This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g ATAATT -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 55.21 s (25 us/read; 2.43 M reads/minute). === Summary === Total reads processed: 2,238,925 Reads with adapters: 453,875 (20.3%) Reads that were too short: 418,169 (18.7%) Reads written (passing filters): 35,706 (1.6%) Total basepairs processed: 673,916,425 bp Total written (filtered): 7,882,988 bp (1.2%) === Adapter 1 === Sequence: ATAATT; Type: regular 5'; Length: 6; Trimmed: 453875 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 117 546.6 0 117 7 7857 546.6 0 7857 8 173 546.6 0 173 9 6934 546.6 0 6934 10 58 546.6 0 58 11 40 546.6 0 40 12 41 546.6 0 41 13 40 546.6 0 40 14 43 546.6 0 43 15 38 546.6 0 38 16 35 546.6 0 35 17 34 546.6 0 34 18 36 546.6 0 36 19 33 546.6 0 33 20 25 546.6 0 25 21 29 546.6 0 29 22 38 546.6 0 38 23 51 546.6 0 51 24 32 546.6 0 32 25 34 546.6 0 34 26 32 546.6 0 32 27 32 546.6 0 32 28 48 546.6 0 48 29 40 546.6 0 40 30 43 546.6 0 43 31 60 546.6 0 60 32 36 546.6 0 36 33 37 546.6 0 37 34 22 546.6 0 22 35 39 546.6 0 39 36 119 546.6 0 119 37 136 546.6 0 136 38 152 546.6 0 152 39 23 546.6 0 23 40 37 546.6 0 37 41 31 546.6 0 31 42 47 546.6 0 47 43 41 546.6 0 41 44 37 546.6 0 37 45 45 546.6 0 45 46 28 546.6 0 28 47 28 546.6 0 28 48 29 546.6 0 29 49 26 546.6 0 26 50 32 546.6 0 32 51 22 546.6 0 22 52 41 546.6 0 41 53 35 546.6 0 35 54 29 546.6 0 29 55 20 546.6 0 20 56 27 546.6 0 27 57 36 546.6 0 36 58 17 546.6 0 17 59 44 546.6 0 44 60 46 546.6 0 46 61 22 546.6 0 22 62 28 546.6 0 28 63 16 546.6 0 16 64 28 546.6 0 28 65 26 546.6 0 26 66 41 546.6 0 41 67 35 546.6 0 35 68 36 546.6 0 36 69 40 546.6 0 40 70 61 546.6 0 61 71 156 546.6 0 156 72 54 546.6 0 54 73 88 546.6 0 88 74 34 546.6 0 34 75 36 546.6 0 36 76 45 546.6 0 45 77 53 546.6 0 53 78 121 546.6 0 121 79 48 546.6 0 48 80 54 546.6 0 54 81 65 546.6 0 65 82 73 546.6 0 73 83 65 546.6 0 65 84 70 546.6 0 70 85 60 546.6 0 60 86 89 546.6 0 89 87 67 546.6 0 67 88 83 546.6 0 83 89 56 546.6 0 56 90 52 546.6 0 52 91 54 546.6 0 54 92 54 546.6 0 54 93 53 546.6 0 53 94 60 546.6 0 60 95 56 546.6 0 56 96 74 546.6 0 74 97 70 546.6 0 70 98 71 546.6 0 71 99 71 546.6 0 71 100 59 546.6 0 59 101 60 546.6 0 60 102 48 546.6 0 48 103 57 546.6 0 57 104 62 546.6 0 62 105 62 546.6 0 62 106 74 546.6 0 74 107 64 546.6 0 64 108 63 546.6 0 63 109 68 546.6 0 68 110 75 546.6 0 75 111 99 546.6 0 99 112 77 546.6 0 77 113 62 546.6 0 62 114 54 546.6 0 54 115 66 546.6 0 66 116 63 546.6 0 63 117 56 546.6 0 56 118 549 546.6 0 549 119 97 546.6 0 97 120 146 546.6 0 146 121 91 546.6 0 91 122 103 546.6 0 103 123 118 546.6 0 118 124 200 546.6 0 200 125 98 546.6 0 98 126 74 546.6 0 74 127 77 546.6 0 77 128 79 546.6 0 79 129 61 546.6 0 61 130 65 546.6 0 65 131 141 546.6 0 141 132 85 546.6 0 85 133 110 546.6 0 110 134 81 546.6 0 81 135 61 546.6 0 61 136 72 546.6 0 72 137 49 546.6 0 49 138 134 546.6 0 134 139 261 546.6 0 261 140 185 546.6 0 185 141 209 546.6 0 209 142 85 546.6 0 85 143 64 546.6 0 64 144 66 546.6 0 66 145 89 546.6 0 89 146 84 546.6 0 84 147 88 546.6 0 88 148 86 546.6 0 86 149 60 546.6 0 60 150 32 546.6 0 32 151 39 546.6 0 39 152 55 546.6 0 55 153 59 546.6 0 59 154 95 546.6 0 95 155 120 546.6 0 120 156 107 546.6 0 107 157 160 546.6 0 160 158 238 546.6 0 238 159 2735 546.6 0 2735 160 1719 546.6 0 1719 161 3220 546.6 0 3220 162 69 546.6 0 69 163 53 546.6 0 53 164 57 546.6 0 57 165 62 546.6 0 62 166 67 546.6 0 67 167 95 546.6 0 95 168 72 546.6 0 72 169 67 546.6 0 67 170 62 546.6 0 62 171 60 546.6 0 60 172 68 546.6 0 68 173 91 546.6 0 91 174 73 546.6 0 73 175 75 546.6 0 75 176 66 546.6 0 66 177 60 546.6 0 60 178 40 546.6 0 40 179 48 546.6 0 48 180 61 546.6 0 61 181 68 546.6 0 68 182 49 546.6 