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 134.04 s (45 us/read; 1.32 M reads/minute). === Summary === Total reads processed: 2,949,860 Reads with adapters: 431,572 (14.6%) Reads that were too short: 10,687 (0.4%) Reads written (passing filters): 420,885 (14.3%) Total basepairs processed: 887,907,860 bp Total written (filtered): 77,134,649 bp (8.7%) === Adapter 1 === Sequence: CTCTGC; Type: regular 5'; Length: 6; Trimmed: 431572 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 311 720.2 0 311 7 10467 720.2 0 10467 8 329 720.2 0 329 9 11240 720.2 0 11240 10 34 720.2 0 34 11 18 720.2 0 18 12 28 720.2 0 28 13 27 720.2 0 27 14 25 720.2 0 25 15 36 720.2 0 36 16 25 720.2 0 25 17 24 720.2 0 24 18 21 720.2 0 21 19 31 720.2 0 31 20 38 720.2 0 38 21 38 720.2 0 38 22 24 720.2 0 24 23 26 720.2 0 26 24 36 720.2 0 36 25 57 720.2 0 57 26 29 720.2 0 29 27 36 720.2 0 36 28 30 720.2 0 30 29 22 720.2 0 22 30 28 720.2 0 28 31 44 720.2 0 44 32 40 720.2 0 40 33 39 720.2 0 39 34 31 720.2 0 31 35 33 720.2 0 33 36 46 720.2 0 46 37 51 720.2 0 51 38 44 720.2 0 44 39 63 720.2 0 63 40 101 720.2 0 101 41 74 720.2 0 74 42 38 720.2 0 38 43 38 720.2 0 38 44 35 720.2 0 35 45 45 720.2 0 45 46 33 720.2 0 33 47 37 720.2 0 37 48 44 720.2 0 44 49 39 720.2 0 39 50 39 720.2 0 39 51 55 720.2 0 55 52 83 720.2 0 83 53 42 720.2 0 42 54 54 720.2 0 54 55 50 720.2 0 50 56 56 720.2 0 56 57 100 720.2 0 100 58 88 720.2 0 88 59 193 720.2 0 193 60 73 720.2 0 73 61 694 720.2 0 694 62 66 720.2 0 66 63 35 720.2 0 35 64 61 720.2 0 61 65 50 720.2 0 50 66 35 720.2 0 35 67 84 720.2 0 84 68 41 720.2 0 41 69 48 720.2 0 48 70 66 720.2 0 66 71 51 720.2 0 51 72 43 720.2 0 43 73 60 720.2 0 60 74 47 720.2 0 47 75 48 720.2 0 48 76 67 720.2 0 67 77 404 720.2 0 404 78 67 720.2 0 67 79 46 720.2 0 46 80 84 720.2 0 84 81 70 720.2 0 70 82 48 720.2 0 48 83 89 720.2 0 89 84 182 720.2 0 182 85 66 720.2 0 66 86 93 720.2 0 93 87 633 720.2 0 633 88 76 720.2 0 76 89 61 720.2 0 61 90 61 720.2 0 61 91 91 720.2 0 91 92 93 720.2 0 93 93 135 720.2 0 135 94 316 720.2 0 316 95 110 720.2 0 110 96 245 720.2 0 245 97 850 720.2 0 850 98 185 720.2 0 185 99 302 720.2 0 302 100 251 720.2 0 251 101 349 720.2 0 349 102 543 720.2 0 543 103 191 720.2 0 191 104 205 720.2 0 205 105 128 720.2 0 128 106 349 720.2 0 349 107 619 720.2 0 619 108 582 720.2 0 582 109 786 720.2 0 786 110 1158 720.2 0 1158 111 1573 720.2 0 1573 112 3934 720.2 0 3934 113 4079 720.2 0 4079 114 79971 720.2 0 79971 115 52163 720.2 0 52163 116 129931 720.2 0 129931 117 521 720.2 0 521 118 108 720.2 0 108 119 70 720.2 0 70 120 