5 1 21 35 0.0 4 13 22 22 5 0.0 4 0 0 4 1 23 10 0.0 4 0 0 0 10 33 1 0.0 4 1 40 1 0.0 4 0 0 0 0 1 44 1 0.0 4 1 47 1 0.0 4 0 0 0 0 1 50 2 0.0 4 2 51 1 0.0 4 0 0 1 54 1 0.0 4 0 0 0 0 1 56 1 0.0 4 0 0 0 0 1 58 1 0.0 4 1 65 1 0.0 4 0 0 0 0 1 69 1 0.0 4 1 70 1 0.0 4 0 1 75 1 0.0 4 0 0 0 1 77 2 0.0 4 1 0 0 1 80 1 0.0 4 0 0 0 0 1 83 1 0.0 4 1 85 1 0.0 4 1 88 2 0.0 4 0 2 98 1 0.0 4 1 103 1 0.0 4 1 127 20 0.0 4 0 0 0 0 20 131 1 0.0 4 0 0 0 0 1 134 1 0.0 4 0 0 1 138 1 0.0 4 1 142 1 0.0 4 1 145 1 0.0 4 0 0 1 160 3 0.0 4 2 1 163 1 0.0 4 0 0 1 165 1 0.0 4 1 166 2 0.0 4 2 167 1 0.0 4 1 172 1 0.0 4 0 0 0 0 1 173 1 0.0 4 0 0 0 0 1 178 1 0.0 4 0 0 0 0 1 179 1 0.0 4 0 0 0 0 1 183 1 0.0 4 0 0 0 0 1 199 1 0.0 4 0 0 0 0 1 212 1 0.0 4 0 1 236 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 0.37 s (36 us/read; 1.68 M reads/minute). === Summary === Total reads processed: 10,352 Reads with adapters: 999 (9.7%) Reads written (passing filters): 10,352 (100.0%) Total basepairs processed: 2,811,691 bp Total written (filtered): 2,799,799 bp (99.6%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 999 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.6% C: 3.5% G: 92.8% T: 1.7% none/other: 0.4% 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 2 161.8 0 2 4 1 40.4 0 1 5 1 10.1 0 1 9 196 0.0 0 7 189 10 670 0.0 1 38 632 11 116 0.0 1 0 116 18 2 0.0 1 2 19 2 0.0 1 1 1 149 1 0.0 1 1 150 1 0.0 1 0 1 208 2 0.0 1 0 2 260 1 0.0 1 1 272 4 0.0 1 3 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.