This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CGGCCA -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 134.07 s (45 us/read; 1.32 M reads/minute). === Summary === Total reads processed: 2,949,860 Reads with adapters: 81,089 (2.7%) Reads that were too short: 32,494 (1.1%) Reads written (passing filters): 48,595 (1.6%) Total basepairs processed: 887,907,860 bp Total written (filtered): 11,237,398 bp (1.3%) === Adapter 1 === Sequence: CGGCCA; Type: regular 5'; Length: 6; Trimmed: 81089 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 2998 720.2 0 2998 7 12287 720.2 0 12287 8 349 720.2 0 349 9 9700 720.2 0 9700 10 30 720.2 0 30 11 48 720.2 0 48 12 19 720.2 0 19 13 30 720.2 0 30 14 27 720.2 0 27 15 22 720.2 0 22 16 20 720.2 0 20 17 19 720.2 0 19 18 27 720.2 0 27 19 20 720.2 0 20 20 22 720.2 0 22 21 24 720.2 0 24 22 20 720.2 0 20 23 18 720.2 0 18 24 31 720.2 0 31 25 18 720.2 0 18 26 18 720.2 0 18 27 29 720.2 0 29 28 26 720.2 0 26 29 19 720.2 0 19 30 39 720.2 0 39 31 25 720.2 0 25 32 43 720.2 0 43 33 24 720.2 0 24 34 29 720.2 0 29 35 31 720.2 0 31 36 27 720.2 0 27 37 41 720.2 0 41 38 52 720.2 0 52 39 33 720.2 0 33 40 22 720.2 0 22 41 150 720.2 0 150 42 227 720.2 0 227 43 140 720.2 0 140 44 28 720.2 0 28 45 25 720.2 0 25 46 31 720.2 0 31 47 38 720.2 0 38 48 38 720.2 0 38 49 40 720.2 0 40 50 28 720.2 0 28 51 39 720.2 0 39 52 52 720.2 0 52 53 42 720.2 0 42 54 46 720.2 0 46 55 61 720.2 0 61 56 56 720.2 0 56 57 23 720.2 0 23 58 26 720.2 0 26 59 39 720.2 0 39 60 37 720.2 0 37 61 19 720.2 0 19 62 19 720.2 0 19 63 28 720.2 0 28 64 152 720.2 0 152 65 207 720.2 0 207 66 190 720.2 0 190 67 31 720.2 0 31 68 25 720.2 0 25 69 33 720.2 0 33 70 35 720.2 0 35 71 30 720.2 0 30 72 46 720.2 0 46 73 155 720.2 0 155 74 574 720.2 0 574 75 377 720.2 0 377 76 221 720.2 0 221 77 43 720.2 0 43 78 34 720.2 0 34 79 27 720.2 0 27 80 39 720.2 0 39 81 28 720.2 0 28 82 39 720.2 0 39 83 50 720.2 0 50 84 36 720.2 0 36 85 24 720.2 0 24 86 22 720.2 0 22 87 67 720.2 0 67 88 68 720.2 0 68 89 124 720.2 0 124 90 41 720.2 0 41 91 32 720.2 0 32 92 56 720.2 0 56 93 40 720.2 0 40 94 37 720.2 0 37 95 35 720.2 0 35 96 37 720.2 0 37 97 38 720.2 0 38 98 49 720.2 0 49 99 41 720.2 0 41 100 51 720.2 0 51 101 48 720.2 0 48 102 47 720.2 0 47 103 30 720.2 0 30 104 41 720.2 0 41 105 50 720.2 0 50 106 22 720.2 0 22 107 38 720.2 0 38 108 55 720.2 0 55 109 48 720.2 0 48 110 36 720.2 0 36 111 36 720.2 0 36 112 49 720.2 0 49 113 39 720.2 0 39 114 69 720.2 0 69 115 42 720.2 0 42 116 31 720.2 0 31 117 59 720.2 0 59 118 39 720.2 0 39 119 44 720.2 0 44 120 34 720.2 0 34 121 22 720.2 0 22 122 30 720.2 0 30 123 44 720.2 0 44 124 35 720.2 0 35 125 35 720.2 0 35 126 38 720.2 0 38 127 47 720.2 0 47 128 38 720.2 0 38 129 28 720.2 0 28 130 50 720.2 0 50 131 41 720.2 0 41 132 44 720.2 0 44 133 40 720.2 0 40 134 45 720.2 0 45 135 38 720.2 0 38 136 37 720.2 0 37 137 42 720.2 0 42 138 61 720.2 0 61 139 59 720.2 0 59 140 38 720.2 0 38 141 44 720.2 0 44 142 41 720.2 0 41 143 118 720.2 0 118 144 65 720.2 0 65 145 71 720.2 0 71 146 66 720.2 0 66 147 51 720.2 0 51 148 88 720.2 0 88 149 76 720.2 0 76 150 86 720.2 0 86 151 555 720.2 0 555 152 1451 720.2 0 1451 153 728 720.2 0 728 154 272 720.2 0 272 155 144 720.2 0 144 156 762 720.2 0 762 157 2928 720.2 0 2928 158 1847 720.2 0 1847 159 265 720.2 0 265 160 107 720.2 0 107 161 160 720.2 0 160 162 90 720.2 0 90 163 61 720.2 0 61 164 64 720.2 0 64 165 246 720.2 0 246 166 243 720.2 0 243 167 261 720.2 0 261 168 127 720.2 0 127 169 179 720.2 0 179 170 406 720.2 0 406 171 845 720.2 0 845 172 473 720.2 0 473 173 161 720.2 0 161 174 66 720.2 0 66 175 74 720.2 0 74 176 278 720.2 0 278 177 735 720.2 0 735 178 737 720.2 0 737 179 347 720.2 0 347 180 35 720.2 0 35 181 56 720.2 0 56 182 58 720.2 0 58 183 112 720.2 0 112 184 49 720.2 0 49 