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 168.76 s (32 us/read; 1.90 M reads/minute). === Summary === Total reads processed: 5,333,634 Reads with adapters: 206,298 (3.9%) Reads that were too short: 24,609 (0.5%) Reads written (passing filters): 181,689 (3.4%) Total basepairs processed: 1,605,423,834 bp Total written (filtered): 38,311,841 bp (2.4%) === Adapter 1 === Sequence: TTCGGA; Type: regular 5'; Length: 6; Trimmed: 206298 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 4295 1302.2 0 4295 7 476 1302.2 0 476 8 1416 1302.2 0 1416 9 3179 1302.2 0 3179 10 3517 1302.2 0 3517 11 18 1302.2 0 18 12 109 1302.2 0 109 13 13 1302.2 0 13 14 4 1302.2 0 4 15 9 1302.2 0 9 16 12 1302.2 0 12 17 15 1302.2 0 15 18 12 1302.2 0 12 19 11 1302.2 0 11 20 5 1302.2 0 5 21 7 1302.2 0 7 22 33 1302.2 0 33 23 17 1302.2 0 17 24 7 1302.2 0 7 25 6 1302.2 0 6 26 11 1302.2 0 11 27 10 1302.2 0 10 28 9 1302.2 0 9 29 5 1302.2 0 5 30 9 1302.2 0 9 31 15 1302.2 0 15 32 15 1302.2 0 15 33 13 1302.2 0 13 34 7 1302.2 0 7 35 17 1302.2 0 17 36 10 1302.2 0 10 37 30 1302.2 0 30 38 21 1302.2 0 21 39 37 1302.2 0 37 40 113 1302.2 0 113 41 238 1302.2 0 238 42 35 1302.2 0 35 43 13 1302.2 0 13 44 11 1302.2 0 11 45 16 1302.2 0 16 46 11 1302.2 0 11 47 11 1302.2 0 11 48 9 1302.2 0 9 49 16 1302.2 0 16 50 15 1302.2 0 15 51 40 1302.2 0 40 52 34 1302.2 0 34 53 23 1302.2 0 23 54 28 1302.2 0 28 55 14 1302.2 0 14 56 15 1302.2 0 15 57 25 1302.2 0 25 58 22 1302.2 0 22 59 13 1302.2 0 13 60 46 1302.2 0 46 61 29 1302.2 0 29 62 23 1302.2 0 23 63 76 1302.2 0 76 64 20 1302.2 0 20 65 44 1302.2 0 44 66 43 1302.2 0 43 67 30 1302.2 0 30 68 58 1302.2 0 58 69 25 1302.2 0 25 70 30 1302.2 0 30 71 16 1302.2 0 16 72 71 1302.2 0 71 73 59 1302.2 0 59 74 66 1302.2 0 66 75 145 1302.2 0 145 76 193 1302.2 0 193 77 192 1302.2 0 192 78 370 1302.2 0 370 79 1080 1302.2 0 1080 80 281 1302.2 0 281 81 511 1302.2 0 511 82 896 1302.2 0 896 83 495 1302.2 0 495 84 622 1302.2 0 622 85 1072 1302.2 0 1072 86 992 1302.2 0 992 87 1802 1302.2 0 1802 88 772 1302.2 0 772 89 865 1302.2 0 865 90 1128 1302.2 0 1128 91 1359 1302.2 0 1359 92 12221 1302.2 0 12221 93 67876 1302.2 0 67876 94 64603 1302.2 0 64603 95 695 1302.2 0 695 96 72 1302.2 0 72 97 19 1302.2 0 19 98 23 1302.2 0 23 99 19 1302.2 0 19 100 18 1302.2 0 18 101 17 1302.2 0 17 102 20 1302.2 0 20 103 3 1302.2 0 3 104 7 1302.2 0 7 105 21 1302.2 0 21 106 25 1302.2 0 25 107 130 1302.2 0 130 108 81 1302.2 0 81 109 11 1302.2 0 11 110 18 1302.2 0 18 111 77 1302.2 0 77 112 73 1302.2 0 73 113 9 1302.2 0 9 114 72 1302.2 0 72 115 113 1302.2 0 113 116 128 1302.2 0 128 117 57 1302.2 0 57 118 20 1302.2 0 20 119 26 1302.2 0 26 120 33 1302.2 0 33 121 22 1302.2 0 22 122 23 1302.2 0 23 123 12 1302.2 0 12 124 34 1302.2 0 34 125 24 1302.2 0 24 126 22 