This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TGGCGG -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 91.35 s (30 us/read; 2.03 M reads/minute). === Summary === Total reads processed: 3,094,653 Reads with adapters: 21,762 (0.7%) Reads that were too short: 6,562 (0.2%) Reads written (passing filters): 15,200 (0.5%) Total basepairs processed: 931,490,553 bp Total written (filtered): 3,774,505 bp (0.4%) === Adapter 1 === Sequence: TGGCGG; Type: regular 5'; Length: 6; Trimmed: 21762 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 923 755.5 0 923 7 5260 755.5 0 5260 8 30 755.5 0 30 9 382 755.5 0 382 10 15 755.5 0 15 11 28 755.5 0 28 12 15 755.5 0 15 13 15 755.5 0 15 14 12 755.5 0 12 15 15 755.5 0 15 16 14 755.5 0 14 17 54 755.5 0 54 18 21 755.5 0 21 19 83 755.5 0 83 20 22 755.5 0 22 21 38 755.5 0 38 22 17 755.5 0 17 23 28 755.5 0 28 24 19 755.5 0 19 25 10 755.5 0 10 26 12 755.5 0 12 27 15 755.5 0 15 28 17 755.5 0 17 29 11 755.5 0 11 30 22 755.5 0 22 31 14 755.5 0 14 32 16 755.5 0 16 33 20 755.5 0 20 34 13 755.5 0 13 35 26 755.5 0 26 36 10 755.5 0 10 37 13 755.5 0 13 38 26 755.5 0 26 39 25 755.5 0 25 40 40 755.5 0 40 41 18 755.5 0 18 42 21 755.5 0 21 43 40 755.5 0 40 44 29 755.5 0 29 45 17 755.5 0 17 46 76 755.5 0 76 47 570 755.5 0 570 48 302 755.5 0 302 49 1740 755.5 0 1740 50 135 755.5 0 135 51 26 755.5 0 26 52 18 755.5 0 18 53 12 755.5 0 12 54 11 755.5 0 11 55 21 755.5 0 21 56 20 755.5 0 20 57 14 755.5 0 14 58 15 755.5 0 15 59 23 755.5 0 23 60 61 755.5 0 61 61 388 755.5 0 388 62 23 755.5 0 23 63 54 755.5 0 54 64 12 755.5 0 12 65 7 755.5 0 7 66 7 755.5 0 7 67 11 755.5 0 11 68 15 755.5 0 15 69 13 755.5 0 13 70 26 755.5 0 26 71 10 755.5 0 10 72 19 755.5 0 19 73 12 755.5 0 12 74 11 755.5 0 11 75 10 755.5 0 10 76 8 755.5 0 8 77 13 755.5 0 13 78 14 755.5 0 14 79 70 755.5 0 70 80 16 755.5 0 16 81 16 755.5 0 16 82 31 755.5 0 31 83 39 755.5 0 39 84 40 755.5 0 40 85 65 755.5 0 65 86 283 755.5 0 283 87 8 755.5 0 8 88 6 755.5 0 6 89 14 755.5 0 14 90 10 755.5 0 10 91 7 755.5 0 7 92 8 755.5 0 8 93 10 755.5 0 10 94 9 755.5 0 9 95 3 755.5 0 3 96 12 755.5 0 12 97 7 755.5 0 7 98 7 755.5 0 7 99 9 755.5 0 9 100 8 755.5 0 8 101 13 755.5 0 13 102 13 755.5 0 13 103 8 755.5 0 8 104 8 755.5 0 8 105 6 755.5 0 6 106 10 755.5 0 10 107 12 755.5 0 12 108 7 755.5 0 7 109 16 755.5 0 16 110 12 755.5 0 12 111 21 755.5 0 21 112 44 755.5 0 44 113 210 755.5 0 210 114 152 755.5 0 152 115 8 755.5 0 8 116 8 755.5 0 8 117 8 755.5 0 8 118 14 755.5 0 14 119 14 755.5 0 14 120 5 755.5 0 5 121 11 755.5 0 11 122 8 755.5 0 8 123 13 755.5 0 13 124 6 755.5 0 6 125 15 755.5 0 15 126 17 755.5 0 17 127 34 755.5 0 34 128 26 755.5 0 26 129 64 755.5 0 64 130 19 755.5 0 19 131 21 755.5 0 21 132 49 755.5 0 49 133 53 755.5 0 53 134 276 755.5 0 276 135 119 755.5 0 119 136 52 755.5 0 52 137 46 755.5 0 46 138 15 755.5 0 15 139 22 755.5 0 22 140 16 755.5 0 16 141 190 755.5 0 190 142 108 755.5 0 108 143 647 755.5 0 647 144 17 755.5 0 17 145 9 755.5 0 9 146 14 755.5 0 14 147 17 755.5 0 17 148 20 755.5 0 20 149 19 755.5 0 19 150 9 755.5 0 9 151 9 755.5 0 9 152 47 755.5 0 47 153 57 755.5 0 57 154 323 755.5 0 323 155 25 755.5 0 25 156 6 755.5 0 6 157 3 755.5 0 3 158 6 755.5 0 6 159 11 755.5 0 11 160 3 755.5 0 3 161 5 755.5 0 5 162 2 755.5 0 2 163 10 755.5 0 10 164 7 755.5 0 7 165 9 755.5 0 9 166 6 755.5 0 6 167 8 755.5 0 8 168 4 755.5 0 4 169 6 755.5 0 6 170 8 755.5 0 8 171 6 755.5 0 6 172 7 755.5 0 7 173 12 755.5 0 12 174 11 755.5 0 11 175 8 755.5 0 8 176 9 755.5 0 9 