This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CGTGCG -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 63.73 s (26 us/read; 2.30 M reads/minute). === Summary === Total reads processed: 2,442,494 Reads with adapters: 215,622 (8.8%) Reads that were too short: 138,074 (5.7%) Reads written (passing filters): 77,548 (3.2%) Total basepairs processed: 735,190,694 bp Total written (filtered): 17,175,406 bp (2.3%) === Adapter 1 === Sequence: CGTGCG; Type: regular 5'; Length: 6; Trimmed: 215622 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 330 596.3 0 330 7 3214 596.3 0 3214 8 2643 596.3 0 2643 9 47 596.3 0 47 10 32 596.3 0 32 11 19 596.3 0 19 12 23 596.3 0 23 13 23 596.3 0 23 14 33 596.3 0 33 15 29 596.3 0 29 16 16 596.3 0 16 17 34 596.3 0 34 18 25 596.3 0 25 19 18 596.3 0 18 20 24 596.3 0 24 21 46 596.3 0 46 22 21 596.3 0 21 23 25 596.3 0 25 24 19 596.3 0 19 25 26 596.3 0 26 26 20 596.3 0 20 27 15 596.3 0 15 28 23 596.3 0 23 29 38 596.3 0 38 30 57 596.3 0 57 31 25 596.3 0 25 32 20 596.3 0 20 33 29 596.3 0 29 34 10 596.3 0 10 35 24 596.3 0 24 36 14 596.3 0 14 37 15 596.3 0 15 38 14 596.3 0 14 39 21 596.3 0 21 40 30 596.3 0 30 41 15 596.3 0 15 42 21 596.3 0 21 43 34 596.3 0 34 44 28 596.3 0 28 45 21 596.3 0 21 46 32 596.3 0 32 47 43 596.3 0 43 48 48 596.3 0 48 49 56 596.3 0 56 50 70 596.3 0 70 51 109 596.3 0 109 52 66 596.3 0 66 53 34 596.3 0 34 54 41 596.3 0 41 55 46 596.3 0 46 56 93 596.3 0 93 57 50 596.3 0 50 58 47 596.3 0 47 59 50 596.3 0 50 60 91 596.3 0 91 61 160 596.3 0 160 62 407 596.3 0 407 63 78 596.3 0 78 64 168 596.3 0 168 65 340 596.3 0 340 66 110 596.3 0 110 67 85 596.3 0 85 68 230 596.3 0 230 69 209 596.3 0 209 70 313 596.3 0 313 71 414 596.3 0 414 72 483 596.3 0 483 73 738 596.3 0 738 74 1026 596.3 0 1026 75 18891 596.3 0 18891 76 25280 596.3 0 25280 77 11243 596.3 0 11243 78 51 596.3 0 51 79 46 596.3 0 46 80 33 596.3 0 33 81 32 596.3 0 32 82 19 596.3 0 19 83 30 596.3 0 30 84 19 596.3 0 19 85 21 596.3 0 21 86 18 596.3 0 18 87 14 596.3 0 14 88 35 596.3 0 35 89 24 596.3 0 24 90 39 596.3 0 39 91 43 596.3 0 43 92 38 596.3 0 38 93 9 596.3 0 9 94 15 596.3 0 15 95 35 596.3 0 35 96 13 596.3 0 13 97 10 596.3 0 10 98 16 596.3 0 16 99 16 596.3 0 16 100 14 596.3 0 14 101 13 596.3 0 13 102 8 596.3 0 8 103 15 596.3 0 15 104 13 596.3 0 13 105 16 596.3 0 16 106 27 596.3 0 27 107 12 596.3 0 12 108 17 596.3 0 17 109 20 596.3 0 20 110 22 596.3 0 22 111 16 596.3 0 16 112 12 596.3 0 12 113 25 596.3 0 25 114 30 596.3 0 30 115 17 596.3 0 17 116 26 596.3 0 26 117 27 596.3 0 27 118 24 596.3 0 24 119 52 596.3 0 52 120 32 596.3 0 32 121 25 596.3 0 25 122 23 596.3 0 23 123 24 596.3 0 24 124 23 596.3 0 23 125 124 596.3 0 124 126 135 596.3 0 135 127 195 596.3 0 195 128 83 596.3 0 83 129 84 596.3 0 84 130 28 596.3 0 28 131 48 