This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AATAGG -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 92.15 s (30 us/read; 2.01 M reads/minute). === Summary === Total reads processed: 3,094,653 Reads with adapters: 48,854 (1.6%) Reads that were too short: 14,931 (0.5%) Reads written (passing filters): 33,923 (1.1%) Total basepairs processed: 931,490,553 bp Total written (filtered): 7,976,218 bp (0.9%) === Adapter 1 === Sequence: AATAGG; Type: regular 5'; Length: 6; Trimmed: 48854 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 89 755.5 0 89 7 79 755.5 0 79 8 462 755.5 0 462 9 13223 755.5 0 13223 10 44 755.5 0 44 11 6 755.5 0 6 12 3 755.5 0 3 13 5 755.5 0 5 14 2 755.5 0 2 15 5 755.5 0 5 16 5 755.5 0 5 17 4 755.5 0 4 18 23 755.5 0 23 19 9 755.5 0 9 20 5 755.5 0 5 21 3 755.5 0 3 22 2 755.5 0 2 23 8 755.5 0 8 24 10 755.5 0 10 25 16 755.5 0 16 26 70 755.5 0 70 27 37 755.5 0 37 28 65 755.5 0 65 29 35 755.5 0 35 30 84 755.5 0 84 31 281 755.5 0 281 32 4549 755.5 0 4549 33 16 755.5 0 16 34 3 755.5 0 3 35 9 755.5 0 9 36 5 755.5 0 5 37 3 755.5 0 3 38 2 755.5 0 2 39 3 755.5 0 3 40 5 755.5 0 5 41 8 755.5 0 8 42 4 755.5 0 4 43 11 755.5 0 11 44 13 755.5 0 13 45 192 755.5 0 192 46 75 755.5 0 75 47 303 755.5 0 303 48 4 755.5 0 4 49 3 755.5 0 3 50 3 755.5 0 3 51 21 755.5 0 21 52 10 755.5 0 10 53 11 755.5 0 11 54 2 755.5 0 2 55 3 755.5 0 3 56 3 755.5 0 3 57 3 755.5 0 3 58 4 755.5 0 4 59 10 755.5 0 10 60 6 755.5 0 6 61 3 755.5 0 3 62 5 755.5 0 5 63 3 755.5 0 3 64 3 755.5 0 3 66 3 755.5 0 3 67 3 755.5 0 3 68 5 755.5 0 5 69 2 755.5 0 2 70 9 755.5 0 9 71 15 755.5 0 15 72 8 755.5 0 8 73 7 755.5 0 7 74 1 755.5 0 1 75 2 755.5 0 2 76 12 755.5 0 12 77 143 755.5 0 143 78 48 755.5 0 48 79 34 755.5 0 34 80 23 755.5 0 23 81 17 755.5 0 17 82 18 755.5 0 18 83 19 755.5 0 19 84 22 755.5 0 22 85 5 755.5 0 5 86 7 755.5 0 7 87 14 755.5 0 14 88 19 755.5 0 19 89 5 755.5 0 5 90 71 755.5 0 71 91 51 755.5 0 51 92 157 755.5 0 157 93 684 755.5 0 684 94 229 755.5 0 229 95 278 755.5 0 278 96 50 755.5 0 50 97 287 755.5 0 287 98 96 755.5 0 96 99 81 755.5 0 81 100 190 755.5 0 190 101 42 755.5 0 42 102 15 755.5 0 15 103 10 755.5 0 10 104 30 755.5 0 30 105 8 755.5 0 8 106 32 755.5 0 32 107 43 755.5 0 43 108 9 755.5 0 9 109 29 755.5 0 29 110 68 755.5 0 68 111 33 755.5 0 33 112 30 755.5 0 30 113 175 755.5 0 175 114 342 755.5 0 342 115 1862 755.5 0 1862 116 245 755.5 0 245 117 72 755.5 0 72 118 135 755.5 0 135 119 109 755.5 0 109 120 52 755.5 0 52 121 56 755.5 0 56 122 45 755.5 0 45 123 51 755.5 0 51 124 69 755.5 0 69 125 60 755.5 0 60 126 28 755.5 0 28 127 11 755.5 0 11 128 83 755.5 0 83 129 172 755.5 0 172 130 131 755.5 0 131 131 203 755.5 0 203 132 92 755.5 0 92 133 119 755.5 0 119 134 122 755.5 0 122 135 533 755.5 0 533 136 311 755.5 0 311 137 296 755.5 0 296 138 216 755.5 0 216 139 147 755.5 0 147 140 75 755.5 0 75 141 86 755.5 0 86 142 95 755.5 0 95 143 190 755.5 0 190 144 97 755.5 0 97 145 51 755.5 0 51 146 66 755.5 0 66 147 33 755.5 0 33 148 21 755.5 0 21 149 40 755.5 0 40 150 38 755.5 0 38 151 30 755.5 0 30 152 65 755.5 0 65 153 53 755.5 0 53 154 78 755.5 0 78 155 94 755.5 0 94 156 82 755.5 0 82 157 107 755.5 0 107 158 75 755.5 0 75 159 46 755.5 0 46 160 61 755.5 0 61 161 45 755.5 0 45 162 80 755.5 0 80 163 106 755.5 0 106 164 131 755.5 0 131 165 99 755.5 0 99 166 64 755.5 0 64 167 133 755.5 0 133 168 105 755.5 0 105 169 79 755.5 0 79 170 93 755.5 0 93 171 115 755.5 0 115 172 44 755.5 0 44 173 68 755.5 0 68 174 42 755.5 0 42 175 38 755.5 0 38 176 35 755.5 0 35 177 59 755.5 0 59 178 135 755.5 0 135 179 141 755.5 0 141 180 160 755.5 0 160 181 98 755.5 0 98 182 119 755.5 0 119 183 97 755.5 0 97 184 128 755.5 0 128 185 77 755.5 0 77 186 37 755.5 0 37 