This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TTCGGA -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 167.42 s (31 us/read; 1.91 M reads/minute). === Summary === Total reads processed: 5,333,634 Reads with adapters: 162,095 (3.0%) Reads that were too short: 22,600 (0.4%) Reads written (passing filters): 139,495 (2.6%) Total basepairs processed: 1,605,423,834 bp Total written (filtered): 29,351,989 bp (1.8%) === Adapter 1 === Sequence: TTCGGA; Type: regular 5'; Length: 6; Trimmed: 162095 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1253 1302.2 0 1253 7 444 1302.2 0 444 8 1422 1302.2 0 1422 9 3536 1302.2 0 3536 10 3717 1302.2 0 3717 11 19 1302.2 0 19 12 88 1302.2 0 88 13 11 1302.2 0 11 14 5 1302.2 0 5 15 8 1302.2 0 8 16 13 1302.2 0 13 17 4 1302.2 0 4 18 5 1302.2 0 5 19 13 1302.2 0 13 20 3 1302.2 0 3 21 10 1302.2 0 10 22 12 1302.2 0 12 23 10 1302.2 0 10 24 7 1302.2 0 7 25 6 1302.2 0 6 26 9 1302.2 0 9 27 9 1302.2 0 9 28 6 1302.2 0 6 29 6 1302.2 0 6 30 10 1302.2 0 10 31 9 1302.2 0 9 32 16 1302.2 0 16 33 8 1302.2 0 8 34 7 1302.2 0 7 35 11 1302.2 0 11 36 8 1302.2 0 8 37 20 1302.2 0 20 38 7 1302.2 0 7 39 29 1302.2 0 29 40 111 1302.2 0 111 41 8 1302.2 0 8 42 9 1302.2 0 9 43 4 1302.2 0 4 44 10 1302.2 0 10 45 236 1302.2 0 236 46 87 1302.2 0 87 47 22 1302.2 0 22 48 15 1302.2 0 15 49 10 1302.2 0 10 50 16 1302.2 0 16 51 13 1302.2 0 13 52 29 1302.2 0 29 53 16 1302.2 0 16 54 31 1302.2 0 31 55 10 1302.2 0 10 56 6 1302.2 0 6 57 19 1302.2 0 19 58 17 1302.2 0 17 59 78 1302.2 0 78 60 40 1302.2 0 40 61 3 1302.2 0 3 62 25 1302.2 0 25 63 35 1302.2 0 35 64 38 1302.2 0 38 65 43 1302.2 0 43 66 42 1302.2 0 42 67 14 1302.2 0 14 68 67 1302.2 0 67 69 41 1302.2 0 41 70 31 1302.2 0 31 71 23 1302.2 0 23 72 69 1302.2 0 69 73 54 1302.2 0 54 74 70 1302.2 0 70 75 127 1302.2 0 127 76 142 1302.2 0 142 77 123 1302.2 0 123 78 304 1302.2 0 304 79 769 1302.2 0 769 80 179 1302.2 0 179 81 292 1302.2 0 292 82 812 1302.2 0 812 83 405 1302.2 0 405 84 341 1302.2 0 341 85 681 1302.2 0 681 86 716 1302.2 0 716 87 1219 1302.2 0 1219 88 493 1302.2 0 493 89 525 1302.2 0 525 90 740 1302.2 0 740 91 970 1302.2 0 970 92 9457 1302.2 0 9457 93 55062 1302.2 0 55062 94 45587 1302.2 0 45587 95 605 1302.2 0 605 96 75 1302.2 0 75 97 12 1302.2 0 12 98 11 1302.2 0 11 99 10 1302.2 0 10 100 10 1302.2 0 10 101 11 1302.2 0 11 102 30 1302.2 0 30 103 7 1302.2 0 7 104 7 1302.2 0 7 105 16 1302.2 0 16 106 24 1302.2 0 24 107 156 1302.2 0 156 108 86 1302.2 0 86 109 18 1302.2 0 18 110 13 1302.2 0 13 111 97 1302.2 0 97 112 71 1302.2 0 71 113 9 1302.2 0 9 