This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AGGTAA -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 104.68 s (33 us/read; 1.83 M reads/minute). === Summary === Total reads processed: 3,184,960 Reads with adapters: 103,134 (3.2%) Reads that were too short: 30,834 (1.0%) Reads written (passing filters): 72,300 (2.3%) Total basepairs processed: 958,672,960 bp Total written (filtered): 16,335,614 bp (1.7%) === Adapter 1 === Sequence: AGGTAA; Type: regular 5'; Length: 6; Trimmed: 103134 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 473 777.6 0 473 7 7678 777.6 0 7678 8 359 777.6 0 359 9 26529 777.6 0 26529 10 33 777.6 0 33 11 14 777.6 0 14 12 14 777.6 0 14 13 11 777.6 0 11 14 9 777.6 0 9 15 24 777.6 0 24 16 9 777.6 0 9 17 14 777.6 0 14 18 18 777.6 0 18 19 12 777.6 0 12 20 19 777.6 0 19 21 17 777.6 0 17 22 47 777.6 0 47 23 29 777.6 0 29 24 203 777.6 0 203 25 20 777.6 0 20 26 27 777.6 0 27 27 48 777.6 0 48 28 601 777.6 0 601 29 459 777.6 0 459 30 720 777.6 0 720 31 684 777.6 0 684 32 53 777.6 0 53 33 472 777.6 0 472 34 23 777.6 0 23 35 7 777.6 0 7 36 18 777.6 0 18 37 17 777.6 0 17 38 61 777.6 0 61 39 14 777.6 0 14 40 13 777.6 0 13 41 12 777.6 0 12 42 12 777.6 0 12 43 12 777.6 0 12 44 13 777.6 0 13 45 19 777.6 0 19 46 12 777.6 0 12 47 13 777.6 0 13 48 14 777.6 0 14 49 9 777.6 0 9 50 80 777.6 0 80 51 21 777.6 0 21 52 44 777.6 0 44 53 13 777.6 0 13 54 20 777.6 0 20 55 10 777.6 0 10 56 13 777.6 0 13 57 21 777.6 0 21 58 22 777.6 0 22 59 148 777.6 0 148 60 6 777.6 0 6 61 9 777.6 0 9 62 20 777.6 0 20 63 14 777.6 0 14 64 18 777.6 0 18 65 19 777.6 0 19 66 21 777.6 0 21 67 60 777.6 0 60 68 382 777.6 0 382 69 299 777.6 0 299 70 160 777.6 0 160 71 9 777.6 0 9 72 13 777.6 0 13 73 26 777.6 0 26 74 41 777.6 0 41 75 36 777.6 0 36 76 19 777.6 0 19 77 33 777.6 0 33 78 86 777.6 0 86 79 245 777.6 0 245 80 188 777.6 0 188 81 191 777.6 0 191 82 85 777.6 0 85 83 94 777.6 0 94 84 156 777.6 0 156 85 438 777.6 0 438 86 558 777.6 0 558 87 134 777.6 0 134 88 201 777.6 0 201 89 306 777.6 0 306 90 65 777.6 0 65 91 68 777.6 0 68 92 31 777.6 0 31 93 70 777.6 0 70 94 325 777.6 0 325 95 876 777.6 0 876 96 556 777.6 0 556 97 135 777.6 0 135 98 53 777.6 0 53 99 61 777.6 0 61 100 266 777.6 0 266 101 253 777.6 0 253 102 138 777.6 0 138 103 73 777.6 0 73 104 23 777.6 0 23 105 28 777.6 0 28 106 49 777.6 0 49 107 44 777.6 0 44 108 25 777.6 0 25 109 27 777.6 0 27 110 75 777.6 0 75 111 63 777.6 0 63 112 49 777.6 0 49 113 86 777.6 0 86 114 84 777.6 0 84 115 58 777.6 0 58 116 147 777.6 0 147 117 262 777.6 0 262 118 291 777.6 0 291 119 176 777.6 0 176 120 135 777.6 0 135 121 123 777.6 0 123 122 135 777.6 0 135 123 92 777.6 0 92 124 139 777.6 0 139 125 226 777.6 0 226 126 206 777.6 0 206 