This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TGCGTG -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 99.20 s (31 us/read; 1.93 M reads/minute). === Summary === Total reads processed: 3,193,041 Reads with adapters: 56,268 (1.8%) Reads that were too short: 12,449 (0.4%) Reads written (passing filters): 43,819 (1.4%) Total basepairs processed: 961,105,341 bp Total written (filtered): 12,038,133 bp (1.3%) === Adapter 1 === Sequence: TGCGTG; Type: regular 5'; Length: 6; Trimmed: 56268 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 6047 779.6 0 6047 7 18636 779.6 0 18636 8 10259 779.6 0 10259 9 27 779.6 0 27 10 164 779.6 0 164 11 11 779.6 0 11 12 6 779.6 0 6 13 8 779.6 0 8 14 8 779.6 0 8 15 6 779.6 0 6 16 12 779.6 0 12 17 11 779.6 0 11 18 17 779.6 0 17 19 10 779.6 0 10 20 8 779.6 0 8 21 10 779.6 0 10 22 6 779.6 0 6 23 13 779.6 0 13 24 11 779.6 0 11 25 9 779.6 0 9 26 10 779.6 0 10 27 15 779.6 0 15 28 6 779.6 0 6 29 11 779.6 0 11 30 12 779.6 0 12 31 10 779.6 0 10 32 11 779.6 0 11 33 6 779.6 0 6 34 8 779.6 0 8 35 17 779.6 0 17 36 9 779.6 0 9 37 10 779.6 0 10 38 9 779.6 0 9 39 7 779.6 0 7 40 15 779.6 0 15 41 16 779.6 0 16 42 16 779.6 0 16 43 14 779.6 0 14 44 7 779.6 0 7 45 9 779.6 0 9 46 19 779.6 0 19 47 12 779.6 0 12 48 22 779.6 0 22 49 16 779.6 0 16 50 12 779.6 0 12 51 9 779.6 0 9 52 17 779.6 0 17 53 21 779.6 0 21 54 17 779.6 0 17 55 17 779.6 0 17 56 25 779.6 0 25 57 27 779.6 0 27 58 31 779.6 0 31 59 35 779.6 0 35 60 40 779.6 0 40 61 17 779.6 0 17 62 878 779.6 0 878 63 46 779.6 0 46 64 83 779.6 0 83 65 17 779.6 0 17 66 15 779.6 0 15 67 37 779.6 0 37 68 21 779.6 0 21 69 23 779.6 0 23 70 23 779.6 0 23 71 44 779.6 0 44 72 56 779.6 0 56 73 433 779.6 0 433 74 619 779.6 0 619 75 398 779.6 0 398 76 21 779.6 0 21 77 166 779.6 0 166 78 308 779.6 0 308 79 392 779.6 0 392 80 11 779.6 0 11 81 10 779.6 0 10 82 8 779.6 0 8 83 7 779.6 0 7 84 13 779.6 0 13 85 15 779.6 0 15 86 10 779.6 0 10 87 8 779.6 0 8 88 10 779.6 0 10 89 15 779.6 0 15 90 8 779.6 0 8 91 15 779.6 0 15 92 12 779.6 0 12 93 16 779.6 0 16 94 7 779.6 0 7 95 13 779.6 0 13 96 7 779.6 0 7 97 10 779.6 0 10 98 4 779.6 0 4 99 7 779.6 0 7 100 8 779.6 0 8 101 15 779.6 0 15 102 10 779.6 0 10 103 6 779.6 0 6 104 13 779.6 0 13 105 15 779.6 0 15 106 39 779.6 0 39 107 33 779.6 0 33 108 328 779.6 0 328 109 13 779.6 0 13 110 8 779.6 0 8 111 10 779.6 0 10 112 8 779.6 0 8 113 17 779.6 0 17 114 10 779.6 0 10 115 25 779.6 0 25 116 12 779.6 0 12 117 18 779.6 0 18 118 14 779.6 0 14 119 30 779.6 0 30 120 25 779.6 0 25 121 26 779.6 0 26 122 9 779.6 0 9 123 16 779.6 0 16 124 21 779.6 0 21 125 13 779.6 0 13 126 18 779.6 0 18 127 28 779.6 0 28 128 260 779.6 0 260 129 250 779.6 0 250 130 357 779.6 0 357 131 31 779.6 0 31 132 21 779.6 0 21 133 26 779.6 0 26 134 158 779.6 0 158 135 71 779.6 0 71 136 235 779.6 0 235 137 22 779.6 0 22 138 12 779.6 0 12 139 14 779.6 0 14 140 12 779.6 0 12 141 19 779.6 0 19 142 11 779.6 0 11 143 19 779.6 0 19 144 83 779.6 0 83 145 131 779.6 0 131 146 212 779.6 0 212 147 96 779.6 0 96 148 255 779.6 0 255 149 9 779.6 0 9 150 19 779.6 0 19 151 9 779.6 0 9 152 5 779.6 0 5 153 6 779.6 0 6 154 12 779.6 0 12 155 21 779.6 0 21 156 13 779.6 0 13 157 80 779.6 0 80 158 17 779.6 0 17 159 24 779.6 0 24 160 27 779.6 0 27 161 33 779.6 0 33 162 7 779.6 0 7 163 9 779.6 0 9 164 38 779.6 0 38 165 45 779.6 0 45 166 43 779.6 0 43 167 27 779.6 0 27 168 12 779.6 0 12 169 6 779.6 0 6 170 14 779.6 0 14 171 9 779.6 0 9 172 7 779.6 0 7 173 6 779.6 0 6 174 11 779.6 0 11 175 9 779.6 0 9 176 5 779.6 0 5 177 10 779.6 0 10 178 5 779.6 0 5 179 8 779.6 0 8 180 9 779.6 0 9 181 19 779.6 0 19 182 10 779.6 0 10 183 20 