1302.2 0 22 127 34 1302.2 0 34 128 25 1302.2 0 25 129 32 1302.2 0 32 130 78 1302.2 0 78 131 84 1302.2 0 84 132 28 1302.2 0 28 133 28 1302.2 0 28 134 26 1302.2 0 26 135 36 1302.2 0 36 136 39 1302.2 0 39 137 54 1302.2 0 54 138 69 1302.2 0 69 139 97 1302.2 0 97 140 78 1302.2 0 78 141 108 1302.2 0 108 142 24 1302.2 0 24 143 36 1302.2 0 36 144 91 1302.2 0 91 145 32 1302.2 0 32 146 25 1302.2 0 25 147 22 1302.2 0 22 148 24 1302.2 0 24 149 17 1302.2 0 17 150 17 1302.2 0 17 151 10 1302.2 0 10 152 9 1302.2 0 9 153 15 1302.2 0 15 154 14 1302.2 0 14 155 8 1302.2 0 8 156 46 1302.2 0 46 157 22 1302.2 0 22 158 45 1302.2 0 45 159 24 1302.2 0 24 160 20 1302.2 0 20 161 18 1302.2 0 18 162 11 1302.2 0 11 163 16 1302.2 0 16 164 29 1302.2 0 29 165 36 1302.2 0 36 166 34 1302.2 0 34 167 23 1302.2 0 23 168 24 1302.2 0 24 169 45 1302.2 0 45 170 18 1302.2 0 18 171 29 1302.2 0 29 172 32 1302.2 0 32 173 25 1302.2 0 25 174 21 1302.2 0 21 175 47 1302.2 0 47 176 37 1302.2 0 37 177 228 1302.2 0 228 178 370 1302.2 0 370 179 741 1302.2 0 741 180 154 1302.2 0 154 181 27 1302.2 0 27 182 29 1302.2 0 29 183 27 1302.2 0 27 184 24 1302.2 0 24 185 49 1302.2 0 49 186 51 1302.2 0 51 187 39 1302.2 0 39 188 120 1302.2 0 120 189 53 1302.2 0 53 190 135 1302.2 0 135 191 126 1302.2 0 126 192 70 1302.2 0 70 193 46 1302.2 0 46 194 67 1302.2 0 67 195 69 1302.2 0 69 196 67 1302.2 0 67 197 94 1302.2 0 94 198 123 1302.2 0 123 199 142 1302.2 0 142 200 202 1302.2 0 202 201 2767 1302.2 0 2767 202 5461 1302.2 0 5461 203 6911 1302.2 0 6911 204 535 1302.2 0 535 205 255 1302.2 0 255 206 541 1302.2 0 541 207 121 1302.2 0 121 208 164 1302.2 0 164 209 77 1302.2 0 77 210 46 1302.2 0 46 211 60 1302.2 0 60 212 53 1302.2 0 53 213 44 1302.2 0 44 214 81 1302.2 0 81 215 34 1302.2 0 34 216 62 1302.2 0 62 217 75 1302.2 0 75 218 114 1302.2 0 114 219 50 1302.2 0 50 220 41 1302.2 0 41 221 38 1302.2 0 38 222 74 1302.2 0 74 223 139 1302.2 0 139 224 47 1302.2 0 47 225 187 1302.2 0 187 226 333 1302.2 0 333 227 517 1302.2 0 517 228 440 1302.2 0 440 229 265 1302.2 0 265 230 27 1302.2 0 27 231 15 1302.2 0 15 232 18 1302.2 0 18 233 16 1302.2 0 16 234 11 1302.2 0 11 235 19 1302.2 0 19 236 46 1302.2 0 46 237 45 1302.2 0 45 238 55 1302.2 0 55 239 5 1302.2 0 5 240 1 1302.2 0 1 241 6 1302.2 0 6 242 6 1302.2 0 6 243 10 1302.2 0 10 244 12 1302.2 0 12 245 31 1302.2 0 31 246 53 1302.2 0 53 247 19 1302.2 0 19 248 11 1302.2 0 11 249 6 1302.2 0 6 250 8 1302.2 0 8 251 7 1302.2 0 7 252 17 1302.2 0 17 253 13 1302.2 0 13 254 44 1302.2 0 44 255 99 1302.2 0 99 256 39 1302.2 0 39 257 22 1302.2 0 22 258 50 1302.2 0 50 259 57 1302.2 0 57 260 94 1302.2 0 94 261 59 1302.2 0 59 262 44 1302.2 0 44 263 21 1302.2 0 21 264 7 1302.2 0 7 265 23 1302.2 0 23 266 48 1302.2 0 48 267 26 1302.2 0 26 268 14 1302.2 0 14 