This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CCGGAA -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 87.68 s (25 us/read; 2.37 M reads/minute). === Summary === Total reads processed: 3,465,239 Reads with adapters: 669,428 (19.3%) Reads that were too short: 588,616 (17.0%) Reads written (passing filters): 80,812 (2.3%) Total basepairs processed: 1,043,036,939 bp Total written (filtered): 13,383,602 bp (1.3%) === Adapter 1 === Sequence: CCGGAA; Type: regular 5'; Length: 6; Trimmed: 669428 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 432 846.0 0 432 7 3395 846.0 0 3395 8 254 846.0 0 254 9 46 846.0 0 46 10 26 846.0 0 26 11 15 846.0 0 15 12 31 846.0 0 31 13 16 846.0 0 16 14 30 846.0 0 30 15 15 846.0 0 15 16 24 846.0 0 24 17 17 846.0 0 17 18 53 846.0 0 53 19 17 846.0 0 17 20 33 846.0 0 33 21 21 846.0 0 21 22 17 846.0 0 17 23 31 846.0 0 31 24 23 846.0 0 23 25 21 846.0 0 21 26 23 846.0 0 23 27 20 846.0 0 20 28 17 846.0 0 17 29 18 846.0 0 18 30 16 846.0 0 16 31 21 846.0 0 21 32 18 846.0 0 18 33 39 846.0 0 39 34 48 846.0 0 48 35 31 846.0 0 31 36 36 846.0 0 36 37 28 846.0 0 28 38 25 846.0 0 25 39 19 846.0 0 19 40 16 846.0 0 16 41 33 846.0 0 33 42 22 846.0 0 22 43 35 846.0 0 35 44 27 846.0 0 27 45 27 846.0 0 27 46 19 846.0 0 19 47 42 846.0 0 42 48 28 846.0 0 28 49 35 846.0 0 35 50 94 846.0 0 94 51 218 846.0 0 218 52 4872 846.0 0 4872 53 56 846.0 0 56 54 24 846.0 0 24 55 18 846.0 0 18 56 15 846.0 0 15 57 23 846.0 0 23 58 37 846.0 0 37 59 37 846.0 0 37 60 35 846.0 0 35 61 35 846.0 0 35 62 29 846.0 0 29 63 40 846.0 0 40 64 29 846.0 0 29 65 35 846.0 0 35 66 27 846.0 0 27 67 22 846.0 0 22 68 40 846.0 0 40 69 26 846.0 0 26 70 15 846.0 0 15 71 26 846.0 0 26 72 17 846.0 0 17 73 42 846.0 0 42 74 61 846.0 0 61 75 25 846.0 0 25 76 28 846.0 0 28 77 83 846.0 0 83 78 138 846.0 0 138 79 208 846.0 0 208 80 61 846.0 0 61 81 27 846.0 0 27 82 28 846.0 0 28 83 34 846.0 0 34 84 59 846.0 0 59 85 73 846.0 0 73 86 132 846.0 0 132 87 64 846.0 0 64 88 52 846.0 0 52 89 18 846.0 0 18 90 34 846.0 0 34 91 30 846.0 0 30 92 31 846.0 0 31 93 42 846.0 0 42 94 182 846.0 0 182 95 138 846.0 0 138 96 102 846.0 0 102 97 164 846.0 0 164 98 44 846.0 0 44 99 46 846.0 0 46 100 49 846.0 0 49 101 33 846.0 0 33 102 66 846.0 0 66 103 43 846.0 0 43 104 39 846.0 0 39 105 30 846.0 0 30 106 18 846.0 0 18 107 28 846.0 0 28 108 48 846.0 0 48 109 73 846.0 0 73 110 42 846.0 0 42 111 25 846.0 0 25 112 36 846.0 0 36 113 31 846.0 0 31 114 34 846.0 0 34 115 191 846.0 0 191 116 682 846.0 0 682 117 509 846.0 0 509 118 108 846.0 0 108 119 133 846.0 0 133 120 50 846.0 0 50 121 52 846.0 0 52 122 50 846.0 0 50 123 54 846.0 0 54 124 71 846.0 0 71 125 75 846.0 