127 202 777.6 0 202 128 110 777.6 0 110 129 105 777.6 0 105 130 106 777.6 0 106 131 208 777.6 0 208 132 310 777.6 0 310 133 358 777.6 0 358 134 317 777.6 0 317 135 356 777.6 0 356 136 324 777.6 0 324 137 409 777.6 0 409 138 216 777.6 0 216 139 206 777.6 0 206 140 162 777.6 0 162 141 149 777.6 0 149 142 86 777.6 0 86 143 56 777.6 0 56 144 107 777.6 0 107 145 174 777.6 0 174 146 252 777.6 0 252 147 160 777.6 0 160 148 134 777.6 0 134 149 95 777.6 0 95 150 111 777.6 0 111 151 194 777.6 0 194 152 210 777.6 0 210 153 134 777.6 0 134 154 280 777.6 0 280 155 624 777.6 0 624 156 196 777.6 0 196 157 334 777.6 0 334 158 222 777.6 0 222 159 138 777.6 0 138 160 106 777.6 0 106 161 104 777.6 0 104 162 110 777.6 0 110 163 90 777.6 0 90 164 188 777.6 0 188 165 118 777.6 0 118 166 165 777.6 0 165 167 407 777.6 0 407 168 138 777.6 0 138 169 168 777.6 0 168 170 200 777.6 0 200 171 75 777.6 0 75 172 64 777.6 0 64 173 142 777.6 0 142 174 491 777.6 0 491 175 238 777.6 0 238 176 198 777.6 0 198 177 263 777.6 0 263 178 284 777.6 0 284 179 307 777.6 0 307 180 1963 777.6 0 1963 181 1256 777.6 0 1256 182 725 777.6 0 725 183 196 777.6 0 196 184 200 777.6 0 200 185 233 777.6 0 233 186 286 777.6 0 286 187 221 777.6 0 221 188 99 777.6 0 99 189 61 777.6 0 61 190 188 777.6 0 188 191 264 777.6 0 264 192 320 777.6 0 320 193 302 777.6 0 302 194 931 777.6 0 931 195 2116 777.6 0 2116 196 268 777.6 0 268 197 287 777.6 0 287 198 671 777.6 0 671 199 565 777.6 0 565 200 804 777.6 0 804 201 806 777.6 0 806 202 4957 777.6 0 4957 203 1864 777.6 0 1864 204 113 777.6 0 113 205 177 777.6 0 177 206 190 777.6 0 190 207 95 777.6 0 95 208 61 777.6 0 61 209 58 777.6 0 58 210 77 777.6 0 77 211 122 777.6 0 122 212 162 777.6 0 162 213 194 777.6 0 194 214 147 777.6 0 147 215 92 777.6 0 92 216 102 777.6 0 102 217 107 777.6 0 107 218 141 777.6 0 141 219 208 777.6 0 208 220 122 777.6 0 122 221 71 777.6 0 71 222 92 777.6 0 92 223 212 777.6 0 212 224 153 777.6 0 153 225 98 777.6 0 98 226 99 777.6 0 99 227 214 777.6 0 214 228 167 777.6 0 167 229 131 777.6 0 131 230 155 777.6 0 155 231 98 777.6 0 98 232 55 777.6 0 55 233 46 777.6 0 46 234 95 777.6 0 95 235 189 777.6 0 189 236 150 777.6 0 150 237 110 777.6 0 110 238 137 777.6 0 137 239 170 777.6 0 170 240 164 777.6 0 164 241 74 777.6 0 74 242 76 777.6 0 76 243 90 777.6 0 90 244 77 777.6 0 77 245 148 777.6 0 148 246 121 777.6 0 121 247 150 777.6 0 150 248 177 777.6 0 177 249 1004 777.6 0 1004 250 299 777.6 0 299 251 116 777.6 0 116 252 116 777.6 0 116 253 115 777.6 0 115 254 88 777.6 0 88 255 72 777.6 0 72 256 142 777.6 0 142 257 517 777.6 0 517 258 306 777.6 0 306 259 311 777.6 0 311 260 382 777.6 0 382 261 173 777.6 0 173 262 100 777.6 0 100 263 197 777.6 0 197 264 286 777.6 0 