This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AGACCG -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 90.65 s (29 us/read; 2.05 M reads/minute). === Summary === Total reads processed: 3,094,653 Reads with adapters: 35,340 (1.1%) Reads that were too short: 14,962 (0.5%) Reads written (passing filters): 20,378 (0.7%) Total basepairs processed: 931,490,553 bp Total written (filtered): 4,973,659 bp (0.5%) === Adapter 1 === Sequence: AGACCG; Type: regular 5'; Length: 6; Trimmed: 35340 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 64 755.5 0 64 7 156 755.5 0 156 8 277 755.5 0 277 9 11864 755.5 0 11864 10 24 755.5 0 24 11 10 755.5 0 10 12 7 755.5 0 7 13 6 755.5 0 6 14 7 755.5 0 7 15 6 755.5 0 6 16 4 755.5 0 4 17 4 755.5 0 4 18 2 755.5 0 2 19 3 755.5 0 3 21 9 755.5 0 9 22 8 755.5 0 8 23 4 755.5 0 4 24 2 755.5 0 2 25 8 755.5 0 8 26 5 755.5 0 5 27 1 755.5 0 1 28 8 755.5 0 8 29 6 755.5 0 6 30 6 755.5 0 6 31 1 755.5 0 1 32 5 755.5 0 5 33 7 755.5 0 7 34 7 755.5 0 7 35 4 755.5 0 4 36 9 755.5 0 9 37 8 755.5 0 8 38 1044 755.5 0 1044 39 8 755.5 0 8 40 7 755.5 0 7 42 6 755.5 0 6 43 9 755.5 0 9 44 14 755.5 0 14 45 13 755.5 0 13 46 7 755.5 0 7 47 6 755.5 0 6 48 6 755.5 0 6 49 3 755.5 0 3 50 6 755.5 0 6 51 11 755.5 0 11 52 8 755.5 0 8 53 4 755.5 0 4 54 4 755.5 0 4 55 6 755.5 0 6 56 11 755.5 0 11 57 10 755.5 0 10 58 5 755.5 0 5 59 6 755.5 0 6 60 4 755.5 0 4 61 8 755.5 0 8 62 1 755.5 0 1 63 5 755.5 0 5 64 6 755.5 0 6 65 8 755.5 0 8 66 4 755.5 0 4 67 8 755.5 0 8 68 6 755.5 0 6 69 4 755.5 0 4 70 13 755.5 0 13 71 37 755.5 0 37 72 20 755.5 0 20 73 22 755.5 0 22 74 327 755.5 0 327 75 19 755.5 0 19 76 38 755.5 0 38 77 10 755.5 0 10 78 8 755.5 0 8 79 52 755.5 0 52 80 15 755.5 0 15 81 67 755.5 0 67 82 214 755.5 0 214 83 171 755.5 0 171 84 119 755.5 0 119 85 11 755.5 0 11 86 2 755.5 0 2 87 7 755.5 0 7 88 18 755.5 0 18 89 10 755.5 0 10 90 6 755.5 0 6 91 13 755.5 0 13 92 3 755.5 0 3 93 10 755.5 0 10 94 13 755.5 0 13 95 5 755.5 0 5 96 4 755.5 0 4 97 17 755.5 0 17 98 13 755.5 0 13 99 7 755.5 0 7 100 9 755.5 0 9 101 21 755.5 0 21 102 9 755.5 0 9 103 7 755.5 0 7 104 9 755.5 0 9 105 2 755.5 0 2 106 2 755.5 0 2 107 2 755.5 0 2 108 10 755.5 0 10 109 7 755.5 0 7 110 9 755.5 0 9 111 8 755.5 0 8 112 8 755.5 0 8 113 8 755.5 0 8 114 8 755.5 0 8 115 5 755.5 0 5 116 10 755.5 0 10 117 35 755.5 0 35 118 15 755.5 0 15 119 57 755.5 0 57 120 19 755.5 0 19 121 26 755.5 0 26 122 33 755.5 0 33 123 43 755.5 0 43 124 79 755.5 0 79 125 29 755.5 0 29 126 12 755.5 0 12 127 23 755.5 0 23 128 11 755.5 0 11 129 16 755.5 0 16 130 18 755.5 0 18 131 26 755.5 0 26 132 47 755.5 0 47 133 31 755.5 0 31 134 28 755.5 0 28 135 17 755.5 0 17 136 37 755.5 0 37 137 29 755.5 0 29 138 31 755.5 0 31 139 33 755.5 0 33 140 22 755.5 0 22 141 28 755.5 0 28 142 23 755.5 0 23 143 31 755.5 0 31 144 35 755.5 0 35 145 47 755.5 0 47 146 205 755.5 0 205 147 27 755.5 0 27 148 63 755.5 0 63 149 14 755.5 0 14 150 17 755.5 0 17 151 11 755.5 0 11 152 24 755.5 0 24 153 46 755.5 0 46 154 47 755.5 0 47 155 24 755.5 0 24 156 26 755.5 0 26 157 40 755.5 0 40 158 42 755.5 0 42 159 54 755.5 0 54 160 30 755.5 0 30 161 30 755.5 0 30 162 24 755.5 0 24 163 51 755.5 0 51 164 48 755.5 0 48 165 57 755.5 0 57 166 63 755.5 0 63 167 374 755.5 0 374 168 130 755.5 0 130 169 463 755.5 0 463 170 41 755.5 0 41 171 131 755.5 0 131 172 110 755.5 0 110 173 39 755.5 0 39 174 55 755.5 0 55 175 26 755.5 0 26 176 19 755.5 0 19 177 23 755.5 0 23 178 39 755.5 0 39 179 44 755.5 0 44 180 50 755.5 0 50 181 48 755.5 0 48 182 35 755.5 0 35 183 54 755.5 0 54 184 64 755.5 0 64 