This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TGCGTG -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 174.17 s (48 us/read; 1.25 M reads/minute). === Summary === Total reads processed: 3,634,272 Reads with adapters: 173,241 (4.8%) Reads that were too short: 52,275 (1.4%) Reads written (passing filters): 120,966 (3.3%) Total basepairs processed: 1,093,915,872 bp Total written (filtered): 31,400,081 bp (2.9%) === Adapter 1 === Sequence: TGCGTG; Type: regular 5'; Length: 6; Trimmed: 173241 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 2812 887.3 0 2812 7 44271 887.3 0 44271 8 35170 887.3 0 35170 9 118 887.3 0 118 10 334 887.3 0 334 11 63 887.3 0 63 12 56 887.3 0 56 13 51 887.3 0 51 14 62 887.3 0 62 15 86 887.3 0 86 16 62 887.3 0 62 17 89 887.3 0 89 18 87 887.3 0 87 19 194 887.3 0 194 20 50 887.3 0 50 21 65 887.3 0 65 22 42 887.3 0 42 23 58 887.3 0 58 24 54 887.3 0 54 25 57 887.3 0 57 26 70 887.3 0 70 27 56 887.3 0 56 28 67 887.3 0 67 29 74 887.3 0 74 30 67 887.3 0 67 31 67 887.3 0 67 32 50 887.3 0 50 33 75 887.3 0 75 34 63 887.3 0 63 35 69 887.3 0 69 36 71 887.3 0 71 37 65 887.3 0 65 38 47 887.3 0 47 39 67 887.3 0 67 40 77 887.3 0 77 41 52 887.3 0 52 42 88 887.3 0 88 43 77 887.3 0 77 44 48 887.3 0 48 45 39 887.3 0 39 46 89 887.3 0 89 47 97 887.3 0 97 48 83 887.3 0 83 49 129 887.3 0 129 50 70 887.3 0 70 51 55 887.3 0 55 52 76 887.3 0 76 53 164 887.3 0 164 54 88 887.3 0 88 55 78 887.3 0 78 56 86 887.3 0 86 57 133 887.3 0 133 58 61 887.3 0 61 59 61 887.3 0 61 60 129 887.3 0 129 61 89 887.3 0 89 62 115 887.3 0 115 63 86 887.3 0 86 64 100 887.3 0 100 65 65 887.3 0 65 66 74 887.3 0 74 67 83 887.3 0 83 68 87 887.3 0 87 69 77 887.3 0 77 70 103 887.3 0 103 71 136 887.3 0 136 72 171 887.3 0 171 73 1014 887.3 0 1014 74 1023 887.3 0 1023 75 872 887.3 0 872 76 295 887.3 0 295 77 2606 887.3 0 2606 78 3088 887.3 0 3088 79 912 887.3 0 912 80 66 887.3 0 66 81 46 887.3 0 46 82 65 887.3 0 65 83 64 887.3 0 64 84 85 887.3 0 85 85 75 887.3 0 75 86 111 887.3 0 111 87 69 887.3 0 69 88 136 887.3 0 136 89 86 887.3 0 86 90 83 887.3 0 83 91 75 887.3 0 75 92 85 887.3 0 85 93 108 887.3 0 108 94 83 887.3 0 83 95 72 887.3 0 72 96 68 887.3 0 68 97 76 887.3 0 76 98 63 887.3 0 63 99 112 887.3 0 112 100 78 887.3 0 78 101 60 887.3 0 60 102 46 887.3 0 46 103 58 887.3 0 58 104 82 887.3 0 82 105 77 887.3 0 77 106 250 887.3 0 250 107 362 887.3 0 362 108 498 887.3 0 498 109 66 887.3 0 66 110 59 887.3 0 59 111 69 887.3 0 69 112 103 887.3 0 103 113 99 887.3 0 99 114 86 887.3 0 86 115 158 887.3 0 158 116 90 887.3 0 90 117 75 887.3 0 75 118 79 887.3 0 79 119 74 887.3 0 74 120 95 887.3 0 95 121 71 887.3 0 71 122 84 887.3 0 84 123 146 887.3 0 146 124 130 887.3 0 130 125 110 887.3 0 110 126 113 887.3 0 113 127 201 887.3 0 201 128 1021 887.3 0 1021 129 658 887.3 0 658 130 1405 887.3 0 1405 131 115 887.3 0 115 132 101 887.3 0 101 133 207 887.3 0 207 134 744 887.3 0 744 135 