0 75 126 73 846.0 0 73 127 63 846.0 0 63 128 74 846.0 0 74 129 130 846.0 0 130 130 115 846.0 0 115 131 139 846.0 0 139 132 158 846.0 0 158 133 230 846.0 0 230 134 370 846.0 0 370 135 698 846.0 0 698 136 20770 846.0 0 20770 137 4743 846.0 0 4743 138 13604 846.0 0 13604 139 898 846.0 0 898 140 88 846.0 0 88 141 68 846.0 0 68 142 120 846.0 0 120 143 66 846.0 0 66 144 59 846.0 0 59 145 58 846.0 0 58 146 72 846.0 0 72 147 40 846.0 0 40 148 42 846.0 0 42 149 39 846.0 0 39 150 65 846.0 0 65 151 51 846.0 0 51 152 46 846.0 0 46 153 35 846.0 0 35 154 78 846.0 0 78 155 103 846.0 0 103 156 101 846.0 0 101 157 94 846.0 0 94 158 75 846.0 0 75 159 120 846.0 0 120 160 225 846.0 0 225 161 672 846.0 0 672 162 747 846.0 0 747 163 1087 846.0 0 1087 164 33 846.0 0 33 165 62 846.0 0 62 166 94 846.0 0 94 167 102 846.0 0 102 168 81 846.0 0 81 169 45 846.0 0 45 170 58 846.0 0 58 171 46 846.0 0 46 172 57 846.0 0 57 173 67 846.0 0 67 174 133 846.0 0 133 175 170 846.0 0 170 176 82 846.0 0 82 177 83 846.0 0 83 178 72 846.0 0 72 179 68 846.0 0 68 180 116 846.0 0 116 181 141 846.0 0 141 182 181 846.0 0 181 183 270 846.0 0 270 184 139 846.0 0 139 185 113 846.0 0 113 186 129 846.0 0 129 187 285 846.0 0 285 188 253 846.0 0 253 189 315 846.0 0 315 190 422 846.0 0 422 191 775 846.0 0 775 192 1128 846.0 0 1128 193 2108 846.0 0 2108 194 2222 846.0 0 2222 195 841 846.0 0 841 196 647 846.0 0 647 197 1138 846.0 0 1138 198 1313 846.0 0 1313 199 1332 846.0 0 1332 200 1395 846.0 0 1395 201 2634 846.0 0 2634 202 4180 846.0 0 4180 203 5007 846.0 0 5007 204 10161 846.0 0 10161 205 26070 846.0 0 26070 206 24978 846.0 0 24978 207 106479 846.0 0 106479 208 24923 846.0 0 24923 209 76709 846.0 0 76709 210 18258 846.0 0 18258 211 6757 846.0 0 6757 212 17796 846.0 0 17796 213 1133 846.0 0 1133 214 1848 846.0 0 1848 215 4419 846.0 0 4419 216 531 846.0 0 531 217 935 846.0 0 935 218 531 846.0 0 531 219 776 846.0 0 776 220 1252 846.0 0 1252 221 1381 846.0 0 1381 222 7064 846.0 0 7064 223 7332 846.0 0 7332 224 8727 846.0 0 8727 225 1146 846.0 0 1146 226 1639 846.0 0 1639 227 26671 846.0 0 26671 228 22131 846.0 0 22131 229 50452 846.0 0 50452 230 1932 846.0 0 1932 231 97 846.0 0 97 232 119 846.0 0 119 233 107 846.0 0 107 234 181 846.0 0 181 235 235 846.0 0 235 236 751 846.0 0 751 237 21742 846.0 0 21742 238 274 846.0 0 274 239 792 846.0 0 792 240 29 846.0 0 29 241 10 846.0 0 10 242 22 846.0 0 22 243 23 846.0 0 23 244 36 846.0 0 36 245 34 846.0 0 34 246 113 846.0 0 113 247 93 846.0 0 93 248 225 846.0 0 225 249 51 846.0 0 51 250 25 846.0 0 25 251 10 846.0 0 10 252 81 846.0 0 81 253 69 846.0 0 69 254 137 846.0 0 137 255 126 846.0 0 126 256 297 846.0 0 297 257 854 846.0 0 