This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TTCGGA -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 168.20 s (48 us/read; 1.24 M reads/minute). === Summary === Total reads processed: 3,470,393 Reads with adapters: 629,337 (18.1%) Reads that were too short: 33,675 (1.0%) Reads written (passing filters): 595,662 (17.2%) Total basepairs processed: 1,044,588,293 bp Total written (filtered): 140,171,922 bp (13.4%) === Adapter 1 === Sequence: TTCGGA; Type: regular 5'; Length: 6; Trimmed: 629337 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1594 847.3 0 1594 7 3921 847.3 0 3921 8 101906 847.3 0 101906 9 108852 847.3 0 108852 10 143 847.3 0 143 11 37 847.3 0 37 12 31 847.3 0 31 13 24 847.3 0 24 14 18 847.3 0 18 15 21 847.3 0 21 16 30 847.3 0 30 17 36 847.3 0 36 18 29 847.3 0 29 19 37 847.3 0 37 20 17 847.3 0 17 21 28 847.3 0 28 22 43 847.3 0 43 23 57 847.3 0 57 24 55 847.3 0 55 25 45 847.3 0 45 26 54 847.3 0 54 27 65 847.3 0 65 28 34 847.3 0 34 29 27 847.3 0 27 30 35 847.3 0 35 31 31 847.3 0 31 32 39 847.3 0 39 33 25 847.3 0 25 34 29 847.3 0 29 35 30 847.3 0 30 36 25 847.3 0 25 37 23 847.3 0 23 38 40 847.3 0 40 39 141 847.3 0 141 40 100 847.3 0 100 41 126 847.3 0 126 42 45 847.3 0 45 43 40 847.3 0 40 44 26 847.3 0 26 45 34 847.3 0 34 46 27 847.3 0 27 47 37 847.3 0 37 48 62 847.3 0 62 49 51 847.3 0 51 50 74 847.3 0 74 51 39 847.3 0 39 52 67 847.3 0 67 53 79 847.3 0 79 54 172 847.3 0 172 55 43 847.3 0 43 56 50 847.3 0 50 57 118 847.3 0 118 58 94 847.3 0 94 59 96 847.3 0 96 60 91 847.3 0 91 61 42 847.3 0 42 62 127 847.3 0 127 63 66 847.3 0 66 64 31 847.3 0 31 65 53 847.3 0 53 66 122 847.3 0 122 67 91 847.3 0 91 68 285 847.3 0 285 69 122 847.3 0 122 70 80 847.3 0 80 71 71 847.3 0 71 72 239 847.3 0 239 73 139 847.3 0 139 74 245 847.3 0 245 75 385 847.3 0 385 76 560 847.3 0 560 77 760 847.3 0 760 78 1535 847.3 0 1535 79 2805 847.3 0 2805 80 654 847.3 0 654 81 936 847.3 0 936 82 1798 847.3 0 1798 83 986 847.3 0 986 84 717 847.3 0 717 85 2132 847.3 0 2132 86 1713 847.3 0 1713 87 1445 847.3 0 1445 88 1528 847.3 0 1528 89 2260 847.3 0 2260 90 3687 847.3 0 3687 91 5360 847.3 0 5360 92 158733 847.3 0 158733 93 91900 847.3 0 91900 94 68521 847.3 0 68521 95 680 847.3 0 680 96 41 847.3 0 41 97 58 847.3 0 58 98 76 847.3 0 76 99 29 847.3 0 29 100 19 847.3 0 19 101 28 847.3 0 28 102 31 847.3 0 31 103 18 847.3 0 18 104 27 847.3 0 27 105 19 847.3 0 19 106 19 847.3 0 19 107 33 847.3 0 33 108 30 847.3 0 30 109 70 847.3 0 70 110 126 847.3 0 126 111 76 847.3 0 76 112 49 847.3 0 49 113 22 847.3 0 22 114 35 847.3 0 35 115 29 847.3 0 29 116 38 847.3 0 38 117 37 847.3 0 37 118 33 847.3 0 33 119 224 847.3 0 224 120 21 847.3 0 21 121 27 847.3 0 27 122 18 847.3 0 18 123 19 847.3 0 19 124 19 847.3 0 19 125 32 847.3 0 32 126 24 847.3 0 24 127 24 847.3 0 24 128 33 847.3 0 33 129 88 847.3 0 88 130 27 847.3 0 27 131 32 847.3 0 32 132 