This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AATAGG -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 168.58 s (46 us/read; 1.29 M reads/minute). === Summary === Total reads processed: 3,634,272 Reads with adapters: 116,408 (3.2%) Reads that were too short: 12,131 (0.3%) Reads written (passing filters): 104,277 (2.9%) Total basepairs processed: 1,093,915,872 bp Total written (filtered): 29,150,601 bp (2.7%) === Adapter 1 === Sequence: AATAGG; Type: regular 5'; Length: 6; Trimmed: 116408 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 407 887.3 0 407 7 944 887.3 0 944 8 45181 887.3 0 45181 9 45065 887.3 0 45065 10 86 887.3 0 86 11 16 887.3 0 16 12 22 887.3 0 22 13 12 887.3 0 12 14 10 887.3 0 10 15 15 887.3 0 15 16 14 887.3 0 14 17 9 887.3 0 9 18 37 887.3 0 37 19 44 887.3 0 44 20 33 887.3 0 33 21 18 887.3 0 18 22 13 887.3 0 13 23 17 887.3 0 17 24 16 887.3 0 16 25 21 887.3 0 21 26 15 887.3 0 15 27 13 887.3 0 13 28 23 887.3 0 23 29 34 887.3 0 34 30 32 887.3 0 32 31 14 887.3 0 14 32 22 887.3 0 22 33 20 887.3 0 20 34 24 887.3 0 24 35 35 887.3 0 35 36 39 887.3 0 39 37 37 887.3 0 37 38 20 887.3 0 20 39 17 887.3 0 17 40 18 887.3 0 18 41 15 887.3 0 15 42 50 887.3 0 50 43 32 887.3 0 32 44 62 887.3 0 62 45 473 887.3 0 473 46 293 887.3 0 293 47 557 887.3 0 557 48 14 887.3 0 14 49 10 887.3 0 10 50 23 887.3 0 23 51 25 887.3 0 25 52 20 887.3 0 20 53 10 887.3 0 10 54 10 887.3 0 10 55 21 887.3 0 21 56 14 887.3 0 14 57 17 887.3 0 17 58 9 887.3 0 9 59 6 887.3 0 6 60 21 887.3 0 21 61 14 887.3 0 14 62 15 887.3 0 15 63 15 887.3 0 15 64 14 887.3 0 14 65 17 887.3 0 17 66 16 887.3 0 16 67 17 887.3 0 17 68 86 887.3 0 86 69 61 887.3 0 61 70 31 887.3 0 31 71 111 887.3 0 111 72 134 887.3 0 134 73 62 887.3 0 62 74 16 887.3 0 16 75 17 887.3 0 17 76 18 887.3 0 18 77 12 887.3 0 12 78 31 887.3 0 31 79 54 887.3 0 54 80 42 887.3 0 42 81 34 887.3 0 34 82 32 887.3 0 32 83 39 887.3 0 39 84 37 887.3 0 37 85 47 887.3 0 47 86 46 887.3 0 46 87 26 887.3 0 26 88 50 887.3 0 50 89 51 887.3 0 51 90 59 887.3 0 59 91 58 887.3 0 58 92 48 887.3 0 48 93 44 887.3 0 44 94 58 887.3 0 58 95 307 887.3 0 307 96 392 887.3 0 392 97 243 887.3 0 243 98 37 887.3 0 37 99 34 887.3 0 34 100 45 887.3 0 45 101 33 887.3 0 33 102 21 887.3 0 21 103 20 887.3 0 20 104 27 887.3 0 27 105 29 887.3 0 29 106 34 887.3 0 34 107 39 887.3 0 39 108 20 887.3 0 20 109 28 887.3 0 28 110 30 887.3 0 30 111 22 887.3 0 22 112 39 887.3 0 39 113 336 887.3 0 336 114 305 887.3 0 305 115 219 887.3 0 219 116 225 887.3 0 225 117 50 887.3 0 50 118 18 887.3 0 18 119 34 887.3 0 34 