596.3 0 48 132 266 596.3 0 266 133 228 596.3 0 228 134 46 596.3 0 46 135 235 596.3 0 235 136 395 596.3 0 395 137 252 596.3 0 252 138 39 596.3 0 39 139 15 596.3 0 15 140 32 596.3 0 32 141 47 596.3 0 47 142 81 596.3 0 81 143 32 596.3 0 32 144 134 596.3 0 134 145 65 596.3 0 65 146 19 596.3 0 19 147 29 596.3 0 29 148 29 596.3 0 29 149 18 596.3 0 18 150 21 596.3 0 21 151 18 596.3 0 18 152 33 596.3 0 33 153 28 596.3 0 28 154 28 596.3 0 28 155 38 596.3 0 38 156 45 596.3 0 45 157 79 596.3 0 79 158 32 596.3 0 32 159 13 596.3 0 13 160 14 596.3 0 14 161 55 596.3 0 55 162 76 596.3 0 76 163 85 596.3 0 85 164 41 596.3 0 41 165 30 596.3 0 30 166 67 596.3 0 67 167 110 596.3 0 110 168 172 596.3 0 172 169 80 596.3 0 80 170 22 596.3 0 22 171 24 596.3 0 24 172 27 596.3 0 27 173 29 596.3 0 29 174 26 596.3 0 26 175 28 596.3 0 28 176 31 596.3 0 31 177 33 596.3 0 33 178 28 596.3 0 28 179 31 596.3 0 31 180 58 596.3 0 58 181 74 596.3 0 74 182 131 596.3 0 131 183 80 596.3 0 80 184 85 596.3 0 85 185 56 596.3 0 56 186 164 596.3 0 164 187 175 596.3 0 175 188 266 596.3 0 266 189 108 596.3 0 108 190 61 596.3 0 61 191 64 596.3 0 64 192 82 596.3 0 82 193 262 596.3 0 262 194 396 596.3 0 396 195 343 596.3 0 343 196 176 596.3 0 176 197 393 596.3 0 393 198 480 596.3 0 480 199 473 596.3 0 473 200 188 596.3 0 188 201 149 596.3 0 149 202 91 596.3 0 91 203 188 596.3 0 188 204 178 596.3 0 178 205 406 596.3 0 406 206 70 596.3 0 70 207 60 596.3 0 60 208 79 596.3 0 79 209 56 596.3 0 56 210 87 596.3 0 87 211 158 596.3 0 158 212 79 596.3 0 79 213 157 596.3 0 157 214 211 596.3 0 211 215 163 596.3 0 163 216 143 596.3 0 143 217 232 596.3 0 232 218 386 596.3 0 386 219 289 596.3 0 289 220 231 596.3 0 231 221 218 596.3 0 218 222 131 596.3 0 131 223 283 596.3 0 283 224 532 596.3 0 532 225 523 596.3 0 523 226 278 596.3 0 278 227 123 596.3 0 123 228 148 596.3 0 148 229 132 596.3 0 132 230 116 596.3 0 116 231 157 596.3 0 157 232 200 596.3 0 200 233 331 596.3 0 331 234 555 596.3 0 555 235 760 596.3 0 760 236 983 596.3 0 983 237 1498 596.3 0 1498 238 21874 596.3 0 21874 239 6407 596.3 0 6407 240 20159 596.3 0 20159 241 368 596.3 0 368 242 263 596.3 0 263 243 359 596.3 0 359 244 385 596.3 0 385 245 448 596.3 0 448 246 556 596.3 0 556 247 905 596.3 0 905 248 6805 596.3 0 6805 249 16924 596.3 0 16924 250 19186 596.3 0 19186 251 16402 596.3 0 16402 252 281 596.3 0 281 253 190 596.3 0 190 254 153 596.3 0 153 255 160 596.3 0 160 256 150 596.3 0 150 257 131 596.3 0 131 258 55 596.3 0 55 259 57 596.3 0 57 260 108 596.3 0 108 261 114 596.3 0 114 262 133 596.3 0 133 263 114 596.3 0 114 264 84 596.3 0 84 265 83 596.3 0 83 266 101 596.3 0 101 267 60 596.3 0 60 268 145 596.3 0 145 269 138 596.3 0 138 270 125 596.3 0 125 271 157 596.3 0 157 272 186 596.3 0 186 273 129 596.3 0 129 274 78 596.3 0 78 