This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TTCGGA -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 66.31 s (26 us/read; 2.30 M reads/minute). === Summary === Total reads processed: 2,546,118 Reads with adapters: 269,418 (10.6%) Reads that were too short: 32,988 (1.3%) Reads written (passing filters): 236,430 (9.3%) Total basepairs processed: 766,381,518 bp Total written (filtered): 51,678,217 bp (6.7%) === Adapter 1 === Sequence: TTCGGA; Type: regular 5'; Length: 6; Trimmed: 269418 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 199 621.6 0 199 7 513 621.6 0 513 8 4779 621.6 0 4779 9 9192 621.6 0 9192 10 35667 621.6 0 35667 11 45 621.6 0 45 12 42 621.6 0 42 13 22 621.6 0 22 14 17 621.6 0 17 15 17 621.6 0 17 16 26 621.6 0 26 17 27 621.6 0 27 18 19 621.6 0 19 19 47 621.6 0 47 20 31 621.6 0 31 21 50 621.6 0 50 22 42 621.6 0 42 23 36 621.6 0 36 24 55 621.6 0 55 25 46 621.6 0 46 26 58 621.6 0 58 27 56 621.6 0 56 28 41 621.6 0 41 29 34 621.6 0 34 30 43 621.6 0 43 31 39 621.6 0 39 32 37 621.6 0 37 33 41 621.6 0 41 34 23 621.6 0 23 35 41 621.6 0 41 36 40 621.6 0 40 37 24 621.6 0 24 38 51 621.6 0 51 39 51 621.6 0 51 40 86 621.6 0 86 41 108 621.6 0 108 42 49 621.6 0 49 43 44 621.6 0 44 44 19 621.6 0 19 45 28 621.6 0 28 46 27 621.6 0 27 47 39 621.6 0 39 48 85 621.6 0 85 49 58 621.6 0 58 50 61 621.6 0 61 51 53 621.6 0 53 52 116 621.6 0 116 53 85 621.6 0 85 54 103 621.6 0 103 55 30 621.6 0 30 56 37 621.6 0 37 57 49 621.6 0 49 58 47 621.6 0 47 59 42 621.6 0 42 60 70 621.6 0 70 61 49 621.6 0 49 62 44 621.6 0 44 63 41 621.6 0 41 64 35 621.6 0 35 65 54 621.6 0 54 66 90 621.6 0 90 67 55 621.6 0 55 68 138 621.6 0 138 69 99 621.6 0 99 70 157 621.6 0 157 71 363 621.6 0 363 72 596 621.6 0 596 73 278 621.6 0 278 74 101 621.6 0 101 75 109 621.6 0 109 76 157 621.6 0 157 77 212 621.6 0 212 78 414 621.6 0 414 79 872 621.6 0 872 80 232 621.6 0 232 81 309 621.6 0 309 82 547 621.6 0 547 83 262 621.6 0 262 84 292 621.6 0 292 85 652 621.6 0 652 86 561 621.6 0 561 87 670 621.6 0 670 88 599 621.6 0 599 89 905 621.6 0 905 90 1524 621.6 0 1524 91 2010 621.6 0 2010 92 46998 621.6 0 46998 93 37860 621.6 0 37860 94 65978 621.6 0 65978 95 804 621.6 0 804 96 34 621.6 0 34 97 25 621.6 0 25 98 39 621.6 0 39 99 21 621.6 0 21 100 27 621.6 0 27 101 23 621.6 0 23 102 22 621.6 0 22 103 28 621.6 0 28 104 26 621.6 0 26 105 24 621.6 0 24 106 15 621.6 0 15 107 23 621.6 0 23 108 67 621.6 0 67 109 73 621.6 0 73 110 24 621.6 0 24 111 20 621.6 0 20 112 46 621.6 0 46 113 23 621.6 0 23 114 37 621.6 0 37 115 26 621.6 0 26 116 22 621.6 0 22 117 