This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CGTCAC -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 59.47 s (27 us/read; 2.26 M reads/minute). === Summary === Total reads processed: 2,238,925 Reads with adapters: 20,921 (0.9%) Reads that were too short: 10,023 (0.4%) Reads written (passing filters): 10,898 (0.5%) Total basepairs processed: 673,916,425 bp Total written (filtered): 2,201,974 bp (0.3%) === Adapter 1 === Sequence: CGTCAC; Type: regular 5'; Length: 6; Trimmed: 20921 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 115 546.6 0 115 7 601 546.6 0 601 8 675 546.6 0 675 9 29 546.6 0 29 10 23 546.6 0 23 11 23 546.6 0 23 12 21 546.6 0 21 13 25 546.6 0 25 14 28 546.6 0 28 15 31 546.6 0 31 16 23 546.6 0 23 17 32 546.6 0 32 18 24 546.6 0 24 19 30 546.6 0 30 20 26 546.6 0 26 21 18 546.6 0 18 22 27 546.6 0 27 23 20 546.6 0 20 24 37 546.6 0 37 25 32 546.6 0 32 26 27 546.6 0 27 27 23 546.6 0 23 28 29 546.6 0 29 29 39 546.6 0 39 30 29 546.6 0 29 31 30 546.6 0 30 32 149 546.6 0 149 33 31 546.6 0 31 34 33 546.6 0 33 35 28 546.6 0 28 36 31 546.6 0 31 37 36 546.6 0 36 38 22 546.6 0 22 39 32 546.6 0 32 40 28 546.6 0 28 41 36 546.6 0 36 42 24 546.6 0 24 43 48 546.6 0 48 44 44 546.6 0 44 45 43 546.6 0 43 46 37 546.6 0 37 47 55 546.6 0 55 48 33 546.6 0 33 49 25 546.6 0 25 50 40 546.6 0 40 51 28 546.6 0 28 52 22 546.6 0 22 53 31 546.6 0 31 54 58 546.6 0 58 55 33 546.6 0 33 56 35 546.6 0 35 57 26 546.6 0 26 58 23 546.6 0 23 59 37 546.6 0 37 60 20 546.6 0 20 61 19 546.6 0 19 62 29 546.6 0 29 63 84 546.6 0 84 64 612 546.6 0 612 65 61 546.6 0 61 66 274 546.6 0 274 67 113 546.6 0 113 68 24 546.6 0 24 69 31 546.6 0 31 70 37 546.6 0 37 71 39 546.6 0 39 72 22 546.6 0 22 73 26 546.6 0 26 74 16 546.6 0 16 75 26 546.6 0 26 76 26 546.6 0 26 77 22 546.6 0 22 78 26 546.6 0 26 79 33 546.6 0 33 80 46 546.6 0 46 81 46 546.6 0 46 82 15 546.6 0 15 83 47 546.6 0 47 84 33 546.6 0 33 85 22 546.6 0 22 86 31 546.6 0 31 87 30 546.6 0 30 88 31 546.6 0 31 89 40 546.6 0 40 90 47 546.6 0 47 91 59 546.6 0 59 92 359 546.6 0 359 93 111 546.6 0 111 94 117 546.6 0 117 95 21 546.6 0 21 96 28 546.6 0 28 97 15 546.6 0 15 98 29 546.6 0 29 99 31 546.6 0 31 100 29 546.6 0 29 101 31 546.6 0 31 102 33 546.6 0 33 103 34 546.6 0 34 104 29 546.6 0 29 105 22 546.6 0 22 106 42 546.6 0 42 107 26 546.6 0 26 108 31 546.6 0 31 109 39 546.6 0 39 110 40 546.6 0 40 111 37 546.6 0 37 112 20 546.6 0 20 113 20 546.6 0 20 114 30 546.6 0 30 115 28 546.6 0 28 116 29 546.6 0 29 117 41 546.6 0 41 118 34 546.6 0 34 119 23 546.6 0 23 120 39 546.6 0 39 121 35 546.6 0 35 122 38 546.6 0 38 123 37 546.6 0 37 124 49 546.6 0 49 125 29 546.6 0 29 126 28 546.6 0 28 127 23 546.6 0 23 128 34 546.6 0 34 129 52 546.6 0 52 130 35 546.6 0 35 131 57 546.6 0 57 132 48 546.6 0 48 133 38 546.6 0 38 134 27 546.6 0 27 135 37 546.6 0 37 136 119 546.6 0 119 137 70 546.6 0 70 138 40 546.6 0 40 139 39 546.6 0 39 140 41 546.6 0 41 141 27 546.6 0 27 142 38 546.6 0 38 143 40 546.6 0 40 144 30 546.6 0 30 145 31 546.6 0 31 146 24 546.6 0 24 147 57 546.6 0 57 148 62 546.6 0 62 149 53 546.6 0 53 150 72 546.6 0 72 151 41 546.6 0 41 152 51 546.6 0 51 153 65 546.6 0 65 154 33 546.6 0 33 155 52 546.6 0 52 156 81 546.6 0 81 157 93 546.6 0 93 158 124 546.6 0 124 159 48 546.6 0 48 160 65 546.6 0 65 161 30 546.6 0 30 162 44 546.6 0 44 163 39 546.6 0 39 164 46 546.6 0 46 165 44 546.6 0 44 166 60 546.6 0 60 167 162 546.6 0 162 168 67 546.6 0 67 169 100 546.6 0 100 170 31 546.6 0 31 171 75 546.6 0 75 172 81 546.6 0 81 173 110 546.6 0 110 174 38 546.6 0 38 175 129 546.6 0 129 176 105 546.6 0 105 