This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g ACAGGT -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 58.20 s (26 us/read; 2.31 M reads/minute). === Summary === Total reads processed: 2,238,925 Reads with adapters: 228,717 (10.2%) Reads that were too short: 9,130 (0.4%) Reads written (passing filters): 219,587 (9.8%) Total basepairs processed: 673,916,425 bp Total written (filtered): 62,965,414 bp (9.3%) === Adapter 1 === Sequence: ACAGGT; Type: regular 5'; Length: 6; Trimmed: 228717 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1640 546.6 0 1640 7 92569 546.6 0 92569 8 110242 546.6 0 110242 9 93 546.6 0 93 10 33 546.6 0 33 11 22 546.6 0 22 12 18 546.6 0 18 13 31 546.6 0 31 14 19 546.6 0 19 15 16 546.6 0 16 16 29 546.6 0 29 17 32 546.6 0 32 18 45 546.6 0 45 19 30 546.6 0 30 20 33 546.6 0 33 21 26 546.6 0 26 22 42 546.6 0 42 23 25 546.6 0 25 24 21 546.6 0 21 25 22 546.6 0 22 26 25 546.6 0 25 27 25 546.6 0 25 28 24 546.6 0 24 29 28 546.6 0 28 30 33 546.6 0 33 31 21 546.6 0 21 32 29 546.6 0 29 33 24 546.6 0 24 34 34 546.6 0 34 35 37 546.6 0 37 36 45 546.6 0 45 37 32 546.6 0 32 38 35 546.6 0 35 39 28 546.6 0 28 40 27 546.6 0 27 41 29 546.6 0 29 42 31 546.6 0 31 43 24 546.6 0 24 44 39 546.6 0 39 45 29 546.6 0 29 46 24 546.6 0 24 47 30 546.6 0 30 48 23 546.6 0 23 49 20 546.6 0 20 50 24 546.6 0 24 51 26 546.6 0 26 52 26 546.6 0 26 53 29 546.6 0 29 54 36 546.6 0 36 55 35 546.6 0 35 56 31 546.6 0 31 57 19 546.6 0 19 58 39 546.6 0 39 59 36 546.6 0 36 60 28 546.6 0 28 61 34 546.6 0 34 62 29 546.6 0 29 63 32 546.6 0 32 64 36 546.6 0 36 65 31 546.6 0 31 66 22 546.6 0 22 67 52 546.6 0 52 68 54 546.6 0 54 69 107 546.6 0 107 70 141 546.6 0 141 71 2327 546.6 0 2327 72 414 546.6 0 414 73 1268 546.6 0 1268 74 35 546.6 0 35 75 22 546.6 0 22 76 34 546.6 0 34 77 68 546.6 0 68 78 37 546.6 0 37 79 200 546.6 0 200 80 27 546.6 0 27 81 24 546.6 0 24 82 24 546.6 0 24 83 31 546.6 0 31 84 24 546.6 0 24 85 31 546.6 0 31 86 27 546.6 0 27 87 31 546.6 0 31 88 29 546.6 0 29 89 37 546.6 0 37 90 47 546.6 0 47 91 40 546.6 0 40 92 36 546.6 0 36 93 37 546.6 0 37 94 69 546.6 0 69 95 100 546.6 0 100 96 766 546.6 0 766 97 441 546.6 0 441 98 662 546.6 0 662 99 56 546.6 0 56 100 26 546.6 0 26 101 16 546.6 0 16 102 23 546.6 0 23 103 29 546.6 0 29 104 22 546.6 0 22 105 42 546.6 0 42 106 27 546.6 0 27 107 29 546.6 0 29 108 32 546.6 0 32 109 20 546.6 0 20 110 19 546.6 0 19 111 31 546.6 0 31 112 23 546.6 0 23 113 24 546.6 0 24 114 26 546.6 0 26 115 38 546.6 0 38 116 30 546.6 0 30 117 31 546.6 0 31 118 44 546.6 0 44 119 42 546.6 0 42 120 31 546.6 0 31 121 33 546.6 0 33 122 31 546.6 0 31 123 31 546.6 0 31 124 95 546.6 0 95 125 1012 546.6 0 1012 126 243 546.6 0 243 127 55 546.6 0 55 128 32 546.6 0 32 129 38 546.6 0 38 130 69 546.6 0 69 131 39 546.6 0 