This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CTCATG -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 93.16 s (30 us/read; 1.99 M reads/minute). === Summary === Total reads processed: 3,094,653 Reads with adapters: 27,671 (0.9%) Reads that were too short: 5,627 (0.2%) Reads written (passing filters): 22,044 (0.7%) Total basepairs processed: 931,490,553 bp Total written (filtered): 4,214,775 bp (0.5%) === Adapter 1 === Sequence: CTCATG; Type: regular 5'; Length: 6; Trimmed: 27671 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1514 755.5 0 1514 7 41 755.5 0 41 8 81 755.5 0 81 9 2584 755.5 0 2584 10 12 755.5 0 12 11 4 755.5 0 4 12 8 755.5 0 8 13 5 755.5 0 5 14 9 755.5 0 9 15 3 755.5 0 3 16 21 755.5 0 21 17 8 755.5 0 8 18 14 755.5 0 14 19 3 755.5 0 3 20 3 755.5 0 3 21 3 755.5 0 3 22 6 755.5 0 6 23 8 755.5 0 8 24 4 755.5 0 4 25 12 755.5 0 12 26 11 755.5 0 11 27 11 755.5 0 11 28 12 755.5 0 12 29 14 755.5 0 14 30 6 755.5 0 6 31 10 755.5 0 10 32 5 755.5 0 5 33 9 755.5 0 9 34 5 755.5 0 5 35 8 755.5 0 8 36 13 755.5 0 13 37 7 755.5 0 7 38 4 755.5 0 4 39 5 755.5 0 5 40 4 755.5 0 4 41 10 755.5 0 10 42 7 755.5 0 7 43 9 755.5 0 9 44 683 755.5 0 683 45 11 755.5 0 11 46 42 755.5 0 42 47 7 755.5 0 7 48 202 755.5 0 202 49 3 755.5 0 3 50 6 755.5 0 6 51 8 755.5 0 8 52 12 755.5 0 12 53 43 755.5 0 43 54 35 755.5 0 35 55 6 755.5 0 6 56 8 755.5 0 8 57 22 755.5 0 22 58 110 755.5 0 110 59 93 755.5 0 93 60 29 755.5 0 29 61 14 755.5 0 14 62 2 755.5 0 2 63 7 755.5 0 7 64 7 755.5 0 7 65 5 755.5 0 5 66 7 755.5 0 7 67 7 755.5 0 7 68 5 755.5 0 5 69 3 755.5 0 3 70 2 755.5 0 2 71 5 755.5 0 5 72 3 755.5 0 3 73 8 755.5 0 8 74 3 755.5 0 3 75 6 755.5 0 6 76 7 755.5 0 7 77 4 755.5 0 4 78 5 755.5 0 5 79 2 755.5 0 2 80 8 755.5 0 8 81 10 755.5 0 10 82 20 755.5 0 20 83 7 755.5 0 7 84 11 755.5 0 11 85 7 755.5 0 7 86 7 755.5 0 7 87 12 755.5 0 12 88 14 755.5 0 14 89 8 755.5 0 8 90 7 755.5 0 7 91 20 755.5 0 20 92 26 755.5 0 26 93 12 755.5 0 12 94 20 755.5 0 20 95 7 755.5 0 7 96 17 755.5 0 17 97 87 755.5 0 87 98 66 755.5 0 66 99 9 755.5 0 9 100 9 755.5 0 9 101 9 755.5 0 9 102 14 755.5 0 14 103 16 755.5 0 16 104 92 755.5 0 92 105 31 755.5 0 31 106 402 755.5 0 402 107 387 755.5 0 387 108 418 755.5 0 418 109 22 755.5 0 22 110 19 755.5 0 19 111 19 755.5 0 19 112 23 755.5 0 23 113 37 755.5 0 37 114 217 755.5 0 217 115 332 755.5 0 332 116 328 755.5 0 328 117 20 755.5 0 20 118 9 755.5 0 9 119 46 755.5 0 46 120 30 755.5 0 30 121 32 755.5 0 32 122 27 755.5 0 27 123 20 755.5 0 20 124 19 755.5 0 19 125 36 755.5 0 36 126 20 755.5 0 20 127 25 755.5 0 25 128 73 755.5 0 73 129 24 755.5 0 24 130 31 755.5 0 31 131 34 755.5 0 34 132 51 755.5 0 51 133 87 755.5 0 87 134 242 755.5 0 242 135 132 755.5 0 132 136 96 755.5 0 96 137 71 755.5 0 71 138 351 755.5 0 351 139 125 755.5 0 125 140 57 755.5 0 57 141 74 755.5 0 74 142 375 755.5 0 375 143 293 755.5 0 293 144 42 755.5 0 42 145 62 755.5 0 62 146 86 755.5 0 86 147 193 755.5 0 193 148 6087 755.5 0 6087 149 956 755.5 0 956 150 717 755.5 0 717 151 24 755.5 0 24 152 15 755.5 0 15 153 21 755.5 0 21 154 23 755.5 0 23 155 287 755.5 0 287 156 48 755.5 0 48 157 93 755.5 0 93 158 116 755.5 0 116 159 263 755.5 0 263 160 26 755.5 0 26 161 29 755.5 0 29 162 96 755.5 0 96 163 414 755.5 0 414 164 73 755.5 0 73 165 137 755.5 0 137 166 41 755.5 0 41 167 54 755.5 0 54 168 40 755.5 0 40 169 9 755.5 0 9 170 14 755.5 0 14 171 21 755.5 0 21 172 21 755.5 0 21 173 7 755.5 0 7 174 17 755.5 0 17 175 24 755.5 0 24 176 