30 621.6 0 30 118 23 621.6 0 23 119 11 621.6 0 11 120 20 621.6 0 20 121 11 621.6 0 11 122 21 621.6 0 21 123 21 621.6 0 21 124 20 621.6 0 20 125 35 621.6 0 35 126 33 621.6 0 33 127 19 621.6 0 19 128 45 621.6 0 45 129 30 621.6 0 30 130 20 621.6 0 20 131 20 621.6 0 20 132 26 621.6 0 26 133 23 621.6 0 23 134 16 621.6 0 16 135 41 621.6 0 41 136 33 621.6 0 33 137 43 621.6 0 43 138 59 621.6 0 59 139 43 621.6 0 43 140 35 621.6 0 35 141 27 621.6 0 27 142 27 621.6 0 27 143 41 621.6 0 41 144 34 621.6 0 34 145 31 621.6 0 31 146 21 621.6 0 21 147 30 621.6 0 30 148 42 621.6 0 42 149 39 621.6 0 39 150 31 621.6 0 31 151 43 621.6 0 43 152 22 621.6 0 22 153 22 621.6 0 22 154 27 621.6 0 27 155 24 621.6 0 24 156 33 621.6 0 33 157 34 621.6 0 34 158 22 621.6 0 22 159 45 621.6 0 45 160 26 621.6 0 26 161 28 621.6 0 28 162 22 621.6 0 22 163 28 621.6 0 28 164 20 621.6 0 20 165 42 621.6 0 42 166 21 621.6 0 21 167 29 621.6 0 29 168 23 621.6 0 23 169 26 621.6 0 26 170 17 621.6 0 17 171 39 621.6 0 39 172 24 621.6 0 24 173 33 621.6 0 33 174 26 621.6 0 26 175 43 621.6 0 43 176 47 621.6 0 47 177 141 621.6 0 141 178 298 621.6 0 298 179 153 621.6 0 153 180 142 621.6 0 142 181 37 621.6 0 37 182 39 621.6 0 39 183 72 621.6 0 72 184 58 621.6 0 58 185 62 621.6 0 62 186 87 621.6 0 87 187 147 621.6 0 147 188 293 621.6 0 293 189 99 621.6 0 99 190 153 621.6 0 153 191 296 621.6 0 296 192 225 621.6 0 225 193 89 621.6 0 89 194 167 621.6 0 167 195 167 621.6 0 167 196 190 621.6 0 190 197 138 621.6 0 138 198 237 621.6 0 237 199 367 621.6 0 367 200 632 621.6 0 632 201 12975 621.6 0 12975 202 6317 621.6 0 6317 203 13913 621.6 0 13913 204 225 621.6 0 225 205 494 621.6 0 494 206 640 621.6 0 640 207 664 621.6 0 664 208 227 621.6 0 227 209 110 621.6 0 110 210 89 621.6 0 89 211 164 621.6 0 164 212 62 621.6 0 62 213 67 621.6 0 67 214 31 621.6 0 31 215 66 621.6 0 66 216 57 621.6 0 57 217 155 621.6 0 155 218 67 621.6 0 67 219 25 621.6 0 25 220 71 621.6 0 71 221 168 621.6 0 168 222 56 621.6 0 56 223 222 621.6 0 222 224 63 621.6 0 63 225 284 621.6 0 284 226 890 621.6 0 890 227 798 621.6 0 798 228 490 621.6 0 490 229 220 621.6 0 220 230 21 621.6 0 21 231 19 621.6 0 19 232 24 621.6 0 24 233 25 621.6 0 25 234 21 621.6 0 21 235 34 621.6 0 34 236 45 621.6 0 45 237 29 621.6 0 29 238 79 621.6 0 79 239 35 621.6 0 35 240 21 621.6 0 21 241 25 621.6 0 25 242 25 621.6 0 25 243 39 621.6 0 39 244 19 621.6 0 19 245 27 621.6 0 27 246 48 621.6 0 48 247 42 621.6 0 42 248 32 621.6 0 32 249 60 621.6 0 60 250 34 621.6 0 34 251 28 621.6 0 28 252 20 621.6 0 20 253 39 621.6 0 39 254 31 621.6 