185 57 720.2 0 57 186 40 720.2 0 40 187 25 720.2 0 25 188 68 720.2 0 68 189 43 720.2 0 43 190 40 720.2 0 40 191 28 720.2 0 28 192 23 720.2 0 23 193 21 720.2 0 21 194 29 720.2 0 29 195 30 720.2 0 30 196 43 720.2 0 43 197 34 720.2 0 34 198 27 720.2 0 27 199 37 720.2 0 37 200 73 720.2 0 73 201 127 720.2 0 127 202 67 720.2 0 67 203 44 720.2 0 44 204 25 720.2 0 25 205 31 720.2 0 31 206 31 720.2 0 31 207 40 720.2 0 40 208 36 720.2 0 36 209 36 720.2 0 36 210 19 720.2 0 19 211 31 720.2 0 31 212 31 720.2 0 31 213 41 720.2 0 41 214 31 720.2 0 31 215 56 720.2 0 56 216 57 720.2 0 57 217 47 720.2 0 47 218 42 720.2 0 42 219 30 720.2 0 30 220 46 720.2 0 46 221 50 720.2 0 50 222 25 720.2 0 25 223 63 720.2 0 63 224 80 720.2 0 80 225 41 720.2 0 41 226 108 720.2 0 108 227 52 720.2 0 52 228 187 720.2 0 187 229 99 720.2 0 99 230 174 720.2 0 174 231 106 720.2 0 106 232 65 720.2 0 65 233 110 720.2 0 110 234 321 720.2 0 321 235 353 720.2 0 353 236 125 720.2 0 125 237 92 720.2 0 92 238 229 720.2 0 229 239 77 720.2 0 77 240 90 720.2 0 90 241 58 720.2 0 58 242 46 720.2 0 46 243 60 720.2 0 60 244 62 720.2 0 62 245 54 720.2 0 54 246 54 720.2 0 54 247 59 720.2 0 59 248 97 720.2 0 97 249 225 720.2 0 225 250 233 720.2 0 233 251 225 720.2 0 225 252 162 720.2 0 162 253 1144 720.2 0 1144 254 561 720.2 0 561 255 736 720.2 0 736 256 80 720.2 0 80 257 153 720.2 0 153 258 509 720.2 0 509 259 599 720.2 0 599 260 647 720.2 0 647 261 1966 720.2 0 1966 262 2755 720.2 0 2755 263 5309 720.2 0 5309 264 3714 720.2 0 3714 265 2240 720.2 0 2240 266 53 720.2 0 53 267 36 720.2 0 36 268 41 720.2 0 41 269 38 720.2 0 38 270 34 720.2 0 34 271 33 720.2 0 33 272 46 720.2 0 46 273 49 720.2 0 49 274 57 720.2 0 57 275 40 720.2 0 40 276 75 720.2 0 75 277 273 720.2 0 273 278 322 720.2 0 322 279 162 720.2 0 162 280 38 720.2 0 38 281 73 720.2 0 73 282 46 720.2 0 46 283 74 720.2 0 74 284 57 720.2 0 57 285 82 720.2 0 82 286 48 720.2 0 48 287 217 720.2 0 217 288 569 720.2 0 569 289 252 720.2 0 252 290 56 720.2 0 56 291 95 720.2 0 95 292 181 720.2 0 181 293 112 720.2 0 112 294 144 720.2 0 144 295 124 720.2 0 124 296 160 720.2 0 160 297 139 720.2 0 139 298 1173 720.2 0 1173 299 1044 720.2 0 1044 300 1553 720.2 0 1553 301 62 720.2 0 62 Finished in 3.34 s (69 us/read; 0.87 M reads/minute). === Summary === Total reads processed: 48,595 Reads with adapters: 15,208 (31.3%) Reads that were too short: 8 (0.0%) Reads written (passing filters): 15,200 (31.3%) Total basepairs processed: 11,237,398 bp Total written (filtered): 4,140,422 bp (36.8%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 15208 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 19 59 0.0 3 0 56 1 0 2 20 12782 0.0 4 12586 188 7 0 1 21 26 0.0 4 3 22 1 22 51 0.0 4 2 46 3 23 2079 0.0 4 2036 35 0 7 1 24 10 0.0 4 7 3 26 2 0.0 4 0 0 0 2 39 1 0.0 4 0 0 0 0 1 42 1 0.0 4 0 0 0 0 1 65 1 0.0 4 0 0 0 1 70 39 0.0 4 0 0 0 0 39 106 1 0.0 4 1 125 1 0.0 4 0 0 0 0 1 126 1 0.0 4 0 0 0 0 1 127 147 0.0 4 0 0 0 0 147 128 1 0.0 4 0 0 0 0 1 148 1 0.0 4 0 0 0 1 169 1 0.0 4 0 0 0 0 1 171 1 0.0 4 0 0 0 0 1 282 1 0.0 4 0 0 0 0 1 283 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 0.86 s (57 us/read; 1.06 M reads/minute). === Summary === Total reads processed: 15,200 Reads with adapters: 524 (3.4%) Reads written (passing filters): 15,200 (100.0%) Total basepairs processed: 4,140,422 bp Total written (filtered): 4,134,789 bp (99.9%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 524 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 2.9% C: 2.3% G: 92.9% T: 1.9% 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 11 237.5 0 11 4 1 59.4 0 1 6 1 3.7 0 1 9 151 0.1 0 7 144 10 109 0.0 1 1 108 11 234 0.0 1 2 232 12 12 0.0 1 1 11 13 2 0.0 1 0 2 15 1 0.0 1 0 1 171 1 0.0 1 1 211 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.