This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AGCTGG -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 107.68 s (34 us/read; 1.77 M reads/minute). === Summary === Total reads processed: 3,184,960 Reads with adapters: 124,012 (3.9%) Reads that were too short: 54,599 (1.7%) Reads written (passing filters): 69,413 (2.2%) Total basepairs processed: 958,672,960 bp Total written (filtered): 17,932,176 bp (1.9%) === Adapter 1 === Sequence: AGCTGG; Type: regular 5'; Length: 6; Trimmed: 124012 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 736 777.6 0 736 7 789 777.6 0 789 8 888 777.6 0 888 9 38575 777.6 0 38575 10 288 777.6 0 288 11 6901 777.6 0 6901 12 25 777.6 0 25 13 16 777.6 0 16 14 16 777.6 0 16 15 19 777.6 0 19 16 13 777.6 0 13 17 13 777.6 0 13 18 19 777.6 0 19 19 9 777.6 0 9 20 21 777.6 0 21 21 15 777.6 0 15 22 6 777.6 0 6 23 8 777.6 0 8 24 8 777.6 0 8 25 16 777.6 0 16 26 17 777.6 0 17 27 23 777.6 0 23 28 33 777.6 0 33 29 12 777.6 0 12 30 13 777.6 0 13 31 10 777.6 0 10 32 17 777.6 0 17 33 15 777.6 0 15 34 19 777.6 0 19 35 14 777.6 0 14 36 11 777.6 0 11 37 10 777.6 0 10 38 12 777.6 0 12 39 24 777.6 0 24 40 12 777.6 0 12 41 10 777.6 0 10 42 16 777.6 0 16 43 13 777.6 0 13 44 15 777.6 0 15 45 8 777.6 0 8 46 11 777.6 0 11 47 12 777.6 0 12 48 12 777.6 0 12 49 16 777.6 0 16 50 12 777.6 0 12 51 14 777.6 0 14 52 79 777.6 0 79 53 20 777.6 0 20 54 20 777.6 0 20 55 69 777.6 0 69 56 107 777.6 0 107 57 57 777.6 0 57 58 41 777.6 0 41 59 12 777.6 0 12 60 7 777.6 0 7 61 13 777.6 0 13 62 18 777.6 0 18 63 12 777.6 0 12 64 15 777.6 0 15 65 5 777.6 0 5 66 13 777.6 0 13 67 10 777.6 0 10 68 7 777.6 0 7 69 15 777.6 0 15 70 19 777.6 0 19 71 17 777.6 0 17 72 11 777.6 0 11 73 7 777.6 0 7 74 6 777.6 0 6 75 15 777.6 0 15 76 10 777.6 0 10 77 16 777.6 0 16 78 31 777.6 0 31 79 217 777.6 0 217 80 441 777.6 0 441 81 80 777.6 0 80 82 19 777.6 0 19 83 167 777.6 0 167 84 45 777.6 0 45 85 224 777.6 0 224 86 27 777.6 0 27 87 11 777.6 0 11 88 16 777.6 0 16 89 32 777.6 0 32 90 18 777.6 0 18 91 14 777.6 0 14 92 12 777.6 0 12 93 28 777.6 0 28 94 24 777.6 0 24 95 31 777.6 0 31 96 31 777.6 0 31 97 39 777.6 0 39 98 53 777.6 0 53 99 111 777.6 0 111 100 215 777.6 0 215 101 45 777.6 0 45 102 39 777.6 0 39 103 94 777.6 0 94 104 53 777.6 0 53 105 55 777.6 0 55 106 87 777.6 0 87 107 76 777.6 0 76 108 94 777.6 0 94 109 62 777.6 0 62 110 87 777.6 0 87 111 128 777.6 0 128 112 199 777.6 0 199 113 4048 777.6 0 4048 114 4339 777.6 0 4339 115 3013 777.6 0 3013 116 28 777.6 0 28 117 14 777.6 0 14 118 12 777.6 0 12 119 16 777.6 0 16 120 18 