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 ... Finished in 89.50 s (29 us/read; 2.07 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 0.48 s (45 us/read; 1.34 M reads/minute). === Summary === Total reads processed: 10,721 Reads with adapters: 1,292 (12.1%) Reads that were too short: 1 (0.0%) Reads written (passing filters): 1,291 (12.0%) Total basepairs processed: 2,373,527 bp Total written (filtered): 356,878 bp (15.0%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 1292 times. No. of allowed errors: 0-4 bp: 0; 5-9 bp: 1; 10-14 bp: 2; 15-17 bp: 3 Overview of removed sequences length count expect max.err error counts 16 14 0.0 3 0 13 1 17 1260 0.0 3 1232 28 18 10 0.0 3 1 6 3 20 1 0.0 3 1 22 1 0.0 3 1 33 1 0.0 3 0 0 0 1 49 1 0.0 3 0 0 0 1 81 1 0.0 3 0 0 0 1 115 1 0.0 3 0 0 0 1 163 1 0.0 3 0 0 0 1 192 1 0.0 3 0 0 0 1 This is cutadapt 1.11 with Python 2.7.12 Command line parameters: -a taatctatgggnncatcagg - Trimming 1 adapter with at most 10.0% errors in single-end mode ... Finished in 0.05 s (39 us/read; 1.55 M reads/minute). === Summary === Total reads processed: 1,291 Reads with adapters: 72 (5.6%) Reads written (passing filters): 1,291 (100.0%) Total basepairs processed: 356,878 bp Total written (filtered): 356,662 bp (99.9%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 72 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 11.1% C: 87.5% G: 1.4% T: 0.0% none/other: 0.0% WARNING: The adapter is preceded by "C" extremely often. The provided adapter sequence may be incomplete. To fix the problem, add "C" to the beginning of the adapter sequence. Overview of removed sequences length count expect max.err error counts 3 72 20.2 0 72 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.