This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g GGCGCA -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 75.92 s (27 us/read; 2.25 M reads/minute). === Summary === Total reads processed: 2,852,348 Reads with adapters: 460,233 (16.1%) Reads that were too short: 17,232 (0.6%) Reads written (passing filters): 443,001 (15.5%) Total basepairs processed: 858,556,748 bp Total written (filtered): 113,933,168 bp (13.3%) === Adapter 1 === Sequence: GGCGCA; Type: regular 5'; Length: 6; Trimmed: 460233 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1186 696.4 0 1186 7 30129 696.4 0 30129 8 30668 696.4 0 30668 9 242 696.4 0 242 10 273 696.4 0 273 11 152 696.4 0 152 12 166 696.4 0 166 13 434 696.4 0 434 14 410 696.4 0 410 15 445 696.4 0 445 16 235 696.4 0 235 17 592 696.4 0 592 18 638 696.4 0 638 19 1397 696.4 0 1397 20 27611 696.4 0 27611 21 18381 696.4 0 18381 22 26578 696.4 0 26578 23 291 696.4 0 291 24 186 696.4 0 186 25 301 696.4 0 301 26 150 696.4 0 150 27 137 696.4 0 137 28 86 696.4 0 86 29 155 696.4 0 155 30 110 696.4 0 110 31 154 696.4 0 154 32 305 696.4 0 305 33 456 696.4 0 456 34 529 696.4 0 529 35 1065 696.4 0 1065 36 2323 696.4 0 2323 37 578 696.4 0 578 38 769 696.4 0 769 39 1893 696.4 0 1893 40 580 696.4 0 580 41 624 696.4 0 624 42 1318 696.4 0 1318 43 1295 696.4 0 1295 44 1540 696.4 0 1540 45 960 696.4 0 960 46 1815 696.4 0 1815 47 2198 696.4 0 2198 48 4178 696.4 0 4178 49 81848 696.4 0 81848 50 62872 696.4 0 62872 51 113908 696.4 0 113908 52 421 696.4 0 421 53 48 696.4 0 48 54 42 696.4 0 42 55 30 696.4 0 30 56 41 696.4 0 41 57 38 696.4 0 38 58 56 696.4 0 56 59 39 696.4 0 39 60 68 696.4 0 68 61 39 696.4 0 39 62 79 696.4 0 79 63 281 696.4 0 281 64 353 696.4 0 353 65 574 696.4 0 574 66 33 696.4 0 33 67 37 696.4 0 37 68 29 696.4 0 29 69 33 696.4 0 33 70 28 696.4 0 28 71 25 696.4 0 25 72 30 696.4 0 30 73 36 696.4 0 36 74 36 696.4 0 36 75 48 696.4 0 48 76 37 696.4 0 37 77 40 696.4 0 40 78 33 696.4 0 33 79 40 696.4 0 40 80 35 696.4 0 35 81 35 696.4 0 35 82 25 696.4 0 25 83 45 696.4 0 45 84 46 696.4 0 46 85 41 696.4 0 41 86 40 696.4 0 40 87 41 696.4 0 41 88 41 696.4 0 41 89 37 696.4 0 37 90 38 696.4 0 38 91 39 696.4 0 39 92 42 696.4 0 42 93 50 696.4 0 50 94 25 696.4 0 25 95 28 696.4 0 28 96 38 696.4 0 38 97 34 696.4 0 34 98 52 696.4 0 52 99 37 696.4 0 37 100 21 696.4 0 21 101 40 696.4 0 40 102 28 696.4 0 28 103 25 696.4 0 25 104 28 696.4 0 28 105 33 696.4 0 33 106 54 696.4 0 54 107 42 696.4 0 42 108 27 696.4 0 27 109 37 696.4 0 37 110 46 696.4 0 46 111 34 696.4 0 34 112 37 696.4 0 37 113 40 696.4 0 40 114 36 696.4 0 36 115 39 696.4 0 39 116 50 696.4 0 50 117 153 696.4 0 153 118 185 696.4 0 185 119 192 696.4 0 192 120 36 696.4 0 36 121 42 696.4 0 42 122 34 696.4 0 34 123 42 696.4 0 42 124 66 696.4 0 66 125 51 696.4 0 51 126 74 696.4 0 74 127 48 696.4 0 48 128 36 696.4 0 36 129 28 696.4 0 28 130 65 696.4 0 65 131 45 696.4 0 45 132 