This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CTCTGC -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 65.21 s (27 us/read; 2.25 M reads/minute). === Summary === Total reads processed: 2,442,494 Reads with adapters: 202,829 (8.3%) Reads that were too short: 11,000 (0.5%) Reads written (passing filters): 191,829 (7.9%) Total basepairs processed: 735,190,694 bp Total written (filtered): 36,337,185 bp (4.9%) === Adapter 1 === Sequence: CTCTGC; Type: regular 5'; Length: 6; Trimmed: 202829 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 279 596.3 0 279 7 10033 596.3 0 10033 8 318 596.3 0 318 9 11485 596.3 0 11485 10 25 596.3 0 25 11 19 596.3 0 19 12 12 596.3 0 12 13 16 596.3 0 16 14 10 596.3 0 10 15 35 596.3 0 35 16 18 596.3 0 18 17 20 596.3 0 20 18 9 596.3 0 9 19 14 596.3 0 14 20 11 596.3 0 11 21 25 596.3 0 25 22 21 596.3 0 21 23 18 596.3 0 18 24 23 596.3 0 23 25 35 596.3 0 35 26 26 596.3 0 26 27 23 596.3 0 23 28 18 596.3 0 18 29 15 596.3 0 15 30 23 596.3 0 23 31 31 596.3 0 31 32 29 596.3 0 29 33 32 596.3 0 32 34 21 596.3 0 21 35 25 596.3 0 25 36 40 596.3 0 40 37 21 596.3 0 21 38 23 596.3 0 23 39 78 596.3 0 78 40 47 596.3 0 47 41 22 596.3 0 22 42 25 596.3 0 25 43 22 596.3 0 22 44 20 596.3 0 20 45 33 596.3 0 33 46 14 596.3 0 14 47 22 596.3 0 22 48 28 596.3 0 28 49 25 596.3 0 25 50 17 596.3 0 17 51 54 596.3 0 54 52 33 596.3 0 33 53 34 596.3 0 34 54 34 596.3 0 34 55 42 596.3 0 42 56 77 596.3 0 77 57 96 596.3 0 96 58 85 596.3 0 85 59 146 596.3 0 146 60 71 596.3 0 71 61 812 596.3 0 812 62 48 596.3 0 48 63 36 596.3 0 36 64 33 596.3 0 33 65 23 596.3 0 23 66 32 596.3 0 32 67 24 596.3 0 24 68 34 596.3 0 34 69 34 596.3 0 34 70 51 596.3 0 51 71 53 596.3 0 53 72 84 596.3 0 84 73 35 596.3 0 35 74 36 596.3 0 36 75 25 596.3 0 25 76 50 596.3 0 50 77 216 596.3 0 216 78 37 596.3 0 37 79 28 596.3 0 28 80 42 596.3 0 42 81 28 596.3 0 28 82 33 596.3 0 33 83 30 596.3 0 30 84 72 596.3 0 72 85 50 596.3 0 50 86 66 596.3 0 66 87 195 596.3 0 195 88 35 596.3 0 35 89 34 596.3 0 34 90 46 596.3 0 46 91 43 596.3 0 43 92 37 596.3 0 37 93 48 596.3 0 48 94 325 596.3 0 325 95 55 596.3 0 55 96 147 596.3 0 147 97 349 596.3 0 349 98 75 596.3 0 75 99 153 596.3 0 153 100 73 596.3 0 73 101 79 596.3 0 79 102 240 596.3 0 240 103 102 596.3 0 102 104 112 596.3 0 112 105 83 596.3 0 83 106 203 596.3 0 203 107 269 596.3 0 269 108 333 596.3 0 333 109 405 596.3 0 405 110 585 596.3 0 585 111 603 596.3 0 603 112 1264 596.3 0 1264 113 2463 596.3 0 2463 114 36153 596.3 0 36153 115 19193 596.3 0 19193 116 50060 596.3 0 50060 117 