This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AGGATG -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 93.54 s (27 us/read; 2.22 M reads/minute). === Summary === Total reads processed: 3,465,239 Reads with adapters: 668,828 (19.3%) Reads that were too short: 24,090 (0.7%) Reads written (passing filters): 644,738 (18.6%) Total basepairs processed: 1,043,036,939 bp Total written (filtered): 176,732,322 bp (16.9%) === Adapter 1 === Sequence: AGGATG; Type: regular 5'; Length: 6; Trimmed: 668828 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 5099 846.0 0 5099 7 13230 846.0 0 13230 8 522709 846.0 0 522709 9 715 846.0 0 715 10 70 846.0 0 70 11 59 846.0 0 59 12 46 846.0 0 46 13 38 846.0 0 38 14 28 846.0 0 28 15 32 846.0 0 32 16 38 846.0 0 38 17 46 846.0 0 46 18 73 846.0 0 73 19 42 846.0 0 42 20 55 846.0 0 55 21 51 846.0 0 51 22 34 846.0 0 34 23 35 846.0 0 35 24 42 846.0 0 42 25 24 846.0 0 24 26 30 846.0 0 30 27 22 846.0 0 22 28 41 846.0 0 41 29 25 846.0 0 25 30 54 846.0 0 54 31 38 846.0 0 38 32 43 846.0 0 43 33 42 846.0 0 42 34 41 846.0 0 41 35 41 846.0 0 41 36 54 846.0 0 54 37 34 846.0 0 34 38 47 846.0 0 47 39 55 846.0 0 55 40 35 846.0 0 35 41 29 846.0 0 29 42 40 846.0 0 40 43 48 846.0 0 48 44 27 846.0 0 27 45 36 846.0 0 36 46 34 846.0 0 34 47 38 846.0 0 38 48 51 846.0 0 51 49 58 846.0 0 58 50 46 846.0 0 46 51 43 846.0 0 43 52 38 846.0 0 38 53 54 846.0 0 54 54 39 846.0 0 39 55 32 846.0 0 32 56 67 846.0 0 67 57 31 846.0 0 31 58 42 846.0 0 42 59 43 846.0 0 43 60 55 846.0 0 55 61 44 846.0 0 44 62 62 846.0 0 62 63 67 846.0 0 67 64 84 846.0 0 84 65 113 846.0 0 113 66 232 846.0 0 232 67 498 846.0 0 498 68 110 846.0 0 110 69 144 846.0 0 144 70 287 846.0 0 287 71 206 846.0 0 206 72 141 846.0 0 141 73 236 846.0 0 236 74 194 846.0 0 194 75 293 846.0 0 293 76 223 846.0 0 223 77 377 846.0 0 377 78 583 846.0 0 583 79 948 846.0 0 948 80 11999 846.0 0 11999 81 14413 846.0 0 14413 82 16706 846.0 0 16706 83 228 846.0 0 228 84 188 846.0 0 188 85 184 846.0 0 184 86 140 846.0 0 140 87 155 846.0 0 155 88 239 846.0 0 239 89 149 846.0 0 149 90 50 846.0 0 50 91 103 846.0 0 103 92 147 846.0 0 147 93 107 846.0 0 107 94 193 846.0 0 193 95 513 846.0 0 513 96 173 846.0 0 173 97 128 846.0 0 128 98 153 846.0 0 153 99 93 846.0 0 93 100 66 846.0 0 66 101 81 846.0 0 81 102 44 846.0 0 44 103 32 846.0 0 32 104 24 846.0 0 24 105 22 846.0 0 22 106 35 846.0 0 35 107 22 846.0 0 22 108 33 846.0 0 33 109 42 846.0 0 42 110 56 846.0 0 56 111 61 846.0 0 61 112 57 846.0 0 57 113 68 846.0 0 68 114 56 846.0 0 56 115 48 846.0 0 48 116 87 846.0 0 87 117 149 846.0 0 149 118 126 846.0 0 126 119 191 846.0 0 191 120 217 846.0 0 217 121 147 846.0 0 147 122 141 846.0 0 141 123 116 846.0 0 116 124 89 846.0 0 89 125 143 846.0 0 143 126 131 846.0 0 131 127 116 846.0 0 116 128 133 846.0 0 133 129 365 846.0 0 365 130 99 846.0 0 99 131 158 846.0 0 158 132 157 846.0 0 157 133 145 846.0 0 145 134 150 846.0 0 150 135 138 846.0 0 138 136 102 846.0 0 102 137 97 846.0 0 97 138 130 846.0 0 130 139 181 846.0 0 