This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TAATGA -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 163.91 s (47 us/read; 1.27 M reads/minute). === Summary === Total reads processed: 3,470,393 Reads with adapters: 290,423 (8.4%) Reads that were too short: 55,471 (1.6%) Reads written (passing filters): 234,952 (6.8%) Total basepairs processed: 1,044,588,293 bp Total written (filtered): 52,115,909 bp (5.0%) === Adapter 1 === Sequence: TAATGA; Type: regular 5'; Length: 6; Trimmed: 290423 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 983 847.3 0 983 7 45330 847.3 0 45330 8 42963 847.3 0 42963 9 65 847.3 0 65 10 27 847.3 0 27 11 48 847.3 0 48 12 38 847.3 0 38 13 37 847.3 0 37 14 26 847.3 0 26 15 33 847.3 0 33 16 24 847.3 0 24 17 44 847.3 0 44 18 39 847.3 0 39 19 35 847.3 0 35 20 45 847.3 0 45 21 30 847.3 0 30 22 33 847.3 0 33 23 39 847.3 0 39 24 43 847.3 0 43 25 34 847.3 0 34 26 36 847.3 0 36 27 44 847.3 0 44 28 57 847.3 0 57 29 38 847.3 0 38 30 38 847.3 0 38 31 57 847.3 0 57 32 34 847.3 0 34 33 39 847.3 0 39 34 43 847.3 0 43 35 37 847.3 0 37 36 62 847.3 0 62 37 68 847.3 0 68 38 56 847.3 0 56 39 66 847.3 0 66 40 51 847.3 0 51 41 35 847.3 0 35 42 35 847.3 0 35 43 64 847.3 0 64 44 49 847.3 0 49 45 52 847.3 0 52 46 45 847.3 0 45 47 48 847.3 0 48 48 37 847.3 0 37 49 42 847.3 0 42 50 51 847.3 0 51 51 22 847.3 0 22 52 62 847.3 0 62 53 71 847.3 0 71 54 43 847.3 0 43 55 56 847.3 0 56 56 56 847.3 0 56 57 57 847.3 0 57 58 95 847.3 0 95 59 71 847.3 0 71 60 63 847.3 0 63 61 48 847.3 0 48 62 55 847.3 0 55 63 67 847.3 0 67 64 76 847.3 0 76 65 72 847.3 0 72 66 112 847.3 0 112 67 104 847.3 0 104 68 135 847.3 0 135 69 192 847.3 0 192 70 1811 847.3 0 1811 71 2391 847.3 0 2391 72 4046 847.3 0 4046 73 60 847.3 0 60 74 41 847.3 0 41 75 34 847.3 0 34 76 31 847.3 0 31 77 37 847.3 0 37 78 103 847.3 0 103 79 133 847.3 0 133 80 90 847.3 0 90 81 191 847.3 0 191 82 292 847.3 0 292 83 334 847.3 0 334 84 152 847.3 0 152 85 80 847.3 0 80 86 109 847.3 0 109 87 62 847.3 0 62 88 58 847.3 0 58 89 65 847.3 0 65 90 75 847.3 0 75 91 73 847.3 0 73 92 119 847.3 0 119 93 97 847.3 0 97 94 100 847.3 0 100 95 113 847.3 0 113 96 86 847.3 0 86 97 105 847.3 0 105 98 153 847.3 0 153 99 133 847.3 0 133 100 183 847.3 0 183 101 116 847.3 0 116 102 141 847.3 0 141 103 100 847.3 0 100 104 130 847.3 0 130 105 104 847.3 0 104 106 139 847.3 0 139 107 240 847.3 0 240 108 261 847.3 0 261 109 320 847.3 0 320 110 487 847.3 0 487 111 789 847.3 0 789 112 303 847.3 0 303 113 346 847.3 0 346 114 520 847.3 0 520 115 341 847.3 0 341 116 355 847.3 0 355 117 543 847.3 0 543 118 468 847.3 0 468 119 525 847.3 0 525 120 509 847.3 0 509 121 705 847.3 0 705 122 1007 847.3 0 1007 123 2039 847.3 0 2039 124 49296 847.3 0 49296 125 33313 847.3 0 33313 