392 887.3 0 392 136 507 887.3 0 507 137 231 887.3 0 231 138 138 887.3 0 138 139 101 887.3 0 101 140 114 887.3 0 114 141 97 887.3 0 97 142 118 887.3 0 118 143 89 887.3 0 89 144 113 887.3 0 113 145 217 887.3 0 217 146 1154 887.3 0 1154 147 1398 887.3 0 1398 148 719 887.3 0 719 149 173 887.3 0 173 150 75 887.3 0 75 151 66 887.3 0 66 152 75 887.3 0 75 153 81 887.3 0 81 154 94 887.3 0 94 155 251 887.3 0 251 156 312 887.3 0 312 157 481 887.3 0 481 158 167 887.3 0 167 159 161 887.3 0 161 160 128 887.3 0 128 161 137 887.3 0 137 162 100 887.3 0 100 163 72 887.3 0 72 164 220 887.3 0 220 165 268 887.3 0 268 166 257 887.3 0 257 167 104 887.3 0 104 168 78 887.3 0 78 169 96 887.3 0 96 170 79 887.3 0 79 171 77 887.3 0 77 172 66 887.3 0 66 173 51 887.3 0 51 174 65 887.3 0 65 175 77 887.3 0 77 176 49 887.3 0 49 177 64 887.3 0 64 178 81 887.3 0 81 179 121 887.3 0 121 180 97 887.3 0 97 181 103 887.3 0 103 182 83 887.3 0 83 183 94 887.3 0 94 184 260 887.3 0 260 185 333 887.3 0 333 186 354 887.3 0 354 187 154 887.3 0 154 188 99 887.3 0 99 189 75 887.3 0 75 190 81 887.3 0 81 191 112 887.3 0 112 192 133 887.3 0 133 193 114 887.3 0 114 194 119 887.3 0 119 195 960 887.3 0 960 196 710 887.3 0 710 197 437 887.3 0 437 198 91 887.3 0 91 199 115 887.3 0 115 200 87 887.3 0 87 201 78 887.3 0 78 202 66 887.3 0 66 203 96 887.3 0 96 204 103 887.3 0 103 205 81 887.3 0 81 206 101 887.3 0 101 207 81 887.3 0 81 208 79 887.3 0 79 209 109 887.3 0 109 210 106 887.3 0 106 211 108 887.3 0 108 212 149 887.3 0 149 213 120 887.3 0 120 214 127 887.3 0 127 215 344 887.3 0 344 216 358 887.3 0 358 217 230 887.3 0 230 218 171 887.3 0 171 219 182 887.3 0 182 220 128 887.3 0 128 221 116 887.3 0 116 222 71 887.3 0 71 223 182 887.3 0 182 224 115 887.3 0 115 225 138 887.3 0 138 226 123 887.3 0 123 227 119 887.3 0 119 228 75 887.3 0 75 229 103 887.3 0 103 230 128 887.3 0 128 231 177 887.3 0 177 232 180 887.3 0 180 233 322 887.3 0 322 234 355 887.3 0 355 235 539 887.3 0 539 236 5259 887.3 0 5259 237 12186 887.3 0 12186 238 12314 887.3 0 12314 239 212 887.3 0 212 240 131 887.3 0 131 241 128 887.3 0 128 242 111 887.3 0 111 243 90 887.3 0 90 244 112 887.3 0 112 245 164 887.3 0 164 246 438 887.3 0 438 247 499 887.3 0 499 248 412 887.3 0 412 249 253 887.3 0 253 250 262 887.3 0 262 251 478 887.3 0 478 252 422 887.3 0 422 253 611 887.3 0 611 254 381 887.3 0 381 255 267 887.3 0 267 256 108 887.3 0 108 257 109 887.3 0 109 258 107 887.3 0 107 259 107 887.3 0 107 260 81 887.3 0 81 261 80 887.3 0 80 262 103 887.3 0 103 263 165 887.3 0 165 264 148 887.3 0 148 265 131 887.3 0 131 266 121 887.3 0 121 267 107 887.3 0 107 268 98 887.3 0 98 269 104 887.3 0 104 270 112 887.3 0 112 271 111 887.3 0 111 272 103 887.3 0 103 273 122 887.3 0 122 274 137 887.3 0 137 275 81 887.3 0 81 276 96 887.3 0 96 277 148 887.3 0 148 278 211 887.3 0 211 279 156 887.3 0 156 280 257 887.3 0 257 281 303 887.3 0 303 282 470 887.3 0 470 283 355 887.3 