This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AAGGTC -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 96.50 s (30 us/read; 1.99 M reads/minute). === Summary === Total reads processed: 3,193,041 Reads with adapters: 507,810 (15.9%) Reads that were too short: 10,035 (0.3%) Reads written (passing filters): 497,775 (15.6%) Total basepairs processed: 961,105,341 bp Total written (filtered): 113,512,683 bp (11.8%) === Adapter 1 === Sequence: AAGGTC; Type: regular 5'; Length: 6; Trimmed: 507810 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 2235 779.6 0 2235 7 10733 779.6 0 10733 8 2399 779.6 0 2399 9 107892 779.6 0 107892 10 176 779.6 0 176 11 21 779.6 0 21 12 50 779.6 0 50 13 15 779.6 0 15 14 10 779.6 0 10 15 28 779.6 0 28 16 24 779.6 0 24 17 32 779.6 0 32 18 29 779.6 0 29 19 22 779.6 0 22 20 27 779.6 0 27 21 28 779.6 0 28 22 14 779.6 0 14 23 18 779.6 0 18 24 21 779.6 0 21 25 11 779.6 0 11 26 16 779.6 0 16 27 17 779.6 0 17 28 13 779.6 0 13 29 16 779.6 0 16 30 15 779.6 0 15 31 24 779.6 0 24 32 22 779.6 0 22 33 23 779.6 0 23 34 15 779.6 0 15 35 41 779.6 0 41 36 31 779.6 0 31 37 25 779.6 0 25 38 24 779.6 0 24 39 17 779.6 0 17 40 24 779.6 0 24 41 17 779.6 0 17 42 23 779.6 0 23 43 27 779.6 0 27 44 29 779.6 0 29 45 19 779.6 0 19 46 26 779.6 0 26 47 19 779.6 0 19 48 18 779.6 0 18 49 25 779.6 0 25 50 26 779.6 0 26 51 86 779.6 0 86 52 44 779.6 0 44 53 48 779.6 0 48 54 72 779.6 0 72 55 45 779.6 0 45 56 35 779.6 0 35 57 72 779.6 0 72 58 28 779.6 0 28 59 57 779.6 0 57 60 73 779.6 0 73 61 77 779.6 0 77 62 328 779.6 0 328 63 72 779.6 0 72 64 60 779.6 0 60 65 47 779.6 0 47 66 160 779.6 0 160 67 97 779.6 0 97 68 252 779.6 0 252 69 318 779.6 0 318 70 453 779.6 0 453 71 410 779.6 0 410 72 1005 779.6 0 1005 73 2422 779.6 0 2422 74 606 779.6 0 606 75 735 779.6 0 735 76 1553 779.6 0 1553 77 938 779.6 0 938 78 746 779.6 0 746 79 1823 779.6 0 1823 80 2380 779.6 0 2380 81 2330 779.6 0 2330 82 2212 779.6 0 2212 83 3627 779.6 0 3627 84 3186 779.6 0 3186 85 4321 779.6 0 4321 86 47855 779.6 0 47855 87 188990 779.6 0 188990 88 67562 779.6 0 67562 89 291 779.6 0 291 90 29 779.6 0 29 91 10 779.6 0 10 92 12 779.6 0 12 93 24 779.6 0 24 94 57 779.6 0 57 95 18 779.6 0 18 96 11 779.6 0 11 97 20 779.6 0 20 98 13 779.6 0 13 99 44 779.6 0 44 100 85 779.6 0 85 101 34 779.6 0 34 102 15 779.6 0 15 103 17 779.6 0 17 104 14 779.6 0 14 105 115 779.6 0 115 106 13 779.6 0 13 107 15 779.6 0 15 108 11 779.6 0 11 109 23 779.6 0 23 110 30 779.6 0 30 111 23 779.6 0 23 112 14 779.6 0 14 113 19 779.6 0 19 114 22 779.6 0 22 115 