779.6 0 20 184 61 779.6 0 61 185 156 779.6 0 156 186 101 779.6 0 101 187 22 779.6 0 22 188 7 779.6 0 7 189 4 779.6 0 4 190 7 779.6 0 7 191 10 779.6 0 10 192 10 779.6 0 10 193 14 779.6 0 14 194 11 779.6 0 11 195 24 779.6 0 24 196 33 779.6 0 33 197 21 779.6 0 21 198 8 779.6 0 8 199 8 779.6 0 8 200 6 779.6 0 6 201 9 779.6 0 9 202 7 779.6 0 7 203 6 779.6 0 6 204 19 779.6 0 19 205 10 779.6 0 10 206 19 779.6 0 19 207 7 779.6 0 7 208 6 779.6 0 6 209 19 779.6 0 19 210 3 779.6 0 3 211 14 779.6 0 14 212 12 779.6 0 12 213 7 779.6 0 7 214 6 779.6 0 6 215 13 779.6 0 13 216 20 779.6 0 20 217 32 779.6 0 32 218 12 779.6 0 12 219 47 779.6 0 47 220 12 779.6 0 12 221 16 779.6 0 16 222 15 779.6 0 15 223 21 779.6 0 21 224 37 779.6 0 37 225 19 779.6 0 19 226 19 779.6 0 19 227 17 779.6 0 17 228 15 779.6 0 15 229 27 779.6 0 27 230 24 779.6 0 24 231 49 779.6 0 49 232 60 779.6 0 60 233 69 779.6 0 69 234 143 779.6 0 143 235 226 779.6 0 226 236 2746 779.6 0 2746 237 1636 779.6 0 1636 238 5735 779.6 0 5735 239 31 779.6 0 31 240 4 779.6 0 4 241 5 779.6 0 5 242 8 779.6 0 8 243 10 779.6 0 10 244 4 779.6 0 4 245 4 779.6 0 4 246 15 779.6 0 15 247 31 779.6 0 31 248 27 779.6 0 27 249 11 779.6 0 11 250 44 779.6 0 44 251 56 779.6 0 56 252 20 779.6 0 20 253 12 779.6 0 12 254 18 779.6 0 18 255 29 779.6 0 29 256 19 779.6 0 19 257 5 779.6 0 5 258 12 779.6 0 12 259 4 779.6 0 4 260 6 779.6 0 6 261 6 779.6 0 6 262 6 779.6 0 6 263 6 779.6 0 6 264 15 779.6 0 15 265 10 779.6 0 10 266 10 779.6 0 10 267 13 779.6 0 13 268 5 779.6 0 5 269 5 779.6 0 5 270 3 779.6 0 3 271 8 779.6 0 8 272 8 779.6 0 8 273 5 779.6 0 5 274 10 779.6 0 10 275 10 779.6 0 10 276 13 779.6 0 13 277 41 779.6 0 41 278 28 779.6 0 28 279 19 779.6 0 19 280 27 779.6 0 27 281 65 779.6 0 65 282 169 779.6 0 169 283 132 779.6 0 132 284 35 779.6 0 35 285 22 779.6 0 22 286 17 779.6 0 17 287 7 779.6 0 7 288 12 779.6 0 12 289 10 779.6 0 10 290 7 779.6 0 7 291 5 779.6 0 5 292 48 779.6 0 48 293 3 779.6 0 3 294 10 779.6 0 10 295 8 779.6 0 8 296 12 779.6 0 12 297 49 779.6 0 49 298 13 779.6 0 13 299 5 779.6 0 5 300 10 779.6 0 10 301 42 779.6 0 42 Finished in 2.51 s (57 us/read; 1.05 M reads/minute). === Summary === Total reads processed: 43,819 Reads with adapters: 16,169 (36.9%) Reads that were too short: 2 (0.0%) Reads written (passing filters): 16,167 (36.9%) Total basepairs processed: 12,038,133 bp Total written (filtered): 4,388,953 bp (36.5%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 16169 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 9 0.0 3 0 0 7 2 19 185 0.0 3 0 181 3 1 20 10496 0.0 4 10335 155 5 0 1 21 138 0.0 4 25 113 22 5081 0.0 4 5011 65 4 0 1 23 18 0.0 4 1 14 0 3 25 1 0.0 4 0 0 0 1 57 8 0.0 4 0 0 0 0 8 61 1 0.0 4 0 0 0 0 1 83 2 0.0 4 0 0 0 0 2 87 1 0.0 4 0 0 0 0 1 92 1 0.0 4 0 0 0 0 1 93 1 0.0 4 0 0 0 0 1 117 1 0.0 4 0 0 0 0 1 118 1 0.0 4 0 0 0 0 1 126 3 0.0 4 0 0 0 0 3 127 220 0.0 4 0 0 0 0 220 179 1 0.0 4 0 0 0 0 1 283 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 0.67 s (41 us/read; 1.45 M reads/minute). === Summary === Total reads processed: 16,167 Reads with adapters: 558 (3.5%) Reads written (passing filters): 16,167 (100.0%) Total basepairs processed: 4,388,953 bp Total written (filtered): 4,367,834 bp (99.5%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 558 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 10.9% C: 1.4% G: 86.7% T: 0.9% 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 4 63.2 0 4 5 1 15.8 0 1 10 20 0.0 1 1 19 11 471 0.0 1 1 470 14 1 0.0 1 0 1 224 2 0.0 1 2 231 1 0.0 1 1 258 1 0.0 1 1 259 54 0.0 1 49 5 260 3 0.0 1 3 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.