27 696.4 0 27 133 33 696.4 0 33 134 45 696.4 0 45 135 37 696.4 0 37 136 38 696.4 0 38 137 28 696.4 0 28 138 49 696.4 0 49 139 30 696.4 0 30 140 38 696.4 0 38 141 41 696.4 0 41 142 47 696.4 0 47 143 57 696.4 0 57 144 63 696.4 0 63 145 39 696.4 0 39 146 73 696.4 0 73 147 58 696.4 0 58 148 31 696.4 0 31 149 46 696.4 0 46 150 42 696.4 0 42 151 41 696.4 0 41 152 58 696.4 0 58 153 50 696.4 0 50 154 51 696.4 0 51 155 44 696.4 0 44 156 45 696.4 0 45 157 75 696.4 0 75 158 67 696.4 0 67 159 97 696.4 0 97 160 35 696.4 0 35 161 42 696.4 0 42 162 37 696.4 0 37 163 37 696.4 0 37 164 37 696.4 0 37 165 38 696.4 0 38 166 45 696.4 0 45 167 42 696.4 0 42 168 33 696.4 0 33 169 52 696.4 0 52 170 44 696.4 0 44 171 42 696.4 0 42 172 32 696.4 0 32 173 57 696.4 0 57 174 42 696.4 0 42 175 56 696.4 0 56 176 64 696.4 0 64 177 64 696.4 0 64 178 78 696.4 0 78 179 104 696.4 0 104 180 130 696.4 0 130 181 78 696.4 0 78 182 147 696.4 0 147 183 288 696.4 0 288 184 568 696.4 0 568 185 87 696.4 0 87 186 97 696.4 0 97 187 93 696.4 0 93 188 141 696.4 0 141 189 109 696.4 0 109 190 111 696.4 0 111 191 143 696.4 0 143 192 150 696.4 0 150 193 2031 696.4 0 2031 194 1837 696.4 0 1837 195 5897 696.4 0 5897 196 1101 696.4 0 1101 197 138 696.4 0 138 198 52 696.4 0 52 199 119 696.4 0 119 200 58 696.4 0 58 201 57 696.4 0 57 202 48 696.4 0 48 203 59 696.4 0 59 204 28 696.4 0 28 205 69 696.4 0 69 206 66 696.4 0 66 207 37 696.4 0 37 208 54 696.4 0 54 209 51 696.4 0 51 210 53 696.4 0 53 211 53 696.4 0 53 212 62 696.4 0 62 213 133 696.4 0 133 214 268 696.4 0 268 215 273 696.4 0 273 216 206 696.4 0 206 217 80 696.4 0 80 218 105 696.4 0 105 219 365 696.4 0 365 220 222 696.4 0 222 221 274 696.4 0 274 222 118 696.4 0 118 223 63 696.4 0 63 224 53 696.4 0 53 225 58 696.4 0 58 226 69 696.4 0 69 227 58 696.4 0 58 228 49 696.4 0 49 229 112 696.4 0 112 230 46 696.4 0 46 231 62 696.4 0 62 232 51 696.4 0 51 233 49 696.4 0 49 234 46 696.4 0 46 235 44 696.4 0 44 236 101 696.4 0 101 237 67 696.4 0 67 238 74 696.4 0 74 239 315 696.4 0 315 240 405 696.4 0 405 241 331 696.4 0 331 242 146 696.4 0 146 243 40 696.4 0 40 244 43 696.4 0 43 245 40 696.4 0 40 246 64 696.4 0 64 247 44 696.4 0 44 248 78 696.4 0 78 249 122 696.4 0 122 250 259 696.4 0 259 251 743 696.4 0 743 252 613 696.4 0 613 253 627 696.4 0 627 254 40 696.4 0 40 255 54 696.4 0 54 256 51 696.4 0 51 257 76 696.4 0 76 258 75 696.4 0 75 259 115 696.4 0 115 260 80 696.4 0 80 261 139 696.4 0 139 262 69 696.4 0 69 263 268 696.4 0 268 264 149 696.4 0 149 265 379 696.4 0 379 266 206 696.4 0 206 267 132 696.4 0 132 268 123 696.4 0 123 269 73 696.4 0 73 270 112 696.4 0 112 271 82 696.4 0 82 272 94 696.4 0 94 273 66 696.4 0 66 274 70 696.4 0 70 275 74 696.4 0 74 276 70 696.4 0 70 277 60 696.4 0 60 278 83 696.4 0 83 279 55 696.4 0 55 280 58 696.4 0 58 281 58 696.4 0 58 282 94 696.4 0 94 283 126 696.4 0 126 284 87 696.4 0 87 285 108 696.4 0 108 286 97 696.4 0 97 287 248 