This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g ACTTCA -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 165.09 s (48 us/read; 1.26 M reads/minute). === Summary === Total reads processed: 3,470,393 Reads with adapters: 168,801 (4.9%) Reads that were too short: 127,479 (3.7%) Reads written (passing filters): 41,322 (1.2%) Total basepairs processed: 1,044,588,293 bp Total written (filtered): 7,019,933 bp (0.7%) === Adapter 1 === Sequence: ACTTCA; Type: regular 5'; Length: 6; Trimmed: 168801 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 344 847.3 0 344 7 167 847.3 0 167 8 36 847.3 0 36 9 128 847.3 0 128 10 62 847.3 0 62 11 48 847.3 0 48 12 49 847.3 0 49 13 33 847.3 0 33 14 48 847.3 0 48 15 106 847.3 0 106 16 74 847.3 0 74 17 60 847.3 0 60 18 69 847.3 0 69 19 61 847.3 0 61 20 76 847.3 0 76 21 29 847.3 0 29 22 51 847.3 0 51 23 63 847.3 0 63 24 43 847.3 0 43 25 50 847.3 0 50 26 53 847.3 0 53 27 50 847.3 0 50 28 60 847.3 0 60 29 43 847.3 0 43 30 62 847.3 0 62 31 35 847.3 0 35 32 53 847.3 0 53 33 42 847.3 0 42 34 43 847.3 0 43 35 66 847.3 0 66 36 56 847.3 0 56 37 54 847.3 0 54 38 78 847.3 0 78 39 60 847.3 0 60 40 93 847.3 0 93 41 90 847.3 0 90 42 47 847.3 0 47 43 48 847.3 0 48 44 58 847.3 0 58 45 47 847.3 0 47 46 43 847.3 0 43 47 60 847.3 0 60 48 66 847.3 0 66 49 56 847.3 0 56 50 64 847.3 0 64 51 91 847.3 0 91 52 56 847.3 0 56 53 73 847.3 0 73 54 56 847.3 0 56 55 65 847.3 0 65 56 94 847.3 0 94 57 392 847.3 0 392 58 524 847.3 0 524 59 1598 847.3 0 1598 60 49 847.3 0 49 61 54 847.3 0 54 62 40 847.3 0 40 63 40 847.3 0 40 64 60 847.3 0 60 65 87 847.3 0 87 66 37 847.3 0 37 67 30 847.3 0 30 68 49 847.3 0 49 69 64 847.3 0 64 70 46 847.3 0 46 71 53 847.3 0 53 72 65 847.3 0 65 73 61 847.3 0 61 74 120 847.3 0 120 75 67 847.3 0 67 76 64 847.3 0 64 77 47 847.3 0 47 78 53 847.3 0 53 79 91 847.3 0 91 80 94 847.3 0 94 81 62 847.3 0 62 82 63 847.3 0 63 83 96 847.3 0 96 84 73 847.3 0 73 85 47 847.3 0 47 86 59 847.3 0 59 87 73 847.3 0 73 88 107 847.3 0 107 89 114 847.3 0 114 90 123 847.3 0 123 91 111 847.3 0 111 92 128 847.3 0 128 93 67 847.3 0 67 94 52 847.3 0 52 95 77 847.3 0 77 96 66 847.3 0 66 97 56 847.3 0 56 98 117 847.3 0 117 99 113 847.3 0 113 100 63 847.3 0 63 101 55 847.3 0 55 102 73 847.3 0 73 103 80 847.3 0 80 104 134 847.3 0 134 105 187 847.3 0 187 106 154 847.3 0 154 107 289 847.3 0 289 108 167 847.3 0 167 109 143 847.3 0 143 110 117 847.3 0 117 111 78 847.3 0 78 112 69 847.3 0 69 113 66 847.3 0 66 114 87 847.3 0 87 115 98 847.3 0 98 116 109 847.3 0 109 117 140 847.3 0 140 118 92 847.3 0 92 119 117 847.3 0 117 120 184 847.3 0 184 121 251 847.3 0 251 122 1325 847.3 0 1325 123 759 847.3 0 759 124 1499 847.3 0 1499 125 88 847.3 0 88 126 75 847.3 0 75 127 102 847.3 0 102 128 84 847.3 0 84 129 108 847.3 0 108 130 136 847.3 0 136 131 127 847.3 0 127 132 120 847.3 0 120 133 136 847.3 0 136 134 126 847.3 0 126 135 168 847.3 0 168 136 116 847.3 0 116 137 177 847.3 0 177 138 96 847.3 0 96 139 152 847.3 0 152 140 145 847.3 0 145 141 359 847.3 0 359 142 471 847.3 0 471 143 570 847.3 0 570 144 170 847.3 0 170 145 128 847.3 0 128 146 149 847.3 0 149 147 264 847.3 0 264 148 411 847.3 0 411 149 581 847.3 0 581 150 367 847.3 0 367 151 2379 847.3 0 2379 152 2448 847.3 0 2448 153 5317 847.3 0 5317 154 135 847.3 0 135 155 191 847.3 0 191 156 180 847.3 0 180 157 429 847.3 0 429 158 394 847.3 0 394 159 540 847.3 0 540 160 169 847.3 0 169 161 241 847.3 0 241 162 352 847.3 0 352 163 417 847.3 0 417 164 209 847.3 0 209 165 101 847.3 0 101 166 101 847.3 0 101 167 141 847.3 0 141 168 151 847.3 0 151 169 162 847.3 0 162 170 145 847.3 0 145 171 128 847.3 0 128 172 73 847.3 0 73 173 71 847.3 0 71 174 104 847.3 0 104 175 103 847.3 0 103 176 229 847.3 0 229 177 253 847.3 0 253 178 150 847.3 0 150 179 144 847.3 0 144 180 106 847.3 0 106 181 133 847.3 0 133 182 413 847.3 