This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g ACGCGC -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 91.87 s (27 us/read; 2.26 M reads/minute). === Summary === Total reads processed: 3,465,239 Reads with adapters: 213,656 (6.2%) Reads that were too short: 131,054 (3.8%) Reads written (passing filters): 82,602 (2.4%) Total basepairs processed: 1,043,036,939 bp Total written (filtered): 22,688,144 bp (2.2%) === Adapter 1 === Sequence: ACGCGC; Type: regular 5'; Length: 6; Trimmed: 213656 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1749 846.0 0 1749 7 68598 846.0 0 68598 8 438 846.0 0 438 9 36 846.0 0 36 10 33 846.0 0 33 11 48 846.0 0 48 12 27 846.0 0 27 13 22 846.0 0 22 14 22 846.0 0 22 15 21 846.0 0 21 16 39 846.0 0 39 17 19 846.0 0 19 18 23 846.0 0 23 19 61 846.0 0 61 20 29 846.0 0 29 21 63 846.0 0 63 22 23 846.0 0 23 23 23 846.0 0 23 24 25 846.0 0 25 25 25 846.0 0 25 26 32 846.0 0 32 27 22 846.0 0 22 28 34 846.0 0 34 29 20 846.0 0 20 30 20 846.0 0 20 31 15 846.0 0 15 32 21 846.0 0 21 33 34 846.0 0 34 34 28 846.0 0 28 35 24 846.0 0 24 36 19 846.0 0 19 37 15 846.0 0 15 38 25 846.0 0 25 39 28 846.0 0 28 40 44 846.0 0 44 41 26 846.0 0 26 42 29 846.0 0 29 43 18 846.0 0 18 44 16 846.0 0 16 45 31 846.0 0 31 46 51 846.0 0 51 47 62 846.0 0 62 48 75 846.0 0 75 49 49 846.0 0 49 50 16 846.0 0 16 51 16 846.0 0 16 52 25 846.0 0 25 53 30 846.0 0 30 54 37 846.0 0 37 55 30 846.0 0 30 56 29 846.0 0 29 57 12 846.0 0 12 58 21 846.0 0 21 59 26 846.0 0 26 60 14 846.0 0 14 61 11 846.0 0 11 62 36 846.0 0 36 63 27 846.0 0 27 64 13 846.0 0 13 65 16 846.0 0 16 66 12 846.0 0 12 67 18 846.0 0 18 68 23 846.0 0 23 69 14 846.0 0 14 70 16 846.0 0 16 71 27 846.0 0 27 72 65 846.0 0 65 73 117 846.0 0 117 74 60 846.0 0 60 75 23 846.0 0 23 76 31 846.0 0 31 77 18 846.0 0 18 78 33 846.0 0 33 79 24 846.0 0 24 80 22 846.0 0 22 81 20 846.0 0 20 82 24 846.0 0 24 83 47 846.0 0 47 84 47 846.0 0 47 85 78 846.0 0 78 86 35 846.0 0 35 87 31 846.0 0 31 88 21 846.0 0 21 89 23 846.0 0 23 90 12 846.0 0 12 91 42 846.0 0 42 92 42 846.0 0 42 93 34 846.0 0 34 94 26 846.0 0 26 95 44 846.0 0 44 96 7 846.0 0 7 97 17 846.0 0 17 98 22 846.0 0 22 99 16 846.0 0 16 100 16 846.0 0 16 101 18 846.0 0 18 102 11 846.0 0 11 103 12 846.0 0 12 104 20 846.0 0 20 105 16 846.0 0 16 106 9 846.0 0 9 107 7 846.0 0 7 108 15 846.0 0 15 109 17 846.0 0 17 110 13 846.0 0 13 111 12 846.0 0 12 112 23 846.0 0 23 113 26 846.0 0 26 114 12 846.0 0 12 115 33 846.0 0 33 116 65 846.0 0 65 117 54 846.0 0 54 118 32 846.0 0 32 119 23 846.0 0 23 120 28 846.0 0 28 121 25 846.0 