This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AAGCAG -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 98.31 s (31 us/read; 1.95 M reads/minute). === Summary === Total reads processed: 3,193,041 Reads with adapters: 222,946 (7.0%) Reads that were too short: 30,790 (1.0%) Reads written (passing filters): 192,156 (6.0%) Total basepairs processed: 961,105,341 bp Total written (filtered): 37,881,074 bp (3.9%) === Adapter 1 === Sequence: AAGCAG; Type: regular 5'; Length: 6; Trimmed: 222946 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1258 779.6 0 1258 7 49604 779.6 0 49604 8 53 779.6 0 53 9 54 779.6 0 54 10 24 779.6 0 24 11 45 779.6 0 45 12 23 779.6 0 23 13 19 779.6 0 19 14 23 779.6 0 23 15 34 779.6 0 34 16 17 779.6 0 17 17 21 779.6 0 21 18 19 779.6 0 19 19 21 779.6 0 21 20 39 779.6 0 39 21 72 779.6 0 72 22 71 779.6 0 71 23 113 779.6 0 113 24 349 779.6 0 349 25 268 779.6 0 268 26 271 779.6 0 271 27 33 779.6 0 33 28 27 779.6 0 27 29 28 779.6 0 28 30 21 779.6 0 21 31 17 779.6 0 17 32 21 779.6 0 21 33 25 779.6 0 25 34 19 779.6 0 19 35 12 779.6 0 12 36 23 779.6 0 23 37 18 779.6 0 18 38 22 779.6 0 22 39 24 779.6 0 24 40 24 779.6 0 24 41 21 779.6 0 21 42 18 779.6 0 18 43 22 779.6 0 22 44 36 779.6 0 36 45 16 779.6 0 16 46 24 779.6 0 24 47 28 779.6 0 28 48 23 779.6 0 23 49 22 779.6 0 22 50 22 779.6 0 22 51 24 779.6 0 24 52 11 779.6 0 11 53 26 779.6 0 26 54 39 779.6 0 39 55 69 779.6 0 69 56 49 779.6 0 49 57 33 779.6 0 33 58 24 779.6 0 24 59 32 779.6 0 32 60 35 779.6 0 35 61 143 779.6 0 143 62 374 779.6 0 374 63 512 779.6 0 512 64 23 779.6 0 23 65 31 779.6 0 31 66 42 779.6 0 42 67 35 779.6 0 35 68 27 779.6 0 27 69 84 779.6 0 84 70 99 779.6 0 99 71 374 779.6 0 374 72 72 779.6 0 72 73 78 779.6 0 78 74 88 779.6 0 88 75 38 779.6 0 38 76 58 779.6 0 58 77 151 779.6 0 151 78 197 779.6 0 197 79 221 779.6 0 221 80 374 779.6 0 374 81 186 779.6 0 186 82 581 779.6 0 581 83 887 779.6 0 887 84 826 779.6 0 826 85 627 779.6 0 627 86 267 779.6 0 267 87 152 779.6 0 152 88 54 779.6 0 54 89 226 779.6 0 226 90 271 779.6 0 271 91 61 779.6 0 61 92 137 779.6 0 137 93 243 779.6 0 243 94 119 779.6 0 119 95 146 779.6 0 146 96 107 779.6 0 107 97 89 779.6 0 89 98 107 779.6 0 107 99 233 779.6 0 233 100 181 779.6 0 181 101 191 779.6 0 191 102 143 779.6 0 143 103 117 779.6 0 117 104 115 779.6 0 115 105 145 779.6 0 145 106 232 779.6 0 232 107 271 779.6 0 271 108 171 779.6 0 171 109 228 779.6 0 228 110 417 779.6 0 417 111 559 779.6 0 559 112 6098 779.6 0 6098 113 4123 779.6 0 4123 114 7201 779.6 0 7201 115 418 779.6 0 418 116 264 779.6 0 264 117 254 779.6 0 254 118 617 779.6 0 617 119 790 779.6 0 790 120 2248 779.6 0 2248 121 2559 779.6 0 2559 122 6493 779.6 0 6493 123 510 779.6 0 510 124 669 779.6 0 669 125 4513 779.6 0 4513 126 26254 779.6 0 26254 127 12865 779.6 0 12865 128 215 779.6 0 215 129 219 779.6 0 219 130 121 779.6 0 121 131 166 779.6 0 166 132 222 779.6 0 222 133 152 779.6 0 152 134 181 779.6 0 181 135 142 