This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g GCGAGA -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 101.90 s (32 us/read; 1.88 M reads/minute). === Summary === Total reads processed: 3,193,041 Reads with adapters: 52,571 (1.6%) Reads that were too short: 11,400 (0.4%) Reads written (passing filters): 41,171 (1.3%) Total basepairs processed: 961,105,341 bp Total written (filtered): 9,384,958 bp (1.0%) === Adapter 1 === Sequence: GCGAGA; Type: regular 5'; Length: 6; Trimmed: 52571 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 475 779.6 0 475 7 13687 779.6 0 13687 8 5557 779.6 0 5557 9 13 779.6 0 13 10 12 779.6 0 12 11 53 779.6 0 53 12 11 779.6 0 11 13 11 779.6 0 11 14 10 779.6 0 10 15 5 779.6 0 5 16 8 779.6 0 8 17 9 779.6 0 9 18 8 779.6 0 8 19 5 779.6 0 5 20 6 779.6 0 6 21 7 779.6 0 7 22 9 779.6 0 9 23 8 779.6 0 8 24 9 779.6 0 9 25 12 779.6 0 12 26 7 779.6 0 7 27 9 779.6 0 9 28 16 779.6 0 16 29 12 779.6 0 12 30 56 779.6 0 56 31 90 779.6 0 90 32 29 779.6 0 29 33 16 779.6 0 16 34 28 779.6 0 28 35 20 779.6 0 20 36 27 779.6 0 27 37 47 779.6 0 47 38 25 779.6 0 25 39 30 779.6 0 30 40 23 779.6 0 23 41 22 779.6 0 22 42 19 779.6 0 19 43 32 779.6 0 32 44 25 779.6 0 25 45 26 779.6 0 26 46 23 779.6 0 23 47 42 779.6 0 42 48 38 779.6 0 38 49 53 779.6 0 53 50 824 779.6 0 824 51 1055 779.6 0 1055 52 1733 779.6 0 1733 53 24 779.6 0 24 54 10 779.6 0 10 55 12 779.6 0 12 56 53 779.6 0 53 57 17 779.6 0 17 58 14 779.6 0 14 59 15 779.6 0 15 60 29 779.6 0 29 61 25 779.6 0 25 62 11 779.6 0 11 63 26 779.6 0 26 64 20 779.6 0 20 65 56 779.6 0 56 66 17 779.6 0 17 67 15 779.6 0 15 68 22 779.6 0 22 69 35 779.6 0 35 70 35 779.6 0 35 71 16 779.6 0 16 72 20 779.6 0 20 73 36 779.6 0 36 74 192 779.6 0 192 75 1317 779.6 0 1317 76 490 779.6 0 490 77 13 779.6 0 13 78 19 779.6 0 19 79 11 779.6 0 11 80 18 779.6 0 18 81 15 779.6 0 15 82 14 779.6 0 14 83 8 779.6 0 8 84 10 779.6 0 10 85 11 779.6 0 11 86 12 779.6 0 12 87 11 779.6 0 11 88 11 779.6 0 11 89 7 779.6 0 7 90 13 779.6 0 13 91 9 779.6 0 9 92 13 779.6 0 13 93 11 779.6 0 11 94 7 779.6 0 7 95 10 779.6 0 10 96 17 779.6 0 17 97 5 779.6 0 5 98 13 779.6 0 13 99 12 779.6 0 12 100 12 779.6 0 12 101 14 779.6 0 14 102 20 779.6 0 20 103 17 779.6 0 17 104 17 779.6 0 17 105 26 779.6 0 26 106 17 779.6 0 17 107 8 779.6 0 8 108 4 779.6 0 4 109 13 779.6 0 13 110 14 779.6 0 14 111 20 779.6 0 20 112 22 779.6 0 22 113 13 779.6 0 13 114 506 779.6 0 506 115 85 779.6 0 85 116 56 779.6 0 56 117 20 779.6 0 20 118 33 779.6 0 33 119 36 779.6 0 36 120 24 779.6 0 24 121 29 779.6 0 29 122 21 779.6 0 21 123 31 779.6 0 31 124 51 779.6 0 51 125 328 779.6 0 328 126 197 779.6 0 197 127 711 779.6 0 711 128 14 779.6 0 14 129 26 779.6 0 26 130 100 779.6 0 100 131 35 779.6 0 35 132 46 779.6 0 46 133 24 779.6 0 24 134 31 779.6 0 31 135 222 779.6 0 222 136 193 779.6 0 193 137 98 779.6 0 98 138 36 779.6 0 36 139 24 779.6 0 24 140 31 779.6 0 31 141 17 779.6 0 17 142 30 779.6 0 30 143 14 779.6 0 14 144 65 779.6 0 65 145 25 779.6 0 25 146 136 779.6 0 136 147 30 779.6 0 30 148 21 779.6 0 21 149 22 779.6 0 22 150 40 779.6 0 40 151 27 779.6 0 27 152 8 779.6 0 8 153 13 779.6 0 13 154 24 779.6 0 24 155 16 779.6 0 16 156 21 779.6 0 21 157 55 779.6 0 55 158 25 779.6 0 25 159 33 779.6 0 33 160 32 779.6 0 32 161 29 779.6 0 29 162 45 779.6 0 45 163 43 779.6 0 43 164 916 779.6 0 916 165 670 779.6 0 670 166 376 779.6 0 376 167 28 779.6 0 28 168 16 779.6 0 16 169 40 779.6 0 40 170 39 779.6 0 39 171 27 779.6 0 27 172 13 779.6 0 13 173 25 779.6 0 25 174 14 779.6 0 14 175 30 779.6 0 30 176 32 779.6 0 32 177 16 779.6 0 16 178 17 779.6 0 17 179 17 779.6 0 17 