269 40 1302.2 0 40 270 33 1302.2 0 33 271 21 1302.2 0 21 272 57 1302.2 0 57 273 37 1302.2 0 37 274 13 1302.2 0 13 275 14 1302.2 0 14 276 5 1302.2 0 5 277 18 1302.2 0 18 278 56 1302.2 0 56 279 63 1302.2 0 63 280 70 1302.2 0 70 281 60 1302.2 0 60 282 49 1302.2 0 49 283 18 1302.2 0 18 284 48 1302.2 0 48 285 157 1302.2 0 157 286 494 1302.2 0 494 287 4862 1302.2 0 4862 288 18 1302.2 0 18 289 7 1302.2 0 7 290 15 1302.2 0 15 291 16 1302.2 0 16 292 107 1302.2 0 107 293 306 1302.2 0 306 294 35 1302.2 0 35 295 36 1302.2 0 36 296 15 1302.2 0 15 297 9 1302.2 0 9 298 18 1302.2 0 18 299 19 1302.2 0 19 300 11 1302.2 0 11 301 13 1302.2 0 13 Finished in 9.41 s (52 us/read; 1.16 M reads/minute). === Summary === Total reads processed: 181,689 Reads with adapters: 3,044 (1.7%) Reads that were too short: 62 (0.0%) Reads written (passing filters): 2,982 (1.6%) Total basepairs processed: 38,311,841 bp Total written (filtered): 803,216 bp (2.1%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 3044 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 18 3 0.0 3 0 0 3 19 53 0.0 3 0 50 0 1 2 20 2841 0.0 4 2752 67 14 5 3 21 15 0.0 4 1 9 0 3 2 22 2 0.0 4 0 0 0 0 2 23 3 0.0 4 0 0 0 3 24 1 0.0 4 0 0 0 0 1 30 1 0.0 4 0 0 0 0 1 39 1 0.0 4 0 0 0 0 1 40 1 0.0 4 0 0 0 0 1 46 1 0.0 4 0 0 0 0 1 56 1 0.0 4 0 0 0 0 1 67 3 0.0 4 0 0 0 0 3 68 42 0.0 4 0 0 0 1 41 73 1 0.0 4 1 88 1 0.0 4 0 0 0 0 1 91 3 0.0 4 0 0 0 0 3 112 1 0.0 4 0 0 0 0 1 122 1 0.0 4 0 0 0 0 1 123 10 0.0 4 0 0 0 0 10 127 3 0.0 4 0 0 0 0 3 129 1 0.0 4 0 0 0 0 1 131 2 0.0 4 0 0 0 1 1 134 1 0.0 4 0 0 0 0 1 137 1 0.0 4 0 0 0 0 1 138 2 0.0 4 0 0 0 0 2 139 1 0.0 4 0 0 0 0 1 141 1 0.0 4 0 0 0 0 1 147 1 0.0 4 0 0 0 0 1 148 1 0.0 4 0 0 0 0 1 149 6 0.0 4 0 0 0 1 5 150 2 0.0 4 0 0 0 0 2 151 1 0.0 4 0 0 0 0 1 152 1 0.0 4 0 0 0 0 1 160 1 0.0 4 0 0 0 0 1 163 1 0.0 4 0 0 0 0 1 164 1 0.0 4 0 1 165 5 0.0 4 0 0 0 0 5 169 2 0.0 4 0 0 0 0 2 170 1 0.0 4 0 0 0 0 1 171 4 0.0 4 0 0 0 0 4 172 6 0.0 4 0 0 0 0 6 173 3 0.0 4 0 0 0 0 3 174 1 0.0 4 0 0 0 0 1 179 1 0.0 4 0 0 0 0 1 198 1 0.0 4 0 0 0 0 1 199 1 0.0 4 0 0 0 0 1 203 1 0.0 4 0 0 0 0 1 211 2 0.0 4 0 0 0 0 2 251 1 0.0 4 0 0 0 0 1 254 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 0.12 s (40 us/read; 1.49 M reads/minute). === Summary === Total reads processed: 2,982 Reads with adapters: 236 (7.9%) Reads written (passing filters): 2,982 (100.0%) Total basepairs processed: 803,216 bp Total written (filtered): 800,337 bp (99.6%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 236 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 6.4% C: 1.7% G: 89.0% T: 3.0% 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 9 91 0.0 0 12 79 10 35 0.0 1 3 32 11 108 0.0 1 0 108 257 1 0.0 1 1 265 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.