236 596.3 0 236 118 118 596.3 0 118 119 44 596.3 0 44 120 53 596.3 0 53 121 22 596.3 0 22 122 21 596.3 0 21 123 39 596.3 0 39 124 28 596.3 0 28 125 33 596.3 0 33 126 91 596.3 0 91 127 203 596.3 0 203 128 144 596.3 0 144 129 136 596.3 0 136 130 95 596.3 0 95 131 82 596.3 0 82 132 35 596.3 0 35 133 32 596.3 0 32 134 54 596.3 0 54 135 127 596.3 0 127 136 183 596.3 0 183 137 61 596.3 0 61 138 73 596.3 0 73 139 52 596.3 0 52 140 155 596.3 0 155 141 414 596.3 0 414 142 251 596.3 0 251 143 396 596.3 0 396 144 162 596.3 0 162 145 208 596.3 0 208 146 251 596.3 0 251 147 2928 596.3 0 2928 148 5610 596.3 0 5610 149 4302 596.3 0 4302 150 212 596.3 0 212 151 370 596.3 0 370 152 1150 596.3 0 1150 153 12734 596.3 0 12734 154 4127 596.3 0 4127 155 13354 596.3 0 13354 156 285 596.3 0 285 157 161 596.3 0 161 158 87 596.3 0 87 159 36 596.3 0 36 160 70 596.3 0 70 161 39 596.3 0 39 162 60 596.3 0 60 163 51 596.3 0 51 164 31 596.3 0 31 165 46 596.3 0 46 166 26 596.3 0 26 167 35 596.3 0 35 168 94 596.3 0 94 169 186 596.3 0 186 170 133 596.3 0 133 171 93 596.3 0 93 172 28 596.3 0 28 173 23 596.3 0 23 174 17 596.3 0 17 175 26 596.3 0 26 176 30 596.3 0 30 177 38 596.3 0 38 178 24 596.3 0 24 179 17 596.3 0 17 180 92 596.3 0 92 181 101 596.3 0 101 182 63 596.3 0 63 183 509 596.3 0 509 184 227 596.3 0 227 185 118 596.3 0 118 186 205 596.3 0 205 187 64 596.3 0 64 188 39 596.3 0 39 189 118 596.3 0 118 190 163 596.3 0 163 191 65 596.3 0 65 192 55 596.3 0 55 193 25 596.3 0 25 194 18 596.3 0 18 195 16 596.3 0 16 196 17 596.3 0 17 197 27 596.3 0 27 198 25 596.3 0 25 199 46 596.3 0 46 200 28 596.3 0 28 201 34 596.3 0 34 202 98 596.3 0 98 203 54 596.3 0 54 204 139 596.3 0 139 205 25 596.3 0 25 206 18 596.3 0 18 207 29 596.3 0 29 208 26 596.3 0 26 209 19 596.3 0 19 210 21 596.3 0 21 211 14 596.3 0 14 212 24 596.3 0 24 213 35 596.3 0 35 214 20 596.3 0 20 215 36 596.3 0 36 216 298 596.3 0 298 217 145 596.3 0 145 218 289 596.3 0 289 219 23 596.3 0 23 220 20 596.3 0 20 221 28 596.3 0 28 222 24 596.3 0 24 223 18 596.3 0 18 224 25 596.3 0 25 225 17 596.3 0 17 226 78 596.3 0 78 227 42 596.3 0 42 228 76 596.3 0 76 229 32 596.3 0 32 230 28 596.3 0 28 231 39 596.3 0 39 232 36 596.3 0 36 233 37 596.3 0 37 234 49 596.3 0 49 235 100 596.3 0 100 236 52 596.3 0 52 237 35 596.3 0 35 238 35 596.3 0 35 239 28 596.3 0 28 240 21 596.3 0 21 241 23 596.3 0 23 242 26 596.3 0 26 243 22 596.3 0 22 244 43 596.3 0 43 245 28 596.3 0 28 246 43 596.3 0 43 247 27 596.3 0 27 248 30 596.3 0 30 249 51 596.3 0 51 250 67 596.3 0 67 251 68 596.3 0 68 252 20 596.3 