109 720.2 0 109 121 57 720.2 0 57 122 53 720.2 0 53 123 38 720.2 0 38 124 45 720.2 0 45 125 52 720.2 0 52 126 80 720.2 0 80 127 228 720.2 0 228 128 121 720.2 0 121 129 297 720.2 0 297 130 175 720.2 0 175 131 76 720.2 0 76 132 58 720.2 0 58 133 54 720.2 0 54 134 73 720.2 0 73 135 121 720.2 0 121 136 87 720.2 0 87 137 74 720.2 0 74 138 65 720.2 0 65 139 94 720.2 0 94 140 228 720.2 0 228 141 451 720.2 0 451 142 599 720.2 0 599 143 696 720.2 0 696 144 559 720.2 0 559 145 787 720.2 0 787 146 964 720.2 0 964 147 14794 720.2 0 14794 148 21964 720.2 0 21964 149 50259 720.2 0 50259 150 507 720.2 0 507 151 213 720.2 0 213 152 298 720.2 0 298 153 5250 720.2 0 5250 154 2867 720.2 0 2867 155 6074 720.2 0 6074 156 260 720.2 0 260 157 310 720.2 0 310 158 133 720.2 0 133 159 52 720.2 0 52 160 72 720.2 0 72 161 113 720.2 0 113 162 107 720.2 0 107 163 139 720.2 0 139 164 52 720.2 0 52 165 66 720.2 0 66 166 39 720.2 0 39 167 42 720.2 0 42 168 108 720.2 0 108 169 91 720.2 0 91 170 124 720.2 0 124 171 289 720.2 0 289 172 40 720.2 0 40 173 20 720.2 0 20 174 31 720.2 0 31 175 40 720.2 0 40 176 49 720.2 0 49 177 44 720.2 0 44 178 32 720.2 0 32 179 25 720.2 0 25 180 43 720.2 0 43 181 149 720.2 0 149 182 100 720.2 0 100 183 352 720.2 0 352 184 172 720.2 0 172 185 324 720.2 0 324 186 341 720.2 0 341 187 39 720.2 0 39 188 48 720.2 0 48 189 38 720.2 0 38 190 47 720.2 0 47 191 80 720.2 0 80 192 41 720.2 0 41 193 59 720.2 0 59 194 34 720.2 0 34 195 33 720.2 0 33 196 35 720.2 0 35 197 53 720.2 0 53 198 59 720.2 0 59 199 37 720.2 0 37 200 27 720.2 0 27 201 27 720.2 0 27 202 65 720.2 0 65 203 46 720.2 0 46 204 96 720.2 0 96 205 27 720.2 0 27 206 50 720.2 0 50 207 37 720.2 0 37 208 23 720.2 0 23 209 33 720.2 0 33 210 17 720.2 0 17 211 28 720.2 0 28 212 25 720.2 0 25 213 32 720.2 0 32 214 30 720.2 0 30 215 32 720.2 0 32 216 191 720.2 0 191 217 99 720.2 0 99 218 246 720.2 0 246 219 34 720.2 0 34 220 40 720.2 0 40 221 30 720.2 0 30 222 36 720.2 0 36 223 29 720.2 0 29 224 31 720.2 0 31 225 29 720.2 0 29 226 63 720.2 0 63 227 61 720.2 0 61 228 166 720.2 0 166 229 21 720.2 0 21 230 48 720.2 0 48 231 29 720.2 0 29 232 28 720.2 0 28 233 42 720.2 0 42 234 71 720.2 0 71 235 111 720.2 0 111 236 169 720.2 0 169 237 122 720.2 0 122 238 147 720.2 0 147 239 53 720.2 0 53 240 32 720.2 0 32 241 24 720.2 0 24 242 36 720.2 0 36 243 26 720.2 0 26 244 32 720.2 0 32 245 41 720.2 0 41 246 50 720.2 0 50 247 33 720.2 0 33 248 47 720.2 0 47 249 45 720.2 0 45 250 66 720.2 0 66 251 52 720.2 0 52 252 31 720.2 0 31 253 61 720.2 0 61 254 46 720.2 0 46 255 32 720.2 0 32 256 28 