This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TTGCAA -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 60.32 s (27 us/read; 2.23 M reads/minute). === Summary === Total reads processed: 2,238,925 Reads with adapters: 67,806 (3.0%) Reads that were too short: 20,479 (0.9%) Reads written (passing filters): 47,327 (2.1%) Total basepairs processed: 673,916,425 bp Total written (filtered): 12,589,451 bp (1.9%) === Adapter 1 === Sequence: TTGCAA; Type: regular 5'; Length: 6; Trimmed: 67806 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 465 546.6 0 465 7 16229 546.6 0 16229 8 17703 546.6 0 17703 9 61 546.6 0 61 10 49 546.6 0 49 11 39 546.6 0 39 12 42 546.6 0 42 13 45 546.6 0 45 14 40 546.6 0 40 15 42 546.6 0 42 16 36 546.6 0 36 17 32 546.6 0 32 18 43 546.6 0 43 19 39 546.6 0 39 20 31 546.6 0 31 21 65 546.6 0 65 22 50 546.6 0 50 23 41 546.6 0 41 24 42 546.6 0 42 25 34 546.6 0 34 26 44 546.6 0 44 27 39 546.6 0 39 28 46 546.6 0 46 29 46 546.6 0 46 30 45 546.6 0 45 31 43 546.6 0 43 32 45 546.6 0 45 33 41 546.6 0 41 34 31 546.6 0 31 35 45 546.6 0 45 36 40 546.6 0 40 37 35 546.6 0 35 38 55 546.6 0 55 39 161 546.6 0 161 40 216 546.6 0 216 41 623 546.6 0 623 42 47 546.6 0 47 43 102 546.6 0 102 44 38 546.6 0 38 45 46 546.6 0 46 46 63 546.6 0 63 47 48 546.6 0 48 48 28 546.6 0 28 49 27 546.6 0 27 50 25 546.6 0 25 51 38 546.6 0 38 52 52 546.6 0 52 53 57 546.6 0 57 54 56 546.6 0 56 55 41 546.6 0 41 56 37 546.6 0 37 57 54 546.6 0 54 58 41 546.6 0 41 59 43 546.6 0 43 60 50 546.6 0 50 61 39 546.6 0 39 62 28 546.6 0 28 63 38 546.6 0 38 64 57 546.6 0 57 65 570 546.6 0 570 66 124 546.6 0 124 67 42 546.6 0 42 68 46 546.6 0 46 69 44 546.6 0 44 70 77 546.6 0 77 71 67 546.6 0 67 72 72 546.6 0 72 73 45 546.6 0 45 74 63 546.6 0 63 75 43 546.6 0 43 76 53 546.6 0 53 77 40 546.6 0 40 78 41 546.6 0 41 79 50 546.6 0 50 80 73 546.6 0 73 81 46 546.6 0 46 82 64 546.6 0 64 83 49 546.6 0 49 84 39 546.6 0 39 85 49 546.6 0 49 86 37 546.6 0 37 87 46 546.6 0 46 88 43 546.6 0 43 89 33 546.6 0 33 90 50 546.6 0 50 91 62 546.6 0 62 92 66 546.6 0 66 93 76 546.6 0 76 94 47 546.6 0 47 95 54 546.6 0 54 96 56 546.6 0 56 97 62 546.6 0 62 98 108 546.6 0 108 99 151 546.6 0 151 100 187 546.6 0 187 101 59 546.6 0 59 102 64 546.6 0 64 103 51 546.6 0 51 104 51 546.6 0 51 105 56 546.6 0 56 106 37 546.6 0 37 107 58 546.6 0 58 108 46 546.6 0 46 109 38 546.6 0 38 110 59 546.6 0 59 111 52 546.6 0 52 112 74 546.6 0 74 113 118 546.6 0 118 114 49 546.6 0 49 115 46 546.6 0 46 116 45 546.6 0 45 117 55 546.6 0 55 118 47 546.6 0 47 119 49 546.6 0 49 120 40 546.6 0 40 121 50 546.6 0 50 122 38 546.6 0 38 123 47 546.6 0 47 124 71 546.6 0 71 125 58 546.6 0 58 126 40 546.6 0 40 127 43 546.6 0 43 128 42 546.6 0 42 129 45 546.6 0 45 130 43 546.6 0 43 131 58 546.6 0 58 132 48 546.6 0 48 133 96 546.6 0 96 134 56 546.6 0 56 135 245 546.6 0 245 136 42 546.6 0 42 137 41 546.6 0 41 138 64 546.6 0 64 139 62 546.6 0 62 140 33 546.6 0 33 141 34 546.6 0 34 142 59 546.6 0 59 143 72 546.6 0 72 144 48 546.6 0 48 145 56 546.6 0 56 146 41 546.6 0 41 147 59 546.6 0 59 148 342 546.6 0 342 149 70 546.6 0 70 150 54 546.6 0 54 151 49 546.6 0 49 152 45 546.6 0 45 153 50 546.6 0 50 154 55 546.6 0 55 155 45 546.6 0 45 156 63 546.6 0 63 157 63 546.6 0 63 158 209 546.6 0 209 159 75 546.6 0 75 160 175 546.6 0 175 161 35 546.6 0 35 162 55 546.6 0 55 163 46 546.6 0 46 164 46 546.6 0 46 165 43 546.6 0 43 166 49 546.6 0 49 167 50 546.6 0 50 168 48 546.6 0 48 169 59 546.6 0 59 170 81 546.6 0 81 171 72 546.6 0 72 172 75 546.6 0 75 173 54 546.6 0 54 174 43 546.6 0 43 175 37 546.6 0 37 176 52 546.6 0 52 177 72 546.6 0 72 178 106 546.6 0 106 179 102 546.6 0 102 180 59 546.6 0 59 181 67 546.6 0 67 182 52 546.6 0 52 183 180 546.6 0 180 184 137 546.6 