This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AATCCT -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 97.69 s (32 us/read; 1.90 M reads/minute). === Summary === Total reads processed: 3,094,653 Reads with adapters: 1,374,401 (44.4%) Reads that were too short: 116,983 (3.8%) Reads written (passing filters): 1,257,418 (40.6%) Total basepairs processed: 931,490,553 bp Total written (filtered): 339,378,423 bp (36.4%) === Adapter 1 === Sequence: AATCCT; Type: regular 5'; Length: 6; Trimmed: 1374401 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 359 755.5 0 359 7 6156 755.5 0 6156 8 214 755.5 0 214 9 223 755.5 0 223 10 611 755.5 0 611 11 1083 755.5 0 1083 12 39906 755.5 0 39906 13 4845 755.5 0 4845 14 553 755.5 0 553 15 1061 755.5 0 1061 16 420 755.5 0 420 17 461 755.5 0 461 18 1789 755.5 0 1789 19 1136 755.5 0 1136 20 1273 755.5 0 1273 21 841 755.5 0 841 22 635 755.5 0 635 23 1684 755.5 0 1684 24 1745 755.5 0 1745 25 3185 755.5 0 3185 26 4798 755.5 0 4798 27 4671 755.5 0 4671 28 15684 755.5 0 15684 29 46108 755.5 0 46108 30 818095 755.5 0 818095 31 129331 755.5 0 129331 32 148608 755.5 0 148608 33 666 755.5 0 666 34 58 755.5 0 58 35 48 755.5 0 48 36 54 755.5 0 54 37 321 755.5 0 321 38 12 755.5 0 12 39 5 755.5 0 5 40 11 755.5 0 11 41 6 755.5 0 6 42 14 755.5 0 14 43 45 755.5 0 45 44 16 755.5 0 16 45 43 755.5 0 43 46 25 755.5 0 25 47 24 755.5 0 24 48 4 755.5 0 4 49 7 755.5 0 7 50 7 755.5 0 7 51 5 755.5 0 5 52 8 755.5 0 8 53 5 755.5 0 5 54 40 755.5 0 40 55 314 755.5 0 314 56 116 755.5 0 116 57 14 755.5 0 14 58 5 755.5 0 5 59 6 755.5 0 6 60 3 755.5 0 3 61 7 755.5 0 7 62 6 755.5 0 6 63 9 755.5 0 9 64 4 755.5 0 4 65 7 755.5 0 7 66 4 755.5 0 4 67 5 755.5 0 5 68 4 755.5 0 4 69 6 755.5 0 6 70 4 755.5 0 4 71 10 755.5 0 10 72 6 755.5 0 6 73 7 755.5 0 7 74 5 755.5 0 5 75 6 755.5 0 6 76 11 755.5 0 11 77 47 755.5 0 47 78 49 755.5 0 49 79 68 755.5 0 68 80 75 755.5 0 75 81 100 755.5 0 100 82 68 755.5 0 68 83 83 755.5 0 83 84 69 755.5 0 69 85 85 755.5 0 85 86 41 755.5 0 41 87 106 755.5 0 106 88 54 755.5 0 54 89 129 755.5 0 129 90 111 755.5 0 111 91 27 755.5 0 27 92 37 755.5 0 37 93 291 755.5 0 291 94 214 755.5 0 214 95 41 755.5 0 41 96 34 755.5 0 34 97 78 755.5 0 78 98 56 755.5 0 56 99 84 755.5 0 84 100 476 755.5 0 476 101 225 755.5 0 225 102 276 755.5 0 276 103 310 755.5 0 310 104 602 755.5 0 602 105 425 755.5 0 425 106 1738 755.5 0 1738 107 131 755.5 0 131 108 17 755.5 0 17 109 36 755.5 0 36 110 154 755.5 0 154 111 117 755.5 0 117 112 49 755.5 0 49 113 72 755.5 0 72 114 33 755.5 0 33 115 67 755.5 0 67 116 46 755.5 0 46 117 81 755.5 0 81 118 582 755.5 0 582 119 323 755.5 0 323 120 213 755.5 0 213 121 58 755.5 0 58 122 84 755.5 0 84 123 90 755.5 0 90 124 138 755.5 0 138 125 265 