177 125 546.6 0 125 178 46 546.6 0 46 179 40 546.6 0 40 180 32 546.6 0 32 181 48 546.6 0 48 182 39 546.6 0 39 183 43 546.6 0 43 184 38 546.6 0 38 185 36 546.6 0 36 186 56 546.6 0 56 187 51 546.6 0 51 188 168 546.6 0 168 189 69 546.6 0 69 190 56 546.6 0 56 191 50 546.6 0 50 192 40 546.6 0 40 193 49 546.6 0 49 194 38 546.6 0 38 195 31 546.6 0 31 196 49 546.6 0 49 197 45 546.6 0 45 198 49 546.6 0 49 199 50 546.6 0 50 200 49 546.6 0 49 201 37 546.6 0 37 202 52 546.6 0 52 203 59 546.6 0 59 204 69 546.6 0 69 205 53 546.6 0 53 206 50 546.6 0 50 207 50 546.6 0 50 208 55 546.6 0 55 209 43 546.6 0 43 210 47 546.6 0 47 211 63 546.6 0 63 212 66 546.6 0 66 213 56 546.6 0 56 214 57 546.6 0 57 215 76 546.6 0 76 216 57 546.6 0 57 217 70 546.6 0 70 218 57 546.6 0 57 219 62 546.6 0 62 220 73 546.6 0 73 221 104 546.6 0 104 222 142 546.6 0 142 223 197 546.6 0 197 224 158 546.6 0 158 225 122 546.6 0 122 226 105 546.6 0 105 227 66 546.6 0 66 228 85 546.6 0 85 229 60 546.6 0 60 230 33 546.6 0 33 231 37 546.6 0 37 232 49 546.6 0 49 233 50 546.6 0 50 234 73 546.6 0 73 235 64 546.6 0 64 236 73 546.6 0 73 237 80 546.6 0 80 238 94 546.6 0 94 239 68 546.6 0 68 240 56 546.6 0 56 241 187 546.6 0 187 242 122 546.6 0 122 243 282 546.6 0 282 244 233 546.6 0 233 245 162 546.6 0 162 246 75 546.6 0 75 247 73 546.6 0 73 248 67 546.6 0 67 249 150 546.6 0 150 250 69 546.6 0 69 251 73 546.6 0 73 252 84 546.6 0 84 253 220 546.6 0 220 254 364 546.6 0 364 255 66 546.6 0 66 256 73 546.6 0 73 257 54 546.6 0 54 258 39 546.6 0 39 259 29 546.6 0 29 260 40 546.6 0 40 261 44 546.6 0 44 262 63 546.6 0 63 263 62 546.6 0 62 264 96 546.6 0 96 265 79 546.6 0 79 266 91 546.6 0 91 267 58 546.6 0 58 268 131 546.6 0 131 269 175 546.6 0 175 270 569 546.6 0 569 271 141 546.6 0 141 272 142 546.6 0 142 273 131 546.6 0 131 274 103 546.6 0 103 275 109 546.6 0 109 276 84 546.6 0 84 277 76 546.6 0 76 278 141 546.6 0 141 279 78 546.6 0 78 280 83 546.6 0 83 281 71 546.6 0 71 282 84 546.6 0 84 283 96 546.6 0 96 284 104 546.6 0 104 285 95 546.6 0 95 286 61 546.6 0 61 287 110 546.6 0 110 288 70 546.6 0 70 289 80 546.6 0 80 290 82 546.6 0 82 291 144 546.6 0 144 292 183 546.6 0 183 293 155 546.6 0 155 294 58 546.6 0 58 295 72 546.6 0 72 296 75 546.6 0 75 297 140 546.6 0 140 298 139 546.6 0 139 299 162 546.6 0 162 300 148 546.6 0 148 301 145 546.6 0 145 Finished in 0.45 s (41 us/read; 1.45 M reads/minute). === Summary === Total reads processed: 10,898 Reads with adapters: 675 (6.2%) Reads that were too short: 7 (0.1%) Reads written (passing filters): 668 (6.1%) Total basepairs processed: 2,201,974 bp Total written (filtered): 180,250 bp (8.2%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 675 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 1 0.0 3 0 0 1 19 6 0.0 3 0 6 20 638 0.0 4 623 14 0 0 1 21 4 0.0 4 2 2 23 1 0.0 4 0 0 0 1 53 1 0.0 4 0 0 0 0 1 92 1 0.0 4 0 0 0 1 99 1 0.0 4 0 0 0 0 1 108 1 0.0 4 0 0 0 0 1 115 1 0.0 4 0 0 1 126 1 0.0 4 0 0 0 0 1 127 15 0.0 4 0 0 0 0 15 128 1 0.0 4 0 0 0 0 1 159 1 0.0 4 0 0 0 1 176 1 0.0 4 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 0.03 s (45 us/read; 1.34 M reads/minute). === Summary === Total reads processed: 668 Reads with adapters: 55 (8.2%) Reads written (passing filters): 668 (100.0%) Total basepairs processed: 180,250 bp Total written (filtered): 179,067 bp (99.3%) === 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: 5.5% C: 3.6% G: 83.6% T: 7.3% 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 10 7 0.0 1 0 7 11 45 0.0 1 0 45 170 1 0.0 1 1 224 2 0.0 1 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.