0 355 284 766 887.3 0 766 285 745 887.3 0 745 286 554 887.3 0 554 287 142 887.3 0 142 288 127 887.3 0 127 289 195 887.3 0 195 290 148 887.3 0 148 291 139 887.3 0 139 292 113 887.3 0 113 293 262 887.3 0 262 294 319 887.3 0 319 295 470 887.3 0 470 296 752 887.3 0 752 297 1047 887.3 0 1047 298 924 887.3 0 924 299 368 887.3 0 368 300 369 887.3 0 369 301 392 887.3 0 392 Finished in 9.34 s (77 us/read; 0.78 M reads/minute). === Summary === Total reads processed: 120,966 Reads with adapters: 36,708 (30.3%) Reads that were too short: 49 (0.0%) Reads written (passing filters): 36,659 (30.3%) Total basepairs processed: 31,400,081 bp Total written (filtered): 9,977,358 bp (31.8%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 36708 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 2 0.0 3 0 0 0 2 18 19 0.0 3 0 0 15 3 1 19 490 0.0 3 0 425 37 20 8 20 35540 0.0 4 33796 1444 226 55 19 21 98 0.0 4 19 63 7 2 7 22 102 0.0 4 91 2 8 0 1 23 106 0.0 4 0 2 0 74 30 24 3 0.0 4 1 0 0 0 2 25 1 0.0 4 0 0 0 0 1 26 1 0.0 4 1 28 1 0.0 4 1 34 1 0.0 4 1 39 1 0.0 4 1 42 1 0.0 4 1 57 98 0.0 4 0 0 0 0 98 58 1 0.0 4 0 0 0 0 1 61 42 0.0 4 0 0 0 0 42 67 1 0.0 4 0 0 0 0 1 74 1 0.0 4 0 0 0 0 1 82 1 0.0 4 0 0 0 0 1 83 2 0.0 4 0 0 0 0 2 88 1 0.0 4 0 0 0 0 1 89 1 0.0 4 0 0 0 0 1 99 1 0.0 4 0 0 0 0 1 100 2 0.0 4 0 0 0 0 2 101 1 0.0 4 0 0 0 0 1 107 5 0.0 4 0 0 0 0 5 108 1 0.0 4 0 0 0 0 1 109 1 0.0 4 0 0 0 0 1 123 1 0.0 4 0 0 0 0 1 126 2 0.0 4 0 0 0 0 2 127 141 0.0 4 0 0 0 0 141 128 1 0.0 4 0 0 0 0 1 129 2 0.0 4 0 0 0 0 2 130 1 0.0 4 0 0 0 0 1 136 1 0.0 4 0 0 0 0 1 138 1 0.0 4 0 0 0 0 1 154 1 0.0 4 0 0 0 0 1 156 1 0.0 4 0 0 0 0 1 162 2 0.0 4 0 0 0 0 2 163 1 0.0 4 0 0 0 0 1 165 1 0.0 4 0 0 0 0 1 166 3 0.0 4 0 0 0 0 3 176 1 0.0 4 0 0 0 0 1 187 1 0.0 4 0 0 0 0 1 197 1 0.0 4 0 0 0 0 1 209 1 0.0 4 0 0 0 0 1 211 1 0.0 4 0 0 0 0 1 215 2 0.0 4 0 0 0 0 2 216 1 0.0 4 0 0 0 0 1 219 3 0.0 4 0 0 0 0 3 223 1 0.0 4 0 0 0 0 1 227 1 0.0 4 0 0 0 0 1 228 3 0.0 4 0 0 0 0 3 235 2 0.0 4 0 0 0 0 2 263 2 0.0 4 0 0 0 1 1 285 1 0.0 4 0 0 0 0 1 288 1 0.0 4 0 0 0 0 1 291 1 0.0 4 0 0 0 0 1 293 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 2.24 s (61 us/read; 0.98 M reads/minute). === Summary === Total reads processed: 36,659 Reads with adapters: 7,516 (20.5%) Reads written (passing filters): 36,659 (100.0%) Total basepairs processed: 9,977,358 bp Total written (filtered): 9,892,429 bp (99.1%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 7516 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.5% C: 5.6% G: 91.1% T: 1.8% 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 57 572.8 0 57 4 10 143.2 0 10 5 2 35.8 0 2 6 1 8.9 0 1 7 1 2.2 0 1 8 2 0.6 0 2 9 65 0.1 0 1 64 10 919 0.0 1 52 867 11 6386 0.0 1 170 6216 12 39 0.0 1 1 38 13 2 0.0 1 0 2 14 3 0.0 1 0 3 20 1 0.0 1 1 59 8 0.0 1 4 4 62 2 0.0 1 2 151 7 0.0 1 5 2 209 1 0.0 1 1 224 10 0.0 1 10 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.