181 140 138 846.0 0 138 141 134 846.0 0 134 142 259 846.0 0 259 143 233 846.0 0 233 144 119 846.0 0 119 145 168 846.0 0 168 146 162 846.0 0 162 147 252 846.0 0 252 148 4368 846.0 0 4368 149 187 846.0 0 187 150 267 846.0 0 267 151 107 846.0 0 107 152 126 846.0 0 126 153 130 846.0 0 130 154 120 846.0 0 120 155 134 846.0 0 134 156 118 846.0 0 118 157 112 846.0 0 112 158 110 846.0 0 110 159 122 846.0 0 122 160 79 846.0 0 79 161 123 846.0 0 123 162 99 846.0 0 99 163 81 846.0 0 81 164 113 846.0 0 113 165 103 846.0 0 103 166 102 846.0 0 102 167 155 846.0 0 155 168 172 846.0 0 172 169 146 846.0 0 146 170 123 846.0 0 123 171 163 846.0 0 163 172 136 846.0 0 136 173 159 846.0 0 159 174 269 846.0 0 269 175 472 846.0 0 472 176 206 846.0 0 206 177 242 846.0 0 242 178 302 846.0 0 302 179 170 846.0 0 170 180 173 846.0 0 173 181 257 846.0 0 257 182 222 846.0 0 222 183 275 846.0 0 275 184 274 846.0 0 274 185 326 846.0 0 326 186 350 846.0 0 350 187 386 846.0 0 386 188 1680 846.0 0 1680 189 7966 846.0 0 7966 190 18166 846.0 0 18166 191 1324 846.0 0 1324 192 248 846.0 0 248 193 346 846.0 0 346 194 396 846.0 0 396 195 1618 846.0 0 1618 196 303 846.0 0 303 197 92 846.0 0 92 198 96 846.0 0 96 199 136 846.0 0 136 200 133 846.0 0 133 201 113 846.0 0 113 202 92 846.0 0 92 203 150 846.0 0 150 204 164 846.0 0 164 205 246 846.0 0 246 206 583 846.0 0 583 207 639 846.0 0 639 208 898 846.0 0 898 209 198 846.0 0 198 210 163 846.0 0 163 211 897 846.0 0 897 212 408 846.0 0 408 213 338 846.0 0 338 214 184 846.0 0 184 215 102 846.0 0 102 216 123 846.0 0 123 217 113 846.0 0 113 218 113 846.0 0 113 219 94 846.0 0 94 220 131 846.0 0 131 221 171 846.0 0 171 222 122 846.0 0 122 223 125 846.0 0 125 224 123 846.0 0 123 225 120 846.0 0 120 226 98 846.0 0 98 227 120 846.0 0 120 228 135 846.0 0 135 229 119 846.0 0 119 230 171 846.0 0 171 231 115 846.0 0 115 232 115 846.0 0 115 233 140 846.0 0 140 234 111 846.0 0 111 235 118 846.0 0 118 236 102 846.0 0 102 237 184 846.0 0 184 238 92 846.0 0 92 239 156 846.0 0 156 240 328 846.0 0 328 241 186 846.0 0 186 242 127 846.0 0 127 243 116 846.0 0 116 244 130 846.0 0 130 245 81 846.0 0 81 246 97 846.0 0 97 247 111 846.0 0 111 248 249 846.0 0 249 249 113 846.0 0 113 250 148 846.0 0 148 251 157 846.0 0 157 252 174 846.0 0 174 253 214 846.0 0 214 254 107 846.0 0 107 255 142 846.0 0 142 256 120 846.0 0 120 257 125 846.0 0 125 258 124 846.0 0 124 259 91 846.0 0 91 260 110 846.0 0 110 261 87 846.0 0 87 262 120 846.0 0 120 263 154 846.0 0 154 264 119 846.0 0 119 265 117 846.0 0 117 266 105 846.0 0 105 267 107 846.0 0 107 268 369 846.0 0 369 269 288 846.0 0 288 270 257 846.0 0 257 271 556 846.0 0 556 272 1318 846.0 0 1318 273 1603 846.0 0 1603 274 225 846.0 0 225 275 86 846.0 0 86 276 104 846.0 0 104 277 95 846.0 0 95 278 107 846.0 0 107 279 160 846.0 0 160 280 181 846.0 0 181 281 361 846.0 0 361 282 375 846.0 0 375 283 516 846.0 0 516 284 1256 846.0 0 1256 285 60 846.0 0 60 286 70 846.0 0 70 287 123 846.0 0 123 288 128 846.0 0 128 289 135 846.0 0 135 290 191 846.0 0 191 291 