0 137 185 214 546.6 0 214 186 75 546.6 0 75 187 88 546.6 0 88 188 71 546.6 0 71 189 97 546.6 0 97 190 60 546.6 0 60 191 54 546.6 0 54 192 87 546.6 0 87 193 87 546.6 0 87 194 48 546.6 0 48 195 57 546.6 0 57 196 47 546.6 0 47 197 51 546.6 0 51 198 40 546.6 0 40 199 44 546.6 0 44 200 45 546.6 0 45 201 49 546.6 0 49 202 39 546.6 0 39 203 53 546.6 0 53 204 53 546.6 0 53 205 46 546.6 0 46 206 35 546.6 0 35 207 37 546.6 0 37 208 44 546.6 0 44 209 45 546.6 0 45 210 104 546.6 0 104 211 111 546.6 0 111 212 75 546.6 0 75 213 63 546.6 0 63 214 239 546.6 0 239 215 338 546.6 0 338 216 552 546.6 0 552 217 77 546.6 0 77 218 50 546.6 0 50 219 54 546.6 0 54 220 63 546.6 0 63 221 47 546.6 0 47 222 105 546.6 0 105 223 651 546.6 0 651 224 266 546.6 0 266 225 927 546.6 0 927 226 40 546.6 0 40 227 45 546.6 0 45 228 63 546.6 0 63 229 42 546.6 0 42 230 65 546.6 0 65 231 31 546.6 0 31 232 54 546.6 0 54 233 40 546.6 0 40 234 56 546.6 0 56 235 47 546.6 0 47 236 48 546.6 0 48 237 53 546.6 0 53 238 90 546.6 0 90 239 132 546.6 0 132 240 81 546.6 0 81 241 75 546.6 0 75 242 86 546.6 0 86 243 52 546.6 0 52 244 36 546.6 0 36 245 70 546.6 0 70 246 45 546.6 0 45 247 51 546.6 0 51 248 48 546.6 0 48 249 36 546.6 0 36 250 75 546.6 0 75 251 168 546.6 0 168 252 48 546.6 0 48 253 52 546.6 0 52 254 39 546.6 0 39 255 68 546.6 0 68 256 60 546.6 0 60 257 97 546.6 0 97 258 72 546.6 0 72 259 55 546.6 0 55 260 79 546.6 0 79 261 71 546.6 0 71 262 112 546.6 0 112 263 265 546.6 0 265 264 536 546.6 0 536 265 468 546.6 0 468 266 48 546.6 0 48 267 67 546.6 0 67 268 63 546.6 0 63 269 91 546.6 0 91 270 162 546.6 0 162 271 450 546.6 0 450 272 4527 546.6 0 4527 273 2472 546.6 0 2472 274 2091 546.6 0 2091 275 94 546.6 0 94 276 73 546.6 0 73 277 144 546.6 0 144 278 136 546.6 0 136 279 69 546.6 0 69 280 107 546.6 0 107 281 48 546.6 0 48 282 46 546.6 0 46 283 78 546.6 0 78 284 155 546.6 0 155 285 223 546.6 0 223 286 162 546.6 0 162 287 96 546.6 0 96 288 104 546.6 0 104 289 79 546.6 0 79 290 34 546.6 0 34 291 43 546.6 0 43 292 49 546.6 0 49 293 52 546.6 0 52 294 49 546.6 0 49 295 58 546.6 0 58 296 56 546.6 0 56 297 69 546.6 0 69 298 115 546.6 0 115 299 300 546.6 0 300 300 222 546.6 0 222 301 122 546.6 0 122 Finished in 2.40 s (51 us/read; 1.18 M reads/minute). === Summary === Total reads processed: 47,327 Reads with adapters: 18,663 (39.4%) Reads that were too short: 8 (0.0%) Reads written (passing filters): 18,655 (39.4%) Total basepairs processed: 12,589,451 bp Total written (filtered): 5,036,270 bp (40.0%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 18663 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 6 0.0 3 0 0 6 19 205 0.0 3 0 202 3 20 17834 0.0 4 17537 286 10 0 1 21 47 0.0 4 8 39 22 8 0.0 4 1 0 7 23 11 0.0 4 0 0 0 9 2 26 1 0.0 4 0 0 0 0 1 28 1 0.0 4 1 29 2 0.0 4 2 36 7 0.0 4 0 0 0 0 7 71 1 0.0 4 0 0 0 0 1 126 6 0.0 4 0 0 0 0 6 127 524 0.0 4 0 0 0 0 524 128 2 0.0 4 0 0 0 0 2 185 1 0.0 4 0 0 0 0 1 205 1 0.0 4 0 0 0 0 1 212 1 0.0 4 0 0 0 0 1 227 1 0.0 4 0 0 0 0 1 228 2 0.0 4 0 0 0 0 2 282 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 0.64 s (34 us/read; 1.75 M reads/minute). === Summary === Total reads processed: 18,655 Reads with adapters: 1,462 (7.8%) Reads written (passing filters): 18,655 (100.0%) Total basepairs processed: 5,036,270 bp Total written (filtered): 5,017,719 bp (99.6%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 1462 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.6% C: 3.6% G: 92.3% T: 2.5% 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 3 18 291.5 0 18 4 1 72.9 0 1 9 51 0.1 0 1 50 10 343 0.0 1 14 329 11 1029 0.0 1 5 1024 12 4 0.0 1 0 4 114 2 0.0 1 1 1 151 1 0.0 1 0 1 170 1 0.0 1 0 1 224 12 0.0 1 11 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.