20 779.6 0 20 116 27 779.6 0 27 117 35 779.6 0 35 118 37 779.6 0 37 119 48 779.6 0 48 120 44 779.6 0 44 121 27 779.6 0 27 122 50 779.6 0 50 123 273 779.6 0 273 124 564 779.6 0 564 125 1044 779.6 0 1044 126 642 779.6 0 642 127 356 779.6 0 356 128 58 779.6 0 58 129 61 779.6 0 61 130 84 779.6 0 84 131 154 779.6 0 154 132 52 779.6 0 52 133 52 779.6 0 52 134 54 779.6 0 54 135 63 779.6 0 63 136 44 779.6 0 44 137 84 779.6 0 84 138 68 779.6 0 68 139 63 779.6 0 63 140 61 779.6 0 61 141 66 779.6 0 66 142 97 779.6 0 97 143 187 779.6 0 187 144 2940 779.6 0 2940 145 2927 779.6 0 2927 146 4195 779.6 0 4195 147 60 779.6 0 60 148 24 779.6 0 24 149 24 779.6 0 24 150 14 779.6 0 14 151 17 779.6 0 17 152 14 779.6 0 14 153 17 779.6 0 17 154 14 779.6 0 14 155 38 779.6 0 38 156 35 779.6 0 35 157 30 779.6 0 30 158 36 779.6 0 36 159 37 779.6 0 37 160 28 779.6 0 28 161 40 779.6 0 40 162 23 779.6 0 23 163 27 779.6 0 27 164 66 779.6 0 66 165 103 779.6 0 103 166 1330 779.6 0 1330 167 549 779.6 0 549 168 1478 779.6 0 1478 169 35 779.6 0 35 170 56 779.6 0 56 171 87 779.6 0 87 172 204 779.6 0 204 173 57 779.6 0 57 174 70 779.6 0 70 175 81 779.6 0 81 176 43 779.6 0 43 177 45 779.6 0 45 178 101 779.6 0 101 179 98 779.6 0 98 180 105 779.6 0 105 181 91 779.6 0 91 182 97 779.6 0 97 183 175 779.6 0 175 184 300 779.6 0 300 185 5457 779.6 0 5457 186 3498 779.6 0 3498 187 7657 779.6 0 7657 188 52 779.6 0 52 189 13 779.6 0 13 190 27 779.6 0 27 191 51 779.6 0 51 192 51 779.6 0 51 193 78 779.6 0 78 194 28 779.6 0 28 195 43 779.6 0 43 196 47 779.6 0 47 197 50 779.6 0 50 198 69 779.6 0 69 199 35 779.6 0 35 200 23 779.6 0 23 201 29 779.6 0 29 202 42 779.6 0 42 203 63 779.6 0 63 204 82 779.6 0 82 205 140 779.6 0 140 206 1492 779.6 0 1492 207 1101 779.6 0 1101 208 2735 779.6 0 2735 209 59 779.6 0 59 210 152 779.6 0 152 211 361 779.6 0 361 212 172 779.6 0 172 213 193 779.6 0 193 214 34 779.6 0 34 215 17 779.6 0 17 216 22 779.6 0 22 217 22 779.6 0 22 218 15 779.6 0 15 219 18 779.6 0 18 220 21 779.6 0 21 221 11 779.6 0 11 222 24 779.6 0 24 223 51 779.6 0 51 224 25 779.6 0 25 225 28 779.6 0 28 226 39 779.6 0 39 227 40 779.6 0 40 228 66 779.6 0 66 229 10 779.6 0 10 230 7 779.6 0 7 231 13 779.6 0 13 232 12 779.6 0 12 233 11 779.6 0 11 234 26 779.6 0 26 235 19 779.6 0 19 236 17 779.6 0 17 237 13 779.6 0 13 238 11 779.6 0 11 239 10 779.6 0 10 240 15 779.6 0 15 241 146 779.6 0 146 242 337 779.6 0 337 243 410 779.6 0 410 244 25 779.6 0 25 245 13 779.6 0 13 246 21 779.6 0 21 247 12 779.6 0 12 248 13 779.6 0 13 249 14 779.6 0 14 250 12 779.6 0 12 251 