This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CGTGCG -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 64.78 s (27 us/read; 2.26 M reads/minute). === Summary === Total reads processed: 2,442,494 Reads with adapters: 230,063 (9.4%) Reads that were too short: 162,719 (6.7%) Reads written (passing filters): 67,344 (2.8%) Total basepairs processed: 735,190,694 bp Total written (filtered): 15,278,622 bp (2.1%) === Adapter 1 === Sequence: CGTGCG; Type: regular 5'; Length: 6; Trimmed: 230063 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 350 596.3 0 350 7 2966 596.3 0 2966 8 3078 596.3 0 3078 9 45 596.3 0 45 10 27 596.3 0 27 11 22 596.3 0 22 12 12 596.3 0 12 13 25 596.3 0 25 14 29 596.3 0 29 15 24 596.3 0 24 16 14 596.3 0 14 17 19 596.3 0 19 18 21 596.3 0 21 19 15 596.3 0 15 20 15 596.3 0 15 21 31 596.3 0 31 22 11 596.3 0 11 23 14 596.3 0 14 24 19 596.3 0 19 25 25 596.3 0 25 26 14 596.3 0 14 27 13 596.3 0 13 28 12 596.3 0 12 29 23 596.3 0 23 30 18 596.3 0 18 31 20 596.3 0 20 32 19 596.3 0 19 33 25 596.3 0 25 34 11 596.3 0 11 35 22 596.3 0 22 36 10 596.3 0 10 37 23 596.3 0 23 38 15 596.3 0 15 39 17 596.3 0 17 40 32 596.3 0 32 41 12 596.3 0 12 42 27 596.3 0 27 43 21 596.3 0 21 44 29 596.3 0 29 45 14 596.3 0 14 46 17 596.3 0 17 47 16 596.3 0 16 48 29 596.3 0 29 49 34 596.3 0 34 50 42 596.3 0 42 51 99 596.3 0 99 52 57 596.3 0 57 53 30 596.3 0 30 54 38 596.3 0 38 55 47 596.3 0 47 56 76 596.3 0 76 57 43 596.3 0 43 58 54 596.3 0 54 59 56 596.3 0 56 60 64 596.3 0 64 61 163 596.3 0 163 62 334 596.3 0 334 63 91 596.3 0 91 64 137 596.3 0 137 65 264 596.3 0 264 66 117 596.3 0 117 67 77 596.3 0 77 68 226 596.3 0 226 69 196 596.3 0 196 70 247 596.3 0 247 71 297 596.3 0 297 72 363 596.3 0 363 73 475 596.3 0 475 74 613 596.3 0 613 75 16480 596.3 0 16480 76 24791 596.3 0 24791 77 9599 596.3 0 9599 78 45 596.3 0 45 79 24 596.3 0 24 80 21 596.3 0 21 81 28 596.3 0 28 82 14 596.3 0 14 83 33 596.3 0 33 84 15 596.3 0 15 85 9 596.3 0 9 86 14 596.3 0 14 87 13 596.3 0 13 88 16 596.3 0 16 89 19 596.3 0 19 90 14 596.3 0 14 91 32 596.3 0 32 92 10 596.3 0 10 93 11 596.3 0 11 94 13 596.3 0 13 95 28 596.3 0 28 96 18 596.3 0 18 97 10 596.3 0 10 98 21 596.3 0 21 99 17 596.3 0 17 100 12 596.3 0 12 101 12 596.3 0 12 102 25 596.3 0 25 103 14 596.3 0 14 104 19 596.3 0 19 105 31 596.3 0 31 106 18 596.3 0 18 107 16 596.3 0 16 108 21 596.3 0 21 109 15 596.3 0 15 110 13 596.3 0 13 111 10 596.3 0 10 112 17 596.3 0 17 113 9 596.3 0 9 114 12 596.3 0 12 115 17 596.3 0 17 116 18 596.3 0 18 117 17 596.3 0 17 118 22 596.3 0 22 119 29 596.3 0 29 120 19 596.3 0 19 121 27 596.3 0 27 122 11 596.3 0 11 123 23 596.3 0 23 124 16 596.3 0 16 125 144 596.3 0 144 126 85 596.3 0 85 127 82 596.3 0 82 128 46 596.3 0 46 129 35 596.3 0 35 130 24 596.3 0 24 131 16 596.3 0 16 132 195 596.3 0 195 133 174 596.3 0 174 134 22 596.3 0 22 135 134 596.3 0 134 136 135 596.3 0 135 137 89 596.3 0 89 138 22 596.3 0 22 139 13 596.3 0 13 140 21 596.3 0 21 141 24 596.3 0 24 142 19 596.3 0 19 143 16 596.3 0 16 144 94 596.3 0 94 145 66 596.3 0 66 146 21 596.3 0 21 147 14 596.3 0 14 148 11 596.3 0 11 149 20 596.3 0 20 150 26 596.3 0 26 151 16 596.3 0 16 152 16 596.3 0 16 153 10 596.3 0 10 154 27 596.3 0 27 155 34 596.3 0 34 156 19 596.3 0 19 157 53 596.3 0 53 158 16 596.3 0 16 159 13 596.3 0 13 160 16 596.3 0 16 161 22 596.3 0 22 162 38 596.3 0 38 163 41 596.3 0 41 164 32 596.3 0 32 165 32 596.3 0 32 166 41 596.3 0 41 167 59 596.3 0 59 168 66 596.3 0 66 169 45 596.3 0 45 170 15 596.3 0 15 171 21 596.3 0 21 172 17 596.3 0 17 173 19 596.3 0 19 174 12 596.3 0 12 175 16 596.3 0 16 176 22 596.3 0 22 177 25 596.3 0 25 178 22 596.3 0 22 179 28 596.3 0 28 180 43 596.3 0 43 181 45 596.3 0 45 182 48 596.3 0 48 183 