This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TCGACG -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 57.30 s (26 us/read; 2.30 M reads/minute). === Summary === Total reads processed: 2,192,295 Reads with adapters: 71,024 (3.2%) Reads that were too short: 4,120 (0.2%) Reads written (passing filters): 66,904 (3.1%) Total basepairs processed: 659,880,795 bp Total written (filtered): 18,028,825 bp (2.7%) === Adapter 1 === Sequence: TCGACG; Type: regular 5'; Length: 6; Trimmed: 71024 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 293 535.2 0 293 7 985 535.2 0 985 8 25042 535.2 0 25042 9 26826 535.2 0 26826 10 35 535.2 0 35 11 17 535.2 0 17 12 26 535.2 0 26 13 16 535.2 0 16 14 18 535.2 0 18 15 16 535.2 0 16 16 29 535.2 0 29 17 23 535.2 0 23 18 12 535.2 0 12 19 29 535.2 0 29 20 12 535.2 0 12 21 14 535.2 0 14 22 27 535.2 0 27 23 15 535.2 0 15 24 9 535.2 0 9 25 14 535.2 0 14 26 15 535.2 0 15 27 10 535.2 0 10 28 15 535.2 0 15 29 11 535.2 0 11 30 25 535.2 0 25 31 16 535.2 0 16 32 12 535.2 0 12 33 14 535.2 0 14 34 29 535.2 0 29 35 18 535.2 0 18 36 24 535.2 0 24 37 17 535.2 0 17 38 21 535.2 0 21 39 17 535.2 0 17 40 21 535.2 0 21 41 16 535.2 0 16 42 16 535.2 0 16 43 8 535.2 0 8 44 24 535.2 0 24 45 36 535.2 0 36 46 26 535.2 0 26 47 40 535.2 0 40 48 10 535.2 0 10 49 29 535.2 0 29 50 12 535.2 0 12 51 14 535.2 0 14 52 22 535.2 0 22 53 32 535.2 0 32 54 14 535.2 0 14 55 46 535.2 0 46 56 21 535.2 0 21 57 12 535.2 0 12 58 24 535.2 0 24 59 17 535.2 0 17 60 21 535.2 0 21 61 17 535.2 0 17 62 28 535.2 0 28 63 19 535.2 0 19 64 11 535.2 0 11 65 13 535.2 0 13 66 62 535.2 0 62 67 52 535.2 0 52 68 48 535.2 0 48 69 16 535.2 0 16 70 21 535.2 0 21 71 23 535.2 0 23 72 28 535.2 0 28 73 11 535.2 0 11 74 15 535.2 0 15 75 20 535.2 0 20 76 23 535.2 0 23 77 16 535.2 0 16 78 13 535.2 0 13 79 29 535.2 0 29 80 22 535.2 0 22 81 17 535.2 0 17 82 29 535.2 0 29 83 22 535.2 0 22 84 23 535.2 0 23 85 22 535.2 0 22 86 23 535.2 0 23 87 21 535.2 0 21 88 41 535.2 0 41 89 25 535.2 0 25 90 12 535.2 0 12 91 55 535.2 0 55 92 40 535.2 0 40 93 45 535.2 0 45 94 32 535.2 0 32 95 27 535.2 0 27 96 23 535.2 0 23 97 43 535.2 0 43 98 54 535.2 0 54 99 25 535.2 0 25 100 26 535.2 0 26 101 27 535.2 0 27 102 36 535.2 0 36 103 31 535.2 0 31 104 62 535.2 0 62 105 41 535.2 0 41 106 43 535.2 0 43 107 48 535.2 0 48 108 41 535.2 0 41 109 47 535.2 0 47 110 79 535.2 0 79 111 460 535.2 0 460 112 701 535.2 0 701 113 567 535.2 0 567 114 41 535.2 0 41 115 169 535.2 0 169 116 164 535.2 0 164 117 1127 535.2 0 