114 32 1302.2 0 32 115 53 1302.2 0 53 116 45 1302.2 0 45 117 33 1302.2 0 33 118 19 1302.2 0 19 119 16 1302.2 0 16 120 26 1302.2 0 26 121 16 1302.2 0 16 122 10 1302.2 0 10 123 14 1302.2 0 14 124 8 1302.2 0 8 125 18 1302.2 0 18 126 18 1302.2 0 18 127 23 1302.2 0 23 128 18 1302.2 0 18 129 14 1302.2 0 14 130 48 1302.2 0 48 131 76 1302.2 0 76 132 25 1302.2 0 25 133 18 1302.2 0 18 134 23 1302.2 0 23 135 20 1302.2 0 20 136 36 1302.2 0 36 137 50 1302.2 0 50 138 58 1302.2 0 58 139 54 1302.2 0 54 140 62 1302.2 0 62 141 128 1302.2 0 128 142 10 1302.2 0 10 143 14 1302.2 0 14 144 46 1302.2 0 46 145 13 1302.2 0 13 146 7 1302.2 0 7 147 14 1302.2 0 14 148 22 1302.2 0 22 149 17 1302.2 0 17 150 15 1302.2 0 15 151 13 1302.2 0 13 152 6 1302.2 0 6 153 5 1302.2 0 5 154 6 1302.2 0 6 155 8 1302.2 0 8 156 28 1302.2 0 28 157 11 1302.2 0 11 158 24 1302.2 0 24 159 15 1302.2 0 15 160 10 1302.2 0 10 161 13 1302.2 0 13 162 7 1302.2 0 7 163 9 1302.2 0 9 164 14 1302.2 0 14 165 15 1302.2 0 15 166 22 1302.2 0 22 167 15 1302.2 0 15 168 20 1302.2 0 20 169 37 1302.2 0 37 170 9 1302.2 0 9 171 12 1302.2 0 12 172 19 1302.2 0 19 173 35 1302.2 0 35 174 14 1302.2 0 14 175 37 1302.2 0 37 176 31 1302.2 0 31 177 312 1302.2 0 312 178 383 1302.2 0 383 179 849 1302.2 0 849 180 164 1302.2 0 164 181 17 1302.2 0 17 182 15 1302.2 0 15 183 26 1302.2 0 26 184 29 1302.2 0 29 185 53 1302.2 0 53 186 41 1302.2 0 41 187 43 1302.2 0 43 188 107 1302.2 0 107 189 68 1302.2 0 68 190 152 1302.2 0 152 191 136 1302.2 0 136 192 62 1302.2 0 62 193 58 1302.2 0 58 194 62 1302.2 0 62 195 70 1302.2 0 70 196 52 1302.2 0 52 197 54 1302.2 0 54 198 83 1302.2 0 83 199 130 1302.2 0 130 200 212 1302.2 0 212 201 2468 1302.2 0 2468 202 5316 1302.2 0 5316 203 6422 1302.2 0 6422 204 467 1302.2 0 467 205 294 1302.2 0 294 206 671 1302.2 0 671 207 135 1302.2 0 135 208 123 1302.2 0 123 209 63 1302.2 0 63 210 31 1302.2 0 31 211 38 1302.2 0 38 212 45 1302.2 0 45 213 34 1302.2 0 34 214 45 1302.2 0 45 215 40 1302.2 0 40 216 67 1302.2 0 67 217 63 1302.2 0 63 218 97 1302.2 0 97 219 34 1302.2 0 34 220 27 1302.2 0 27 221 44 1302.2 0 44 222 65 1302.2 0 65 223 155 1302.2 0 155 224 36 1302.2 0 36 225 201 1302.2 0 201 226 363 1302.2 0 363 227 544 1302.2 0 544 228 574 1302.2 0 574 229 272 1302.2 0 272 230 26 1302.2 0 26 231 18 1302.2 0 18 232 12 1302.2 0 12 233 13 1302.2 0 13 234 5 1302.2 0 5 235 15 1302.2 0 15 236 41 1302.2 0 41 237 42 1302.2 0 42 238 82 1302.2 0 82 239 7 1302.2 0 7 240 6 1302.2 0 6 241 2 1302.2 0 2 242 5 1302.2 0 5 243 8 1302.2 0 8 244 7 1302.2 0 7 245 12 1302.2 0 12 246 46 1302.2 0 46 