This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CGTGCG -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 74.71 s (26 us/read; 2.29 M reads/minute). === Summary === Total reads processed: 2,852,348 Reads with adapters: 175,693 (6.2%) Reads that were too short: 84,882 (3.0%) Reads written (passing filters): 90,811 (3.2%) Total basepairs processed: 858,556,748 bp Total written (filtered): 23,645,673 bp (2.8%) === Adapter 1 === Sequence: CGTGCG; Type: regular 5'; Length: 6; Trimmed: 175693 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 4268 696.4 0 4268 7 30783 696.4 0 30783 8 24844 696.4 0 24844 9 71 696.4 0 71 10 96 696.4 0 96 11 15 696.4 0 15 12 19 696.4 0 19 13 27 696.4 0 27 14 18 696.4 0 18 15 28 696.4 0 28 16 17 696.4 0 17 17 26 696.4 0 26 18 20 696.4 0 20 19 25 696.4 0 25 20 64 696.4 0 64 21 38 696.4 0 38 22 14 696.4 0 14 23 18 696.4 0 18 24 15 696.4 0 15 25 19 696.4 0 19 26 10 696.4 0 10 27 14 696.4 0 14 28 12 696.4 0 12 29 31 696.4 0 31 30 70 696.4 0 70 31 13 696.4 0 13 32 14 696.4 0 14 33 15 696.4 0 15 34 15 696.4 0 15 35 21 696.4 0 21 36 16 696.4 0 16 37 10 696.4 0 10 38 13 696.4 0 13 39 18 696.4 0 18 40 31 696.4 0 31 41 15 696.4 0 15 42 16 696.4 0 16 43 26 696.4 0 26 44 14 696.4 0 14 45 22 696.4 0 22 46 30 696.4 0 30 47 76 696.4 0 76 48 33 696.4 0 33 49 30 696.4 0 30 50 80 696.4 0 80 51 66 696.4 0 66 52 35 696.4 0 35 53 13 696.4 0 13 54 15 696.4 0 15 55 29 696.4 0 29 56 18 696.4 0 18 57 22 696.4 0 22 58 28 696.4 0 28 59 39 696.4 0 39 60 56 696.4 0 56 61 76 696.4 0 76 62 152 696.4 0 152 63 52 696.4 0 52 64 81 696.4 0 81 65 144 696.4 0 144 66 39 696.4 0 39 67 44 696.4 0 44 68 131 696.4 0 131 69 112 696.4 0 112 70 160 696.4 0 160 71 153 696.4 0 153 72 191 696.4 0 191 73 391 696.4 0 391 74 700 696.4 0 700 75 7636 696.4 0 7636 76 4220 696.4 0 4220 77 4898 696.4 0 4898 78 38 696.4 0 38 79 17 696.4 0 17 80 19 696.4 0 19 81 22 696.4 0 22 82 22 696.4 0 22 83 20 696.4 0 20 84 38 696.4 0 38 85 24 696.4 0 24 86 28 696.4 0 28 87 23 696.4 0 23 88 52 696.4 0 52 89 28 696.4 0 28 90 42 696.4 0 42 91 37 696.4 0 37 92 32 696.4 0 32 93 13 696.4 0 13 94 13 696.4 0 13 95 32 696.4 0 32 96 20 696.4 0 20 97 15 696.4 0 15 98 32 696.4 0 32 99 17 696.4 0 17 100 12 696.4 0 12 101 19 696.4 0 19 102 14 696.4 0 14 103 16 696.4 0 16 104 17 696.4 0 17 105 14 696.4 0 14 106 18 696.4 0 18 107 17 696.4 0 17 108 13 696.4 0 13 109 20 696.4 0 20 110 22 696.4 0 22 111 10 696.4 0 10 112 13 696.4 0 13 113 13 696.4 0 13 114 24 696.4 0 24 115 18 696.4 0 18 116 16 696.4 0 16 117 28 696.4 0 28 118 30 696.4 0 30 119 27 696.4 0 27 120 27 696.4 0 27 121 28 696.4 0 28 122 21 696.4 0 21 123 21 696.4 0 21 124 23 696.4 0 23 125 183 696.4 0 183 126 133 696.4 0 133 127 127 696.4 0 127 128 56 696.4 0 56 129 88 696.4 0 88 130 53 696.4 0 53 131 51 696.4 0 51 132 57 696.4 0 57 133 37 696.4 0 37 134 37 696.4 0 37 135 46 696.4 0 46 136 53 696.4 0 53 137 83 696.4 0 83 138 50 696.4 0 50 139 34 696.4 