This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AGAAGA -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 68.74 s (27 us/read; 2.25 M reads/minute). === Summary === Total reads processed: 2,574,510 Reads with adapters: 654,139 (25.4%) Reads that were too short: 14,216 (0.6%) Reads written (passing filters): 639,923 (24.9%) Total basepairs processed: 774,927,510 bp Total written (filtered): 136,319,804 bp (17.6%) === Adapter 1 === Sequence: AGAAGA; Type: regular 5'; Length: 6; Trimmed: 654139 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1861 628.5 0 1861 7 115126 628.5 0 115126 8 130048 628.5 0 130048 9 206 628.5 0 206 10 100 628.5 0 100 11 95 628.5 0 95 12 111 628.5 0 111 13 79 628.5 0 79 14 104 628.5 0 104 15 117 628.5 0 117 16 82 628.5 0 82 17 74 628.5 0 74 18 87 628.5 0 87 19 53 628.5 0 53 20 66 628.5 0 66 21 65 628.5 0 65 22 81 628.5 0 81 23 91 628.5 0 91 24 79 628.5 0 79 25 89 628.5 0 89 26 163 628.5 0 163 27 133 628.5 0 133 28 130 628.5 0 130 29 80 628.5 0 80 30 132 628.5 0 132 31 76 628.5 0 76 32 73 628.5 0 73 33 83 628.5 0 83 34 91 628.5 0 91 35 121 628.5 0 121 36 132 628.5 0 132 37 116 628.5 0 116 38 93 628.5 0 93 39 117 628.5 0 117 40 131 628.5 0 131 41 96 628.5 0 96 42 126 628.5 0 126 43 163 628.5 0 163 44 102 628.5 0 102 45 100 628.5 0 100 46 103 628.5 0 103 47 98 628.5 0 98 48 110 628.5 0 110 49 119 628.5 0 119 50 130 628.5 0 130 51 110 628.5 0 110 52 122 628.5 0 122 53 124 628.5 0 124 54 126 628.5 0 126 55 120 628.5 0 120 56 122 628.5 0 122 57 97 628.5 0 97 58 112 628.5 0 112 59 102 628.5 0 102 60 112 628.5 0 112 61 159 628.5 0 159 62 136 628.5 0 136 63 147 628.5 0 147 64 113 628.5 0 113 65 99 628.5 0 99 66 134 628.5 0 134 67 98 628.5 0 98 68 140 628.5 0 140 69 178 628.5 0 178 70 126 628.5 0 126 71 101 628.5 0 101 72 150 628.5 0 150 73 93 628.5 0 93 74 163 628.5 0 163 75 161 628.5 0 161 76 193 628.5 0 193 77 155 628.5 0 155 78 223 628.5 0 223 79 244 628.5 0 244 80 269 628.5 0 269 81 691 628.5 0 691 82 477 628.5 0 477 83 824 628.5 0 824 84 182 628.5 0 182 85 263 628.5 0 263 86 374 628.5 0 374 87 148 628.5 0 148 88 161 628.5 0 161 89 174 628.5 0 174 90 139 628.5 0 139 91 119 628.5 0 119 92 149 628.5 0 149 93 152 628.5 0 152 94 199 628.5 0 199 95 213 628.5 0 213 96 172 628.5 0 172 97 150 628.5 0 150 98 164 628.5 0 164 99 179 628.5 0 179 100 161 628.5 0 161 101 286 628.5 0 286 102 288 628.5 0 288 103 292 628.5 0 292 104 382 628.5 0 382 105 700 628.5 0 700 106 280 628.5 0 280 107 370 628.5 0 370 108 623 628.5 0 623 109 346 628.5 0 346 110 337 628.5 0 337 111 632 628.5 0 632 112 592 628.5 0 592 113 593 628.5 0 593 114 552 628.5 0 552 115 849 628.5 0 849 116 967 628.5 0 967 117 959 628.5 0 959 118 13266 628.5 0 13266 119 35016 628.5 0 35016 120 35404 628.5 0 35404 121 1578 628.5 0 1578 122 2289 628.5 0 2289 123 2890 628.5 0 2890 124 473 628.5 0 473 125 267 628.5 0 267 126 340 628.5 0 340 127 541 628.5 0 541 128 664 628.5 0 664 129 406 628.5 0 406 130 541 628.5 0 541 131 704 628.5 0 704 132 1319 628.5 0 1319 133 653 628.5 0 653 134 681 628.5 0 681 135 1001 628.5 0 1001 136 646 628.5 0 646 137 707 628.5 0 707 138 1138 628.5 0 1138 