247 17 1302.2 0 17 248 7 1302.2 0 7 249 8 1302.2 0 8 250 6 1302.2 0 6 251 5 1302.2 0 5 252 5 1302.2 0 5 253 14 1302.2 0 14 254 52 1302.2 0 52 255 87 1302.2 0 87 256 56 1302.2 0 56 257 27 1302.2 0 27 258 59 1302.2 0 59 259 119 1302.2 0 119 260 108 1302.2 0 108 261 84 1302.2 0 84 262 80 1302.2 0 80 263 33 1302.2 0 33 264 30 1302.2 0 30 265 44 1302.2 0 44 266 51 1302.2 0 51 267 21 1302.2 0 21 268 9 1302.2 0 9 269 12 1302.2 0 12 270 11 1302.2 0 11 271 22 1302.2 0 22 272 24 1302.2 0 24 273 36 1302.2 0 36 274 10 1302.2 0 10 275 13 1302.2 0 13 276 13 1302.2 0 13 277 24 1302.2 0 24 278 33 1302.2 0 33 279 52 1302.2 0 52 280 22 1302.2 0 22 281 11 1302.2 0 11 282 29 1302.2 0 29 283 13 1302.2 0 13 284 36 1302.2 0 36 285 162 1302.2 0 162 286 451 1302.2 0 451 287 3635 1302.2 0 3635 288 16 1302.2 0 16 289 4 1302.2 0 4 290 4 1302.2 0 4 291 2 1302.2 0 2 292 73 1302.2 0 73 293 276 1302.2 0 276 294 17 1302.2 0 17 295 13 1302.2 0 13 296 13 1302.2 0 13 297 4 1302.2 0 4 298 3 1302.2 0 3 299 11 1302.2 0 11 300 7 1302.2 0 7 301 13 1302.2 0 13 Finished in 7.29 s (52 us/read; 1.15 M reads/minute). === Summary === Total reads processed: 139,495 Reads with adapters: 3,102 (2.2%) Reads that were too short: 9 (0.0%) Reads written (passing filters): 3,093 (2.2%) Total basepairs processed: 29,351,989 bp Total written (filtered): 833,593 bp (2.8%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 3102 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 2 0.0 3 0 0 2 19 68 0.0 3 0 60 2 0 6 20 2953 0.0 4 2906 40 3 3 1 21 9 0.0 4 5 4 40 1 0.0 4 0 0 0 0 1 46 1 0.0 4 0 0 0 0 1 67 2 0.0 4 0 0 0 1 1 68 47 0.0 4 0 0 0 0 47 93 1 0.0 4 0 0 0 0 1 97 1 0.0 4 0 0 0 0 1 104 1 0.0 4 0 0 0 0 1 123 1 0.0 4 0 0 0 0 1 127 6 0.0 4 0 0 0 0 6 133 1 0.0 4 0 0 0 0 1 148 2 0.0 4 0 0 0 0 2 165 1 0.0 4 0 0 0 0 1 169 1 0.0 4 0 0 0 0 1 174 1 0.0 4 0 0 0 0 1 181 1 0.0 4 0 0 0 0 1 210 1 0.0 4 0 0 0 0 1 224 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 0.13 s (42 us/read; 1.43 M reads/minute). === Summary === Total reads processed: 3,093 Reads with adapters: 44 (1.4%) Reads written (passing filters): 3,093 (100.0%) Total basepairs processed: 833,593 bp Total written (filtered): 832,117 bp (99.8%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 44 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 4.5% C: 2.3% G: 86.4% T: 6.8% 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 6 1 0.8 0 1 9 5 0.0 0 0 5 10 15 0.0 1 0 15 11 17 0.0 1 0 17 12 2 0.0 1 0 2 257 1 0.0 1 1 265 1 0.0 1 1 271 2 0.0 1 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.