779.6 0 142 136 193 779.6 0 193 137 188 779.6 0 188 138 188 779.6 0 188 139 165 779.6 0 165 140 211 779.6 0 211 141 253 779.6 0 253 142 188 779.6 0 188 143 184 779.6 0 184 144 342 779.6 0 342 145 278 779.6 0 278 146 267 779.6 0 267 147 812 779.6 0 812 148 899 779.6 0 899 149 540 779.6 0 540 150 307 779.6 0 307 151 141 779.6 0 141 152 211 779.6 0 211 153 281 779.6 0 281 154 354 779.6 0 354 155 162 779.6 0 162 156 154 779.6 0 154 157 270 779.6 0 270 158 276 779.6 0 276 159 247 779.6 0 247 160 174 779.6 0 174 161 277 779.6 0 277 162 201 779.6 0 201 163 311 779.6 0 311 164 390 779.6 0 390 165 475 779.6 0 475 166 645 779.6 0 645 167 610 779.6 0 610 168 678 779.6 0 678 169 429 779.6 0 429 170 496 779.6 0 496 171 1115 779.6 0 1115 172 1030 779.6 0 1030 173 1205 779.6 0 1205 174 1666 779.6 0 1666 175 180 779.6 0 180 176 185 779.6 0 185 177 159 779.6 0 159 178 301 779.6 0 301 179 336 779.6 0 336 180 379 779.6 0 379 181 340 779.6 0 340 182 271 779.6 0 271 183 807 779.6 0 807 184 1080 779.6 0 1080 185 2550 779.6 0 2550 186 276 779.6 0 276 187 270 779.6 0 270 188 247 779.6 0 247 189 261 779.6 0 261 190 584 779.6 0 584 191 5758 779.6 0 5758 192 13696 779.6 0 13696 193 2545 779.6 0 2545 194 678 779.6 0 678 195 488 779.6 0 488 196 261 779.6 0 261 197 221 779.6 0 221 198 464 779.6 0 464 199 603 779.6 0 603 200 566 779.6 0 566 201 147 779.6 0 147 202 150 779.6 0 150 203 250 779.6 0 250 204 271 779.6 0 271 205 166 779.6 0 166 206 165 779.6 0 165 207 172 779.6 0 172 208 163 779.6 0 163 209 646 779.6 0 646 210 185 779.6 0 185 211 258 779.6 0 258 212 184 779.6 0 184 213 170 779.6 0 170 214 208 779.6 0 208 215 280 779.6 0 280 216 247 779.6 0 247 217 325 779.6 0 325 218 307 779.6 0 307 219 390 779.6 0 390 220 318 779.6 0 318 221 98 779.6 0 98 222 117 779.6 0 117 223 326 779.6 0 326 224 285 779.6 0 285 225 213 779.6 0 213 226 249 779.6 0 249 227 292 779.6 0 292 228 477 779.6 0 477 229 366 779.6 0 366 230 468 779.6 0 468 231 429 779.6 0 429 232 321 779.6 0 321 233 129 779.6 0 129 234 263 779.6 0 263 235 740 779.6 0 740 236 227 779.6 0 227 237 234 779.6 0 234 238 163 779.6 0 163 239 194 779.6 0 194 240 186 779.6 0 186 241 180 779.6 0 180 242 152 779.6 0 152 243 287 779.6 0 287 244 361 779.6 0 361 245 357 779.6 0 357 246 294 779.6 0 294 247 484 779.6 0 484 248 162 779.6 0 162 249 133 779.6 0 133 250 202 779.6 0 202 251 509 779.6 0 509 252 704 779.6 0 704 253 693 779.6 0 693 254 298 779.6 0 298 255 241 779.6 0 241 256 272 779.6 0 272 257 341 779.6 0 341 258 199 779.6 0 199 259 82 779.6 0 82 260 102 779.6 0 102 261 190 779.6 0 190 262 227 779.6 0 227 263 321 779.6 0 321 264 270 779.6 0 270 265 397 779.6 0 397 266 202 779.6 0 202 267 843 779.6 0 843 268 357 779.6 0 357 269 1960 779.6 0 1960 270 311 779.6 0 311 271 234 779.6 0 234 272 169 779.6 0 169 273 283 779.6 0 283 274 175 779.6 0 175 275 171 779.6 0 171 276 161 779.6 0 161 277 255 779.6 0 255 278 382 779.6 0 382 279 414 779.6 0 414 280 252 779.6 0 252 281 167 779.6 0 167 