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 173.41 s (48 us/read; 1.26 M reads/minute). === Summary === Total reads processed: 3,634,272 Reads with adapters: 231,688 (6.4%) Reads that were too short: 5,179 (0.1%) Reads written (passing filters): 226,509 (6.2%) Total basepairs processed: 1,093,915,872 bp Total written (filtered): 64,010,864 bp (5.9%) === Adapter 1 === Sequence: TCGACG; Type: regular 5'; Length: 6; Trimmed: 231688 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 941 887.3 0 941 7 3259 887.3 0 3259 8 97112 887.3 0 97112 9 104756 887.3 0 104756 10 110 887.3 0 110 11 16 887.3 0 16 12 24 887.3 0 24 13 21 887.3 0 21 14 14 887.3 0 14 15 20 887.3 0 20 16 20 887.3 0 20 17 19 887.3 0 19 18 17 887.3 0 17 19 29 887.3 0 29 20 17 887.3 0 17 21 15 887.3 0 15 22 21 887.3 0 21 23 15 887.3 0 15 24 7 887.3 0 7 25 15 887.3 0 15 26 18 887.3 0 18 27 11 887.3 0 11 28 16 887.3 0 16 29 19 887.3 0 19 30 22 887.3 0 22 31 13 887.3 0 13 32 13 887.3 0 13 33 17 887.3 0 17 34 28 887.3 0 28 35 25 887.3 0 25 36 25 887.3 0 25 37 27 887.3 0 27 38 13 887.3 0 13 39 16 887.3 0 16 40 19 887.3 0 19 41 13 887.3 0 13 42 15 887.3 0 15 43 17 887.3 0 17 44 25 887.3 0 25 45 27 887.3 0 27 46 26 887.3 0 26 47 29 887.3 0 29 48 24 887.3 0 24 49 24 887.3 0 24 50 18 887.3 0 18 51 23 887.3 0 23 52 33 887.3 0 33 53 24 887.3 0 24 54 26 887.3 0 26 55 35 887.3 0 35 56 28 887.3 0 28 57 23 887.3 0 23 58 24 887.3 0 24 59 29 887.3 0 29 60 23 887.3 0 23 61 26 887.3 0 26 62 20 887.3 0 20 63 13 887.3 0 13 64 22 887.3 0 22 65 16 887.3 0 16 66 174 887.3 0 174 67 123 887.3 0 123 68 118 887.3 0 118 69 18 887.3 0 18 70 23 887.3 0 23 71 22 887.3 0 22 72 18 887.3 0 18 73 28 887.3 0 28 74 15 887.3 0 15 75 26 887.3 0 26 76 21 887.3 0 21 77 11 887.3 0 11 78 21 887.3 0 21 79 27 887.3 0 27 80 23 887.3 0 23 81 24 887.3 0 24 82 47 887.3 0 47 83 36 887.3 0 36 84 26 887.3 0 26 85 33 887.3 0 33 86 38 887.3 0 38 87 32 887.3 0 32 88 25 887.3 0 25 89 26 887.3 0 26 90 24 887.3 0 24 91 141 887.3 0 141 92 91 887.3 0 91 93 127 887.3 0 127 94 37 887.3 0 37 95 33 887.3 0 33 96 25 887.3 0 25 97 30 887.3 0 30 98 42 887.3 0 42 99 29 887.3 0 29 100 32 887.3 0 32 101 27 887.3 0 27 102 34 887.3 0 34 103 18 887.3 0 18 104 58 887.3 0 58 105 43 887.3 0 43 106 39 887.3 0 39 107 83 887.3 0 83 108 52 887.3 0 52 109 50 887.3 0 50 110 111 887.3 0 111 111 749 887.3 0 749 112 442 887.3 0 442 113 754 887.3 0 754 114 132 887.3 0 132 115 244 887.3 0 244 116 366 887.3 0 366 117 5826 887.3 0 5826 118 1281 887.3 0 1281 119 2333 887.3 0 2333 120 31 887.3 0 31 121 29 887.3 0 29 122 24 887.3 0 24 123 33 887.3 0 33 124 29 887.3 0 29 125 36 887.3 0 36 126 536 887.3 0 536 127 116 887.3 0 116 128 137 887.3 0 137 129 17 887.3 0 17 130 