126 14461 847.3 0 14461 127 270 847.3 0 270 128 101 847.3 0 101 129 339 847.3 0 339 130 220 847.3 0 220 131 123 847.3 0 123 132 75 847.3 0 75 133 105 847.3 0 105 134 84 847.3 0 84 135 127 847.3 0 127 136 187 847.3 0 187 137 125 847.3 0 125 138 168 847.3 0 168 139 281 847.3 0 281 140 399 847.3 0 399 141 225 847.3 0 225 142 169 847.3 0 169 143 153 847.3 0 153 144 157 847.3 0 157 145 108 847.3 0 108 146 147 847.3 0 147 147 206 847.3 0 206 148 308 847.3 0 308 149 7846 847.3 0 7846 150 5142 847.3 0 5142 151 844 847.3 0 844 152 98 847.3 0 98 153 79 847.3 0 79 154 90 847.3 0 90 155 96 847.3 0 96 156 99 847.3 0 99 157 150 847.3 0 150 158 129 847.3 0 129 159 71 847.3 0 71 160 75 847.3 0 75 161 81 847.3 0 81 162 93 847.3 0 93 163 203 847.3 0 203 164 188 847.3 0 188 165 175 847.3 0 175 166 88 847.3 0 88 167 75 847.3 0 75 168 64 847.3 0 64 169 95 847.3 0 95 170 92 847.3 0 92 171 119 847.3 0 119 172 59 847.3 0 59 173 57 847.3 0 57 174 69 847.3 0 69 175 69 847.3 0 69 176 87 847.3 0 87 177 77 847.3 0 77 178 89 847.3 0 89 179 73 847.3 0 73 180 106 847.3 0 106 181 258 847.3 0 258 182 303 847.3 0 303 183 449 847.3 0 449 184 82 847.3 0 82 185 82 847.3 0 82 186 96 847.3 0 96 187 81 847.3 0 81 188 97 847.3 0 97 189 181 847.3 0 181 190 134 847.3 0 134 191 85 847.3 0 85 192 79 847.3 0 79 193 74 847.3 0 74 194 84 847.3 0 84 195 94 847.3 0 94 196 68 847.3 0 68 197 91 847.3 0 91 198 141 847.3 0 141 199 85 847.3 0 85 200 96 847.3 0 96 201 65 847.3 0 65 202 54 847.3 0 54 203 122 847.3 0 122 204 89 847.3 0 89 205 122 847.3 0 122 206 116 847.3 0 116 207 155 847.3 0 155 208 217 847.3 0 217 209 121 847.3 0 121 210 175 847.3 0 175 211 150 847.3 0 150 212 151 847.3 0 151 213 187 847.3 0 187 214 166 847.3 0 166 215 141 847.3 0 141 216 109 847.3 0 109 217 121 847.3 0 121 218 195 847.3 0 195 219 203 847.3 0 203 220 289 847.3 0 289 221 397 847.3 0 397 222 485 847.3 0 485 223 882 847.3 0 882 224 1117 847.3 0 1117 225 4976 847.3 0 4976 226 18520 847.3 0 18520 227 19184 847.3 0 19184 228 161 847.3 0 161 229 88 847.3 0 88 230 102 847.3 0 102 231 77 847.3 0 77 232 87 847.3 0 87 233 87 847.3 0 87 234 105 847.3 0 105 235 131 847.3 0 131 236 124 847.3 0 124 237 99 847.3 0 99 238 115 847.3 0 115 239 88 847.3 0 88 240 97 847.3 0 97 241 90 847.3 0 90 242 90 847.3 0 90 243 133 847.3 0 133 244 151 847.3 0 151 245 148 847.3 0 148 246 93 847.3 0 93 247 78 847.3 0 78 248 67 847.3 0 67 249 66 847.3 0 66 250 68 847.3 0 68 251 61 847.3 0 61 252 81 847.3 0 81 253 111 847.3 0 111 254 121 847.3 0 121 255 106 847.3 0 106 256 108 847.3 0 108 257 136 847.3 0 136 258 110 847.3 0 110 259 124 847.3 0 124 260 100 847.3 0 100 261 101 847.3 0 101 262 102 847.3 0 102 263 131 847.3 0 131 264 101 847.3 0 101 265 84 847.3 0 84 266 89 847.3 0 89 267 113 847.3 0 113 268 117 