This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CGGCCA -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 89.05 s (26 us/read; 2.33 M reads/minute). === Summary === Total reads processed: 3,465,239 Reads with adapters: 72,781 (2.1%) Reads that were too short: 39,154 (1.1%) Reads written (passing filters): 33,627 (1.0%) Total basepairs processed: 1,043,036,939 bp Total written (filtered): 7,474,863 bp (0.7%) === Adapter 1 === Sequence: CGGCCA; Type: regular 5'; Length: 6; Trimmed: 72781 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 913 846.0 0 913 7 14030 846.0 0 14030 8 27 846.0 0 27 9 26 846.0 0 26 10 30 846.0 0 30 11 78 846.0 0 78 12 36 846.0 0 36 13 8 846.0 0 8 14 19 846.0 0 19 15 23 846.0 0 23 16 21 846.0 0 21 17 32 846.0 0 32 18 18 846.0 0 18 19 21 846.0 0 21 20 31 846.0 0 31 21 18 846.0 0 18 22 21 846.0 0 21 23 24 846.0 0 24 24 25 846.0 0 25 25 20 846.0 0 20 26 24 846.0 0 24 27 25 846.0 0 25 28 22 846.0 0 22 29 23 846.0 0 23 30 23 846.0 0 23 31 26 846.0 0 26 32 16 846.0 0 16 33 25 846.0 0 25 34 19 846.0 0 19 35 18 846.0 0 18 36 12 846.0 0 12 37 29 846.0 0 29 38 24 846.0 0 24 39 27 846.0 0 27 40 18 846.0 0 18 41 57 846.0 0 57 42 43 846.0 0 43 43 53 846.0 0 53 44 19 846.0 0 19 45 17 846.0 0 17 46 19 846.0 0 19 47 27 846.0 0 27 48 19 846.0 0 19 49 48 846.0 0 48 50 53 846.0 0 53 51 26 846.0 0 26 52 31 846.0 0 31 53 19 846.0 0 19 54 36 846.0 0 36 55 27 846.0 0 27 56 28 846.0 0 28 57 43 846.0 0 43 58 17 846.0 0 17 59 17 846.0 0 17 60 18 846.0 0 18 61 14 846.0 0 14 62 25 846.0 0 25 63 23 846.0 0 23 64 287 846.0 0 287 65 77 846.0 0 77 66 88 846.0 0 88 67 18 846.0 0 18 68 27 846.0 0 27 69 13 846.0 0 13 70 22 846.0 0 22 71 19 846.0 0 19 72 26 846.0 0 26 73 156 846.0 0 156 74 302 846.0 0 302 75 176 846.0 0 176 76 54 846.0 0 54 77 24 846.0 0 24 78 20 846.0 0 20 79 16 846.0 0 16 80 21 846.0 0 21 81 24 846.0 0 24 82 20 846.0 0 20 83 25 846.0 0 25 84 24 846.0 0 24 85 81 846.0 0 81 86 91 846.0 0 91 87 747 846.0 0 747 88 277 846.0 0 277 89 145 846.0 0 145 90 17 846.0 0 17 91 19 846.0 0 19 92 44 846.0 0 44 93 18 846.0 0 18 94 25 846.0 0 25 95 38 846.0 0 38 96 22 846.0 0 22 97 22 846.0 0 22 98 24 846.0 0 24 99 29 846.0 0 29 100 20 846.0 0 20 101 24 846.0 0 24 102 23 846.0 0 23 103 23 846.0 0 23 104 19 846.0 0 19 105 22 846.0 0 22 106 14 846.0 0 14 107 16 846.0 0 16 108 13 846.0 0 13 109 25 846.0 0 25 110 17 846.0 0 17 111 13 846.0 0 13 112 23 846.0 0 23 113 25 846.0 0 25 114 47 846.0 0 47 115 19 846.0 0 19 116 26 846.0 0 26 117 45 846.0 0 45 118 38 846.0 0 38 119 23 846.0 0 23 120 16 846.0 0 16 121 26 846.0 0 26 122 17 846.0 0 17 123 31 846.0 0 31 124 23 846.0 0 23 125 55 846.0 0 55 126 30 846.0 0 30 127 24 846.0 0 24 128 27 846.0 0 27 129 82 846.0 0 82 130 23 846.0 0 23 131 28 846.0 0 28 132 34 846.0 0 34 133 30 846.0 0 30 134 36 846.0 0 36 135 30 846.0 0 30 136 34 846.0 0 34 137 48 846.0 0 48 138 68 846.0 0 68 139 54 846.0 0 54 140 39 846.0 0 39 141 38 846.0 0 38 142 65 846.0 0 65 143 141 846.0 0 141 144 77 846.0 0 77 145 83 846.0 0 83 146 79 846.0 0 79 147 43 846.0 0 43 148 58 846.0 0 58 149 55 846.0 0 55 150 136 846.0 0 136 151 1054 846.0 0 1054 152 581 846.0 0 581 153 845 846.0 0 845 154 115 846.0 0 115 155 158 846.0 0 158 156 1418 846.0 0 1418 157 997 846.0 0 997 158 2147 846.0 0 2147 159 314 846.0 0 314 160 80 846.0 0 80 161 144 846.0 0 144 162 38 846.0 0 38 163 43 846.0 0 43 164 56 846.0 0 56 165 88 846.0 0 88 166 72 846.0 0 72 167 86 846.0 0 86 168 53 846.0 0 53 169 56 846.0 0 56 170 228 846.0 0 228 171 662 846.0 0 662 172 222 846.0 0 222 173 69 846.0 0 69 174 47 846.0 0 47 175 182 846.0 0 182 176 663 846.0 0 663 177 267 846.0 0 267 178 348 846.0 0 348 179 149 846.0 0 149 180 66 846.0 0 66 181 39 846.0 0 39 182 66 846.0 0 66 183 51 846.0 0 51 184 108 846.0 0 108 