54 887.3 0 54 131 39 887.3 0 39 132 46 887.3 0 46 133 34 887.3 0 34 134 21 887.3 0 21 135 22 887.3 0 22 136 27 887.3 0 27 137 24 887.3 0 24 138 72 887.3 0 72 139 25 887.3 0 25 140 25 887.3 0 25 141 25 887.3 0 25 142 29 887.3 0 29 143 31 887.3 0 31 144 32 887.3 0 32 145 20 887.3 0 20 146 52 887.3 0 52 147 49 887.3 0 49 148 71 887.3 0 71 149 30 887.3 0 30 150 24 887.3 0 24 151 435 887.3 0 435 152 469 887.3 0 469 153 274 887.3 0 274 154 114 887.3 0 114 155 23 887.3 0 23 156 32 887.3 0 32 157 27 887.3 0 27 158 15 887.3 0 15 159 22 887.3 0 22 160 28 887.3 0 28 161 25 887.3 0 25 162 45 887.3 0 45 163 39 887.3 0 39 164 35 887.3 0 35 165 30 887.3 0 30 166 25 887.3 0 25 167 13 887.3 0 13 168 14 887.3 0 14 169 38 887.3 0 38 170 29 887.3 0 29 171 20 887.3 0 20 172 17 887.3 0 17 173 27 887.3 0 27 174 17 887.3 0 17 175 14 887.3 0 14 176 34 887.3 0 34 177 16 887.3 0 16 178 20 887.3 0 20 179 95 887.3 0 95 180 128 887.3 0 128 181 65 887.3 0 65 182 72 887.3 0 72 183 255 887.3 0 255 184 279 887.3 0 279 185 65 887.3 0 65 186 21 887.3 0 21 187 19 887.3 0 19 188 19 887.3 0 19 189 26 887.3 0 26 190 42 887.3 0 42 191 47 887.3 0 47 192 40 887.3 0 40 193 14 887.3 0 14 194 18 887.3 0 18 195 20 887.3 0 20 196 23 887.3 0 23 197 19 887.3 0 19 198 25 887.3 0 25 199 23 887.3 0 23 200 21 887.3 0 21 201 15 887.3 0 15 202 31 887.3 0 31 203 21 887.3 0 21 204 25 887.3 0 25 205 29 887.3 0 29 206 25 887.3 0 25 207 28 887.3 0 28 208 21 887.3 0 21 209 21 887.3 0 21 210 26 887.3 0 26 211 71 887.3 0 71 212 150 887.3 0 150 213 48 887.3 0 48 214 33 887.3 0 33 215 40 887.3 0 40 216 30 887.3 0 30 217 63 887.3 0 63 218 234 887.3 0 234 219 376 887.3 0 376 220 302 887.3 0 302 221 22 887.3 0 22 222 13 887.3 0 13 223 37 887.3 0 37 224 85 887.3 0 85 225 51 887.3 0 51 226 33 887.3 0 33 227 42 887.3 0 42 228 41 887.3 0 41 229 43 887.3 0 43 230 34 887.3 0 34 231 81 887.3 0 81 232 82 887.3 0 82 233 110 887.3 0 110 234 67 887.3 0 67 235 54 887.3 0 54 236 52 887.3 0 52 237 57 887.3 0 57 238 35 887.3 0 35 239 33 887.3 0 33 240 18 887.3 0 18 241 23 887.3 0 23 242 23 887.3 0 23 243 23 887.3 0 23 244 45 887.3 0 45 245 60 887.3 0 60 246 60 887.3 0 60 247 86 887.3 0 86 248 115 887.3 0 115 249 70 887.3 0 70 250 33 887.3 0 33 251 43 887.3 0 43 252 40 887.3 0 40 253 42 887.3 0 42 254 56 887.3 0 56 255 42 887.3 0 42 256 27 887.3 0 27 257 31 887.3 0 31 258 19 887.3 0 19 259 26 887.3 0 26 260 32 887.3 0 32 261 18 887.3 0 18 262 18 887.3 0 18 263 19 887.3 0 19 264 27 887.3 0 27 265 22 887.3 0 22 266 33 887.3 0 33 267 46 887.3 0 46 268 29 887.3 0 29 269 28 887.3 0 28 270 28 887.3 0 28 271 41 887.3 0 41 272 43 887.3 0 43 273 43 887.3 0 43 274 24 887.3 0 24 275 30 887.3 0 30 276 30 887.3 0 30 277 46 887.3 0 46 278 65 