180 19 779.6 0 19 181 34 779.6 0 34 182 35 779.6 0 35 183 36 779.6 0 36 184 21 779.6 0 21 185 46 779.6 0 46 186 58 779.6 0 58 187 48 779.6 0 48 188 17 779.6 0 17 189 18 779.6 0 18 190 24 779.6 0 24 191 100 779.6 0 100 192 154 779.6 0 154 193 1361 779.6 0 1361 194 66 779.6 0 66 195 96 779.6 0 96 196 329 779.6 0 329 197 677 779.6 0 677 198 2931 779.6 0 2931 199 1625 779.6 0 1625 200 117 779.6 0 117 201 68 779.6 0 68 202 20 779.6 0 20 203 15 779.6 0 15 204 50 779.6 0 50 205 53 779.6 0 53 206 26 779.6 0 26 207 40 779.6 0 40 208 26 779.6 0 26 209 36 779.6 0 36 210 28 779.6 0 28 211 29 779.6 0 29 212 29 779.6 0 29 213 56 779.6 0 56 214 38 779.6 0 38 215 59 779.6 0 59 216 72 779.6 0 72 217 135 779.6 0 135 218 501 779.6 0 501 219 343 779.6 0 343 220 38 779.6 0 38 221 64 779.6 0 64 222 28 779.6 0 28 223 19 779.6 0 19 224 20 779.6 0 20 225 31 779.6 0 31 226 21 779.6 0 21 227 33 779.6 0 33 228 36 779.6 0 36 229 20 779.6 0 20 230 52 779.6 0 52 231 29 779.6 0 29 232 20 779.6 0 20 233 24 779.6 0 24 234 21 779.6 0 21 235 16 779.6 0 16 236 40 779.6 0 40 237 93 779.6 0 93 238 95 779.6 0 95 239 386 779.6 0 386 240 517 779.6 0 517 241 96 779.6 0 96 242 28 779.6 0 28 243 14 779.6 0 14 244 19 779.6 0 19 245 24 779.6 0 24 246 134 779.6 0 134 247 1304 779.6 0 1304 248 4029 779.6 0 4029 249 527 779.6 0 527 250 232 779.6 0 232 251 30 779.6 0 30 252 14 779.6 0 14 253 15 779.6 0 15 254 25 779.6 0 25 255 35 779.6 0 35 256 34 779.6 0 34 257 39 779.6 0 39 258 76 779.6 0 76 259 40 779.6 0 40 260 25 779.6 0 25 261 11 779.6 0 11 262 10 779.6 0 10 263 14 779.6 0 14 264 14 779.6 0 14 265 19 779.6 0 19 266 49 779.6 0 49 267 40 779.6 0 40 268 45 779.6 0 45 269 25 779.6 0 25 270 45 779.6 0 45 271 103 779.6 0 103 272 13 779.6 0 13 273 13 779.6 0 13 274 19 779.6 0 19 275 22 779.6 0 22 276 38 779.6 0 38 277 29 779.6 0 29 278 32 779.6 0 32 279 22 779.6 0 22 280 31 779.6 0 31 281 61 779.6 0 61 282 45 779.6 0 45 283 15 779.6 0 15 284 31 779.6 0 31 285 30 779.6 0 30 286 38 779.6 0 38 287 79 779.6 0 79 288 32 779.6 0 32 289 30 779.6 0 30 290 45 779.6 0 45 291 54 779.6 0 54 292 134 779.6 0 134 293 33 779.6 0 33 294 78 779.6 0 78 295 45 779.6 0 45 296 41 779.6 0 41 297 25 779.6 0 25 298 23 779.6 0 23 299 17 779.6 0 17 300 15 779.6 0 15 301 36 779.6 0 36 Finished in 2.23 s (54 us/read; 1.11 M reads/minute). === Summary === Total reads processed: 41,171 Reads with adapters: 5,754 (14.0%) Reads that were too short: 6 (0.0%) Reads written (passing filters): 5,748 (14.0%) Total basepairs processed: 9,384,958 bp Total written (filtered): 1,563,209 bp (16.7%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 5754 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 18 0.0 3 0 0 0 0 18 18 3 0.0 3 0 0 3 19 73 0.0 3 0 72 1 20 5619 0.0 4 5504 74 2 1 38 21 12 0.0 4 3 7 0 1 1 22 2 0.0 4 0 0 2 49 1 0.0 4 0 0 0 0 1 61 2 0.0 4 0 0 0 0 2 84 3 0.0 4 0 0 0 0 3 86 9 0.0 4 0 0 0 0 9 92 5 0.0 4 0 0 0 0 5 99 1 0.0 4 0 0 0 0 1 127 2 0.0 4 0 0 0 0 2 153 1 0.0 4 0 0 0 0 1 166 1 0.0 4 0 0 0 0 1 167 1 0.0 4 0 0 0 0 1 185 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 0.25 s (43 us/read; 1.38 M reads/minute). === Summary === Total reads processed: 5,748 Reads with adapters: 175 (3.0%) Reads written (passing filters): 5,748 (100.0%) Total basepairs processed: 1,563,209 bp Total written (filtered): 1,561,329 bp (99.9%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 175 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.1% C: 3.4% G: 95.4% T: 0.0% 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 4 89.8 0 4 10 13 0.0 1 1 12 11 158 0.0 1 2 156 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.