286 265 247 777.6 0 247 266 463 777.6 0 463 267 221 777.6 0 221 268 196 777.6 0 196 269 202 777.6 0 202 270 78 777.6 0 78 271 151 777.6 0 151 272 116 777.6 0 116 273 168 777.6 0 168 274 725 777.6 0 725 275 390 777.6 0 390 276 572 777.6 0 572 277 382 777.6 0 382 278 327 777.6 0 327 279 168 777.6 0 168 280 172 777.6 0 172 281 77 777.6 0 77 282 77 777.6 0 77 283 45 777.6 0 45 284 51 777.6 0 51 285 98 777.6 0 98 286 128 777.6 0 128 287 229 777.6 0 229 288 193 777.6 0 193 289 196 777.6 0 196 290 234 777.6 0 234 291 611 777.6 0 611 292 1895 777.6 0 1895 293 392 777.6 0 392 294 250 777.6 0 250 295 216 777.6 0 216 296 180 777.6 0 180 297 231 777.6 0 231 298 203 777.6 0 203 299 2647 777.6 0 2647 300 938 777.6 0 938 301 633 777.6 0 633 Finished in 3.96 s (55 us/read; 1.10 M reads/minute). === Summary === Total reads processed: 72,300 Reads with adapters: 4,856 (6.7%) Reads that were too short: 40 (0.1%) Reads written (passing filters): 4,816 (6.7%) Total basepairs processed: 16,335,614 bp Total written (filtered): 1,311,365 bp (8.0%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 4856 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 3 0.0 3 0 0 2 0 1 19 20 0.0 3 0 17 2 0 1 20 4689 0.0 4 4580 95 10 4 21 16 0.0 4 2 13 0 0 1 22 4 0.0 4 2 0 1 0 1 23 4 0.0 4 0 0 0 3 1 24 7 0.0 4 7 26 1 0.0 4 0 0 0 0 1 36 2 0.0 4 0 0 0 0 2 39 2 0.0 4 0 0 0 1 1 40 3 0.0 4 0 0 0 0 3 51 2 0.0 4 0 0 0 0 2 60 1 0.0 4 0 0 0 0 1 61 1 0.0 4 0 0 0 0 1 90 1 0.0 4 0 0 0 0 1 91 1 0.0 4 0 0 0 0 1 94 1 0.0 4 0 0 0 0 1 101 1 0.0 4 0 0 0 1 102 1 0.0 4 0 0 0 1 109 1 0.0 4 0 0 0 0 1 111 3 0.0 4 0 0 0 0 3 120 1 0.0 4 0 0 0 0 1 127 54 0.0 4 0 0 0 0 54 128 8 0.0 4 0 0 0 0 8 129 4 0.0 4 0 0 0 0 4 134 2 0.0 4 0 0 0 0 2 142 1 0.0 4 0 0 0 0 1 148 1 0.0 4 0 0 0 0 1 153 1 0.0 4 0 0 0 0 1 169 1 0.0 4 0 0 0 0 1 203 1 0.0 4 0 0 0 0 1 212 1 0.0 4 0 0 0 0 1 214 1 0.0 4 0 0 0 0 1 220 1 0.0 4 0 0 0 0 1 228 6 0.0 4 0 0 0 0 6 233 1 0.0 4 0 0 0 0 1 243 1 0.0 4 0 0 0 0 1 257 1 0.0 4 0 0 0 0 1 259 2 0.0 4 0 0 0 0 2 283 1 0.0 4 0 0 0 0 1 290 1 0.0 4 0 0 0 0 1 291 2 0.0 4 0 0 0 0 2 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 0.21 s (44 us/read; 1.38 M reads/minute). === Summary === Total reads processed: 4,816 Reads with adapters: 182 (3.8%) Reads written (passing filters): 4,816 (100.0%) Total basepairs processed: 1,311,365 bp Total written (filtered): 1,308,470 bp (99.8%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 182 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 2.2% C: 2.2% G: 94.5% T: 1.1% 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 75.2 0 4 9 1 0.0 0 0 1 11 161 0.0 1 3 158 12 12 0.0 1 0 12 152 1 0.0 1 0 1 267 1 0.0 1 1 270 2 0.0 1 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.