1127 118 1741 535.2 0 1741 119 2064 535.2 0 2064 120 30 535.2 0 30 121 20 535.2 0 20 122 15 535.2 0 15 123 19 535.2 0 19 124 29 535.2 0 29 125 25 535.2 0 25 126 29 535.2 0 29 127 47 535.2 0 47 128 150 535.2 0 150 129 23 535.2 0 23 130 21 535.2 0 21 131 34 535.2 0 34 132 45 535.2 0 45 133 66 535.2 0 66 134 26 535.2 0 26 135 27 535.2 0 27 136 21 535.2 0 21 137 24 535.2 0 24 138 58 535.2 0 58 139 35 535.2 0 35 140 25 535.2 0 25 141 23 535.2 0 23 142 20 535.2 0 20 143 18 535.2 0 18 144 26 535.2 0 26 145 21 535.2 0 21 146 44 535.2 0 44 147 39 535.2 0 39 148 36 535.2 0 36 149 33 535.2 0 33 150 28 535.2 0 28 151 294 535.2 0 294 152 467 535.2 0 467 153 415 535.2 0 415 154 72 535.2 0 72 155 33 535.2 0 33 156 20 535.2 0 20 157 31 535.2 0 31 158 13 535.2 0 13 159 29 535.2 0 29 160 29 535.2 0 29 161 25 535.2 0 25 162 21 535.2 0 21 163 31 535.2 0 31 164 33 535.2 0 33 165 13 535.2 0 13 166 14 535.2 0 14 167 12 535.2 0 12 168 15 535.2 0 15 169 41 535.2 0 41 170 9 535.2 0 9 171 10 535.2 0 10 172 15 535.2 0 15 173 25 535.2 0 25 174 19 535.2 0 19 175 17 535.2 0 17 176 29 535.2 0 29 177 21 535.2 0 21 178 19 535.2 0 19 179 78 535.2 0 78 180 245 535.2 0 245 181 149 535.2 0 149 182 210 535.2 0 210 183 29 535.2 0 29 184 183 535.2 0 183 185 68 535.2 0 68 186 9 535.2 0 9 187 19 535.2 0 19 188 10 535.2 0 10 189 60 535.2 0 60 190 35 535.2 0 35 191 25 535.2 0 25 192 48 535.2 0 48 193 17 535.2 0 17 194 21 535.2 0 21 195 8 535.2 0 8 196 18 535.2 0 18 197 17 535.2 0 17 198 17 535.2 0 17 199 17 535.2 0 17 200 22 535.2 0 22 201 26 535.2 0 26 202 21 535.2 0 21 203 23 535.2 0 23 204 28 535.2 0 28 205 16 535.2 0 16 206 22 535.2 0 22 207 19 535.2 0 19 208 22 535.2 0 22 209 16 535.2 0 16 210 55 535.2 0 55 211 34 535.2 0 34 212 65 535.2 0 65 213 34 535.2 0 34 214 22 535.2 0 22 215 31 535.2 0 31 216 42 535.2 0 42 217 32 535.2 0 32 218 538 535.2 0 538 219 270 535.2 0 270 220 203 535.2 0 203 221 106 535.2 0 106 222 19 535.2 0 19 223 35 535.2 0 35 224 19 535.2 0 19 225 33 535.2 0 33 226 17 535.2 0 17 227 30 535.2 0 30 228 37 535.2 0 37 229 47 535.2 0 47 230 32 535.2 0 32 231 52 535.2 0 52 232 53 535.2 0 53 233 73 535.2 0 73 234 57 535.2 0 57 235 36 535.2 0 36 236 40 535.2 0 40 237 46 535.2 0 46 238 28 535.2 0 28 239 23 535.2 0 23 240 20 535.2 0 20 241 17 535.2 0 17 242 24 535.2 0 24 243 22 535.2 0 22 244 21 535.2 0 21 245 23 535.2 0 23 246 35 535.2 0 35 247 59 535.2 0 59 248 37 535.2 0 37 249 19 535.2 0 19 250 16 535.2 0 16 251 39 535.2 0 39 252 41 535.2 0 41 253 24 535.2 0 24 254 39 535.2 