0 49 183 54 546.6 0 54 184 62 546.6 0 62 185 68 546.6 0 68 186 55 546.6 0 55 187 66 546.6 0 66 188 59 546.6 0 59 189 60 546.6 0 60 190 52 546.6 0 52 191 51 546.6 0 51 192 72 546.6 0 72 193 90 546.6 0 90 194 83 546.6 0 83 195 93 546.6 0 93 196 83 546.6 0 83 197 115 546.6 0 115 198 81 546.6 0 81 199 80 546.6 0 80 200 74 546.6 0 74 201 59 546.6 0 59 202 80 546.6 0 80 203 80 546.6 0 80 204 75 546.6 0 75 205 82 546.6 0 82 206 121 546.6 0 121 207 181 546.6 0 181 208 166 546.6 0 166 209 338 546.6 0 338 210 201 546.6 0 201 211 210 546.6 0 210 212 129 546.6 0 129 213 152 546.6 0 152 214 162 546.6 0 162 215 67 546.6 0 67 216 80 546.6 0 80 217 117 546.6 0 117 218 444 546.6 0 444 219 186 546.6 0 186 220 115 546.6 0 115 221 154 546.6 0 154 222 125 546.6 0 125 223 100 546.6 0 100 224 150 546.6 0 150 225 257 546.6 0 257 226 99 546.6 0 99 227 180 546.6 0 180 228 688 546.6 0 688 229 155 546.6 0 155 230 97 546.6 0 97 231 122 546.6 0 122 232 439 546.6 0 439 233 148 546.6 0 148 234 512 546.6 0 512 235 174 546.6 0 174 236 218 546.6 0 218 237 422 546.6 0 422 238 1201 546.6 0 1201 239 234 546.6 0 234 240 445 546.6 0 445 241 277 546.6 0 277 242 263 546.6 0 263 243 505 546.6 0 505 244 236 546.6 0 236 245 232 546.6 0 232 246 156 546.6 0 156 247 212 546.6 0 212 248 438 546.6 0 438 249 458 546.6 0 458 250 844 546.6 0 844 251 1522 546.6 0 1522 252 2123 546.6 0 2123 253 4612 546.6 0 4612 254 16571 546.6 0 16571 255 194441 546.6 0 194441 256 110080 546.6 0 110080 257 70983 546.6 0 70983 258 2334 546.6 0 2334 259 108 546.6 0 108 260 178 546.6 0 178 261 112 546.6 0 112 262 110 546.6 0 110 263 65 546.6 0 65 264 64 546.6 0 64 265 59 546.6 0 59 266 120 546.6 0 120 267 185 546.6 0 185 268 152 546.6 0 152 269 50 546.6 0 50 270 54 546.6 0 54 271 53 546.6 0 53 272 52 546.6 0 52 273 71 546.6 0 71 274 61 546.6 0 61 275 49 546.6 0 49 276 51 546.6 0 51 277 45 546.6 0 45 278 53 546.6 0 53 279 49 546.6 0 49 280 55 546.6 0 55 281 72 546.6 0 72 282 64 546.6 0 64 283 62 546.6 0 62 284 48 546.6 0 48 285 37 546.6 0 37 286 40 546.6 0 40 287 39 546.6 0 39 288 43 546.6 0 43 289 38 546.6 0 38 290 47 546.6 0 47 291 53 546.6 0 53 292 48 546.6 0 48 293 39 546.6 0 39 294 44 546.6 0 44 295 75 546.6 0 75 296 48 546.6 0 48 297 40 546.6 0 40 298 46 546.6 0 46 299 72 546.6 0 72 300 109 546.6 0 109 301 116 546.6 0 116 Finished in 1.57 s (44 us/read; 1.36 M reads/minute). === Summary === Total reads processed: 35,706 Reads with adapters: 7,900 (22.1%) Reads that were too short: 9 (0.0%) Reads written (passing filters): 7,891 (22.1%) Total basepairs processed: 7,882,988 bp Total written (filtered): 2,158,340 bp (27.4%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 7900 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 4 0.0 3 0 0 3 1 19 50 0.0 3 0 49 1 20 7776 0.0 4 7648 120 7 0 1 21 18 0.0 4 3 15 23 8 0.0 4 0 0 0 7 1 28 1 0.0 4 0 0 0 0 1 74 1 0.0 4 1 98 1 0.0 4 0 0 0 0 1 109 1 0.0 4 0 0 0 0 1 114 2 0.0 4 1 1 115 2 0.0 4 1 1 116 2 0.0 4 2 126 1 0.0 4 0 0 0 0 1 127 29 0.0 4 0 0 0 0 29 137 1 0.0 4 1 138 1 0.0 4 1 254 1 0.0 4 0 0 0 1 255 1 0.0 4 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 0.27 s (34 us/read; 1.75 M reads/minute). === Summary === Total reads processed: 7,891 Reads with adapters: 319 (4.0%) Reads written (passing filters): 7,891 (100.0%) Total basepairs processed: 2,158,340 bp Total written (filtered): 2,154,488 bp (99.8%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 319 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 6.6% C: 5.3% G: 84.3% T: 3.8% 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 20 123.3 0 20 4 2 30.8 0 2 10 1 0.0 1 0 1 11 283 0.0 1 2 281 12 10 0.0 1 0 10 121 1 0.0 1 1 210 2 0.0 1 0 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.