This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AAGTGT -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 93.96 s (29 us/read; 2.04 M reads/minute). === Summary === Total reads processed: 3,193,041 Reads with adapters: 48,061 (1.5%) Reads that were too short: 7,444 (0.2%) Reads written (passing filters): 40,617 (1.3%) Total basepairs processed: 961,105,341 bp Total written (filtered): 10,011,784 bp (1.0%) === Adapter 1 === Sequence: AAGTGT; Type: regular 5'; Length: 6; Trimmed: 48061 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 195 779.6 0 195 7 3111 779.6 0 3111 8 22623 779.6 0 22623 9 33 779.6 0 33 10 7 779.6 0 7 11 5 779.6 0 5 12 6 779.6 0 6 13 7 779.6 0 7 14 5 779.6 0 5 15 6 779.6 0 6 16 5 779.6 0 5 17 6 779.6 0 6 18 10 779.6 0 10 19 14 779.6 0 14 20 6 779.6 0 6 21 50 779.6 0 50 22 7 779.6 0 7 23 8 779.6 0 8 24 7 779.6 0 7 25 13 779.6 0 13 26 13 779.6 0 13 27 7 779.6 0 7 28 4 779.6 0 4 29 3 779.6 0 3 30 4 779.6 0 4 31 7 779.6 0 7 32 2 779.6 0 2 33 6 779.6 0 6 34 9 779.6 0 9 35 5 779.6 0 5 36 4 779.6 0 4 37 7 779.6 0 7 38 3 779.6 0 3 39 5 779.6 0 5 40 8 779.6 0 8 41 8 779.6 0 8 42 8 779.6 0 8 43 7 779.6 0 7 44 11 779.6 0 11 45 7 779.6 0 7 46 10 779.6 0 10 47 6 779.6 0 6 48 8 779.6 0 8 49 5 779.6 0 5 50 7 779.6 0 7 51 5 779.6 0 5 52 10 779.6 0 10 53 10 779.6 0 10 54 19 779.6 0 19 55 25 779.6 0 25 56 22 779.6 0 22 57 8 779.6 0 8 58 6 779.6 0 6 59 8 779.6 0 8 60 11 779.6 0 11 61 57 779.6 0 57 62 36 779.6 0 36 63 44 779.6 0 44 64 9 779.6 0 9 65 9 779.6 0 9 66 6 779.6 0 6 67 30 779.6 0 30 68 63 779.6 0 63 69 64 779.6 0 64 70 9 779.6 0 9 71 149 779.6 0 149 72 8 779.6 0 8 73 4 779.6 0 4 74 25 779.6 0 25 75 3 779.6 0 3 76 11 779.6 0 11 77 32 779.6 0 32 78 96 779.6 0 96 79 20 779.6 0 20 80 28 779.6 0 28 81 10 779.6 0 10 82 7 779.6 0 7 83 16 779.6 0 16 84 6 779.6 0 6 85 4 779.6 0 4 86 18 779.6 0 18 87 9 779.6 0 9 88 8 779.6 0 8 89 5 779.6 0 5 90 11 779.6 0 11 91 6 779.6 0 6 92 2 779.6 0 2 93 45 779.6 0 45 94 69 779.6 0 69 95 30 779.6 0 30 96 9 779.6 0 9 97 14 779.6 0 14 98 45 779.6 0 45 99 184 779.6 0 184 100 1186 779.6 0 1186 101 26 779.6 0 26 102 13 779.6 0 13 103 12 779.6 0 12 104 8 779.6 0 8 105 6 779.6 0 6 106 10 779.6 0 10 107 8 779.6 0 8 108 9 779.6 0 9 109 16 779.6 0 16 110 19 779.6 0 19 111 51 779.6 0 51 112 37 779.6 0 37 113 9 779.6 0 9 114 25 779.6 0 25 115 34 779.6 0 34 116 22 779.6 0 22 117 23 779.6 0 23 118 62 779.6 0 62 119 25 779.6 0 25 120 28 779.6 0 28 121 17 779.6 0 17 122 22 779.6 0 22 123 33 779.6 0 33 124 130 779.6 0 130 125 34 779.6 0 34 126 66 779.6 0 66 127 236 779.6 0 236 128 234 779.6 0 234 129 2116 779.6 0 2116 130 3143 779.6 0 3143 131 109 779.6 0 109 132 44 779.6 0 44 133 16 779.6 0 16 134 150 779.6 0 150 135 60 779.6 0 60 136 68 779.6 0 68 137 28 779.6 0 28 138 37 779.6 0 37 139 121 779.6 0 121 140 20 779.6 0 20 141 13 779.6 0 13 142 18 779.6 0 18 143 262 779.6 0 262 144 39 779.6 0 39 145 27 779.6 0 27 146 30 779.6 0 30 147 28 779.6 0 28 148 19 779.6 0 19 149 16 779.6 0 16 150 9 779.6 0 9 151 12 779.6 0 12 152 17 779.6 0 17 153 11 779.6 0 11 154 20 779.6 0 20 155 31 779.6 0 31 156 152 779.6 0 152 157 39 779.6 0 39 158 60 779.6 0 60 159 31 779.6 0 31 160 25 779.6 0 25 161 14 779.6 0 14 162 26 779.6 0 26 163 24 779.6 0 24 164 28 779.6 0 28 165 35 779.6 0 35 166 65 779.6 0 65 167 91 779.6 0 91 168 87 779.6 0 87 169 18 779.6 0 18 170 14 779.6 0 14 171 20 779.6 0 20 172 17 779.6 0 17 173 30 779.6 0 30 174 36 779.6 0 36 175 13 779.6 0 13 176 38 779.6 0 38 177 7 779.6 0 7 178 29 779.6 0 29 179 55 779.6 0 55 180 49 779.6 0 49 181 33 779.6 0 33 182 55 779.6 0 55 183 37 779.6 0 37 184 46 779.6 0 46 185 42 