275 82 596.3 0 82 276 73 596.3 0 73 277 152 596.3 0 152 278 138 596.3 0 138 279 355 596.3 0 355 280 534 596.3 0 534 281 363 596.3 0 363 282 1320 596.3 0 1320 283 1831 596.3 0 1831 284 2640 596.3 0 2640 285 873 596.3 0 873 286 298 596.3 0 298 287 311 596.3 0 311 288 276 596.3 0 276 289 174 596.3 0 174 290 110 596.3 0 110 291 145 596.3 0 145 292 213 596.3 0 213 293 161 596.3 0 161 294 323 596.3 0 323 295 435 596.3 0 435 296 842 596.3 0 842 297 712 596.3 0 712 298 393 596.3 0 393 299 470 596.3 0 470 300 333 596.3 0 333 301 312 596.3 0 312 Finished in 3.44 s (44 us/read; 1.35 M reads/minute). === Summary === Total reads processed: 77,548 Reads with adapters: 3,099 (4.0%) Reads that were too short: 60 (0.1%) Reads written (passing filters): 3,039 (3.9%) Total basepairs processed: 17,175,406 bp Total written (filtered): 822,645 bp (4.8%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 3099 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 2 0.0 3 0 0 2 19 45 0.0 3 0 33 9 2 1 20 2741 0.0 4 2556 141 33 6 5 21 8 0.0 4 1 6 0 1 22 5 0.0 4 2 3 23 172 0.0 4 144 14 0 8 6 24 3 0.0 4 0 1 2 25 1 0.0 4 0 0 0 0 1 28 1 0.0 4 0 0 0 0 1 45 1 0.0 4 0 0 0 0 1 46 1 0.0 4 0 0 0 0 1 54 2 0.0 4 0 0 0 0 2 57 1 0.0 4 0 0 0 0 1 59 49 0.0 4 0 0 0 0 49 62 2 0.0 4 0 0 0 0 2 71 1 0.0 4 0 0 0 0 1 72 2 0.0 4 0 0 0 1 1 74 1 0.0 4 0 0 0 0 1 85 6 0.0 4 0 0 0 0 6 87 1 0.0 4 0 0 0 0 1 93 1 0.0 4 0 0 0 0 1 100 7 0.0 4 0 0 0 0 7 101 3 0.0 4 0 0 0 0 3 103 2 0.0 4 0 0 0 0 2 119 1 0.0 4 0 0 0 0 1 123 1 0.0 4 0 0 0 0 1 127 2 0.0 4 0 1 0 0 1 138 2 0.0 4 0 0 0 0 2 139 2 0.0 4 0 0 0 0 2 141 1 0.0 4 0 0 0 0 1 147 2 0.0 4 0 0 0 0 2 148 1 0.0 4 0 0 0 0 1 150 1 0.0 4 0 0 0 0 1 160 1 0.0 4 0 0 0 0 1 165 1 0.0 4 0 0 0 0 1 166 1 0.0 4 0 0 0 0 1 167 2 0.0 4 0 0 0 0 2 168 1 0.0 4 0 0 0 0 1 186 1 0.0 4 0 0 0 0 1 188 2 0.0 4 0 0 0 0 2 196 1 0.0 4 0 0 0 0 1 202 1 0.0 4 0 0 0 0 1 204 1 0.0 4 0 0 0 0 1 207 1 0.0 4 0 0 0 0 1 213 2 0.0 4 0 0 0 0 2 214 5 0.0 4 0 0 0 0 5 221 1 0.0 4 0 0 0 0 1 222 2 0.0 4 0 0 0 0 2 223 1 0.0 4 0 0 0 0 1 226 1 0.0 4 0 0 0 0 1 234 1 0.0 4 0 0 0 0 1 257 1 0.0 4 0 0 0 0 1 258 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 0.11 s (36 us/read; 1.66 M reads/minute). === Summary === Total reads processed: 3,039 Reads with adapters: 592 (19.5%) Reads written (passing filters): 3,039 (100.0%) Total basepairs processed: 822,645 bp Total written (filtered): 815,740 bp (99.2%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 592 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 3.2% C: 9.0% G: 86.5% T: 1.4% 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 4 47.5 0 4 4 1 11.9 0 1 9 19 0.0 0 1 18 10 124 0.0 1 8 116 11 427 0.0 1 9 418 12 13 0.0 1 0 13 13 1 0.0 1 0 1 73 1 0.0 1 0 1 269 1 0.0 1 1 270 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.