0 31 255 25 621.6 0 25 256 30 621.6 0 30 257 37 621.6 0 37 258 68 621.6 0 68 259 407 621.6 0 407 260 618 621.6 0 618 261 782 621.6 0 782 262 375 621.6 0 375 263 114 621.6 0 114 264 27 621.6 0 27 265 35 621.6 0 35 266 32 621.6 0 32 267 26 621.6 0 26 268 26 621.6 0 26 269 38 621.6 0 38 270 73 621.6 0 73 271 123 621.6 0 123 272 120 621.6 0 120 273 52 621.6 0 52 274 36 621.6 0 36 275 76 621.6 0 76 276 30 621.6 0 30 277 54 621.6 0 54 278 42 621.6 0 42 279 41 621.6 0 41 280 107 621.6 0 107 281 99 621.6 0 99 282 88 621.6 0 88 283 190 621.6 0 190 284 107 621.6 0 107 285 139 621.6 0 139 286 151 621.6 0 151 287 304 621.6 0 304 288 30 621.6 0 30 289 32 621.6 0 32 290 27 621.6 0 27 291 24 621.6 0 24 292 21 621.6 0 21 293 47 621.6 0 47 294 36 621.6 0 36 295 39 621.6 0 39 296 81 621.6 0 81 297 361 621.6 0 361 298 149 621.6 0 149 299 166 621.6 0 166 300 24 621.6 0 24 301 22 621.6 0 22 Finished in 10.19 s (43 us/read; 1.39 M reads/minute). === Summary === Total reads processed: 236,430 Reads with adapters: 3,884 (1.6%) Reads that were too short: 29 (0.0%) Reads written (passing filters): 3,855 (1.6%) Total basepairs processed: 51,678,217 bp Total written (filtered): 1,047,233 bp (2.0%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 3884 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 18 3 0.0 3 0 0 2 0 1 19 67 0.0 3 0 67 20 3758 0.0 4 3705 52 0 1 21 8 0.0 4 2 6 22 1 0.0 4 0 0 1 23 5 0.0 4 2 0 0 3 37 1 0.0 4 0 0 0 0 1 38 1 0.0 4 0 0 0 0 1 42 1 0.0 4 0 0 0 0 1 43 1 0.0 4 0 0 0 0 1 50 1 0.0 4 0 1 68 7 0.0 4 0 0 0 0 7 92 2 0.0 4 0 0 0 0 2 94 1 0.0 4 0 0 0 0 1 103 1 0.0 4 1 133 1 0.0 4 1 136 2 0.0 4 0 0 0 0 2 140 1 0.0 4 0 0 0 0 1 148 2 0.0 4 0 0 1 0 1 150 3 0.0 4 0 0 0 0 3 151 3 0.0 4 0 0 0 0 3 166 1 0.0 4 0 0 0 0 1 174 1 0.0 4 0 0 0 0 1 185 1 0.0 4 1 190 1 0.0 4 1 196 1 0.0 4 0 0 0 0 1 198 4 0.0 4 0 0 0 0 4 228 1 0.0 4 0 0 0 0 1 254 2 0.0 4 0 0 0 0 2 279 1 0.0 4 0 0 0 1 293 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 0.14 s (36 us/read; 1.65 M reads/minute). === Summary === Total reads processed: 3,855 Reads with adapters: 1,044 (27.1%) Reads written (passing filters): 3,855 (100.0%) Total basepairs processed: 1,047,233 bp Total written (filtered): 1,037,256 bp (99.0%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 1044 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 0.5% C: 1.9% G: 96.5% T: 1.1% 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 4 1 15.1 0 1 9 786 0.0 0 29 757 10 207 0.0 1 3 204 11 47 0.0 1 1 46 12 1 0.0 1 0 1 150 2 0.0 1 0 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.