139 2849 628.5 0 2849 140 10948 628.5 0 10948 141 11531 628.5 0 11531 142 9591 628.5 0 9591 143 2168 628.5 0 2168 144 3588 628.5 0 3588 145 29128 628.5 0 29128 146 54966 628.5 0 54966 147 70597 628.5 0 70597 148 8094 628.5 0 8094 149 5161 628.5 0 5161 150 942 628.5 0 942 151 931 628.5 0 931 152 1015 628.5 0 1015 153 974 628.5 0 974 154 1133 628.5 0 1133 155 1055 628.5 0 1055 156 591 628.5 0 591 157 977 628.5 0 977 158 1261 628.5 0 1261 159 1285 628.5 0 1285 160 443 628.5 0 443 161 434 628.5 0 434 162 482 628.5 0 482 163 703 628.5 0 703 164 801 628.5 0 801 165 8413 628.5 0 8413 166 15220 628.5 0 15220 167 19275 628.5 0 19275 168 463 628.5 0 463 169 158 628.5 0 158 170 124 628.5 0 124 171 107 628.5 0 107 172 137 628.5 0 137 173 104 628.5 0 104 174 193 628.5 0 193 175 149 628.5 0 149 176 133 628.5 0 133 177 101 628.5 0 101 178 126 628.5 0 126 179 126 628.5 0 126 180 126 628.5 0 126 181 134 628.5 0 134 182 134 628.5 0 134 183 123 628.5 0 123 184 137 628.5 0 137 185 113 628.5 0 113 186 119 628.5 0 119 187 91 628.5 0 91 188 120 628.5 0 120 189 137 628.5 0 137 190 155 628.5 0 155 191 106 628.5 0 106 192 130 628.5 0 130 193 144 628.5 0 144 194 247 628.5 0 247 195 150 628.5 0 150 196 124 628.5 0 124 197 131 628.5 0 131 198 128 628.5 0 128 199 230 628.5 0 230 200 179 628.5 0 179 201 164 628.5 0 164 202 124 628.5 0 124 203 127 628.5 0 127 204 144 628.5 0 144 205 121 628.5 0 121 206 126 628.5 0 126 207 151 628.5 0 151 208 155 628.5 0 155 209 169 628.5 0 169 210 150 628.5 0 150 211 129 628.5 0 129 212 122 628.5 0 122 213 113 628.5 0 113 214 112 628.5 0 112 215 130 628.5 0 130 216 326 628.5 0 326 217 451 628.5 0 451 218 498 628.5 0 498 219 363 628.5 0 363 220 368 628.5 0 368 221 169 628.5 0 169 222 142 628.5 0 142 223 108 628.5 0 108 224 97 628.5 0 97 225 126 628.5 0 126 226 290 628.5 0 290 227 145 628.5 0 145 228 135 628.5 0 135 229 85 628.5 0 85 230 111 628.5 0 111 231 114 628.5 0 114 232 108 628.5 0 108 233 108 628.5 0 108 234 122 628.5 0 122 235 89 628.5 0 89 236 94 628.5 0 94 237 107 628.5 0 107 238 106 628.5 0 106 239 111 628.5 0 111 240 108 628.5 0 108 241 146 628.5 0 146 242 115 628.5 0 115 243 105 628.5 0 105 244 142 628.5 0 142 245 135 628.5 0 135 246 109 628.5 0 109 247 124 628.5 0 124 248 98 628.5 0 98 249 95 628.5 0 95 250 104 628.5 0 104 251 106 628.5 0 106 252 79 628.5 0 79 253 111 628.5 0 111 254 105 628.5 0 105 255 121 628.5 0 121 256 122 628.5 0 122 257 138 628.5 0 138 258 127 628.5 0 127 259 114 628.5 0 114 260 136 628.5 0 136 261 116 628.5 0 116 262 136 628.5 0 136 263 136 628.5 0 136 264 127 628.5 0 127 265 140 628.5 0 140 266 279 628.5 0 279 267 141 628.5 0 141 268 104 628.5 0 104 269 95 628.5 0 95 270 111 628.5 0 111 271 104 628.5 0 104 272 93 628.5 0 93 273 104 628.5 0 104 274 103 628.5 0 103 275 120 628.5 0 120 276 112 628.5 0 112 277 100 628.5 0 100 278 129 628.5 0 129 279 134 628.5 0 134 280 105 628.5 0 105 281 137 628.5 0 137 282 138 628.5 0 138 283 100 628.5 0 100 284 116 628.5 0 116 285 128 628.5 0 128 286 99 628.5 0 99 287 117 628.5 0 117 288 143 628.5 0 143 289 125 628.5 0 125 290 152 628.5 0 152 291 132 628.5 0 132 292 118 628.5 0 118 293 122 