887.3 0 65 279 80 887.3 0 80 280 85 887.3 0 85 281 34 887.3 0 34 282 54 887.3 0 54 283 59 887.3 0 59 284 60 887.3 0 60 285 47 887.3 0 47 286 55 887.3 0 55 287 57 887.3 0 57 288 40 887.3 0 40 289 40 887.3 0 40 290 22 887.3 0 22 291 58 887.3 0 58 292 40 887.3 0 40 293 69 887.3 0 69 294 53 887.3 0 53 295 24 887.3 0 24 296 29 887.3 0 29 297 34 887.3 0 34 298 32 887.3 0 32 299 61 887.3 0 61 300 40 887.3 0 40 301 56 887.3 0 56 Finished in 17.71 s (78 us/read; 0.77 M reads/minute). === Summary === Total reads processed: 226,509 Reads with adapters: 111,120 (49.1%) Reads that were too short: 42 (0.0%) Reads written (passing filters): 111,078 (49.0%) Total basepairs processed: 64,010,864 bp Total written (filtered): 30,004,124 bp (46.9%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 111120 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 6 0.0 3 0 0 0 5 1 18 40 0.0 3 0 0 39 1 19 1061 0.0 3 0 1035 18 6 2 20 107578 0.0 4 105671 1825 73 6 3 21 263 0.0 4 71 184 8 22 20 0.0 4 4 1 14 0 1 23 76 0.0 4 4 0 0 68 4 24 2 0.0 4 0 0 0 0 2 25 2 0.0 4 0 1 1 27 1 0.0 4 0 1 29 1 0.0 4 1 37 1 0.0 4 0 0 0 0 1 71 1 0.0 4 1 89 1 0.0 4 0 0 0 0 1 95 1 0.0 4 0 0 0 0 1 117 1 0.0 4 0 0 0 0 1 124 1 0.0 4 0 0 0 0 1 125 3 0.0 4 0 0 0 0 3 126 16 0.0 4 0 0 0 0 16 127 1999 0.0 4 0 0 0 0 1999 128 4 0.0 4 0 0 0 0 4 130 1 0.0 4 0 0 0 0 1 133 2 0.0 4 0 0 0 0 2 149 1 0.0 4 0 0 0 0 1 153 3 0.0 4 0 0 0 0 3 154 2 0.0 4 0 0 0 0 2 183 3 0.0 4 0 0 0 0 3 215 1 0.0 4 1 224 1 0.0 4 0 1 225 1 0.0 4 0 0 0 0 1 228 6 0.0 4 0 0 0 0 6 230 1 0.0 4 0 0 0 0 1 233 1 0.0 4 0 0 0 0 1 234 1 0.0 4 0 0 0 0 1 235 1 0.0 4 0 0 0 0 1 237 1 0.0 4 0 0 0 0 1 246 1 0.0 4 0 0 0 0 1 257 1 0.0 4 0 0 0 0 1 260 2 0.0 4 0 0 0 0 2 263 2 0.0 4 0 0 0 0 2 264 3 0.0 4 0 0 0 0 3 283 2 0.0 4 0 0 0 0 2 288 1 0.0 4 0 0 0 0 1 290 1 0.0 4 0 0 0 0 1 293 2 0.0 4 0 0 0 0 2 294 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 6.52 s (59 us/read; 1.02 M reads/minute). === Summary === Total reads processed: 111,078 Reads with adapters: 13,421 (12.1%) Reads written (passing filters): 111,078 (100.0%) Total basepairs processed: 30,004,124 bp Total written (filtered): 29,873,640 bp (99.6%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 13421 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 0.8% C: 2.3% G: 95.9% 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 20 1735.6 0 20 4 20 433.9 0 20 5 7 108.5 0 7 7 3 6.8 0 3 8 2 1.7 0 2 9 6528 0.4 0 179 6349 10 5920 0.1 1 185 5735 11 880 0.0 1 4 876 12 14 0.0 1 0 14 13 10 0.0 1 0 10 14 2 0.0 1 0 2 56 1 0.0 1 0 1 59 1 0.0 1 1 82 1 0.0 1 1 112 1 0.0 1 1 147 1 0.0 1 1 150 2 0.0 1 0 2 169 3 0.0 1 3 170 1 0.0 1 1 208 3 0.0 1 3 257 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.