0 34 140 17 696.4 0 17 141 28 696.4 0 28 142 39 696.4 0 39 143 33 696.4 0 33 144 17 696.4 0 17 145 8 696.4 0 8 146 27 696.4 0 27 147 19 696.4 0 19 148 20 696.4 0 20 149 36 696.4 0 36 150 48 696.4 0 48 151 18 696.4 0 18 152 28 696.4 0 28 153 33 696.4 0 33 154 28 696.4 0 28 155 26 696.4 0 26 156 27 696.4 0 27 157 27 696.4 0 27 158 21 696.4 0 21 159 14 696.4 0 14 160 24 696.4 0 24 161 65 696.4 0 65 162 40 696.4 0 40 163 83 696.4 0 83 164 38 696.4 0 38 165 57 696.4 0 57 166 159 696.4 0 159 167 153 696.4 0 153 168 352 696.4 0 352 169 177 696.4 0 177 170 43 696.4 0 43 171 50 696.4 0 50 172 25 696.4 0 25 173 32 696.4 0 32 174 27 696.4 0 27 175 25 696.4 0 25 176 38 696.4 0 38 177 28 696.4 0 28 178 38 696.4 0 38 179 33 696.4 0 33 180 60 696.4 0 60 181 52 696.4 0 52 182 51 696.4 0 51 183 87 696.4 0 87 184 77 696.4 0 77 185 66 696.4 0 66 186 228 696.4 0 228 187 180 696.4 0 180 188 289 696.4 0 289 189 159 696.4 0 159 190 67 696.4 0 67 191 92 696.4 0 92 192 111 696.4 0 111 193 600 696.4 0 600 194 534 696.4 0 534 195 596 696.4 0 596 196 371 696.4 0 371 197 804 696.4 0 804 198 586 696.4 0 586 199 670 696.4 0 670 200 261 696.4 0 261 201 145 696.4 0 145 202 102 696.4 0 102 203 294 696.4 0 294 204 294 696.4 0 294 205 322 696.4 0 322 206 85 696.4 0 85 207 39 696.4 0 39 208 38 696.4 0 38 209 49 696.4 0 49 210 58 696.4 0 58 211 101 696.4 0 101 212 85 696.4 0 85 213 137 696.4 0 137 214 145 696.4 0 145 215 174 696.4 0 174 216 102 696.4 0 102 217 311 696.4 0 311 218 283 696.4 0 283 219 263 696.4 0 263 220 188 696.4 0 188 221 89 696.4 0 89 222 71 696.4 0 71 223 153 696.4 0 153 224 195 696.4 0 195 225 76 696.4 0 76 226 68 696.4 0 68 227 63 696.4 0 63 228 70 696.4 0 70 229 54 696.4 0 54 230 66 696.4 0 66 231 97 696.4 0 97 232 132 696.4 0 132 233 222 696.4 0 222 234 313 696.4 0 313 235 430 696.4 0 430 236 569 696.4 0 569 237 727 696.4 0 727 238 7531 696.4 0 7531 239 4559 696.4 0 4559 240 4213 696.4 0 4213 241 189 696.4 0 189 242 247 696.4 0 247 243 253 696.4 0 253 244 241 696.4 0 241 245 285 696.4 0 285 246 506 696.4 0 506 247 3382 696.4 0 3382 248 3505 696.4 0 3505 249 9747 696.4 0 9747 250 11736 696.4 0 11736 251 6176 696.4 0 6176 252 264 696.4 0 264 253 242 696.4 0 242 254 214 696.4 0 214 255 182 696.4 0 182 256 108 696.4 0 108 257 109 696.4 0 109 258 63 696.4 0 63 259 111 696.4 0 111 260 51 696.4 0 51 261 75 696.4 0 75 262 76 696.4 0 76 263 129 696.4 0 129 264 87 696.4 0 87 265 133 696.4 0 133 266 76 696.4 0 76 267 86 696.4 0 86 268 183 696.4 0 183 269 222 696.4 0 222 270 158 696.4 0 158 271 171 696.4 0 171 272 158 696.4 0 158 273 145 696.4 0 145 274 120 696.4 0 120 275 129 696.4 0 129 276 145 696.4 0 145 277 251 696.4 0 251 278 338 696.4 0 338 279 675 696.4 0 675 280 736 696.4 0 736 281 823 696.4 0 823 282 2432 696.4 0 2432 283 2782 696.4 0 2782 284 5058 696.4 0 5058 285 2750 696.4 0 2750 286 598 696.4 0 598 287 497 696.4 0 497 288 313 696.4 0 313 289 211 696.4 0 211 290 146 696.4 0 