0 25 122 36 846.0 0 36 123 87 846.0 0 87 124 58 846.0 0 58 125 94 846.0 0 94 126 54 846.0 0 54 127 42 846.0 0 42 128 43 846.0 0 43 129 37 846.0 0 37 130 24 846.0 0 24 131 20 846.0 0 20 132 25 846.0 0 25 133 41 846.0 0 41 134 75 846.0 0 75 135 36 846.0 0 36 136 61 846.0 0 61 137 37 846.0 0 37 138 45 846.0 0 45 139 79 846.0 0 79 140 38 846.0 0 38 141 27 846.0 0 27 142 70 846.0 0 70 143 32 846.0 0 32 144 34 846.0 0 34 145 48 846.0 0 48 146 50 846.0 0 50 147 36 846.0 0 36 148 30 846.0 0 30 149 32 846.0 0 32 150 151 846.0 0 151 151 80 846.0 0 80 152 107 846.0 0 107 153 167 846.0 0 167 154 61 846.0 0 61 155 47 846.0 0 47 156 52 846.0 0 52 157 76 846.0 0 76 158 59 846.0 0 59 159 58 846.0 0 58 160 126 846.0 0 126 161 77 846.0 0 77 162 73 846.0 0 73 163 49 846.0 0 49 164 66 846.0 0 66 165 456 846.0 0 456 166 119 846.0 0 119 167 343 846.0 0 343 168 99 846.0 0 99 169 81 846.0 0 81 170 176 846.0 0 176 171 65 846.0 0 65 172 103 846.0 0 103 173 73 846.0 0 73 174 54 846.0 0 54 175 52 846.0 0 52 176 44 846.0 0 44 177 77 846.0 0 77 178 92 846.0 0 92 179 85 846.0 0 85 180 72 846.0 0 72 181 78 846.0 0 78 182 84 846.0 0 84 183 59 846.0 0 59 184 79 846.0 0 79 185 310 846.0 0 310 186 169 846.0 0 169 187 915 846.0 0 915 188 1054 846.0 0 1054 189 238 846.0 0 238 190 52 846.0 0 52 191 104 846.0 0 104 192 67 846.0 0 67 193 60 846.0 0 60 194 46 846.0 0 46 195 45 846.0 0 45 196 40 846.0 0 40 197 126 846.0 0 126 198 268 846.0 0 268 199 84 846.0 0 84 200 129 846.0 0 129 201 65 846.0 0 65 202 36 846.0 0 36 203 62 846.0 0 62 204 58 846.0 0 58 205 75 846.0 0 75 206 68 846.0 0 68 207 61 846.0 0 61 208 31 846.0 0 31 209 52 846.0 0 52 210 145 846.0 0 145 211 78 846.0 0 78 212 62 846.0 0 62 213 74 846.0 0 74 214 69 846.0 0 69 215 91 846.0 0 91 216 158 846.0 0 158 217 165 846.0 0 165 218 288 846.0 0 288 219 243 846.0 0 243 220 3666 846.0 0 3666 221 2202 846.0 0 2202 222 9058 846.0 0 9058 223 1744 846.0 0 1744 224 1193 846.0 0 1193 225 404 846.0 0 404 226 195 846.0 0 195 227 356 846.0 0 356 228 143 846.0 0 143 229 147 846.0 0 147 230 203 846.0 0 203 231 164 846.0 0 164 232 356 846.0 0 356 233 523 846.0 0 523 234 719 846.0 0 719 235 1058 846.0 0 1058 236 1681 846.0 0 1681 237 34798 846.0 0 34798 238 34346 846.0 0 34346 239 22592 846.0 0 22592 240 2245 846.0 0 2245 241 528 846.0 0 528 242 80 846.0 0 80 243 78 846.0 0 78 244 158 846.0 0 158 245 1431 846.0 0 1431 246 880 846.0 0 880 247 1595 846.0 0 1595 248 437 846.0 0 437 249 371 846.0 0 371 250 226 846.0 0 226 251 320 846.0 0 320 252 299 846.0 0 299 253 74 846.0 0 74 254 60 846.0 0 60 255 97 