185 42 755.5 0 42 186 32 755.5 0 32 187 39 755.5 0 39 188 70 755.5 0 70 189 202 755.5 0 202 190 113 755.5 0 113 191 56 755.5 0 56 192 33 755.5 0 33 193 29 755.5 0 29 194 22 755.5 0 22 195 32 755.5 0 32 196 60 755.5 0 60 197 32 755.5 0 32 198 34 755.5 0 34 199 43 755.5 0 43 200 136 755.5 0 136 201 649 755.5 0 649 202 431 755.5 0 431 203 61 755.5 0 61 204 47 755.5 0 47 205 40 755.5 0 40 206 39 755.5 0 39 207 43 755.5 0 43 208 32 755.5 0 32 209 39 755.5 0 39 210 40 755.5 0 40 211 70 755.5 0 70 212 45 755.5 0 45 213 41 755.5 0 41 214 37 755.5 0 37 215 80 755.5 0 80 216 72 755.5 0 72 217 78 755.5 0 78 218 50 755.5 0 50 219 52 755.5 0 52 220 34 755.5 0 34 221 48 755.5 0 48 222 72 755.5 0 72 223 61 755.5 0 61 224 142 755.5 0 142 225 132 755.5 0 132 226 197 755.5 0 197 227 1535 755.5 0 1535 228 3062 755.5 0 3062 229 768 755.5 0 768 230 1310 755.5 0 1310 231 42 755.5 0 42 232 39 755.5 0 39 233 35 755.5 0 35 234 32 755.5 0 32 235 29 755.5 0 29 236 38 755.5 0 38 237 32 755.5 0 32 238 50 755.5 0 50 239 28 755.5 0 28 240 32 755.5 0 32 241 27 755.5 0 27 242 29 755.5 0 29 243 97 755.5 0 97 244 59 755.5 0 59 245 86 755.5 0 86 246 29 755.5 0 29 247 39 755.5 0 39 248 31 755.5 0 31 249 41 755.5 0 41 250 81 755.5 0 81 251 91 755.5 0 91 252 50 755.5 0 50 253 93 755.5 0 93 254 92 755.5 0 92 255 56 755.5 0 56 256 91 755.5 0 91 257 126 755.5 0 126 258 165 755.5 0 165 259 57 755.5 0 57 260 73 755.5 0 73 261 198 755.5 0 198 262 775 755.5 0 775 263 906 755.5 0 906 264 159 755.5 0 159 265 77 755.5 0 77 266 27 755.5 0 27 267 30 755.5 0 30 268 103 755.5 0 103 269 138 755.5 0 138 270 281 755.5 0 281 271 216 755.5 0 216 272 40 755.5 0 40 273 36 755.5 0 36 274 29 755.5 0 29 275 32 755.5 0 32 276 34 755.5 0 34 277 43 755.5 0 43 278 61 755.5 0 61 279 37 755.5 0 37 280 29 755.5 0 29 281 40 755.5 0 40 282 82 755.5 0 82 283 71 755.5 0 71 284 65 755.5 0 65 285 49 755.5 0 49 286 33 755.5 0 33 287 22 755.5 0 22 288 17 755.5 0 17 289 18 755.5 0 18 290 46 755.5 0 46 291 64 755.5 0 64 292 57 755.5 0 57 293 33 755.5 0 33 294 24 755.5 0 24 295 10 755.5 0 10 296 16 755.5 0 16 297 27 755.5 0 27 298 56 755.5 0 56 299 172 755.5 0 172 300 330 755.5 0 330 301 51 755.5 0 51 Finished in 0.97 s (48 us/read; 1.26 M reads/minute). === Summary === Total reads processed: 20,378 Reads with adapters: 12,270 (60.2%) Reads that were too short: 0 (0.0%) Reads written (passing filters): 12,270 (60.2%) Total basepairs processed: 4,973,659 bp Total written (filtered): 3,337,783 bp (67.1%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 12270 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 16 2 0.0 3 0 0 0 0 2 17 2 0.0 3 0 0 0 1 1 18 4 0.0 3 0 0 4 19 104 0.0 3 0 103 0 0 1 20 12131 0.0 4 11978 147 6 21 19 0.0 4 7 12 22 3 0.0 4 0 0 2 1 23 2 0.0 4 0 0 0 2 39 1 0.0 4 0 0 0 0 1 40 1 0.0 4 1 98 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 0.48 s (39 us/read; 1.53 M reads/minute). === Summary === Total reads processed: 12,270 Reads with adapters: 4,794 (39.1%) Reads written (passing filters): 12,270 (100.0%) Total basepairs processed: 3,337,783 bp Total written (filtered): 2,096,172 bp (62.8%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 4794 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 0.2% C: 98.0% G: 1.5% T: 0.3% 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 9 19 0.0 0 0 19 10 47 0.0 1 2 45 11 11 0.0 1 0 11 243 1 0.0 1 1 259 1 0.0 1 1 262 15 0.0 1 13 2 263 4476 0.0 1 4194 282 264 158 0.0 1 150 8 265 43 0.0 1 36 7 266 19 0.0 1 18 1 267 4 0.0 1 4 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.