777.6 0 18 121 18 777.6 0 18 122 15 777.6 0 15 123 17 777.6 0 17 124 15 777.6 0 15 125 11 777.6 0 11 126 21 777.6 0 21 127 24 777.6 0 24 128 39 777.6 0 39 129 502 777.6 0 502 130 328 777.6 0 328 131 95 777.6 0 95 132 22 777.6 0 22 133 15 777.6 0 15 134 14 777.6 0 14 135 24 777.6 0 24 136 43 777.6 0 43 137 44 777.6 0 44 138 35 777.6 0 35 139 53 777.6 0 53 140 43 777.6 0 43 141 88 777.6 0 88 142 31 777.6 0 31 143 132 777.6 0 132 144 21 777.6 0 21 145 29 777.6 0 29 146 29 777.6 0 29 147 22 777.6 0 22 148 34 777.6 0 34 149 49 777.6 0 49 150 24 777.6 0 24 151 27 777.6 0 27 152 17 777.6 0 17 153 43 777.6 0 43 154 205 777.6 0 205 155 390 777.6 0 390 156 626 777.6 0 626 157 158 777.6 0 158 158 681 777.6 0 681 159 14 777.6 0 14 160 14 777.6 0 14 161 9 777.6 0 9 162 15 777.6 0 15 163 24 777.6 0 24 164 11 777.6 0 11 165 34 777.6 0 34 166 27 777.6 0 27 167 330 777.6 0 330 168 89 777.6 0 89 169 184 777.6 0 184 170 17 777.6 0 17 171 10 777.6 0 10 172 15 777.6 0 15 173 18 777.6 0 18 174 11 777.6 0 11 175 7 777.6 0 7 176 7 777.6 0 7 177 11 777.6 0 11 178 12 777.6 0 12 179 13 777.6 0 13 180 23 777.6 0 23 181 18 777.6 0 18 182 16 777.6 0 16 183 24 777.6 0 24 184 13 777.6 0 13 185 10 777.6 0 10 186 8 777.6 0 8 187 6 777.6 0 6 188 11 777.6 0 11 189 32 777.6 0 32 190 15 777.6 0 15 191 19 777.6 0 19 192 17 777.6 0 17 193 11 777.6 0 11 194 8 777.6 0 8 195 11 777.6 0 11 196 13 777.6 0 13 197 8 777.6 0 8 198 19 777.6 0 19 199 20 777.6 0 20 200 371 777.6 0 371 201 108 777.6 0 108 202 56 777.6 0 56 203 21 777.6 0 21 204 76 777.6 0 76 205 10 777.6 0 10 206 11 777.6 0 11 207 9 777.6 0 9 208 5 777.6 0 5 209 13 777.6 0 13 210 51 777.6 0 51 211 143 777.6 0 143 212 69 777.6 0 69 213 68 777.6 0 68 214 48 777.6 0 48 215 35 777.6 0 35 216 352 777.6 0 352 217 62 777.6 0 62 218 49 777.6 0 49 219 7 777.6 0 7 220 8 777.6 0 8 221 9 777.6 0 9 222 6 777.6 0 6 223 17 777.6 0 17 224 33 777.6 0 33 225 25 777.6 0 25 226 26 777.6 0 26 227 33 777.6 0 33 228 50 777.6 0 50 229 66 777.6 0 66 230 64 777.6 0 64 231 28 777.6 0 28 232 38 777.6 0 38 233 81 777.6 0 81 234 27 777.6 0 27 235 37 777.6 0 37 236 49 777.6 0 49 237 28 777.6 0 28 238 20 777.6 0 20 239 10 777.6 0 10 240 14 777.6 0 14 241 20 777.6 0 20 242 17 777.6 0 17 243 22 777.6 0 22 244 22 777.6 0 22 245 34 777.6 0 34 246 10 777.6 0 10 247 19 777.6 0 19 248 32 777.6 0 32 249 13 777.6 0 13 250 17 777.6 0 17 251 56 777.6 0 56 252 62 777.6 0 62 253 56 777.6 0 56 254 91 777.6 0 91 255 851 777.6 0 851 256 300 777.6 0 300 257 225 777.6 0 225 258 23 777.6 0 23 259 23 777.6 0 23 260 10 777.6 0 10 261 17 777.6 