29 596.3 0 29 184 38 596.3 0 38 185 24 596.3 0 24 186 45 596.3 0 45 187 72 596.3 0 72 188 96 596.3 0 96 189 58 596.3 0 58 190 37 596.3 0 37 191 39 596.3 0 39 192 51 596.3 0 51 193 97 596.3 0 97 194 113 596.3 0 113 195 78 596.3 0 78 196 74 596.3 0 74 197 164 596.3 0 164 198 288 596.3 0 288 199 184 596.3 0 184 200 89 596.3 0 89 201 112 596.3 0 112 202 71 596.3 0 71 203 64 596.3 0 64 204 77 596.3 0 77 205 113 596.3 0 113 206 53 596.3 0 53 207 48 596.3 0 48 208 64 596.3 0 64 209 45 596.3 0 45 210 65 596.3 0 65 211 180 596.3 0 180 212 60 596.3 0 60 213 63 596.3 0 63 214 93 596.3 0 93 215 54 596.3 0 54 216 78 596.3 0 78 217 107 596.3 0 107 218 225 596.3 0 225 219 148 596.3 0 148 220 165 596.3 0 165 221 270 596.3 0 270 222 109 596.3 0 109 223 238 596.3 0 238 224 433 596.3 0 433 225 573 596.3 0 573 226 375 596.3 0 375 227 87 596.3 0 87 228 137 596.3 0 137 229 115 596.3 0 115 230 123 596.3 0 123 231 159 596.3 0 159 232 219 596.3 0 219 233 324 596.3 0 324 234 598 596.3 0 598 235 809 596.3 0 809 236 1148 596.3 0 1148 237 1831 596.3 0 1831 238 33146 596.3 0 33146 239 8825 596.3 0 8825 240 28050 596.3 0 28050 241 420 596.3 0 420 242 310 596.3 0 310 243 276 596.3 0 276 244 340 596.3 0 340 245 336 596.3 0 336 246 400 596.3 0 400 247 690 596.3 0 690 248 7531 596.3 0 7531 249 19891 596.3 0 19891 250 22320 596.3 0 22320 251 19604 596.3 0 19604 252 76 596.3 0 76 253 34 596.3 0 34 254 41 596.3 0 41 255 31 596.3 0 31 256 32 596.3 0 32 257 61 596.3 0 61 258 41 596.3 0 41 259 27 596.3 0 27 260 98 596.3 0 98 261 54 596.3 0 54 262 49 596.3 0 49 263 23 596.3 0 23 264 37 596.3 0 37 265 28 596.3 0 28 266 40 596.3 0 40 267 32 596.3 0 32 268 39 596.3 0 39 269 88 596.3 0 88 270 41 596.3 0 41 271 58 596.3 0 58 272 82 596.3 0 82 273 45 596.3 0 45 274 39 596.3 0 39 275 44 596.3 0 44 276 22 596.3 0 22 277 61 596.3 0 61 278 67 596.3 0 67 279 217 596.3 0 217 280 267 596.3 0 267 281 231 596.3 0 231 282 1136 596.3 0 1136 283 1760 596.3 0 1760 284 2387 596.3 0 2387 285 387 596.3 0 387 286 142 596.3 0 142 287 114 596.3 0 114 288 83 596.3 0 83 289 50 596.3 0 50 290 34 596.3 0 34 291 54 596.3 0 54 292 65 596.3 0 65 293 55 596.3 0 55 294 307 596.3 0 307 295 402 596.3 0 402 296 848 596.3 0 848 297 271 596.3 0 271 298 155 596.3 0 155 299 226 596.3 0 226 300 471 596.3 0 471 301 307 596.3 0 307 Finished in 3.00 s (45 us/read; 1.35 M reads/minute). === Summary === Total reads processed: 67,344 Reads with adapters: 3,534 (5.2%) Reads that were too short: 9 (0.0%) Reads written (passing filters): 3,525 (5.2%) Total basepairs processed: 15,278,622 bp Total written (filtered): 956,349 bp (6.3%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 3534 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 1 18 3 0.0 3 0 0 3 19 52 0.0 3 0 52 20 3178 0.0 4 3116 61 1 21 14 0.0 4 0 14 22 9 0.0 4 2 6 1 23 209 0.0 4 200 3 0 6 24 2 0.0 4 1 1 59 49 0.0 4 0 0 0 0 49 85 1 0.0 4 0 0 0 0 1 104 1 0.0 4 0 0 0 0 1 127 7 0.0 4 0 0 0 0 7 167 1 0.0 4 0 0 0 0 1 168 1 0.0 4 0 0 0 0 1 201 1 0.0 4 0 0 0 0 1 207 2 0.0 4 0 0 0 0 2 214 1 0.0 4 0 0 0 0 1 215 1 0.0 4 0 0 0 0 1 261 1 0.0 4 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 (37 us/read; 1.63 M reads/minute). === Summary === Total reads processed: 3,525 Reads with adapters: 344 (9.8%) Reads written (passing filters): 3,525 (100.0%) Total basepairs processed: 956,349 bp Total written (filtered): 952,739 bp (99.6%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 344 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.2% C: 3.8% G: 92.7% T: 2.3% 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 2 55.1 0 2 4 2 13.8 0 2 8 1 0.1 0 1 9 25 0.0 0 2 23 10 93 0.0 1 5 88 11 219 0.0 1 0 219 12 2 0.0 1 0 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.