628.5 0 122 294 138 628.5 0 138 295 148 628.5 0 148 296 130 628.5 0 130 297 163 628.5 0 163 298 121 628.5 0 121 299 163 628.5 0 163 300 168 628.5 0 168 301 383 628.5 0 383 Finished in 25.79 s (40 us/read; 1.49 M reads/minute). === Summary === Total reads processed: 639,923 Reads with adapters: 133,761 (20.9%) Reads that were too short: 119 (0.0%) Reads written (passing filters): 133,642 (20.9%) Total basepairs processed: 136,319,804 bp Total written (filtered): 36,369,585 bp (26.7%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 133761 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 41 0.0 3 0 0 38 3 19 1166 0.0 3 0 1144 17 2 3 20 130320 0.0 4 128388 1862 56 11 3 21 362 0.0 4 59 294 7 1 1 22 39 0.0 4 4 3 29 2 1 23 606 0.0 4 516 5 1 76 8 24 6 0.0 4 0 1 0 4 1 25 3 0.0 4 1 0 0 0 2 26 3 0.0 4 0 0 0 2 1 30 1 0.0 4 1 35 1 0.0 4 1 36 1 0.0 4 0 0 0 0 1 39 1 0.0 4 0 0 0 0 1 42 1 0.0 4 0 0 0 0 1 43 1 0.0 4 0 0 0 0 1 45 1 0.0 4 0 0 0 0 1 50 12 0.0 4 0 0 0 0 12 53 26 0.0 4 0 0 0 0 26 67 1 0.0 4 0 0 0 0 1 77 2 0.0 4 1 0 0 0 1 78 1 0.0 4 0 0 0 0 1 79 1 0.0 4 0 0 0 0 1 83 1 0.0 4 0 0 0 0 1 85 4 0.0 4 0 0 0 0 4 86 2 0.0 4 1 0 0 0 1 87 1 0.0 4 0 0 0 0 1 88 1 0.0 4 0 1 90 1 0.0 4 0 0 0 0 1 92 2 0.0 4 0 0 0 0 2 96 1 0.0 4 1 97 1 0.0 4 0 0 0 0 1 99 2 0.0 4 0 0 0 0 2 100 27 0.0 4 0 1 0 0 26 102 1 0.0 4 0 0 0 0 1 107 2 0.0 4 0 0 0 0 2 113 1 0.0 4 0 0 0 0 1 117 1 0.0 4 0 0 0 0 1 124 7 0.0 4 0 0 0 0 7 125 8 0.0 4 0 0 0 0 8 126 12 0.0 4 0 0 0 0 12 127 1030 0.0 4 0 0 0 0 1030 128 4 0.0 4 0 0 0 0 4 129 1 0.0 4 0 0 0 0 1 136 1 0.0 4 0 0 0 0 1 137 2 0.0 4 1 0 0 0 1 138 2 0.0 4 1 0 0 0 1 139 1 0.0 4 0 1 148 3 0.0 4 0 0 0 0 3 153 2 0.0 4 0 0 0 0 2 154 1 0.0 4 0 0 0 0 1 155 3 0.0 4 0 0 0 0 3 157 1 0.0 4 0 0 0 0 1 166 1 0.0 4 0 1 177 1 0.0 4 0 0 0 0 1 178 1 0.0 4 0 0 0 0 1 201 1 0.0 4 0 0 0 0 1 221 1 0.0 4 0 0 0 0 1 222 1 0.0 4 0 0 0 0 1 228 8 0.0 4 0 0 0 0 8 234 2 0.0 4 0 0 0 0 2 235 4 0.0 4 0 0 0 1 3 236 2 0.0 4 0 0 0 0 2 237 5 0.0 4 0 0 0 0 5 249 1 0.0 4 0 0 0 0 1 259 1 0.0 4 0 0 0 0 1 260 5 0.0 4 0 0 0 0 5 262 1 0.0 4 0 0 0 0 1 264 1 0.0 4 0 0 0 0 1 282 3 0.0 4 0 0 0 0 3 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 4.69 s (35 us/read; 1.71 M reads/minute). === Summary === Total reads processed: 133,642 Reads with adapters: 12,426 (9.3%) Reads written (passing filters): 133,642 (100.0%) Total basepairs processed: 36,369,585 bp Total written (filtered): 36,223,695 bp (99.6%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 12426 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.8% C: 3.4% G: 93.2% T: 1.6% 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 94 2088.2 0 94 4 23 522.0 0 23 5 4 130.5 0 4 6 14 32.6 0 14 7 2 8.2 0 2 8 2 2.0 0 2 9 330 0.5 0 5 325 10 1593 0.1 1 65 1528 11 10266 0.0 1 60 10206 12 14 0.0 1 1 13 13 1 0.0 1 0 1 14 3 0.0 1 1 2 15 3 0.0 1 0 3 19 1 0.0 1 1 23 5 0.0 1 3 2 28 1 0.0 1 1 54 1 0.0 1 1 71 1 0.0 1 0 1 73 1 0.0 1 0 1 90 3 0.0 1 3 146 1 0.0 1 1 151 3 0.0 1 0 3 157 12 0.0 1 9 3 170 4 0.0 1 3 1 178 1 0.0 1 1 209 29 0.0 1 17 12 224 7 0.0 1 7 229 4 0.0 1 3 1 256 1 0.0 1 1 258 2 0.0 1 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.