39 132 32 546.6 0 32 133 38 546.6 0 38 134 36 546.6 0 36 135 52 546.6 0 52 136 44 546.6 0 44 137 33 546.6 0 33 138 24 546.6 0 24 139 34 546.6 0 34 140 31 546.6 0 31 141 67 546.6 0 67 142 49 546.6 0 49 143 25 546.6 0 25 144 35 546.6 0 35 145 31 546.6 0 31 146 30 546.6 0 30 147 30 546.6 0 30 148 32 546.6 0 32 149 35 546.6 0 35 150 20 546.6 0 20 151 38 546.6 0 38 152 27 546.6 0 27 153 37 546.6 0 37 154 39 546.6 0 39 155 41 546.6 0 41 156 35 546.6 0 35 157 46 546.6 0 46 158 28 546.6 0 28 159 25 546.6 0 25 160 46 546.6 0 46 161 30 546.6 0 30 162 25 546.6 0 25 163 38 546.6 0 38 164 24 546.6 0 24 165 42 546.6 0 42 166 23 546.6 0 23 167 37 546.6 0 37 168 27 546.6 0 27 169 27 546.6 0 27 170 24 546.6 0 24 171 41 546.6 0 41 172 62 546.6 0 62 173 167 546.6 0 167 174 70 546.6 0 70 175 165 546.6 0 165 176 30 546.6 0 30 177 36 546.6 0 36 178 35 546.6 0 35 179 31 546.6 0 31 180 37 546.6 0 37 181 25 546.6 0 25 182 32 546.6 0 32 183 29 546.6 0 29 184 29 546.6 0 29 185 32 546.6 0 32 186 43 546.6 0 43 187 43 546.6 0 43 188 26 546.6 0 26 189 36 546.6 0 36 190 52 546.6 0 52 191 76 546.6 0 76 192 417 546.6 0 417 193 195 546.6 0 195 194 489 546.6 0 489 195 77 546.6 0 77 196 30 546.6 0 30 197 37 546.6 0 37 198 24 546.6 0 24 199 40 546.6 0 40 200 36 546.6 0 36 201 30 546.6 0 30 202 30 546.6 0 30 203 43 546.6 0 43 204 91 546.6 0 91 205 37 546.6 0 37 206 33 546.6 0 33 207 69 546.6 0 69 208 32 546.6 0 32 209 32 546.6 0 32 210 33 546.6 0 33 211 44 546.6 0 44 212 44 546.6 0 44 213 39 546.6 0 39 214 34 546.6 0 34 215 36 546.6 0 36 216 26 546.6 0 26 217 48 546.6 0 48 218 26 546.6 0 26 219 39 546.6 0 39 220 30 546.6 0 30 221 45 546.6 0 45 222 52 546.6 0 52 223 41 546.6 0 41 224 50 546.6 0 50 225 392 546.6 0 392 226 48 546.6 0 48 227 154 546.6 0 154 228 32 546.6 0 32 229 44 546.6 0 44 230 21 546.6 0 21 231 25 546.6 0 25 232 22 546.6 0 22 233 46 546.6 0 46 234 36 546.6 0 36 235 39 546.6 0 39 236 36 546.6 0 36 237 32 546.6 0 32 238 59 546.6 0 59 239 41 546.6 0 41 240 32 546.6 0 32 241 53 546.6 0 53 242 24 546.6 0 24 243 30 546.6 0 30 244 36 546.6 0 36 245 22 546.6 0 22 246 25 546.6 0 25 247 59 546.6 0 59 248 41 546.6 0 41 249 48 546.6 0 48 250 40 546.6 0 40 251 30 546.6 0 30 252 39 546.6 0 39 253 35 546.6 0 35 254 63 546.6 0 63 255 73 546.6 0 73 256 106 546.6 0 106 257 55 546.6 0 55 258 52 546.6 0 52 259 62 546.6 0 62 260 40 546.6 0 40 261 52 546.6 0 52 262 55 546.6 0 55 263 70 546.6 0 70 264 37 546.6 0 37 265 118 546.6 0 118 266 68 546.6 0 68 267 48 546.6 0 48 268 77 546.6 0 77 269 61 546.6 0 61 270 61 546.6 0 61 271 184 546.6 0 184 272 144 546.6 0 144 273 94 546.6 0 94 274 173 546.6 0 173 275 83 546.6 0 83 276 65 546.6 0 65 277 51 546.6 0 51 278 87 546.6 0 87 279 173 546.6 0 173 280 3248 546.6 0 3248 281 77 546.6 0 77 282 67 546.6 0 67 283 34 546.6 0 34 284 46 