120 37 887.3 0 37 121 29 887.3 0 29 122 49 887.3 0 49 123 53 887.3 0 53 124 49 887.3 0 49 125 38 887.3 0 38 126 52 887.3 0 52 127 38 887.3 0 38 128 39 887.3 0 39 129 51 887.3 0 51 130 46 887.3 0 46 131 63 887.3 0 63 132 52 887.3 0 52 133 53 887.3 0 53 134 74 887.3 0 74 135 197 887.3 0 197 136 225 887.3 0 225 137 210 887.3 0 210 138 691 887.3 0 691 139 328 887.3 0 328 140 175 887.3 0 175 141 46 887.3 0 46 142 78 887.3 0 78 143 131 887.3 0 131 144 86 887.3 0 86 145 54 887.3 0 54 146 69 887.3 0 69 147 45 887.3 0 45 148 36 887.3 0 36 149 49 887.3 0 49 150 50 887.3 0 50 151 46 887.3 0 46 152 45 887.3 0 45 153 29 887.3 0 29 154 48 887.3 0 48 155 38 887.3 0 38 156 50 887.3 0 50 157 31 887.3 0 31 158 35 887.3 0 35 159 27 887.3 0 27 160 33 887.3 0 33 161 40 887.3 0 40 162 78 887.3 0 78 163 65 887.3 0 65 164 72 887.3 0 72 165 37 887.3 0 37 166 45 887.3 0 45 167 125 887.3 0 125 168 180 887.3 0 180 169 136 887.3 0 136 170 71 887.3 0 71 171 37 887.3 0 37 172 47 887.3 0 47 173 53 887.3 0 53 174 40 887.3 0 40 175 31 887.3 0 31 176 28 887.3 0 28 177 22 887.3 0 22 178 33 887.3 0 33 179 75 887.3 0 75 180 51 887.3 0 51 181 53 887.3 0 53 182 39 887.3 0 39 183 67 887.3 0 67 184 166 887.3 0 166 185 217 887.3 0 217 186 178 887.3 0 178 187 71 887.3 0 71 188 40 887.3 0 40 189 47 887.3 0 47 190 41 887.3 0 41 191 35 887.3 0 35 192 38 887.3 0 38 193 37 887.3 0 37 194 40 887.3 0 40 195 31 887.3 0 31 196 36 887.3 0 36 197 39 887.3 0 39 198 45 887.3 0 45 199 68 887.3 0 68 200 74 887.3 0 74 201 50 887.3 0 50 202 46 887.3 0 46 203 55 887.3 0 55 204 136 887.3 0 136 205 152 887.3 0 152 206 159 887.3 0 159 207 71 887.3 0 71 208 51 887.3 0 51 209 58 887.3 0 58 210 78 887.3 0 78 211 57 887.3 0 57 212 52 887.3 0 52 213 50 887.3 0 50 214 45 887.3 0 45 215 60 887.3 0 60 216 86 887.3 0 86 217 46 887.3 0 46 218 60 887.3 0 60 219 35 887.3 0 35 220 43 887.3 0 43 221 58 887.3 0 58 222 66 887.3 0 66 223 78 887.3 0 78 224 202 887.3 0 202 225 2050 887.3 0 2050 226 2858 887.3 0 2858 227 1501 887.3 0 1501 228 520 887.3 0 520 229 38 887.3 0 38 230 30 887.3 0 30 231 51 887.3 0 51 232 43 887.3 0 43 233 43 887.3 0 43 234 34 887.3 0 34 235 61 887.3 0 61 236 79 887.3 0 79 237 54 887.3 0 54 238 40 887.3 0 40 239 49 887.3 0 49 240 49 887.3 0 49 241 52 887.3 0 52 242 71 887.3 0 71 243 101 887.3 0 101 244 76 887.3 0 76 245 29 887.3 0 29 246 29 887.3 0 29 247 37 887.3 0 37 248 49 887.3 0 49 249 33 887.3 0 33 250 29 887.3 0 29 251 21 887.3 0 21 252 33 887.3 0 33 253 55 887.3 0 55 254 33 887.3 0 33 255 35 887.3 0 35 256 21 887.3 0 21 257 38 887.3 0 38 258 32 887.3 0 32 