This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CCGCTG -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 89.57 s (26 us/read; 2.32 M reads/minute). === Summary === Total reads processed: 3,465,239 Reads with adapters: 38,678 (1.1%) Reads that were too short: 15,984 (0.5%) Reads written (passing filters): 22,694 (0.7%) Total basepairs processed: 1,043,036,939 bp Total written (filtered): 4,948,640 bp (0.5%) === Adapter 1 === Sequence: CCGCTG; Type: regular 5'; Length: 6; Trimmed: 38678 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 113 846.0 0 113 7 120 846.0 0 120 8 415 846.0 0 415 9 7193 846.0 0 7193 10 44 846.0 0 44 11 32 846.0 0 32 12 21 846.0 0 21 13 33 846.0 0 33 14 33 846.0 0 33 15 27 846.0 0 27 16 29 846.0 0 29 17 27 846.0 0 27 18 43 846.0 0 43 19 37 846.0 0 37 20 32 846.0 0 32 21 38 846.0 0 38 22 46 846.0 0 46 23 31 846.0 0 31 24 31 846.0 0 31 25 44 846.0 0 44 26 35 846.0 0 35 27 32 846.0 0 32 28 46 846.0 0 46 29 37 846.0 0 37 30 47 846.0 0 47 31 44 846.0 0 44 32 30 846.0 0 30 33 44 846.0 0 44 34 39 846.0 0 39 35 29 846.0 0 29 36 55 846.0 0 55 37 35 846.0 0 35 38 33 846.0 0 33 39 31 846.0 0 31 40 39 846.0 0 39 41 25 846.0 0 25 42 41 846.0 0 41 43 53 846.0 0 53 44 35 846.0 0 35 45 31 846.0 0 31 46 45 846.0 0 45 47 43 846.0 0 43 48 57 846.0 0 57 49 34 846.0 0 34 50 44 846.0 0 44 51 31 846.0 0 31 52 49 846.0 0 49 53 32 846.0 0 32 54 43 846.0 0 43 55 47 846.0 0 47 56 79 846.0 0 79 57 39 846.0 0 39 58 34 846.0 0 34 59 28 846.0 0 28 60 42 846.0 0 42 61 26 846.0 0 26 62 24 846.0 0 24 63 120 846.0 0 120 64 36 846.0 0 36 65 26 846.0 0 26 66 35 846.0 0 35 67 35 846.0 0 35 68 25 846.0 0 25 69 29 846.0 0 29 70 38 846.0 0 38 71 19 846.0 0 19 72 44 846.0 0 44 73 47 846.0 0 47 74 39 846.0 0 39 75 36 846.0 0 36 76 19 846.0 0 19 77 45 846.0 0 45 78 31 846.0 0 31 79 42 846.0 0 42 80 33 846.0 0 33 81 43 846.0 0 43 82 62 846.0 0 62 83 54 846.0 0 54 84 34 846.0 0 34 85 41 846.0 0 41 86 32 846.0 0 32 87 38 846.0 0 38 88 38 846.0 0 38 89 37 846.0 0 37 90 46 846.0 0 46 91 52 846.0 0 52 92 79 846.0 0 79 93 61 846.0 0 61 94 1437 846.0 0 1437 95 603 846.0 0 603 96 814 846.0 0 814 97 49 846.0 0 49 98 46 846.0 0 46 99 54 846.0 0 54 100 43 846.0 0 43 101 33 846.0 0 33 102 36 846.0 0 36 103 40 846.0 0 40 104 43 846.0 0 43 105 199 846.0 0 199 106 130 846.0 0 130 107 147 846.0 0 147 108 65 846.0 0 65 109 29 846.0 0 29 110 55 846.0 0 55 111 39 846.0 0 39 112 210 846.0 0 210 113 32 846.0 0 32 114 35 846.0 0 35 115 26 846.0 0 26 116 36 846.0 0 36 117 37 846.0 0 37 118 36 846.0 0 36 119 28 846.0 0 28 120 29 846.0 0 29 121 29 846.0 0 29 122 32 846.0 0 32 123 28 846.0 0 28 124 29 846.0 0 29 125 29 846.0 0 29 126 50 846.0 0 50 127 34 846.0 0 34 128 291 846.0 0 291 129 413 846.0 0 413 130 123 846.0 0 123 131 32 846.0 0 32 132 36 846.0 0 36 133 22 846.0 0 22 134 43 846.0 0 43 135 39 846.0 0 39 136 45 846.0 0 45 137 36 846.0 0 36 138 38 846.0 0 38 139 30 846.0 0 30 140 33 846.0 0 33 141 45 846.0 0 45 142 38 846.0 0 38 143 48 846.0 0 48 144 38 846.0 0 38 145 171 846.0 0 171 146 162 846.0 0 162 147 209 846.0 0 209 148 34 846.0 0 34 149 18 846.0 0 18 150 36 846.0 0 36 151 27 846.0 0 27 152 38 846.0 0 38 153 56 846.0 0 56 154 37 846.0 0 37 155 28 846.0 0 28 156 37 846.0 0 37 157 37 846.0 0 37 158 43 846.0 0 43 159 39 846.0 0 39 160 30 846.0 0 30 161 46 846.0 0 46 162 25 846.0 0 25 163 36 846.0 0 36 164 32 846.0 0 32 165 34 846.0 0 34 166 53 846.0 0 53 167 44 846.0 0 44 168 44 846.0 0 44 169 37 846.0 0 37 170 42 846.0 0 42 171 53 846.0 0 53 172 207 846.0 0 207 173 85 846.0 0 85 174 134 846.0 0 134 175 73 846.0 0 73 176 98 846.0 0 98 177 348 846.0 0 348 178 159 846.0 0 159 179 200 846.0 0 200 180 319 846.0 0 319 181 434 846.0 0 434 182 156 