26 847.3 0 26 133 30 847.3 0 30 134 289 847.3 0 289 135 37 847.3 0 37 136 24 847.3 0 24 137 49 847.3 0 49 138 44 847.3 0 44 139 18 847.3 0 18 140 17 847.3 0 17 141 21 847.3 0 21 142 11 847.3 0 11 143 24 847.3 0 24 144 31 847.3 0 31 145 25 847.3 0 25 146 15 847.3 0 15 147 18 847.3 0 18 148 22 847.3 0 22 149 25 847.3 0 25 150 18 847.3 0 18 151 32 847.3 0 32 152 29 847.3 0 29 153 22 847.3 0 22 154 29 847.3 0 29 155 25 847.3 0 25 156 24 847.3 0 24 157 25 847.3 0 25 158 40 847.3 0 40 159 30 847.3 0 30 160 16 847.3 0 16 161 22 847.3 0 22 162 13 847.3 0 13 163 30 847.3 0 30 164 17 847.3 0 17 165 29 847.3 0 29 166 27 847.3 0 27 167 35 847.3 0 35 168 19 847.3 0 19 169 33 847.3 0 33 170 35 847.3 0 35 171 26 847.3 0 26 172 25 847.3 0 25 173 43 847.3 0 43 174 36 847.3 0 36 175 48 847.3 0 48 176 59 847.3 0 59 177 76 847.3 0 76 178 326 847.3 0 326 179 916 847.3 0 916 180 766 847.3 0 766 181 179 847.3 0 179 182 41 847.3 0 41 183 52 847.3 0 52 184 83 847.3 0 83 185 70 847.3 0 70 186 105 847.3 0 105 187 168 847.3 0 168 188 288 847.3 0 288 189 104 847.3 0 104 190 201 847.3 0 201 191 228 847.3 0 228 192 236 847.3 0 236 193 123 847.3 0 123 194 212 847.3 0 212 195 190 847.3 0 190 196 226 847.3 0 226 197 202 847.3 0 202 198 271 847.3 0 271 199 423 847.3 0 423 200 732 847.3 0 732 201 16599 847.3 0 16599 202 12306 847.3 0 12306 203 4419 847.3 0 4419 204 276 847.3 0 276 205 1341 847.3 0 1341 206 1340 847.3 0 1340 207 1075 847.3 0 1075 208 436 847.3 0 436 209 339 847.3 0 339 210 148 847.3 0 148 211 65 847.3 0 65 212 80 847.3 0 80 213 45 847.3 0 45 214 37 847.3 0 37 215 48 847.3 0 48 216 62 847.3 0 62 217 165 847.3 0 165 218 47 847.3 0 47 219 153 847.3 0 153 220 77 847.3 0 77 221 291 847.3 0 291 222 155 847.3 0 155 223 189 847.3 0 189 224 115 847.3 0 115 225 212 847.3 0 212 226 739 847.3 0 739 227 739 847.3 0 739 228 658 847.3 0 658 229 126 847.3 0 126 230 22 847.3 0 22 231 22 847.3 0 22 232 23 847.3 0 23 233 18 847.3 0 18 234 33 847.3 0 33 235 24 847.3 0 24 236 69 847.3 0 69 237 36 847.3 0 36 238 41 847.3 0 41 239 16 847.3 0 16 240 20 847.3 0 20 241 16 847.3 0 16 242 26 847.3 0 26 243 46 847.3 0 46 244 35 847.3 0 35 245 33 847.3 0 33 246 36 847.3 0 36 247 27 847.3 0 27 248 49 847.3 0 49 249 47 847.3 0 47 250 28 847.3 0 28 251 29 847.3 0 29 252 18 847.3 0 18 253 40 847.3 0 40 254 32 847.3 0 32 255 52 847.3 0 52 256 51 847.3 0 51 257 57 847.3 0 57 258 85 847.3 0 85 259 309 847.3 0 309 260 785 847.3 0 785 261 1017 847.3 0 1017 262 839 847.3 0 839 263 429 847.3 0 429 264 241 847.3 0 241 265 32 847.3 0 32 266 34 847.3 0 34 267 21 847.3 0 21 268 28 847.3 0 28 269 34 847.3 0 34 270 114 847.3 0 114 271 191 847.3 0 191 272 111 847.3 0 111 273 114 847.3 0 114 274 29 847.3 0 29 275 52 847.3 0 52 276 47 847.3 0 47 277 57 847.3 0 57 278 46 847.3 0 46 279 38 847.3 0 38 280 52 847.3 0 52 281 95 847.3 0 95 282 92 847.3 0 92 283 76 847.3 0 76 284 74 847.3 