187 47 755.5 0 47 188 41 755.5 0 41 189 125 755.5 0 125 190 335 755.5 0 335 191 263 755.5 0 263 192 107 755.5 0 107 193 56 755.5 0 56 194 37 755.5 0 37 195 82 755.5 0 82 196 80 755.5 0 80 197 76 755.5 0 76 198 119 755.5 0 119 199 56 755.5 0 56 200 44 755.5 0 44 201 70 755.5 0 70 202 511 755.5 0 511 203 2120 755.5 0 2120 204 823 755.5 0 823 205 107 755.5 0 107 206 78 755.5 0 78 207 63 755.5 0 63 208 78 755.5 0 78 209 239 755.5 0 239 210 448 755.5 0 448 211 232 755.5 0 232 212 192 755.5 0 192 213 76 755.5 0 76 214 87 755.5 0 87 215 176 755.5 0 176 216 160 755.5 0 160 217 148 755.5 0 148 218 99 755.5 0 99 219 27 755.5 0 27 220 67 755.5 0 67 221 128 755.5 0 128 222 97 755.5 0 97 223 194 755.5 0 194 224 274 755.5 0 274 225 366 755.5 0 366 226 299 755.5 0 299 227 677 755.5 0 677 228 235 755.5 0 235 229 60 755.5 0 60 230 33 755.5 0 33 231 63 755.5 0 63 232 100 755.5 0 100 233 112 755.5 0 112 234 239 755.5 0 239 235 283 755.5 0 283 236 339 755.5 0 339 237 219 755.5 0 219 238 86 755.5 0 86 239 32 755.5 0 32 240 45 755.5 0 45 241 82 755.5 0 82 242 89 755.5 0 89 243 89 755.5 0 89 244 73 755.5 0 73 245 60 755.5 0 60 246 45 755.5 0 45 247 24 755.5 0 24 248 38 755.5 0 38 249 29 755.5 0 29 250 87 755.5 0 87 251 97 755.5 0 97 252 187 755.5 0 187 253 148 755.5 0 148 254 95 755.5 0 95 255 62 755.5 0 62 256 26 755.5 0 26 257 33 755.5 0 33 258 39 755.5 0 39 259 57 755.5 0 57 260 84 755.5 0 84 261 104 755.5 0 104 262 94 755.5 0 94 263 104 755.5 0 104 264 110 755.5 0 110 265 83 755.5 0 83 266 40 755.5 0 40 267 20 755.5 0 20 268 21 755.5 0 21 269 37 755.5 0 37 270 161 755.5 0 161 271 174 755.5 0 174 272 95 755.5 0 95 273 80 755.5 0 80 274 37 755.5 0 37 275 51 755.5 0 51 276 46 755.5 0 46 277 81 755.5 0 81 278 73 755.5 0 73 279 35 755.5 0 35 280 34 755.5 0 34 281 43 755.5 0 43 282 68 755.5 0 68 283 63 755.5 0 63 284 73 755.5 0 73 285 66 755.5 0 66 286 46 755.5 0 46 287 26 755.5 0 26 288 38 755.5 0 38 289 103 755.5 0 103 290 155 755.5 0 155 291 173 755.5 0 173 292 195 755.5 0 195 293 33 755.5 0 33 294 47 755.5 0 47 295 71 755.5 0 71 296 172 755.5 0 172 297 422 755.5 0 422 298 193 755.5 0 193 299 174 755.5 0 174 300 148 755.5 0 148 301 86 755.5 0 86 Finished in 1.63 s (48 us/read; 1.25 M reads/minute). === Summary === Total reads processed: 33,923 Reads with adapters: 13,750 (40.5%) Reads that were too short: 5 (0.0%) Reads written (passing filters): 13,745 (40.5%) Total basepairs processed: 7,976,218 bp Total written (filtered): 3,736,315 bp (46.8%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 13750 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 1 2 19 105 0.0 3 0 101 1 0 3 20 13561 0.0 4 13378 176 6 1 21 40 0.0 4 14 24 1 0 1 22 2 0.0 4 2 23 6 0.0 4 1 0 0 5 24 2 0.0 4 1 0 0 0 1 25 2 0.0 4 0 0 0 0 2 30 1 0.0 4 0 0 0 0 1 35 1 0.0 4 1 45 1 0.0 4 0 0 0 0 1 47 14 0.0 4 0 0 0 1 13 69 2 0.0 4 0 0 0 0 2 82 1 0.0 4 0 0 0 0 1 84 1 0.0 4 0 0 0 0 1 89 3 0.0 4 0 0 0 0 3 99 1 0.0 4 0 0 0 0 1 115 1 0.0 4 0 0 0 0 1 129 1 0.0 4 0 0 0 0 1 191 1 0.0 4 0 0 0 0 1 217 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 0.52 s (38 us/read; 1.59 M reads/minute). === Summary === Total reads processed: 13,745 Reads with adapters: 211 (1.5%) Reads written (passing filters): 13,745 (100.0%) Total basepairs processed: 3,736,315 bp Total written (filtered): 3,733,083 bp (99.9%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 211 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 3.3% C: 1.4% G: 91.9% T: 2.4% none/other: 0.9% 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 1 214.8 0 1 4 1 53.7 0 1 5 1 13.4 0 1 9 11 0.1 0 0 11 10 72 0.0 1 2 70 11 121 0.0 1 0 121 258 1 0.0 1 1 268 1 0.0 1 1 272 2 0.0 1 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.