12 755.5 0 12 177 22 755.5 0 22 178 22 755.5 0 22 179 15 755.5 0 15 180 48 755.5 0 48 181 122 755.5 0 122 182 125 755.5 0 125 183 56 755.5 0 56 184 42 755.5 0 42 185 50 755.5 0 50 186 29 755.5 0 29 187 10 755.5 0 10 188 20 755.5 0 20 189 52 755.5 0 52 190 25 755.5 0 25 191 44 755.5 0 44 192 35 755.5 0 35 193 19 755.5 0 19 194 23 755.5 0 23 195 22 755.5 0 22 196 20 755.5 0 20 197 7 755.5 0 7 198 7 755.5 0 7 199 15 755.5 0 15 200 45 755.5 0 45 201 36 755.5 0 36 202 131 755.5 0 131 203 36 755.5 0 36 204 80 755.5 0 80 205 37 755.5 0 37 206 26 755.5 0 26 207 47 755.5 0 47 208 33 755.5 0 33 209 23 755.5 0 23 210 30 755.5 0 30 211 27 755.5 0 27 212 28 755.5 0 28 213 34 755.5 0 34 214 43 755.5 0 43 215 49 755.5 0 49 216 47 755.5 0 47 217 54 755.5 0 54 218 31 755.5 0 31 219 24 755.5 0 24 220 28 755.5 0 28 221 42 755.5 0 42 222 21 755.5 0 21 223 7 755.5 0 7 224 31 755.5 0 31 225 46 755.5 0 46 226 72 755.5 0 72 227 73 755.5 0 73 228 56 755.5 0 56 229 48 755.5 0 48 230 19 755.5 0 19 231 49 755.5 0 49 232 124 755.5 0 124 233 52 755.5 0 52 234 33 755.5 0 33 235 46 755.5 0 46 236 53 755.5 0 53 237 21 755.5 0 21 238 17 755.5 0 17 239 22 755.5 0 22 240 21 755.5 0 21 241 17 755.5 0 17 242 18 755.5 0 18 243 20 755.5 0 20 244 28 755.5 0 28 245 33 755.5 0 33 246 33 755.5 0 33 247 31 755.5 0 31 248 106 755.5 0 106 249 47 755.5 0 47 250 35 755.5 0 35 251 20 755.5 0 20 252 17 755.5 0 17 253 55 755.5 0 55 254 142 755.5 0 142 255 127 755.5 0 127 256 81 755.5 0 81 257 51 755.5 0 51 258 55 755.5 0 55 259 59 755.5 0 59 260 59 755.5 0 59 261 32 755.5 0 32 262 15 755.5 0 15 263 36 755.5 0 36 264 45 755.5 0 45 265 66 755.5 0 66 266 63 755.5 0 63 267 39 755.5 0 39 268 55 755.5 0 55 269 263 755.5 0 263 270 101 755.5 0 101 271 76 755.5 0 76 272 56 755.5 0 56 273 161 755.5 0 161 274 26 755.5 0 26 275 131 755.5 0 131 276 56 755.5 0 56 277 55 755.5 0 55 278 68 755.5 0 68 279 53 755.5 0 53 280 63 755.5 0 63 281 99 755.5 0 99 282 56 755.5 0 56 283 52 755.5 0 52 284 40 755.5 0 40 285 57 755.5 0 57 286 33 755.5 0 33 287 37 755.5 0 37 288 55 755.5 0 55 289 49 755.5 0 49 290 38 755.5 0 38 291 19 755.5 0 19 292 37 755.5 0 37 293 100 755.5 0 100 294 139 755.5 0 139 295 382 755.5 0 382 296 148 755.5 0 148 297 57 755.5 0 57 298 45 755.5 0 45 299 12 755.5 0 12 300 9 755.5 0 9 301 8 755.5 0 8 Finished in 1.02 s (46 us/read; 1.30 M reads/minute). === Summary === Total reads processed: 22,044 Reads with adapters: 2,709 (12.3%) Reads that were too short: 0 (0.0%) Reads written (passing filters): 2,709 (12.3%) Total basepairs processed: 4,214,775 bp Total written (filtered): 737,108 bp (17.5%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 2709 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 10 0.0 3 0 0 0 0 10 18 2 0.0 3 0 0 2 19 38 0.0 3 0 34 1 1 2 20 2640 0.0 4 2608 31 1 21 7 0.0 4 3 4 22 10 0.0 4 8 0 2 23 1 0.0 4 0 0 0 1 24 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 0.11 s (41 us/read; 1.48 M reads/minute). === Summary === Total reads processed: 2,709 Reads with adapters: 35 (1.3%) Reads written (passing filters): 2,709 (100.0%) Total basepairs processed: 737,108 bp Total written (filtered): 736,064 bp (99.9%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 35 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 17.1% C: 0.0% G: 82.9% 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 9 6 0.0 0 1 5 10 18 0.0 1 1 17 11 8 0.0 1 0 8 208 1 0.0 1 0 1 257 2 0.0 1 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.