854 258 1665 846.0 0 1665 259 1161 846.0 0 1161 260 1225 846.0 0 1225 261 3781 846.0 0 3781 262 2946 846.0 0 2946 263 1546 846.0 0 1546 264 583 846.0 0 583 265 250 846.0 0 250 266 418 846.0 0 418 267 426 846.0 0 426 268 493 846.0 0 493 269 617 846.0 0 617 270 631 846.0 0 631 271 2560 846.0 0 2560 272 74136 846.0 0 74136 273 995 846.0 0 995 274 1500 846.0 0 1500 275 109 846.0 0 109 276 58 846.0 0 58 277 124 846.0 0 124 278 169 846.0 0 169 279 693 846.0 0 693 280 114 846.0 0 114 281 82 846.0 0 82 282 139 846.0 0 139 283 51 846.0 0 51 284 520 846.0 0 520 285 165 846.0 0 165 286 344 846.0 0 344 287 419 846.0 0 419 288 288 846.0 0 288 289 56 846.0 0 56 290 22 846.0 0 22 291 54 846.0 0 54 292 270 846.0 0 270 293 199 846.0 0 199 294 80 846.0 0 80 295 174 846.0 0 174 296 366 846.0 0 366 297 243 846.0 0 243 298 320 846.0 0 320 299 430 846.0 0 430 300 274 846.0 0 274 301 169 846.0 0 169 Finished in 2.94 s (36 us/read; 1.65 M reads/minute). === Summary === Total reads processed: 80,812 Reads with adapters: 3,688 (4.6%) Reads that were too short: 13 (0.0%) Reads written (passing filters): 3,675 (4.5%) Total basepairs processed: 13,383,602 bp Total written (filtered): 999,458 bp (7.5%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 3688 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 1 19 19 0.0 3 0 17 1 0 1 20 3218 0.0 4 3156 55 5 0 2 21 16 0.0 4 4 9 1 2 22 13 0.0 4 0 12 1 23 330 0.0 4 314 14 0 2 24 5 0.0 4 0 3 0 0 2 35 1 0.0 4 0 0 0 0 1 50 1 0.0 4 0 0 0 0 1 52 1 0.0 4 0 0 0 0 1 61 1 0.0 4 0 0 0 0 1 64 2 0.0 4 0 0 0 0 2 79 1 0.0 4 0 0 0 0 1 80 10 0.0 4 0 0 0 1 9 81 30 0.0 4 0 0 0 5 25 82 2 0.0 4 0 0 0 0 2 84 1 0.0 4 0 0 0 1 85 1 0.0 4 0 0 0 0 1 86 1 0.0 4 0 0 0 1 92 1 0.0 4 0 0 0 0 1 94 1 0.0 4 0 0 0 0 1 102 1 0.0 4 0 0 0 0 1 106 1 0.0 4 0 0 0 0 1 109 7 0.0 4 0 0 0 1 6 111 16 0.0 4 0 0 0 14 2 118 1 0.0 4 0 0 0 0 1 138 1 0.0 4 0 0 0 0 1 139 1 0.0 4 0 0 0 0 1 142 1 0.0 4 0 0 0 0 1 151 1 0.0 4 0 0 0 0 1 196 1 0.0 4 0 0 0 0 1 208 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 0.13 s (35 us/read; 1.70 M reads/minute). === Summary === Total reads processed: 3,675 Reads with adapters: 132 (3.6%) Reads written (passing filters): 3,675 (100.0%) Total basepairs processed: 999,458 bp Total written (filtered): 992,514 bp (99.3%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 132 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 10.6% C: 6.8% G: 78.8% T: 3.8% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 2 57.4 0 2 9 4 0.0 0 0 4 10 8 0.0 1 0 8 11 89 0.0 1 1 88 12 7 0.0 1 0 7 210 2 0.0 1 1 1 257 3 0.0 1 3 261 1 0.0 1 1 263 2 0.0 1 2 264 2 0.0 1 2 266 1 0.0 1 1 271 6 0.0 1 6 272 4 0.0 1 4 273 1 0.0 1 1