755.5 0 265 126 101 755.5 0 101 127 69 755.5 0 69 128 58 755.5 0 58 129 48 755.5 0 48 130 91 755.5 0 91 131 206 755.5 0 206 132 184 755.5 0 184 133 144 755.5 0 144 134 88 755.5 0 88 135 78 755.5 0 78 136 91 755.5 0 91 137 183 755.5 0 183 138 367 755.5 0 367 139 210 755.5 0 210 140 60 755.5 0 60 141 87 755.5 0 87 142 173 755.5 0 173 143 119 755.5 0 119 144 225 755.5 0 225 145 109 755.5 0 109 146 100 755.5 0 100 147 66 755.5 0 66 148 54 755.5 0 54 149 158 755.5 0 158 150 136 755.5 0 136 151 131 755.5 0 131 152 74 755.5 0 74 153 117 755.5 0 117 154 246 755.5 0 246 155 109 755.5 0 109 156 99 755.5 0 99 157 166 755.5 0 166 158 231 755.5 0 231 159 715 755.5 0 715 160 137 755.5 0 137 161 179 755.5 0 179 162 123 755.5 0 123 163 165 755.5 0 165 164 327 755.5 0 327 165 337 755.5 0 337 166 179 755.5 0 179 167 143 755.5 0 143 168 173 755.5 0 173 169 87 755.5 0 87 170 87 755.5 0 87 171 126 755.5 0 126 172 102 755.5 0 102 173 81 755.5 0 81 174 78 755.5 0 78 175 44 755.5 0 44 176 38 755.5 0 38 177 107 755.5 0 107 178 149 755.5 0 149 179 303 755.5 0 303 180 357 755.5 0 357 181 185 755.5 0 185 182 160 755.5 0 160 183 199 755.5 0 199 184 274 755.5 0 274 185 167 755.5 0 167 186 73 755.5 0 73 187 57 755.5 0 57 188 111 755.5 0 111 189 176 755.5 0 176 190 295 755.5 0 295 191 192 755.5 0 192 192 116 755.5 0 116 193 41 755.5 0 41 194 54 755.5 0 54 195 94 755.5 0 94 196 147 755.5 0 147 197 152 755.5 0 152 198 122 755.5 0 122 199 167 755.5 0 167 200 92 755.5 0 92 201 116 755.5 0 116 202 139 755.5 0 139 203 416 755.5 0 416 204 472 755.5 0 472 205 398 755.5 0 398 206 363 755.5 0 363 207 226 755.5 0 226 208 47 755.5 0 47 209 62 755.5 0 62 210 116 755.5 0 116 211 110 755.5 0 110 212 121 755.5 0 121 213 82 755.5 0 82 214 88 755.5 0 88 215 226 755.5 0 226 216 161 755.5 0 161 217 186 755.5 0 186 218 203 755.5 0 203 219 116 755.5 0 116 220 114 755.5 0 114 221 52 755.5 0 52 222 81 755.5 0 81 223 391 755.5 0 391 224 389 755.5 0 389 225 196 755.5 0 196 226 261 755.5 0 261 227 188 755.5 0 188 228 226 755.5 0 226 229 129 755.5 0 129 230 131 755.5 0 131 231 150 755.5 0 150 232 124 755.5 0 124 233 147 755.5 0 147 234 292 755.5 0 292 235 156 755.5 0 156 236 88 755.5 0 88 237 106 755.5 0 106 238 61 755.5 0 61 239 116 755.5 0 116 240 191 755.5 0 191 241 623 755.5 0 623 242 174 755.5 0 174 243 376 755.5 0 376 244 629 755.5 0 629 245 400 755.5 0 400 246 280 755.5 0 280 247 507 755.5 0 507 248 256 755.5 0 256 249 234 755.5 0 234 250 480 755.5 0 480 251 807 755.5 0 807 252 1302 755.5 0 1302 253 1621 755.5 0 1621 254 30828 755.5 0 30828 255 11504 755.5 0 11504 256 43335 755.5 0 43335 257 372 755.5 0 372 258 241 755.5 0 241 259 298 755.5 0 298 260 2998 755.5 0 2998 261 2695 755.5 0 2695 262 3860 755.5 0 3860 263 451 755.5 0 451 