0 74 285 350 847.3 0 350 286 250 847.3 0 250 287 212 847.3 0 212 288 85 847.3 0 85 289 26 847.3 0 26 290 28 847.3 0 28 291 26 847.3 0 26 292 22 847.3 0 22 293 24 847.3 0 24 294 30 847.3 0 30 295 38 847.3 0 38 296 89 847.3 0 89 297 498 847.3 0 498 298 151 847.3 0 151 299 127 847.3 0 127 300 26 847.3 0 26 301 22 847.3 0 22 Finished in 40.40 s (68 us/read; 0.88 M reads/minute). === Summary === Total reads processed: 595,662 Reads with adapters: 116,638 (19.6%) Reads that were too short: 58 (0.0%) Reads written (passing filters): 116,580 (19.6%) Total basepairs processed: 140,171,922 bp Total written (filtered): 31,553,022 bp (22.5%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 116638 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 4 0.0 3 0 0 0 2 2 18 67 0.0 3 0 0 62 4 1 19 2088 0.0 3 0 2046 36 3 3 20 112525 0.0 4 110578 1875 63 8 1 21 203 0.0 4 34 161 5 2 1 22 22 0.0 4 2 0 14 0 6 23 99 0.0 4 3 0 0 85 11 24 3 0.0 4 1 0 0 0 2 25 1 0.0 4 1 26 1 0.0 4 1 30 1 0.0 4 1 36 1 0.0 4 1 43 1 0.0 4 1 63 3 0.0 4 0 0 0 0 3 67 5 0.0 4 0 0 0 0 5 68 23 0.0 4 1 0 0 0 22 70 1 0.0 4 0 0 0 0 1 73 1 0.0 4 1 90 1 0.0 4 0 0 0 0 1 94 4 0.0 4 0 0 0 0 4 104 1 0.0 4 0 0 0 0 1 123 1 0.0 4 0 0 0 0 1 124 1 0.0 4 0 0 0 0 1 125 4 0.0 4 0 0 0 0 4 126 9 0.0 4 0 0 0 0 9 127 1508 0.0 4 0 0 0 0 1508 128 4 0.0 4 0 0 0 0 4 129 2 0.0 4 0 0 0 0 2 130 1 0.0 4 0 0 0 0 1 131 1 0.0 4 1 132 1 0.0 4 0 0 0 0 1 137 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 1 143 1 0.0 4 0 1 144 1 0.0 4 0 0 0 0 1 148 1 0.0 4 0 0 0 0 1 149 2 0.0 4 0 0 0 0 2 150 5 0.0 4 0 0 0 1 4 151 7 0.0 4 0 0 0 1 6 152 1 0.0 4 0 0 0 0 1 153 4 0.0 4 0 0 0 0 4 155 1 0.0 4 1 166 1 0.0 4 0 0 0 0 1 171 1 0.0 4 0 0 0 0 1 172 2 0.0 4 0 0 0 0 2 173 1 0.0 4 0 0 0 0 1 174 1 0.0 4 0 0 0 0 1 194 1 0.0 4 0 0 1 204 1 0.0 4 0 0 1 207 1 0.0 4 0 0 0 0 1 220 1 0.0 4 0 0 0 0 1 228 2 0.0 4 0 0 0 0 2 229 2 0.0 4 0 0 0 0 2 234 2 0.0 4 0 0 0 0 2 235 1 0.0 4 0 0 0 0 1 261 1 0.0 4 0 0 0 0 1 263 2 0.0 4 0 0 0 0 2 264 2 0.0 4 0 0 0 0 2 279 1 0.0 4 0 0 0 0 1 282 1 0.0 4 0 0 0 0 1 289 1 0.0 4 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 7.06 s (61 us/read; 0.99 M reads/minute). === Summary === Total reads processed: 116,580 Reads with adapters: 25,354 (21.7%) Reads written (passing filters): 116,580 (100.0%) Total basepairs processed: 31,553,022 bp Total written (filtered): 31,316,650 bp (99.3%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 25354 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 0.5% C: 1.7% G: 96.9% T: 0.9% 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 67 1821.6 0 67 4 46 455.4 0 46 5 6 113.8 0 6 6 6 28.5 0 6 8 4 1.8 0 4 9 19918 0.4 0 495 19423 10 4306 0.1 1 129 4177 11 959 0.0 1 10 949 12 23 0.0 1 0 23 13 2 0.0 1 0 2 82 1 0.0 1 0 1 150 10 0.0 1 0 10 169 2 0.0 1 2 189 2 0.0 1 0 2 208 1 0.0 1 1 210 1 0.0 1 0 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.