146 291 238 696.4 0 238 292 257 696.4 0 257 293 187 696.4 0 187 294 400 696.4 0 400 295 637 696.4 0 637 296 707 696.4 0 707 297 877 696.4 0 877 298 501 696.4 0 501 299 478 696.4 0 478 300 300 696.4 0 300 301 218 696.4 0 218 Finished in 4.66 s (51 us/read; 1.17 M reads/minute). === Summary === Total reads processed: 90,811 Reads with adapters: 31,243 (34.4%) Reads that were too short: 61 (0.1%) Reads written (passing filters): 31,182 (34.3%) Total basepairs processed: 23,645,673 bp Total written (filtered): 8,419,452 bp (35.6%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 31243 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 1 1 18 11 0.0 3 0 0 4 6 1 19 390 0.0 3 0 322 29 30 9 20 26591 0.0 4 24950 1345 224 52 20 21 125 0.0 4 10 96 7 4 8 22 3070 0.0 4 2866 167 28 5 4 23 78 0.0 4 3 11 0 49 15 24 3 0.0 4 1 0 0 0 2 25 11 0.0 4 0 0 0 8 3 29 1 0.0 4 0 0 0 0 1 30 2 0.0 4 0 1 0 1 51 1 0.0 4 0 0 0 0 1 54 1 0.0 4 0 0 0 0 1 55 1 0.0 4 0 0 0 1 59 37 0.0 4 0 0 0 0 37 60 1 0.0 4 0 0 0 0 1 61 1 0.0 4 0 0 0 0 1 62 1 0.0 4 0 0 0 0 1 72 2 0.0 4 0 0 0 0 2 73 1 0.0 4 0 0 0 0 1 77 1 0.0 4 0 0 0 0 1 81 1 0.0 4 0 0 0 0 1 85 7 0.0 4 0 0 0 0 7 87 1 0.0 4 0 0 0 0 1 100 1 0.0 4 0 0 0 0 1 101 2 0.0 4 0 0 0 0 2 103 1 0.0 4 0 0 0 0 1 119 2 0.0 4 0 0 0 0 2 122 1 0.0 4 0 0 0 0 1 125 2 0.0 4 0 0 0 0 2 126 5 0.0 4 0 0 0 0 5 127 830 0.0 4 0 0 0 0 830 128 2 0.0 4 0 0 0 0 2 130 2 0.0 4 0 0 0 0 2 131 1 0.0 4 0 0 0 0 1 136 1 0.0 4 0 0 0 0 1 146 1 0.0 4 0 0 0 0 1 150 1 0.0 4 0 0 0 0 1 151 1 0.0 4 0 0 0 0 1 153 1 0.0 4 0 0 0 0 1 161 1 0.0 4 0 0 0 0 1 162 2 0.0 4 0 0 0 0 2 165 2 0.0 4 0 0 0 0 2 166 2 0.0 4 0 0 0 1 1 168 2 0.0 4 0 0 0 0 2 188 1 0.0 4 0 0 0 0 1 189 2 0.0 4 0 0 0 0 2 190 1 0.0 4 0 0 0 0 1 194 1 0.0 4 0 0 0 0 1 196 1 0.0 4 0 0 0 1 207 1 0.0 4 0 0 0 0 1 211 1 0.0 4 0 0 0 0 1 212 1 0.0 4 0 0 0 0 1 214 3 0.0 4 0 0 0 0 3 215 2 0.0 4 0 0 0 0 2 227 1 0.0 4 0 0 0 0 1 228 8 0.0 4 0 0 0 0 8 229 5 0.0 4 0 0 0 0 5 230 1 0.0 4 0 0 0 0 1 234 1 0.0 4 0 0 0 0 1 237 2 0.0 4 0 0 0 0 2 264 1 0.0 4 0 0 0 0 1 265 1 0.0 4 0 0 0 0 1 283 1 0.0 4 0 0 0 0 1 284 1 0.0 4 0 0 0 0 1 285 1 0.0 4 0 0 0 0 1 288 2 0.0 4 0 0 0 0 2 293 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 1.11 s (36 us/read; 1.69 M reads/minute). === Summary === Total reads processed: 31,182 Reads with adapters: 5,293 (17.0%) Reads written (passing filters): 31,182 (100.0%) Total basepairs processed: 8,419,452 bp Total written (filtered): 8,361,431 bp (99.3%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 5293 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 2.6% C: 8.5% G: 86.7% T: 2.2% 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 51 487.2 0 51 4 15 121.8 0 15 7 1 1.9 0 1 8 1 0.5 0 1 9 66 0.1 0 6 60 10 1343 0.0 1 119 1224 11 3689 0.0 1 190 3499 12 105 0.0 1 3 102 13 9 0.0 1 0 9 14 3 0.0 1 0 3 151 4 0.0 1 3 1 159 1 0.0 1 0 1 170 1 0.0 1 0 1 209 3 0.0 1 3 211 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.