185 56 846.0 0 56 186 49 846.0 0 49 187 34 846.0 0 34 188 62 846.0 0 62 189 45 846.0 0 45 190 32 846.0 0 32 191 25 846.0 0 25 192 35 846.0 0 35 193 44 846.0 0 44 194 25 846.0 0 25 195 30 846.0 0 30 196 23 846.0 0 23 197 23 846.0 0 23 198 21 846.0 0 21 199 27 846.0 0 27 200 72 846.0 0 72 201 38 846.0 0 38 202 23 846.0 0 23 203 30 846.0 0 30 204 25 846.0 0 25 205 59 846.0 0 59 206 52 846.0 0 52 207 41 846.0 0 41 208 35 846.0 0 35 209 26 846.0 0 26 210 32 846.0 0 32 211 37 846.0 0 37 212 25 846.0 0 25 213 20 846.0 0 20 214 40 846.0 0 40 215 47 846.0 0 47 216 54 846.0 0 54 217 52 846.0 0 52 218 61 846.0 0 61 219 52 846.0 0 52 220 24 846.0 0 24 221 23 846.0 0 23 222 31 846.0 0 31 223 30 846.0 0 30 224 36 846.0 0 36 225 53 846.0 0 53 226 40 846.0 0 40 227 36 846.0 0 36 228 83 846.0 0 83 229 77 846.0 0 77 230 75 846.0 0 75 231 57 846.0 0 57 232 60 846.0 0 60 233 231 846.0 0 231 234 119 846.0 0 119 235 313 846.0 0 313 236 111 846.0 0 111 237 57 846.0 0 57 238 136 846.0 0 136 239 63 846.0 0 63 240 32 846.0 0 32 241 22 846.0 0 22 242 23 846.0 0 23 243 32 846.0 0 32 244 57 846.0 0 57 245 75 846.0 0 75 246 66 846.0 0 66 247 56 846.0 0 56 248 62 846.0 0 62 249 77 846.0 0 77 250 90 846.0 0 90 251 55 846.0 0 55 252 55 846.0 0 55 253 354 846.0 0 354 254 393 846.0 0 393 255 397 846.0 0 397 256 109 846.0 0 109 257 199 846.0 0 199 258 233 846.0 0 233 259 3164 846.0 0 3164 260 139 846.0 0 139 261 207 846.0 0 207 262 1471 846.0 0 1471 263 8327 846.0 0 8327 264 2506 846.0 0 2506 265 1752 846.0 0 1752 266 91 846.0 0 91 267 123 846.0 0 123 268 52 846.0 0 52 269 50 846.0 0 50 270 21 846.0 0 21 271 12 846.0 0 12 272 34 846.0 0 34 273 56 846.0 0 56 274 61 846.0 0 61 275 22 846.0 0 22 276 20 846.0 0 20 277 116 846.0 0 116 278 355 846.0 0 355 279 83 846.0 0 83 280 81 846.0 0 81 281 72 846.0 0 72 282 51 846.0 0 51 283 56 846.0 0 56 284 103 846.0 0 103 285 187 846.0 0 187 286 182 846.0 0 182 287 527 846.0 0 527 288 430 846.0 0 430 289 445 846.0 0 445 290 86 846.0 0 86 291 168 846.0 0 168 292 1155 846.0 0 1155 293 2172 846.0 0 2172 294 677 846.0 0 677 295 265 846.0 0 265 296 184 846.0 0 184 297 376 846.0 0 376 298 2204 846.0 0 2204 299 2909 846.0 0 2909 300 3253 846.0 0 3253 301 156 846.0 0 156 Finished in 1.45 s (43 us/read; 1.39 M reads/minute). === Summary === Total reads processed: 33,627 Reads with adapters: 14,894 (44.3%) Reads that were too short: 9 (0.0%) Reads written (passing filters): 14,885 (44.3%) Total basepairs processed: 7,474,863 bp Total written (filtered): 4,077,196 bp (54.5%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 14894 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 2 3 1 19 58 0.0 3 0 52 3 2 1 20 14105 0.0 4 13803 267 23 7 5 21 28 0.0 4 3 25 22 18 0.0 4 3 11 0 1 3 23 665 0.0 4 603 38 3 15 6 24 1 0.0 4 1 26 2 0.0 4 0 0 0 2 64 1 0.0 4 0 0 0 0 1 65 1 0.0 4 0 0 0 1 66 2 0.0 4 0 0 0 0 2 67 1 0.0 4 0 0 0 0 1 70 2 0.0 4 0 0 0 0 2 89 1 0.0 4 0 0 0 0 1 96 1 0.0 4 0 0 0 0 1 166 1 0.0 4 0 0 0 0 1 225 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 0.51 s (34 us/read; 1.75 M reads/minute). === Summary === Total reads processed: 14,885 Reads with adapters: 550 (3.7%) Reads written (passing filters): 14,885 (100.0%) Total basepairs processed: 4,077,196 bp Total written (filtered): 4,066,176 bp (99.7%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 550 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 6.9% C: 2.7% G: 88.7% T: 1.6% 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 6 232.6 0 6 9 7 0.1 0 1 6 10 20 0.0 1 2 18 11 470 0.0 1 3 467 12 25 0.0 1 0 25 13 1 0.0 1 0 1 171 1 0.0 1 1 193 1 0.0 1 0 1 210 3 0.0 1 3 257 1 0.0 1 1 262 2 0.0 1 2 263 2 0.0 1 2 264 1 0.0 1 1 265 4 0.0 1 4 270 1 0.0 1 1 272 4 0.0 1 4 273 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.