22 779.6 0 22 252 50 779.6 0 50 253 39 779.6 0 39 254 16 779.6 0 16 255 32 779.6 0 32 256 20 779.6 0 20 257 15 779.6 0 15 258 13 779.6 0 13 259 88 779.6 0 88 260 64 779.6 0 64 261 56 779.6 0 56 262 57 779.6 0 57 263 62 779.6 0 62 264 40 779.6 0 40 265 21 779.6 0 21 266 21 779.6 0 21 267 15 779.6 0 15 268 13 779.6 0 13 269 9 779.6 0 9 270 8 779.6 0 8 271 19 779.6 0 19 272 19 779.6 0 19 273 38 779.6 0 38 274 21 779.6 0 21 275 69 779.6 0 69 276 34 779.6 0 34 277 21 779.6 0 21 278 39 779.6 0 39 279 35 779.6 0 35 280 15 779.6 0 15 281 12 779.6 0 12 282 16 779.6 0 16 283 8 779.6 0 8 284 18 779.6 0 18 285 18 779.6 0 18 286 13 779.6 0 13 287 8 779.6 0 8 288 11 779.6 0 11 289 11 779.6 0 11 290 15 779.6 0 15 291 49 779.6 0 49 292 37 779.6 0 37 293 9 779.6 0 9 294 11 779.6 0 11 295 10 779.6 0 10 296 27 779.6 0 27 297 36 779.6 0 36 298 37 779.6 0 37 299 86 779.6 0 86 300 125 779.6 0 125 301 315 779.6 0 315 Finished in 24.93 s (50 us/read; 1.20 M reads/minute). === Summary === Total reads processed: 497,775 Reads with adapters: 10,644 (2.1%) Reads that were too short: 8 (0.0%) Reads written (passing filters): 10,636 (2.1%) Total basepairs processed: 113,512,683 bp Total written (filtered): 2,859,864 bp (2.5%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 10644 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 1 0.0 3 0 0 0 0 1 19 26 0.0 3 0 22 1 3 20 899 0.0 4 872 17 9 1 21 172 0.0 4 5 166 0 1 22 9239 0.0 4 9126 108 4 0 1 23 20 0.0 4 5 15 24 2 0.0 4 0 1 1 25 2 0.0 4 0 0 0 2 28 1 0.0 4 0 0 0 0 1 48 3 0.0 4 0 0 0 0 3 65 1 0.0 4 1 73 6 0.0 4 0 0 0 0 6 74 165 0.0 4 0 0 0 1 164 89 1 0.0 4 0 0 0 0 1 127 12 0.0 4 0 0 0 0 12 129 10 0.0 4 0 0 0 0 10 130 1 0.0 4 0 0 0 0 1 146 1 0.0 4 0 0 0 0 1 151 7 0.0 4 0 0 0 0 7 152 1 0.0 4 0 0 0 0 1 153 67 0.0 4 0 0 0 0 67 154 1 0.0 4 0 0 0 0 1 155 2 0.0 4 0 0 0 0 2 163 1 0.0 4 0 0 0 1 204 1 0.0 4 0 0 0 0 1 233 1 0.0 4 0 0 0 0 1 234 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 0.40 s (38 us/read; 1.60 M reads/minute). === Summary === Total reads processed: 10,636 Reads with adapters: 154 (1.4%) Reads written (passing filters): 10,636 (100.0%) Total basepairs processed: 2,859,864 bp Total written (filtered): 2,857,870 bp (99.9%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 154 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.3% C: 3.2% G: 94.8% T: 0.6% 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 6 166.2 0 6 9 13 0.0 0 0 13 10 55 0.0 1 1 54 11 78 0.0 1 0 78 225 1 0.0 1 1 226 1 0.0 1 0 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.