282 285 779.6 0 285 283 456 779.6 0 456 284 581 779.6 0 581 285 264 779.6 0 264 286 228 779.6 0 228 287 142 779.6 0 142 288 127 779.6 0 127 289 274 779.6 0 274 290 456 779.6 0 456 291 398 779.6 0 398 292 308 779.6 0 308 293 592 779.6 0 592 294 305 779.6 0 305 295 224 779.6 0 224 296 352 779.6 0 352 297 686 779.6 0 686 298 223 779.6 0 223 299 249 779.6 0 249 300 168 779.6 0 168 301 46 779.6 0 46 Finished in 8.49 s (44 us/read; 1.36 M reads/minute). === Summary === Total reads processed: 192,156 Reads with adapters: 50,715 (26.4%) Reads that were too short: 59 (0.0%) Reads written (passing filters): 50,656 (26.4%) Total basepairs processed: 37,881,074 bp Total written (filtered): 13,878,649 bp (36.6%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 50715 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 16 2 0.0 3 0 0 0 0 2 17 1 0.0 3 0 0 0 0 1 18 23 0.0 3 0 0 17 4 2 19 472 0.0 3 0 459 8 3 2 20 49960 0.0 4 48917 957 66 16 4 21 131 0.0 4 33 96 1 1 22 14 0.0 4 2 0 11 0 1 23 30 0.0 4 1 0 1 25 3 24 1 0.0 4 1 32 1 0.0 4 0 0 0 1 35 1 0.0 4 0 0 0 0 1 37 1 0.0 4 0 0 0 0 1 43 1 0.0 4 0 0 0 1 45 1 0.0 4 0 0 0 0 1 49 2 0.0 4 0 0 0 0 2 51 11 0.0 4 0 0 0 0 11 60 1 0.0 4 0 0 0 0 1 65 3 0.0 4 0 0 0 0 3 66 1 0.0 4 0 0 0 0 1 70 2 0.0 4 0 0 0 0 2 72 2 0.0 4 0 0 0 1 1 74 1 0.0 4 0 0 0 0 1 76 1 0.0 4 0 0 0 0 1 77 1 0.0 4 0 0 0 0 1 90 2 0.0 4 0 0 0 0 2 91 1 0.0 4 0 0 0 0 1 94 1 0.0 4 1 95 1 0.0 4 0 0 0 0 1 100 1 0.0 4 0 0 0 0 1 101 1 0.0 4 0 0 0 0 1 107 4 0.0 4 0 0 0 0 4 108 1 0.0 4 0 0 0 0 1 109 1 0.0 4 0 0 0 0 1 110 2 0.0 4 0 0 0 0 2 112 1 0.0 4 0 0 0 0 1 113 1 0.0 4 0 0 0 0 1 117 1 0.0 4 0 0 0 0 1 120 2 0.0 4 0 0 0 0 2 121 1 0.0 4 0 0 0 0 1 122 1 0.0 4 0 0 0 0 1 130 1 0.0 4 0 0 0 0 1 131 1 0.0 4 0 0 0 0 1 136 1 0.0 4 0 0 0 0 1 137 1 0.0 4 0 0 0 0 1 138 1 0.0 4 0 0 0 0 1 149 1 0.0 4 0 0 0 0 1 151 1 0.0 4 0 0 0 0 1 153 1 0.0 4 0 0 0 1 156 1 0.0 4 0 0 0 0 1 158 1 0.0 4 0 0 0 0 1 164 1 0.0 4 0 0 0 0 1 167 1 0.0 4 0 0 0 0 1 171 1 0.0 4 0 0 0 0 1 175 1 0.0 4 0 0 0 0 1 177 7 0.0 4 0 0 0 0 7 178 1 0.0 4 0 0 0 0 1 179 1 0.0 4 0 0 0 0 1 184 1 0.0 4 0 0 0 0 1 196 2 0.0 4 0 0 0 0 2 204 1 0.0 4 0 0 0 0 1 229 1 0.0 4 0 0 0 0 1 238 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 2.04 s (40 us/read; 1.49 M reads/minute). === Summary === Total reads processed: 50,656 Reads with adapters: 2,250 (4.4%) Reads written (passing filters): 50,656 (100.0%) Total basepairs processed: 13,878,649 bp Total written (filtered): 13,849,456 bp (99.8%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 2250 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 3.1% C: 2.6% G: 92.4% T: 1.9% 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 6 791.5 0 6 4 55 197.9 0 55 9 2 0.2 0 1 1 10 1 0.0 1 0 1 11 2074 0.0 1 5 2069 12 82 0.0 1 1 81 13 2 0.0 1 0 2 15 1 0.0 1 0 1 16 1 0.0 1 0 1 74 1 0.0 1 1 149 1 0.0 1 1 152 7 0.0 1 1 6 210 10 0.0 1 5 5 211 1 0.0 1 1 225 3 0.0 1 3 260 1 0.0 1 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.