847.3 0 117 269 87 847.3 0 87 270 82 847.3 0 82 271 64 847.3 0 64 272 91 847.3 0 91 273 106 847.3 0 106 274 102 847.3 0 102 275 80 847.3 0 80 276 66 847.3 0 66 277 75 847.3 0 75 278 88 847.3 0 88 279 97 847.3 0 97 280 92 847.3 0 92 281 104 847.3 0 104 282 84 847.3 0 84 283 96 847.3 0 96 284 89 847.3 0 89 285 85 847.3 0 85 286 81 847.3 0 81 287 85 847.3 0 85 288 67 847.3 0 67 289 74 847.3 0 74 290 80 847.3 0 80 291 70 847.3 0 70 292 62 847.3 0 62 293 84 847.3 0 84 294 85 847.3 0 85 295 89 847.3 0 89 296 88 847.3 0 88 297 68 847.3 0 68 298 104 847.3 0 104 299 87 847.3 0 87 300 96 847.3 0 96 301 78 847.3 0 78 Finished in 15.88 s (68 us/read; 0.89 M reads/minute). === Summary === Total reads processed: 234,952 Reads with adapters: 44,449 (18.9%) Reads that were too short: 41 (0.0%) Reads written (passing filters): 44,408 (18.9%) Total basepairs processed: 52,115,909 bp Total written (filtered): 12,049,833 bp (23.1%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 44449 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 3 0.0 3 0 0 0 0 3 18 1 0.0 3 0 0 1 19 67 0.0 3 0 58 9 20 6134 0.0 4 5514 606 10 1 3 21 37739 0.0 4 37110 602 24 3 22 81 0.0 4 12 63 4 1 1 23 11 0.0 4 2 0 4 3 2 24 35 0.0 4 1 0 0 27 7 25 1 0.0 4 0 0 0 0 1 27 1 0.0 4 0 1 79 1 0.0 4 0 0 0 1 91 1 0.0 4 0 0 0 0 1 93 1 0.0 4 0 0 0 0 1 101 1 0.0 4 0 0 0 0 1 103 1 0.0 4 0 0 0 0 1 112 1 0.0 4 0 0 0 0 1 116 1 0.0 4 0 0 0 0 1 118 1 0.0 4 0 0 0 0 1 126 3 0.0 4 0 0 0 0 3 127 129 0.0 4 0 0 0 0 129 128 198 0.0 4 0 0 0 0 198 129 3 0.0 4 0 0 0 0 3 133 1 0.0 4 0 0 0 0 1 140 6 0.0 4 0 0 0 0 6 141 1 0.0 4 1 142 4 0.0 4 0 0 0 0 4 145 1 0.0 4 0 0 0 0 1 152 1 0.0 4 0 0 0 0 1 153 1 0.0 4 0 0 0 0 1 154 3 0.0 4 0 0 0 0 3 160 1 0.0 4 1 171 4 0.0 4 0 0 0 0 4 172 1 0.0 4 0 0 0 1 178 1 0.0 4 0 0 0 0 1 181 1 0.0 4 0 0 0 0 1 216 1 0.0 4 0 0 0 0 1 225 1 0.0 4 0 0 0 0 1 229 3 0.0 4 0 0 0 0 3 238 1 0.0 4 0 0 0 0 1 263 1 0.0 4 0 0 0 0 1 266 1 0.0 4 0 0 0 0 1 278 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 2.65 s (60 us/read; 1.01 M reads/minute). === Summary === Total reads processed: 44,408 Reads with adapters: 7,800 (17.6%) Reads written (passing filters): 44,408 (100.0%) Total basepairs processed: 12,049,833 bp Total written (filtered): 11,973,338 bp (99.4%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 7800 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 0.7% C: 2.1% G: 96.0% T: 1.3% 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 9 693.9 0 9 4 9 173.5 0 9 5 4 43.4 0 4 7 2 2.7 0 2 9 5217 0.2 0 117 5100 10 1703 0.0 1 57 1646 11 829 0.0 1 3 826 12 9 0.0 1 0 9 13 1 0.0 1 0 1 104 1 0.0 1 0 1 150 4 0.0 1 2 2 160 2 0.0 1 1 1 162 1 0.0 1 1 189 1 0.0 1 0 1 208 2 0.0 1 0 2 223 5 0.0 1 5 269 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.