0 413 183 326 847.3 0 326 184 276 847.3 0 276 185 153 847.3 0 153 186 306 847.3 0 306 187 228 847.3 0 228 188 225 847.3 0 225 189 253 847.3 0 253 190 90 847.3 0 90 191 86 847.3 0 86 192 88 847.3 0 88 193 134 847.3 0 134 194 170 847.3 0 170 195 232 847.3 0 232 196 501 847.3 0 501 197 263 847.3 0 263 198 303 847.3 0 303 199 127 847.3 0 127 200 241 847.3 0 241 201 601 847.3 0 601 202 408 847.3 0 408 203 349 847.3 0 349 204 191 847.3 0 191 205 238 847.3 0 238 206 354 847.3 0 354 207 373 847.3 0 373 208 704 847.3 0 704 209 1462 847.3 0 1462 210 1765 847.3 0 1765 211 2529 847.3 0 2529 212 2523 847.3 0 2523 213 18690 847.3 0 18690 214 19459 847.3 0 19459 215 46974 847.3 0 46974 216 1635 847.3 0 1635 217 203 847.3 0 203 218 196 847.3 0 196 219 210 847.3 0 210 220 338 847.3 0 338 221 1475 847.3 0 1475 222 2571 847.3 0 2571 223 4737 847.3 0 4737 224 710 847.3 0 710 225 116 847.3 0 116 226 128 847.3 0 128 227 151 847.3 0 151 228 109 847.3 0 109 229 96 847.3 0 96 230 101 847.3 0 101 231 211 847.3 0 211 232 228 847.3 0 228 233 163 847.3 0 163 234 112 847.3 0 112 235 153 847.3 0 153 236 164 847.3 0 164 237 123 847.3 0 123 238 125 847.3 0 125 239 121 847.3 0 121 240 113 847.3 0 113 241 141 847.3 0 141 242 159 847.3 0 159 243 209 847.3 0 209 244 277 847.3 0 277 245 371 847.3 0 371 246 341 847.3 0 341 247 112 847.3 0 112 248 100 847.3 0 100 249 108 847.3 0 108 250 114 847.3 0 114 251 145 847.3 0 145 252 130 847.3 0 130 253 122 847.3 0 122 254 144 847.3 0 144 255 214 847.3 0 214 256 208 847.3 0 208 257 516 847.3 0 516 258 560 847.3 0 560 259 912 847.3 0 912 260 606 847.3 0 606 261 459 847.3 0 459 262 397 847.3 0 397 263 729 847.3 0 729 264 624 847.3 0 624 265 376 847.3 0 376 266 135 847.3 0 135 267 125 847.3 0 125 268 168 847.3 0 168 269 290 847.3 0 290 270 435 847.3 0 435 271 360 847.3 0 360 272 327 847.3 0 327 273 152 847.3 0 152 274 175 847.3 0 175 275 185 847.3 0 185 276 244 847.3 0 244 277 233 847.3 0 233 278 191 847.3 0 191 279 155 847.3 0 155 280 170 847.3 0 170 281 374 847.3 0 374 282 487 847.3 0 487 283 489 847.3 0 489 284 588 847.3 0 588 285 531 847.3 0 531 286 427 847.3 0 427 287 203 847.3 0 203 288 151 847.3 0 151 289 232 847.3 0 232 290 310 847.3 0 310 291 185 847.3 0 185 292 143 847.3 0 143 293 116 847.3 0 116 294 183 847.3 0 183 295 211 847.3 0 211 296 258 847.3 0 258 297 259 847.3 0 259 298 171 847.3 0 171 299 163 847.3 0 163 300 159 847.3 0 159 301 112 847.3 0 112 Finished in 2.44 s (59 us/read; 1.02 M reads/minute). === Summary === Total reads processed: 41,322 Reads with adapters: 420 (1.0%) Reads that were too short: 8 (0.0%) Reads written (passing filters): 412 (1.0%) Total basepairs processed: 7,019,933 bp Total written (filtered): 109,553 bp (1.6%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 420 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 1 0.0 3 0 0 0 1 20 91 0.0 4 80 4 4 1 2 22 22 0.0 4 12 7 3 23 276 0.0 4 258 14 4 24 2 0.0 4 0 1 0 1 27 16 0.0 4 0 0 0 0 16 28 1 0.0 4 0 0 0 0 1 30 1 0.0 4 0 0 0 0 1 68 1 0.0 4 0 0 0 0 1 95 1 0.0 4 0 0 0 0 1 99 1 0.0 4 0 0 0 0 1 112 1 0.0 4 0 0 0 0 1 122 1 0.0 4 0 0 0 1 123 1 0.0 4 0 0 0 0 1 127 1 0.0 4 0 0 0 0 1 157 1 0.0 4 0 0 0 0 1 182 1 0.0 4 0 0 0 0 1 197 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 0.03 s (73 us/read; 0.82 M reads/minute). === Summary === Total reads processed: 412 Reads with adapters: 85 (20.6%) Reads written (passing filters): 412 (100.0%) Total basepairs processed: 109,553 bp Total written (filtered): 108,079 bp (98.7%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 85 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 3.5% C: 5.9% G: 89.4% T: 1.2% 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 4 1 1.6 0 1 9 34 0.0 0 3 31 10 31 0.0 1 0 31 11 15 0.0 1 1 14 12 1 0.0 1 0 1 208 2 0.0 1 2 261 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.