0 39 255 28 535.2 0 28 256 27 535.2 0 27 257 27 535.2 0 27 258 18 535.2 0 18 259 25 535.2 0 25 260 19 535.2 0 19 261 11 535.2 0 11 262 14 535.2 0 14 263 18 535.2 0 18 264 33 535.2 0 33 265 25 535.2 0 25 266 29 535.2 0 29 267 28 535.2 0 28 268 13 535.2 0 13 269 27 535.2 0 27 270 28 535.2 0 28 271 29 535.2 0 29 272 27 535.2 0 27 273 35 535.2 0 35 274 38 535.2 0 38 275 22 535.2 0 22 276 40 535.2 0 40 277 17 535.2 0 17 278 34 535.2 0 34 279 33 535.2 0 33 280 41 535.2 0 41 281 24 535.2 0 24 282 24 535.2 0 24 283 51 535.2 0 51 284 38 535.2 0 38 285 29 535.2 0 29 286 26 535.2 0 26 287 30 535.2 0 30 288 33 535.2 0 33 289 28 535.2 0 28 290 27 535.2 0 27 291 40 535.2 0 40 292 46 535.2 0 46 293 56 535.2 0 56 294 27 535.2 0 27 295 37 535.2 0 37 296 41 535.2 0 41 297 33 535.2 0 33 298 23 535.2 0 23 299 34 535.2 0 34 300 33 535.2 0 33 301 42 535.2 0 42 Finished in 3.46 s (52 us/read; 1.16 M reads/minute). === Summary === Total reads processed: 66,904 Reads with adapters: 28,033 (41.9%) Reads that were too short: 10 (0.0%) Reads written (passing filters): 28,023 (41.9%) Total basepairs processed: 18,028,825 bp Total written (filtered): 7,623,787 bp (42.3%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 28033 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 17 1 0.0 3 0 0 0 1 18 11 0.0 3 0 0 11 19 321 0.0 3 0 315 6 20 27572 0.0 4 27124 432 12 3 1 21 86 0.0 4 13 71 1 1 22 5 0.0 4 0 0 5 23 21 0.0 4 2 0 0 17 2 24 2 0.0 4 0 0 0 0 2 26 1 0.0 4 1 30 1 0.0 4 1 91 1 0.0 4 0 0 0 0 1 127 1 0.0 4 0 0 0 0 1 153 1 0.0 4 0 0 0 0 1 154 2 0.0 4 0 0 0 0 2 158 1 0.0 4 0 0 0 0 1 166 1 0.0 4 0 0 0 0 1 186 1 0.0 4 0 0 0 0 1 203 1 0.0 4 0 0 0 0 1 223 1 0.0 4 0 0 1 225 1 0.0 4 0 0 0 0 1 285 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 0.99 s (35 us/read; 1.70 M reads/minute). === Summary === Total reads processed: 28,023 Reads with adapters: 3,665 (13.1%) Reads written (passing filters): 28,023 (100.0%) Total basepairs processed: 7,623,787 bp Total written (filtered): 7,586,956 bp (99.5%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 3665 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.1% C: 2.9% G: 95.0% T: 1.0% 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 3 6 437.9 0 6 4 8 109.5 0 8 5 2 27.4 0 2 6 6 6.8 0 6 7 1 1.7 0 1 8 5 0.4 0 5 9 1310 0.1 0 35 1275 10 1950 0.0 1 78 1872 11 363 0.0 1 2 361 12 4 0.0 1 0 4 13 3 0.0 1 0 3 145 1 0.0 1 1 146 1 0.0 1 1 150 1 0.0 1 0 1 208 1 0.0 1 1 223 3 0.0 1 3 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.