0 17 262 87 777.6 0 87 263 31 777.6 0 31 264 50 777.6 0 50 265 35 777.6 0 35 266 26 777.6 0 26 267 10 777.6 0 10 268 24 777.6 0 24 269 24 777.6 0 24 270 65 777.6 0 65 271 44 777.6 0 44 272 53 777.6 0 53 273 39 777.6 0 39 274 48 777.6 0 48 275 20 777.6 0 20 276 25 777.6 0 25 277 34 777.6 0 34 278 76 777.6 0 76 279 122 777.6 0 122 280 53 777.6 0 53 281 91 777.6 0 91 282 75 777.6 0 75 283 114 777.6 0 114 284 251 777.6 0 251 285 312 777.6 0 312 286 104 777.6 0 104 287 120 777.6 0 120 288 124 777.6 0 124 289 254 777.6 0 254 290 127 777.6 0 127 291 408 777.6 0 408 292 353 777.6 0 353 293 454 777.6 0 454 294 396 777.6 0 396 295 476 777.6 0 476 296 2888 777.6 0 2888 297 18125 777.6 0 18125 298 18037 777.6 0 18037 299 4117 777.6 0 4117 300 3187 777.6 0 3187 301 46 777.6 0 46 Finished in 3.68 s (53 us/read; 1.13 M reads/minute). === Summary === Total reads processed: 69,413 Reads with adapters: 40,233 (58.0%) Reads that were too short: 3 (0.0%) Reads written (passing filters): 40,230 (58.0%) Total basepairs processed: 17,932,176 bp Total written (filtered): 10,946,124 bp (61.0%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 40233 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 17 1 0.0 3 0 0 0 0 1 18 24 0.0 3 0 0 21 2 1 19 490 0.0 3 0 461 14 8 7 20 39601 0.0 4 38275 1174 111 33 8 21 75 0.0 4 26 46 2 1 22 7 0.0 4 0 0 6 0 1 23 22 0.0 4 0 0 1 15 6 24 6 0.0 4 1 0 0 0 5 49 3 0.0 4 3 140 1 0.0 4 0 0 0 0 1 154 1 0.0 4 0 0 0 0 1 169 1 0.0 4 0 0 0 0 1 189 1 0.0 4 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 1.76 s (44 us/read; 1.37 M reads/minute). === Summary === Total reads processed: 40,230 Reads with adapters: 3,652 (9.1%) Reads written (passing filters): 40,230 (100.0%) Total basepairs processed: 10,946,124 bp Total written (filtered): 10,739,940 bp (98.1%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 3652 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 2.9% C: 3.0% G: 91.6% T: 2.5% 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 7 628.6 0 7 4 3 157.1 0 3 5 3 39.3 0 3 6 9 9.8 0 9 9 370 0.2 0 30 340 10 664 0.0 1 15 649 11 1910 0.0 1 4 1906 12 7 0.0 1 1 6 13 4 0.0 1 0 4 36 1 0.0 1 0 1 150 1 0.0 1 0 1 209 2 0.0 1 2 222 1 0.0 1 1 223 30 0.0 1 29 1 224 1 0.0 1 0 1 225 1 0.0 1 1 238 101 0.0 1 96 5 241 1 0.0 1 1 242 3 0.0 1 3 244 1 0.0 1 1 245 1 0.0 1 1 252 1 0.0 1 1 260 14 0.0 1 12 2 261 4 0.0 1 2 2 262 16 0.0 1 14 2 264 26 0.0 1 26 265 1 0.0 1 1 266 4 0.0 1 4 267 445 0.0 1 420 25 268 14 0.0 1 12 2 269 2 0.0 1 2 270 3 0.0 1 3 271 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.