546.6 0 46 285 70 546.6 0 70 286 57 546.6 0 57 287 67 546.6 0 67 288 72 546.6 0 72 289 54 546.6 0 54 290 56 546.6 0 56 291 49 546.6 0 49 292 54 546.6 0 54 293 61 546.6 0 61 294 75 546.6 0 75 295 64 546.6 0 64 296 90 546.6 0 90 297 48 546.6 0 48 298 36 546.6 0 36 299 39 546.6 0 39 300 60 546.6 0 60 301 59 546.6 0 59 Finished in 10.43 s (47 us/read; 1.26 M reads/minute). === Summary === Total reads processed: 219,587 Reads with adapters: 113,069 (51.5%) Reads that were too short: 28 (0.0%) Reads written (passing filters): 113,041 (51.5%) Total basepairs processed: 62,965,414 bp Total written (filtered): 30,843,608 bp (49.0%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 113069 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 3 0.0 3 0 0 0 1 2 18 44 0.0 3 0 0 42 0 2 19 1484 0.0 3 0 1444 35 3 2 20 110739 0.0 4 109042 1653 38 5 1 21 252 0.0 4 43 204 5 22 15 0.0 4 2 4 9 23 308 0.0 4 217 1 0 85 5 24 5 0.0 4 0 1 0 0 4 25 1 0.0 4 1 28 1 0.0 4 0 0 0 0 1 48 3 0.0 4 0 0 0 0 3 51 1 0.0 4 0 0 0 0 1 110 1 0.0 4 0 0 0 0 1 120 2 0.0 4 2 126 2 0.0 4 0 0 0 0 2 127 169 0.0 4 1 1 0 0 167 130 1 0.0 4 0 0 0 0 1 133 1 0.0 4 1 134 1 0.0 4 0 0 0 0 1 137 1 0.0 4 1 138 1 0.0 4 1 141 1 0.0 4 1 153 3 0.0 4 0 0 0 0 3 172 1 0.0 4 1 173 1 0.0 4 1 180 1 0.0 4 0 0 1 214 1 0.0 4 0 0 0 0 1 215 1 0.0 4 0 0 0 0 1 225 2 0.0 4 1 1 226 2 0.0 4 1 1 227 2 0.0 4 2 228 2 0.0 4 0 0 0 1 1 229 3 0.0 4 0 0 0 0 3 232 1 0.0 4 1 234 2 0.0 4 0 0 0 0 2 242 1 0.0 4 0 1 255 1 0.0 4 0 0 0 0 1 262 1 0.0 4 0 0 0 0 1 263 1 0.0 4 0 0 0 0 1 282 1 0.0 4 0 0 0 0 1 289 1 0.0 4 0 0 1 290 1 0.0 4 0 0 0 0 1 291 1 0.0 4 0 0 0 0 1 292 1 0.0 4 0 0 0 0 1 293 2 0.0 4 0 0 0 0 2 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 3.91 s (35 us/read; 1.73 M reads/minute). === Summary === Total reads processed: 113,041 Reads with adapters: 7,882 (7.0%) Reads written (passing filters): 113,041 (100.0%) Total basepairs processed: 30,843,608 bp Total written (filtered): 30,738,602 bp (99.7%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 7882 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 2.9% C: 4.0% G: 90.9% 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 63 1766.3 0 63 4 11 441.6 0 11 5 3 110.4 0 3 6 2 27.6 0 2 7 1 6.9 0 1 9 139 0.4 0 2 137 10 1124 0.1 1 32 1092 11 6356 0.0 1 55 6301 12 9 0.0 1 0 9 13 1 0.0 1 0 1 14 3 0.0 1 0 3 19 17 0.0 1 12 5 20 1 0.0 1 1 23 21 0.0 1 17 4 24 19 0.0 1 18 1 25 1 0.0 1 1 35 3 0.0 1 3 55 1 0.0 1 0 1 79 2 0.0 1 2 92 1 0.0 1 1 121 2 0.0 1 2 123 1 0.0 1 1 147 1 0.0 1 0 1 150 1 0.0 1 0 1 151 22 0.0 1 0 22 152 1 0.0 1 0 1 153 1 0.0 1 0 1 157 1 0.0 1 1 175 1 0.0 1 1 190 3 0.0 1 1 2 192 3 0.0 1 0 3 208 1 0.0 1 0 1 209 36 0.0 1 15 21 224 4 0.0 1 3 1 228 1 0.0 1 0 1 231 23 0.0 1 20 3 258 2 0.0 1 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.