259 72 887.3 0 72 260 51 887.3 0 51 261 36 887.3 0 36 262 39 887.3 0 39 263 38 887.3 0 38 264 40 887.3 0 40 265 59 887.3 0 59 266 37 887.3 0 37 267 33 887.3 0 33 268 37 887.3 0 37 269 50 887.3 0 50 270 35 887.3 0 35 271 85 887.3 0 85 272 48 887.3 0 48 273 55 887.3 0 55 274 39 887.3 0 39 275 33 887.3 0 33 276 45 887.3 0 45 277 33 887.3 0 33 278 25 887.3 0 25 279 72 887.3 0 72 280 54 887.3 0 54 281 108 887.3 0 108 282 38 887.3 0 38 283 23 887.3 0 23 284 32 887.3 0 32 285 27 887.3 0 27 286 37 887.3 0 37 287 26 887.3 0 26 288 27 887.3 0 27 289 49 887.3 0 49 290 31 887.3 0 31 291 47 887.3 0 47 292 38 887.3 0 38 293 46 887.3 0 46 294 57 887.3 0 57 295 62 887.3 0 62 296 57 887.3 0 57 297 51 887.3 0 51 298 106 887.3 0 106 299 46 887.3 0 46 300 31 887.3 0 31 301 158 887.3 0 158 Finished in 8.30 s (80 us/read; 0.75 M reads/minute). === Summary === Total reads processed: 104,277 Reads with adapters: 49,775 (47.7%) Reads that were too short: 19 (0.0%) Reads written (passing filters): 49,756 (47.7%) Total basepairs processed: 29,150,601 bp Total written (filtered): 13,363,867 bp (45.8%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 49775 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 6 0.0 3 0 0 6 19 410 0.0 3 0 396 11 3 20 47529 0.0 4 46685 822 19 3 21 134 0.0 4 41 91 2 22 13 0.0 4 0 1 10 2 23 29 0.0 4 0 1 0 24 4 24 1 0.0 4 0 0 0 0 1 25 1 0.0 4 1 32 1 0.0 4 0 0 0 0 1 47 1 0.0 4 0 0 0 0 1 73 1 0.0 4 0 0 0 0 1 83 1 0.0 4 0 0 0 0 1 86 1 0.0 4 0 0 0 0 1 89 22 0.0 4 0 0 0 0 22 99 2 0.0 4 0 0 0 0 2 123 1 0.0 4 0 0 0 0 1 125 2 0.0 4 0 0 0 0 2 126 6 0.0 4 0 0 0 0 6 127 1586 0.0 4 0 0 0 0 1586 128 8 0.0 4 0 0 0 0 8 130 3 0.0 4 0 0 0 0 3 152 1 0.0 4 0 0 0 0 1 153 1 0.0 4 0 0 0 0 1 181 1 0.0 4 0 0 0 0 1 202 1 0.0 4 0 0 0 0 1 209 1 0.0 4 0 0 0 0 1 228 4 0.0 4 0 0 0 0 4 229 5 0.0 4 0 0 0 1 4 235 1 0.0 4 0 0 0 0 1 264 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 2.84 s (57 us/read; 1.05 M reads/minute). === Summary === Total reads processed: 49,756 Reads with adapters: 5,097 (10.2%) Reads written (passing filters): 49,756 (100.0%) Total basepairs processed: 13,363,867 bp Total written (filtered): 13,314,363 bp (99.6%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 5097 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 0.6% C: 3.2% G: 95.1% T: 1.2% 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 11 777.4 0 11 4 12 194.4 0 12 5 1 48.6 0 1 9 2030 0.2 0 49 1981 10 2482 0.0 1 93 2389 11 549 0.0 1 5 544 12 4 0.0 1 0 4 13 7 0.0 1 0 7 150 1 0.0 1 0 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.