This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g GTTGCC -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 92.63 s (30 us/read; 2.00 M reads/minute). === Summary === Total reads processed: 3,094,653 Reads with adapters: 12,074 (0.4%) Reads that were too short: 1,353 (0.0%) Reads written (passing filters): 10,721 (0.3%) Total basepairs processed: 931,490,553 bp Total written (filtered): 2,373,527 bp (0.3%) === Adapter 1 === Sequence: GTTGCC; Type: regular 5'; Length: 6; Trimmed: 12074 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 102 755.5 0 102 7 1433 755.5 0 1433 8 2896 755.5 0 2896 9 27 755.5 0 27 10 13 755.5 0 13 11 16 755.5 0 16 12 25 755.5 0 25 13 14 755.5 0 14 14 14 755.5 0 14 15 9 755.5 0 9 16 6 755.5 0 6 17 10 755.5 0 10 18 16 755.5 0 16 19 12 755.5 0 12 20 11 755.5 0 11 21 11 755.5 0 11 22 9 755.5 0 9 23 15 755.5 0 15 24 12 755.5 0 12 25 13 755.5 0 13 26 11 755.5 0 11 27 8 755.5 0 8 28 8 755.5 0 8 29 6 755.5 0 6 30 9 755.5 0 9 31 10 755.5 0 10 32 6 755.5 0 6 33 13 755.5 0 13 34 6 755.5 0 6 35 13 755.5 0 13 36 15 755.5 0 15 37 11 755.5 0 11 38 9 755.5 0 9 39 6 755.5 0 6 40 15 755.5 0 15 41 7 755.5 0 7 42 5 755.5 0 5 43 10 755.5 0 10 44 7 755.5 0 7 45 10 755.5 0 10 46 7 755.5 0 7 47 6 755.5 0 6 48 6 755.5 0 6 49 13 755.5 0 13 50 83 755.5 0 83 51 16 755.5 0 16 52 10 755.5 0 10 53 17 755.5 0 17 54 6 755.5 0 6 55 11 755.5 0 11 56 13 755.5 0 13 57 12 755.5 0 12 58 17 755.5 0 17 59 5 755.5 0 5 60 14 755.5 0 14 61 8 755.5 0 8 62 11 755.5 0 11 63 19 755.5 0 19 64 9 755.5 0 9 65 17 755.5 0 17 66 4 755.5 0 4 67 19 755.5 0 19 68 17 755.5 0 17 69 116 755.5 0 116 70 56 755.5 0 56 71 79 755.5 0 79 72 109 755.5 0 109 73 85 755.5 0 85 74 71 755.5 0 71 75 14 755.5 0 14 76 5 755.5 0 5 77 12 755.5 0 12 78 9 755.5 0 9 79 7 755.5 0 7 80 11 755.5 0 11 81 37 755.5 0 37 82 11 755.5 0 11 83 35 755.5 0 35 84 355 755.5 0 355 85 81 755.5 0 81 86 129 755.5 0 129 87 8 755.5 0 8 88 9 755.5 0 9 89 4 755.5 0 4 90 4 755.5 0 4 91 10 755.5 0 10 92 5 755.5 0 5 93 4 755.5 0 4 94 5 755.5 0 5 95 5 755.5 0 5 96 18 755.5 0 18 97 5 755.5 0 5 98 4 755.5 0 4 99 6 755.5 0 6 100 7 755.5 0 7 101 14 755.5 0 14 102 13 755.5 0 13 103 3 755.5 0 3 104 5 755.5 0 5 105 8 755.5 0 8 106 6 755.5 0 6 107 10 755.5 0 10 108 12 755.5 0 12 109 28 755.5 0 28 110 119 755.5 0 119 111 226 755.5 0 226 112 67 755.5 0 67 113 7 755.5 0 7 114 3 755.5 0 3 115 6 755.5 0 6 116 7 755.5 0 7 117 3 755.5 0 3 118 5 755.5 0 5 119 5 755.5 0 5 120 8 755.5 0 8 121 6 755.5 0 6 122 8 755.5 0 8 123 8 755.5 0 8 124 13 755.5 0 13 125 6 755.5 0 6 126 4 755.5 0 4 127 6 755.5 0 6 128 7 755.5 0 7 129 9 755.5 0 9 130 19 755.5 0 19 131 34 755.5 0 34 132 242 755.5 0 242 133 6 755.5 0 6 134 7 755.5 0 7 135 6 755.5 0 6 136 5 755.5 0 5 137 8 755.5 0 8 138 14 755.5 0 14 139 8 755.5 0 8 140 6 755.5 0 6 141 4 755.5 0 4 142 4 755.5 0 4 143 4 755.5 0 4 144 6 755.5 0 6 145 9 755.5 0 9 146 5 755.5 0 5 147 9 755.5 0 9 148 49 755.5 0 49 149 5 755.5 0 5 150 15 755.5 0 15 151 7 755.5 0 7 152 3 755.5 0 3 153 2 755.5 0 2 154 9 755.5 0 9 155 9 755.5 0 9 156 21 755.5 0 21 157 17 755.5 0 17 158 24 755.5 0 24 159 5 755.5 0 5 160 6 755.5 0 6 161 13 755.5 0 13 162 11 755.5 0 11 163 10 755.5 0 10 164 25 755.5 0 25 165 33 755.5 0 33 166 50 755.5 0 50 167 30 755.5 0 30 168 51 755.5 0 51 169 92 755.5 0 92 170 1512 755.5 0 1512 171 15 755.5 0 15 172 12 755.5 0 12 173 3 755.5 0 3 174 9 755.5 0 9 175 8 755.5 0 8 176 41 755.5 0 41 177 16 755.5 0 16 