0 20 253 36 596.3 0 36 254 39 596.3 0 39 255 47 596.3 0 47 256 36 596.3 0 36 257 36 596.3 0 36 258 26 596.3 0 26 259 45 596.3 0 45 260 33 596.3 0 33 261 39 596.3 0 39 262 46 596.3 0 46 263 33 596.3 0 33 264 40 596.3 0 40 265 22 596.3 0 22 266 50 596.3 0 50 267 61 596.3 0 61 268 56 596.3 0 56 269 51 596.3 0 51 270 88 596.3 0 88 271 106 596.3 0 106 272 84 596.3 0 84 273 63 596.3 0 63 274 136 596.3 0 136 275 97 596.3 0 97 276 84 596.3 0 84 277 104 596.3 0 104 278 122 596.3 0 122 279 495 596.3 0 495 280 532 596.3 0 532 281 1142 596.3 0 1142 282 1471 596.3 0 1471 283 1151 596.3 0 1151 284 83 596.3 0 83 285 90 596.3 0 90 286 70 596.3 0 70 287 48 596.3 0 48 288 53 596.3 0 53 289 63 596.3 0 63 290 311 596.3 0 311 291 233 596.3 0 233 292 364 596.3 0 364 293 153 596.3 0 153 294 105 596.3 0 105 295 115 596.3 0 115 296 96 596.3 0 96 297 106 596.3 0 106 298 79 596.3 0 79 299 36 596.3 0 36 300 22 596.3 0 22 301 21 596.3 0 21 Finished in 7.38 s (38 us/read; 1.56 M reads/minute). === Summary === Total reads processed: 191,829 Reads with adapters: 12,160 (6.3%) Reads that were too short: 13 (0.0%) Reads written (passing filters): 12,147 (6.3%) Total basepairs processed: 36,337,185 bp Total written (filtered): 3,294,196 bp (9.1%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 12160 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 7 0.0 3 0 0 7 19 158 0.0 3 0 155 3 20 11838 0.0 4 11610 215 13 21 29 0.0 4 4 24 1 22 2 0.0 4 0 0 2 23 9 0.0 4 0 0 0 6 3 24 1 0.0 4 0 0 0 0 1 36 1 0.0 4 0 0 0 0 1 47 1 0.0 4 1 51 1 0.0 4 1 59 1 0.0 4 0 0 0 0 1 66 1 0.0 4 0 1 72 1 0.0 4 0 0 0 0 1 77 1 0.0 4 0 1 104 2 0.0 4 0 0 0 0 2 105 1 0.0 4 0 0 0 0 1 126 1 0.0 4 0 0 0 0 1 127 96 0.0 4 0 0 0 0 96 151 1 0.0 4 0 0 0 1 185 1 0.0 4 0 0 0 0 1 198 5 0.0 4 0 0 0 0 5 212 1 0.0 4 0 0 0 0 1 228 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 0.44 s (36 us/read; 1.66 M reads/minute). === Summary === Total reads processed: 12,147 Reads with adapters: 1,494 (12.3%) Reads written (passing filters): 12,147 (100.0%) Total basepairs processed: 3,294,196 bp Total written (filtered): 3,276,403 bp (99.5%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 1494 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.4% C: 2.1% G: 93.8% T: 2.6% none/other: 0.1% 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 1 189.8 0 1 4 1 47.4 0 1 9 494 0.0 0 9 485 10 843 0.0 1 30 813 11 140 0.0 1 0 140 12 2 0.0 1 0 2 148 1 0.0 1 1 223 1 0.0 1 1 267 1 0.0 1 1 268 1 0.0 1 1 271 8 0.0 1 7 1 272 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.