846.0 0 156 183 53 846.0 0 53 184 47 846.0 0 47 185 51 846.0 0 51 186 39 846.0 0 39 187 33 846.0 0 33 188 38 846.0 0 38 189 41 846.0 0 41 190 28 846.0 0 28 191 67 846.0 0 67 192 292 846.0 0 292 193 128 846.0 0 128 194 101 846.0 0 101 195 66 846.0 0 66 196 70 846.0 0 70 197 304 846.0 0 304 198 174 846.0 0 174 199 244 846.0 0 244 200 147 846.0 0 147 201 35 846.0 0 35 202 42 846.0 0 42 203 46 846.0 0 46 204 37 846.0 0 37 205 55 846.0 0 55 206 30 846.0 0 30 207 39 846.0 0 39 208 37 846.0 0 37 209 28 846.0 0 28 210 34 846.0 0 34 211 40 846.0 0 40 212 42 846.0 0 42 213 44 846.0 0 44 214 135 846.0 0 135 215 913 846.0 0 913 216 328 846.0 0 328 217 717 846.0 0 717 218 51 846.0 0 51 219 28 846.0 0 28 220 36 846.0 0 36 221 30 846.0 0 30 222 30 846.0 0 30 223 26 846.0 0 26 224 28 846.0 0 28 225 29 846.0 0 29 226 29 846.0 0 29 227 33 846.0 0 33 228 30 846.0 0 30 229 28 846.0 0 28 230 36 846.0 0 36 231 28 846.0 0 28 232 41 846.0 0 41 233 41 846.0 0 41 234 37 846.0 0 37 235 43 846.0 0 43 236 36 846.0 0 36 237 33 846.0 0 33 238 30 846.0 0 30 239 27 846.0 0 27 240 32 846.0 0 32 241 21 846.0 0 21 242 41 846.0 0 41 243 25 846.0 0 25 244 40 846.0 0 40 245 19 846.0 0 19 246 30 846.0 0 30 247 24 846.0 0 24 248 53 846.0 0 53 249 66 846.0 0 66 250 43 846.0 0 43 251 275 846.0 0 275 252 81 846.0 0 81 253 111 846.0 0 111 254 65 846.0 0 65 255 37 846.0 0 37 256 38 846.0 0 38 257 45 846.0 0 45 258 42 846.0 0 42 259 58 846.0 0 58 260 29 846.0 0 29 261 21 846.0 0 21 262 45 846.0 0 45 263 31 846.0 0 31 264 54 846.0 0 54 265 45 846.0 0 45 266 46 846.0 0 46 267 30 846.0 0 30 268 48 846.0 0 48 269 83 846.0 0 83 270 44 846.0 0 44 271 92 846.0 0 92 272 78 846.0 0 78 273 37 846.0 0 37 274 34 846.0 0 34 275 30 846.0 0 30 276 37 846.0 0 37 277 48 846.0 0 48 278 79 846.0 0 79 279 106 846.0 0 106 280 159 846.0 0 159 281 138 846.0 0 138 282 38 846.0 0 38 283 28 846.0 0 28 284 46 846.0 0 46 285 63 846.0 0 63 286 70 846.0 0 70 287 82 846.0 0 82 288 157 846.0 0 157 289 1134 846.0 0 1134 290 1761 846.0 0 1761 291 1088 846.0 0 1088 292 772 846.0 0 772 293 1485 846.0 0 1485 294 803 846.0 0 803 295 883 846.0 0 883 296 1362 846.0 0 1362 297 311 846.0 0 311 298 78 846.0 0 78 299 27 846.0 0 27 300 23 846.0 0 23 301 16 846.0 0 16 Finished in 1.06 s (47 us/read; 1.28 M reads/minute). === Summary === Total reads processed: 22,694 Reads with adapters: 7,673 (33.8%) Reads that were too short: 4 (0.0%) Reads written (passing filters): 7,669 (33.8%) Total basepairs processed: 4,948,640 bp Total written (filtered): 2,083,375 bp (42.1%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 7673 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 16 1 0.0 3 0 0 0 0 1 17 2 0.0 3 0 0 0 0 2 18 10 0.0 3 0 0 8 0 2 19 75 0.0 3 0 71 1 2 1 20 7514 0.0 4 7408 104 0 1 1 21 24 0.0 4 4 20 22 1 0.0 4 0 0 0 1 23 4 0.0 4 0 0 0 4 45 1 0.0 4 0 0 0 0 1 64 1 0.0 4 0 0 0 0 1 94 1 0.0 4 0 0 0 0 1 105 1 0.0 4 0 0 0 0 1 109 11 0.0 4 0 0 0 11 111 27 0.0 4 0 0 0 26 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 0.27 s (35 us/read; 1.70 M reads/minute). === Summary === Total reads processed: 7,669 Reads with adapters: 260 (3.4%) Reads written (passing filters): 7,669 (100.0%) Total basepairs processed: 2,083,375 bp Total written (filtered): 2,074,957 bp (99.6%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 260 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 5.4% C: 2.7% G: 90.0% T: 1.9% 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 4 1 30.0 0 1 5 1 7.5 0 1 9 23 0.0 0 0 23 10 163 0.0 1 2 161 11 49 0.0 1 0 49 208 1 0.0 1 1 257 4 0.0 1 4 259 1 0.0 1 1 261 2 0.0 1 2 262 1 0.0 1 1 266 5 0.0 1 5 268 1 0.0 1 1 269 4 0.0 1 4 270 4 0.0 1 4 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.