178 11 755.5 0 11 179 11 755.5 0 11 180 7 755.5 0 7 181 28 755.5 0 28 182 350 755.5 0 350 183 17 755.5 0 17 184 17 755.5 0 17 185 11 755.5 0 11 186 11 755.5 0 11 187 9 755.5 0 9 188 15 755.5 0 15 189 10 755.5 0 10 190 8 755.5 0 8 191 5 755.5 0 5 192 5 755.5 0 5 193 8 755.5 0 8 194 11 755.5 0 11 195 19 755.5 0 19 196 73 755.5 0 73 197 68 755.5 0 68 198 150 755.5 0 150 199 237 755.5 0 237 200 6 755.5 0 6 201 8 755.5 0 8 202 15 755.5 0 15 203 34 755.5 0 34 204 79 755.5 0 79 205 132 755.5 0 132 206 19 755.5 0 19 207 4 755.5 0 4 208 6 755.5 0 6 209 4 755.5 0 4 210 7 755.5 0 7 211 3 755.5 0 3 212 8 755.5 0 8 213 28 755.5 0 28 214 92 755.5 0 92 215 73 755.5 0 73 216 12 755.5 0 12 217 5 755.5 0 5 218 6 755.5 0 6 219 11 755.5 0 11 220 3 755.5 0 3 221 8 755.5 0 8 222 14 755.5 0 14 223 18 755.5 0 18 224 44 755.5 0 44 225 48 755.5 0 48 226 11 755.5 0 11 227 3 755.5 0 3 228 6 755.5 0 6 229 9 755.5 0 9 230 3 755.5 0 3 231 4 755.5 0 4 232 5 755.5 0 5 233 5 755.5 0 5 234 8 755.5 0 8 235 9 755.5 0 9 236 67 755.5 0 67 238 7 755.5 0 7 239 7 755.5 0 7 240 6 755.5 0 6 241 2 755.5 0 2 242 6 755.5 0 6 243 4 755.5 0 4 244 5 755.5 0 5 245 9 755.5 0 9 246 8 755.5 0 8 247 5 755.5 0 5 248 4 755.5 0 4 249 4 755.5 0 4 250 5 755.5 0 5 251 4 755.5 0 4 252 6 755.5 0 6 253 17 755.5 0 17 254 20 755.5 0 20 255 14 755.5 0 14 256 7 755.5 0 7 257 6 755.5 0 6 258 16 755.5 0 16 259 20 755.5 0 20 260 58 755.5 0 58 261 1 755.5 0 1 262 7 755.5 0 7 263 4 755.5 0 4 264 5 755.5 0 5 265 5 755.5 0 5 266 7 755.5 0 7 267 2 755.5 0 2 268 3 755.5 0 3 269 4 755.5 0 4 270 17 755.5 0 17 271 11 755.5 0 11 272 7 755.5 0 7 273 6 755.5 0 6 274 2 755.5 0 2 275 7 755.5 0 7 276 4 755.5 0 4 277 5 755.5 0 5 278 9 755.5 0 9 279 6 755.5 0 6 280 5 755.5 0 5 281 21 755.5 0 21 282 16 755.5 0 16 283 15 755.5 0 15 284 20 755.5 0 20 285 13 755.5 0 13 286 10 755.5 0 10 287 5 755.5 0 5 288 5 755.5 0 5 289 7 755.5 0 7 290 2 755.5 0 2 291 3 755.5 0 3 292 2 755.5 0 2 293 9 755.5 0 9 294 1 755.5 0 1 295 7 755.5 0 7 296 5 755.5 0 5 297 16 755.5 0 16 298 14 755.5 0 14 299 11 755.5 0 11 300 5 755.5 0 5 301 6 755.5 0 6 Finished in 0.53 s (49 us/read; 1.21 M reads/minute). === Summary === Total reads processed: 10,721 Reads with adapters: 3,063 (28.6%) Reads that were too short: 2 (0.0%) Reads written (passing filters): 3,061 (28.6%) Total basepairs processed: 2,373,527 bp Total written (filtered): 832,057 bp (35.1%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 3063 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 1 0.0 3 0 0 0 0 1 19 53 0.0 3 0 51 1 1 20 2963 0.0 4 2914 48 0 1 21 4 0.0 4 0 3 1 22 1 0.0 4 0 0 0 0 1 23 1 0.0 4 0 0 0 1 24 1 0.0 4 0 0 0 0 1 92 1 0.0 4 0 0 0 0 1 125 2 0.0 4 0 0 0 0 2 127 34 0.0 4 0 0 0 0 34 161 1 0.0 4 0 0 0 0 1 178 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 0.13 s (42 us/read; 1.41 M reads/minute). === Summary === Total reads processed: 3,061 Reads with adapters: 172 (5.6%) Reads written (passing filters): 3,061 (100.0%) Total basepairs processed: 832,057 bp Total written (filtered): 804,121 bp (96.6%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 172 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 58.7% C: 0.6% G: 38.4% T: 1.7% none/other: 0.6% Overview of removed sequences length count expect max.err error counts 4 8 12.0 0 8 10 1 0.0 1 0 1 11 58 0.0 1 0 58 258 1 0.0 1 1 259 89 0.0 1 87 2 260 5 0.0 1 4 1 261 5 0.0 1 5 264 1 0.0 1 1 268 2 0.0 1 1 1 269 1 0.0 1 1 273 1 0.0 1 1