696.4 0 248 288 1711 696.4 0 1711 289 1467 696.4 0 1467 290 1679 696.4 0 1679 291 196 696.4 0 196 292 75 696.4 0 75 293 128 696.4 0 128 294 98 696.4 0 98 295 78 696.4 0 78 296 64 696.4 0 64 297 74 696.4 0 74 298 69 696.4 0 69 299 113 696.4 0 113 300 186 696.4 0 186 301 127 696.4 0 127 Finished in 20.96 s (47 us/read; 1.27 M reads/minute). === Summary === Total reads processed: 443,001 Reads with adapters: 39,304 (8.9%) Reads that were too short: 93 (0.0%) Reads written (passing filters): 39,211 (8.9%) Total basepairs processed: 113,933,168 bp Total written (filtered): 9,988,323 bp (8.8%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 39304 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 10 0.0 3 0 0 10 19 444 0.0 3 0 436 7 0 1 20 31904 0.0 4 31349 535 19 1 21 61 0.0 4 3 56 2 22 7 0.0 4 0 1 5 0 1 23 19 0.0 4 0 0 1 17 1 24 1 0.0 4 0 0 0 0 1 33 1 0.0 4 1 34 1 0.0 4 0 0 0 0 1 36 1 0.0 4 0 0 0 0 1 50 2 0.0 4 0 0 0 0 2 72 1 0.0 4 1 83 12 0.0 4 0 0 0 0 12 84 23 0.0 4 0 0 0 0 23 85 5604 0.0 4 0 0 0 0 5604 88 4 0.0 4 0 0 0 0 4 97 3 0.0 4 0 0 0 0 3 98 1 0.0 4 0 0 0 0 1 111 2 0.0 4 0 0 0 0 2 112 3 0.0 4 0 0 0 0 3 113 5 0.0 4 0 0 0 0 5 114 961 0.0 4 0 0 0 0 961 127 138 0.0 4 0 0 0 0 138 150 1 0.0 4 0 0 0 0 1 154 1 0.0 4 0 0 0 0 1 163 1 0.0 4 0 0 0 0 1 165 1 0.0 4 0 0 0 0 1 172 2 0.0 4 0 0 0 1 1 174 1 0.0 4 0 0 0 0 1 183 1 0.0 4 1 186 7 0.0 4 0 0 0 0 7 187 1 0.0 4 0 0 0 0 1 189 2 0.0 4 0 0 0 0 2 190 1 0.0 4 0 0 0 0 1 193 1 0.0 4 0 0 0 0 1 194 1 0.0 4 0 0 0 0 1 198 1 0.0 4 0 0 0 0 1 206 1 0.0 4 0 0 0 0 1 207 1 0.0 4 0 0 0 0 1 209 1 0.0 4 0 0 0 0 1 215 4 0.0 4 0 0 0 0 4 216 2 0.0 4 0 0 0 0 2 218 6 0.0 4 0 0 1 0 5 219 2 0.0 4 0 0 0 0 2 221 2 0.0 4 0 0 0 0 2 222 6 0.0 4 0 0 0 0 6 223 10 0.0 4 0 0 0 0 10 224 2 0.0 4 0 0 0 0 2 234 1 0.0 4 0 0 0 0 1 240 2 0.0 4 0 0 0 0 2 241 1 0.0 4 0 0 0 0 1 242 2 0.0 4 0 1 0 0 1 244 2 0.0 4 0 0 0 0 2 246 1 0.0 4 0 0 0 1 249 2 0.0 4 0 0 0 0 2 250 6 0.0 4 0 0 0 0 6 251 5 0.0 4 0 0 0 0 5 252 8 0.0 4 0 0 0 0 8 263 1 0.0 4 0 0 0 0 1 264 1 0.0 4 0 0 0 0 1 270 1 0.0 4 0 0 0 0 1 282 1 0.0 4 0 0 0 0 1 292 1 0.0 4 0 0 0 0 1 294 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 1.31 s (33 us/read; 1.80 M reads/minute). === Summary === Total reads processed: 39,211 Reads with adapters: 2,332 (5.9%) Reads written (passing filters): 39,211 (100.0%) Total basepairs processed: 9,988,323 bp Total written (filtered): 9,963,419 bp (99.8%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 2332 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 5.1% C: 3.2% G: 89.8% T: 2.0% 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 35 612.7 0 35 4 52 153.2 0 52 5 2 38.3 0 2 9 18 0.1 0 1 17 10 809 0.0 1 21 788 11 1378 0.0 1 18 1360 12 14 0.0 1 6 8 13 1 0.0 1 0 1 14 1 0.0 1 0 1 15 1 0.0 1 0 1 19 12 0.0 1 9 3 20 3 0.0 1 3 22 2 0.0 1 1 1 41 1 0.0 1 1 153 1 0.0 1 0 1 211 1 0.0 1 0 1 224 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.