264 215 755.5 0 215 265 170 755.5 0 170 266 70 755.5 0 70 267 45 755.5 0 45 268 35 755.5 0 35 269 86 755.5 0 86 270 71 755.5 0 71 271 96 755.5 0 96 272 270 755.5 0 270 273 317 755.5 0 317 274 403 755.5 0 403 275 444 755.5 0 444 276 185 755.5 0 185 277 410 755.5 0 410 278 346 755.5 0 346 279 274 755.5 0 274 280 168 755.5 0 168 281 121 755.5 0 121 282 180 755.5 0 180 283 168 755.5 0 168 284 140 755.5 0 140 285 101 755.5 0 101 286 58 755.5 0 58 287 15 755.5 0 15 288 22 755.5 0 22 289 16 755.5 0 16 290 53 755.5 0 53 291 208 755.5 0 208 292 170 755.5 0 170 293 97 755.5 0 97 294 42 755.5 0 42 295 13 755.5 0 13 296 21 755.5 0 21 297 42 755.5 0 42 298 54 755.5 0 54 299 132 755.5 0 132 300 229 755.5 0 229 301 104 755.5 0 104 Finished in 68.83 s (55 us/read; 1.10 M reads/minute). === Summary === Total reads processed: 1,257,418 Reads with adapters: 6,506 (0.5%) Reads that were too short: 10 (0.0%) Reads written (passing filters): 6,496 (0.5%) Total basepairs processed: 339,378,423 bp Total written (filtered): 1,740,577 bp (0.5%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 6506 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 18 1 0.0 3 0 0 1 19 59 0.0 3 0 56 1 2 20 6060 0.0 4 5963 95 0 1 1 21 16 0.0 4 3 13 22 1 0.0 4 1 23 4 0.0 4 0 0 0 3 1 27 1 0.0 4 1 35 1 0.0 4 0 0 0 0 1 36 1 0.0 4 0 0 0 0 1 43 1 0.0 4 0 0 0 0 1 80 1 0.0 4 0 0 0 0 1 84 1 0.0 4 0 0 0 0 1 91 1 0.0 4 0 0 0 0 1 100 1 0.0 4 1 118 1 0.0 4 0 0 0 0 1 122 1 0.0 4 0 0 0 0 1 123 3 0.0 4 0 1 0 0 2 124 259 0.0 4 0 0 0 0 259 131 1 0.0 4 0 0 0 0 1 132 79 0.0 4 0 0 0 0 79 148 1 0.0 4 0 0 0 0 1 150 3 0.0 4 0 0 0 0 3 180 1 0.0 4 0 0 0 0 1 190 1 0.0 4 0 0 0 0 1 219 1 0.0 4 0 0 0 0 1 222 1 0.0 4 1 225 1 0.0 4 0 0 0 0 1 233 1 0.0 4 0 0 0 0 1 244 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 0.25 s (38 us/read; 1.56 M reads/minute). === Summary === Total reads processed: 6,496 Reads with adapters: 1,763 (27.1%) Reads written (passing filters): 6,496 (100.0%) Total basepairs processed: 1,740,577 bp Total written (filtered): 1,283,214 bp (73.7%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 1763 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 93.3% C: 5.5% G: 1.1% T: 0.1% none/other: 0.0% WARNING: The adapter is preceded by "A" extremely often. The provided adapter sequence may be incomplete. To fix the problem, add "A" to the beginning of the adapter sequence. Overview of removed sequences length count expect max.err error counts 3 4 101.5 0 4 11 19 0.0 1 0 19 20 6 0.0 1 5 1 224 1 0.0 1 1 225 63 0.0 1 52 11 226 2 0.0 1 2 239 1 0.0 1 1 242 1 0.0 1 1 264 5 0.0 1 4 1 265 1551 0.0 1 1463 88 266 77 0.0 1 70 7 267 2 0.0 1 2 268 1 0.0 1 0 1 269 29 0.0 1 26 3 270 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.