779.6 0 42 186 27 779.6 0 27 187 20 779.6 0 20 188 21 779.6 0 21 189 21 779.6 0 21 190 47 779.6 0 47 191 78 779.6 0 78 192 111 779.6 0 111 193 37 779.6 0 37 194 37 779.6 0 37 195 90 779.6 0 90 196 250 779.6 0 250 197 856 779.6 0 856 198 715 779.6 0 715 199 562 779.6 0 562 200 38 779.6 0 38 201 13 779.6 0 13 202 28 779.6 0 28 203 84 779.6 0 84 204 88 779.6 0 88 205 26 779.6 0 26 206 28 779.6 0 28 207 12 779.6 0 12 208 29 779.6 0 29 209 29 779.6 0 29 210 81 779.6 0 81 211 154 779.6 0 154 212 151 779.6 0 151 213 69 779.6 0 69 214 41 779.6 0 41 215 42 779.6 0 42 216 56 779.6 0 56 217 113 779.6 0 113 218 59 779.6 0 59 219 143 779.6 0 143 220 146 779.6 0 146 221 97 779.6 0 97 222 163 779.6 0 163 223 279 779.6 0 279 224 87 779.6 0 87 225 72 779.6 0 72 226 55 779.6 0 55 227 43 779.6 0 43 228 39 779.6 0 39 229 22 779.6 0 22 230 12 779.6 0 12 231 13 779.6 0 13 232 23 779.6 0 23 233 34 779.6 0 34 234 50 779.6 0 50 235 85 779.6 0 85 236 40 779.6 0 40 237 35 779.6 0 35 238 107 779.6 0 107 239 170 779.6 0 170 240 197 779.6 0 197 241 57 779.6 0 57 242 153 779.6 0 153 243 86 779.6 0 86 244 104 779.6 0 104 245 65 779.6 0 65 246 70 779.6 0 70 247 35 779.6 0 35 248 18 779.6 0 18 249 26 779.6 0 26 250 43 779.6 0 43 251 357 779.6 0 357 252 184 779.6 0 184 253 67 779.6 0 67 254 68 779.6 0 68 255 94 779.6 0 94 256 301 779.6 0 301 257 25 779.6 0 25 258 13 779.6 0 13 259 22 779.6 0 22 260 24 779.6 0 24 261 47 779.6 0 47 262 162 779.6 0 162 263 296 779.6 0 296 264 373 779.6 0 373 265 81 779.6 0 81 266 36 779.6 0 36 267 24 779.6 0 24 268 13 779.6 0 13 269 14 779.6 0 14 270 24 779.6 0 24 271 39 779.6 0 39 272 160 779.6 0 160 273 238 779.6 0 238 274 86 779.6 0 86 275 29 779.6 0 29 276 30 779.6 0 30 277 30 779.6 0 30 278 65 779.6 0 65 279 48 779.6 0 48 280 26 779.6 0 26 281 14 779.6 0 14 282 19 779.6 0 19 283 58 779.6 0 58 284 32 779.6 0 32 285 48 779.6 0 48 286 19 779.6 0 19 287 14 779.6 0 14 288 11 779.6 0 11 289 16 779.6 0 16 290 37 779.6 0 37 291 53 779.6 0 53 292 39 779.6 0 39 293 19 779.6 0 19 294 7 779.6 0 7 295 8 779.6 0 8 296 8 779.6 0 8 297 27 779.6 0 27 298 29 779.6 0 29 299 83 779.6 0 83 300 156 779.6 0 156 301 112 779.6 0 112 Finished in 1.91 s (47 us/read; 1.28 M reads/minute). === Summary === Total reads processed: 40,617 Reads with adapters: 23,650 (58.2%) Reads that were too short: 4 (0.0%) Reads written (passing filters): 23,646 (58.2%) Total basepairs processed: 10,011,784 bp Total written (filtered): 6,448,790 bp (64.4%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 23650 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 1 0.0 3 0 0 0 0 1 17 3 0.0 3 0 0 0 1 2 18 10 0.0 3 0 0 10 19 342 0.0 3 0 337 4 1 20 23129 0.0 4 22813 305 10 1 21 70 0.0 4 15 54 1 22 9 0.0 4 1 0 5 0 3 23 15 0.0 4 3 0 0 11 1 32 31 0.0 4 0 0 0 0 31 40 1 0.0 4 0 0 0 0 1 43 1 0.0 4 1 58 2 0.0 4 0 0 0 0 2 65 1 0.0 4 0 0 0 0 1 112 1 0.0 4 0 0 0 0 1 126 1 0.0 4 0 0 0 0 1 127 32 0.0 4 0 0 0 0 32 184 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 0.90 s (38 us/read; 1.58 M reads/minute). === Summary === Total reads processed: 23,646 Reads with adapters: 617 (2.6%) Reads written (passing filters): 23,646 (100.0%) Total basepairs processed: 6,448,790 bp Total written (filtered): 6,440,922 bp (99.9%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 617 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.1% C: 0.5% G: 97.9% T: 0.5% 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 4 1 92.4 0 1 9 1 0.1 0 0 1 10 34 0.0 1 2 32 11 574 0.0 1 2 572 12 1 0.0 1 0 1 64 1 0.0 1 1 208 1 0.0 1 0 1 209 2 0.0 1 1 1 230 1 0.0 1 1 269 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.