177 1 755.5 0 1 178 4 755.5 0 4 179 5 755.5 0 5 180 9 755.5 0 9 181 8 755.5 0 8 182 11 755.5 0 11 183 88 755.5 0 88 184 10 755.5 0 10 185 20 755.5 0 20 186 4 755.5 0 4 187 8 755.5 0 8 188 5 755.5 0 5 189 7 755.5 0 7 190 11 755.5 0 11 191 13 755.5 0 13 192 9 755.5 0 9 193 5 755.5 0 5 194 5 755.5 0 5 195 4 755.5 0 4 196 9 755.5 0 9 197 9 755.5 0 9 198 11 755.5 0 11 199 13 755.5 0 13 200 8 755.5 0 8 201 13 755.5 0 13 202 3 755.5 0 3 203 3 755.5 0 3 204 7 755.5 0 7 205 10 755.5 0 10 206 9 755.5 0 9 207 14 755.5 0 14 208 1 755.5 0 1 209 10 755.5 0 10 210 9 755.5 0 9 211 34 755.5 0 34 212 44 755.5 0 44 213 75 755.5 0 75 214 50 755.5 0 50 215 49 755.5 0 49 216 15 755.5 0 15 217 9 755.5 0 9 218 17 755.5 0 17 219 40 755.5 0 40 220 48 755.5 0 48 221 29 755.5 0 29 222 6 755.5 0 6 223 10 755.5 0 10 224 11 755.5 0 11 225 21 755.5 0 21 226 14 755.5 0 14 227 24 755.5 0 24 228 259 755.5 0 259 229 130 755.5 0 130 230 107 755.5 0 107 231 57 755.5 0 57 232 37 755.5 0 37 233 6 755.5 0 6 234 5 755.5 0 5 235 11 755.5 0 11 236 11 755.5 0 11 237 163 755.5 0 163 238 16 755.5 0 16 239 26 755.5 0 26 240 27 755.5 0 27 241 12 755.5 0 12 242 5 755.5 0 5 243 7 755.5 0 7 244 14 755.5 0 14 245 31 755.5 0 31 246 24 755.5 0 24 247 31 755.5 0 31 248 11 755.5 0 11 249 10 755.5 0 10 250 12 755.5 0 12 251 4 755.5 0 4 252 6 755.5 0 6 253 28 755.5 0 28 254 215 755.5 0 215 255 45 755.5 0 45 256 82 755.5 0 82 257 183 755.5 0 183 258 19 755.5 0 19 259 10 755.5 0 10 260 21 755.5 0 21 261 11 755.5 0 11 262 224 755.5 0 224 263 12 755.5 0 12 264 9 755.5 0 9 265 12 755.5 0 12 266 18 755.5 0 18 267 5 755.5 0 5 268 6 755.5 0 6 269 5 755.5 0 5 270 8 755.5 0 8 271 4 755.5 0 4 272 6 755.5 0 6 273 23 755.5 0 23 274 15 755.5 0 15 275 68 755.5 0 68 276 5 755.5 0 5 277 9 755.5 0 9 278 18 755.5 0 18 279 19 755.5 0 19 280 8 755.5 0 8 281 12 755.5 0 12 282 45 755.5 0 45 283 12 755.5 0 12 284 23 755.5 0 23 285 143 755.5 0 143 286 21 755.5 0 21 287 12 755.5 0 12 288 5 755.5 0 5 289 10 755.5 0 10 290 10 755.5 0 10 291 23 755.5 0 23 292 79 755.5 0 79 293 37 755.5 0 37 294 11 755.5 0 11 295 25 755.5 0 25 296 17 755.5 0 17 297 9 755.5 0 9 298 92 755.5 0 92 299 277 755.5 0 277 300 3008 755.5 0 3008 301 19 755.5 0 19 Finished in 0.78 s (51 us/read; 1.17 M reads/minute). === Summary === Total reads processed: 15,200 Reads with adapters: 5,493 (36.1%) Reads that were too short: 3 (0.0%) Reads written (passing filters): 5,490 (36.1%) Total basepairs processed: 3,774,505 bp Total written (filtered): 1,502,785 bp (39.8%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 5493 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 1 1 19 85 0.0 3 0 80 3 1 1 20 5356 0.0 4 5152 162 27 11 4 21 12 0.0 4 4 6 0 2 22 1 0.0 4 0 0 1 23 10 0.0 4 0 0 0 8 2 50 1 0.0 4 0 0 0 0 1 87 12 0.0 4 0 0 0 0 12 99 1 0.0 4 0 0 0 0 1 129 3 0.0 4 0 0 0 0 3 168 1 0.0 4 0 0 0 0 1 177 1 0.0 4 0 0 0 0 1 196 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 0.20 s (36 us/read; 1.65 M reads/minute). === Summary === Total reads processed: 5,490 Reads with adapters: 157 (2.9%) Reads written (passing filters): 5,490 (100.0%) Total basepairs processed: 1,502,785 bp Total written (filtered): 1,500,358 bp (99.8%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 157 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 5.7% C: 3.8% G: 87.3% T: 3.2% 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 5 85.8 0 5 11 131 0.0 1 0 131 12 18 0.0 1 1 17 225 1 0.0 1 1 265 2 0.0 1 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.