232 846.0 0 232 292 864 846.0 0 864 293 797 846.0 0 797 294 572 846.0 0 572 295 226 846.0 0 226 296 153 846.0 0 153 297 132 846.0 0 132 298 212 846.0 0 212 299 152 846.0 0 152 300 142 846.0 0 142 301 112 846.0 0 112 Finished in 26.93 s (42 us/read; 1.44 M reads/minute). === Summary === Total reads processed: 644,738 Reads with adapters: 534,702 (82.9%) Reads that were too short: 86 (0.0%) Reads written (passing filters): 534,616 (82.9%) Total basepairs processed: 176,732,322 bp Total written (filtered): 145,964,264 bp (82.6%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 534702 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 21 0.0 3 0 0 0 10 11 18 249 0.0 3 0 0 205 28 16 19 4811 0.0 3 0 4389 224 127 71 20 527175 0.0 4 512868 12110 1666 408 123 21 1510 0.0 4 363 1090 38 11 8 22 124 0.0 4 18 2 86 6 12 23 655 0.0 4 8 1 2 509 135 24 39 0.0 4 3 1 1 3 31 25 4 0.0 4 2 0 2 26 3 0.0 4 2 0 0 1 27 2 0.0 4 2 28 2 0.0 4 2 30 2 0.0 4 1 1 35 2 0.0 4 2 36 1 0.0 4 1 44 1 0.0 4 1 49 1 0.0 4 0 0 0 0 1 54 1 0.0 4 0 0 0 0 1 55 2 0.0 4 0 0 0 0 2 61 1 0.0 4 0 0 0 0 1 62 1 0.0 4 0 0 0 0 1 74 2 0.0 4 0 0 0 0 2 84 1 0.0 4 0 0 0 0 1 89 1 0.0 4 0 0 0 0 1 92 2 0.0 4 0 0 0 0 2 94 1 0.0 4 0 0 0 0 1 98 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 2 115 1 0.0 4 0 0 0 0 1 129 2 0.0 4 0 0 0 0 2 130 4 0.0 4 0 0 0 0 4 135 4 0.0 4 0 0 0 0 4 140 1 0.0 4 0 0 0 0 1 141 2 0.0 4 0 0 0 0 2 144 1 0.0 4 0 0 0 0 1 145 1 0.0 4 0 0 0 0 1 149 1 0.0 4 0 0 0 0 1 154 3 0.0 4 0 0 0 0 3 155 43 0.0 4 0 0 0 1 42 156 5 0.0 4 0 0 0 0 5 157 4 0.0 4 0 0 0 2 2 158 1 0.0 4 0 0 0 0 1 170 1 0.0 4 0 0 0 0 1 173 1 0.0 4 0 0 0 0 1 176 1 0.0 4 0 0 0 0 1 183 1 0.0 4 0 0 0 0 1 199 1 0.0 4 0 0 0 0 1 209 2 0.0 4 0 0 0 0 2 217 1 0.0 4 0 0 0 0 1 227 2 0.0 4 0 0 0 0 2 228 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 18.82 s (35 us/read; 1.70 M reads/minute). === Summary === Total reads processed: 534,616 Reads with adapters: 78,719 (14.7%) Reads written (passing filters): 534,616 (100.0%) Total basepairs processed: 145,964,264 bp Total written (filtered): 136,732,294 bp (93.7%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 78719 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 16.4% C: 11.6% G: 62.6% T: 9.5% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 60 8353.4 0 60 4 21 2088.3 0 21 5 2 522.1 0 2 6 4 130.5 0 4 9 53 2.0 0 1 52 10 3087 0.5 1 101 2986 11 42850 0.1 1 284 42566 12 26 0.0 1 0 26 13 12 0.0 1 1 11 14 19 0.0 1 0 19 80 7 0.0 1 5 2 114 1 0.0 1 1 151 18 0.0 1 16 2 153 1 0.0 1 1 159 1 0.0 1 1 170 16 0.0 1 16 171 1 0.0 1 1 190 3 0.0 1 0 3 209 53 0.0 1 50 3 225 1 0.0 1 1 253 2 0.0 1 2 254 1 0.0 1 1 255 4 0.0 1 4 256 2050 0.0 1 1926 124 257 63 0.0 1 59 4 258 16 0.0 1 15 1 259 4 0.0 1 4 260 1 0.0 1 1 261 2 0.0 1 2 262 23 0.0 1 21 2 263 6589 0.0 1 6222 367 264 2095 0.0 1 1995 100 265 85 0.0 1 82 3 266 13 0.0 1 12 1 267 4 0.0 1 4 268 22 0.0 1 19 3 269 6 0.0 1 5 1 270 108 0.0 1 101 7 271 14449 0.0 1 13847 602 272 6657 0.0 1 6341 316 273 247 0.0 1 236 11 274 41 0.0 1 39 2 275 1 0.0 1 1