846.0 0 97 256 52 846.0 0 52 257 32 846.0 0 32 258 18 846.0 0 18 259 15 846.0 0 15 260 17 846.0 0 17 261 15 846.0 0 15 262 84 846.0 0 84 263 47 846.0 0 47 264 90 846.0 0 90 265 85 846.0 0 85 266 63 846.0 0 63 267 83 846.0 0 83 268 59 846.0 0 59 269 113 846.0 0 113 270 164 846.0 0 164 271 94 846.0 0 94 272 321 846.0 0 321 273 176 846.0 0 176 274 88 846.0 0 88 275 58 846.0 0 58 276 28 846.0 0 28 277 61 846.0 0 61 278 53 846.0 0 53 279 65 846.0 0 65 280 39 846.0 0 39 281 47 846.0 0 47 282 55 846.0 0 55 283 92 846.0 0 92 284 143 846.0 0 143 285 198 846.0 0 198 286 55 846.0 0 55 287 61 846.0 0 61 288 52 846.0 0 52 289 148 846.0 0 148 290 824 846.0 0 824 291 440 846.0 0 440 292 142 846.0 0 142 293 58 846.0 0 58 294 175 846.0 0 175 295 48 846.0 0 48 296 130 846.0 0 130 297 43 846.0 0 43 298 69 846.0 0 69 299 55 846.0 0 55 300 26 846.0 0 26 301 30 846.0 0 30 Finished in 3.78 s (46 us/read; 1.31 M reads/minute). === Summary === Total reads processed: 82,602 Reads with adapters: 69,565 (84.2%) Reads that were too short: 10 (0.0%) Reads written (passing filters): 69,555 (84.2%) Total basepairs processed: 22,688,144 bp Total written (filtered): 19,056,068 bp (84.0%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 69565 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 6 0.0 3 0 0 4 2 19 468 0.0 3 0 439 19 8 2 20 68817 0.0 4 67517 1134 127 25 14 21 180 0.0 4 34 131 10 2 3 22 13 0.0 4 2 0 6 2 3 23 49 0.0 4 3 0 0 39 7 24 1 0.0 4 0 0 0 0 1 25 1 0.0 4 0 0 0 1 28 1 0.0 4 1 35 1 0.0 4 0 0 0 0 1 55 1 0.0 4 0 0 0 0 1 56 1 0.0 4 0 0 0 0 1 71 1 0.0 4 0 0 0 0 1 80 1 0.0 4 0 0 0 0 1 82 1 0.0 4 0 0 0 0 1 124 1 0.0 4 0 0 0 0 1 130 18 0.0 4 0 0 0 0 18 171 1 0.0 4 0 0 0 0 1 172 1 0.0 4 0 0 0 0 1 174 1 0.0 4 0 0 0 0 1 210 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 2.35 s (34 us/read; 1.78 M reads/minute). === Summary === Total reads processed: 69,555 Reads with adapters: 2,870 (4.1%) Reads written (passing filters): 69,555 (100.0%) Total basepairs processed: 19,056,068 bp Total written (filtered): 19,018,911 bp (99.8%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 2870 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 4.2% C: 4.5% G: 90.0% T: 1.3% 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 51 1086.8 0 51 4 1 271.7 0 1 8 1 1.1 0 1 9 1 0.3 0 1 10 17 0.1 1 2 15 11 2587 0.0 1 21 2566 12 175 0.0 1 8 167 13 6 0.0 1 1 5 14 1 0.0 1 0 1 15 2 0.0 1 0 2 152 9 0.0 1 4 5 210 6 0.0 1 6 259 1 0.0 1 1 263 1 0.0 1 1 265 1 0.0 1 1 271 2 0.0 1 2 272 7 0.0 1 6 1 273 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.