720.2 0 28 257 64 720.2 0 64 258 43 720.2 0 43 259 58 720.2 0 58 260 46 720.2 0 46 261 56 720.2 0 56 262 53 720.2 0 53 263 37 720.2 0 37 264 42 720.2 0 42 265 44 720.2 0 44 266 53 720.2 0 53 267 56 720.2 0 56 268 36 720.2 0 36 269 68 720.2 0 68 270 82 720.2 0 82 271 107 720.2 0 107 272 108 720.2 0 108 273 70 720.2 0 70 274 75 720.2 0 75 275 80 720.2 0 80 276 88 720.2 0 88 277 91 720.2 0 91 278 98 720.2 0 98 279 759 720.2 0 759 280 466 720.2 0 466 281 1123 720.2 0 1123 282 838 720.2 0 838 283 793 720.2 0 793 284 86 720.2 0 86 285 114 720.2 0 114 286 142 720.2 0 142 287 67 720.2 0 67 288 59 720.2 0 59 289 76 720.2 0 76 290 219 720.2 0 219 291 282 720.2 0 282 292 303 720.2 0 303 293 129 720.2 0 129 294 87 720.2 0 87 295 139 720.2 0 139 296 88 720.2 0 88 297 97 720.2 0 97 298 126 720.2 0 126 299 42 720.2 0 42 300 43 720.2 0 43 301 35 720.2 0 35 Finished in 23.10 s (55 us/read; 1.09 M reads/minute). === Summary === Total reads processed: 420,885 Reads with adapters: 11,966 (2.8%) Reads that were too short: 24 (0.0%) Reads written (passing filters): 11,942 (2.8%) Total basepairs processed: 77,134,649 bp Total written (filtered): 3,232,945 bp (4.2%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 11966 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 16 1 0.0 3 0 0 0 0 1 17 2 0.0 3 0 0 0 1 1 18 6 0.0 3 0 0 6 19 114 0.0 3 0 111 2 0 1 20 11625 0.0 4 11427 185 13 21 30 0.0 4 8 21 1 22 1 0.0 4 0 0 1 23 8 0.0 4 0 0 0 7 1 24 3 0.0 4 0 0 0 0 3 27 1 0.0 4 0 0 0 0 1 48 1 0.0 4 1 54 2 0.0 4 0 0 0 0 2 70 1 0.0 4 0 0 0 0 1 78 1 0.0 4 1 100 1 0.0 4 0 0 0 0 1 101 1 0.0 4 1 102 1 0.0 4 0 1 126 1 0.0 4 0 0 0 0 1 127 138 0.0 4 0 0 0 0 138 130 1 0.0 4 0 0 0 0 1 137 1 0.0 4 0 0 0 0 1 140 1 0.0 4 0 1 142 1 0.0 4 0 0 0 0 1 143 1 0.0 4 0 1 154 1 0.0 4 0 0 1 157 2 0.0 4 1 0 0 0 1 165 1 0.0 4 0 1 166 2 0.0 4 2 167 2 0.0 4 2 169 1 0.0 4 1 171 1 0.0 4 0 0 0 0 1 180 1 0.0 4 0 0 0 0 1 198 4 0.0 4 0 0 0 0 4 205 1 0.0 4 1 207 1 0.0 4 1 222 1 0.0 4 0 0 0 1 227 1 0.0 4 0 0 0 0 1 228 1 0.0 4 0 0 0 0 1 238 1 0.0 4 1 256 1 0.0 4 0 0 0 0 1 257 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 0.66 s (55 us/read; 1.09 M reads/minute). === Summary === Total reads processed: 11,942 Reads with adapters: 1,591 (13.3%) Reads written (passing filters): 11,942 (100.0%) Total basepairs processed: 3,232,945 bp Total written (filtered): 3,196,021 bp (98.9%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 1591 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 0.9% C: 1.7% G: 91.5% T: 5.9% 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 2 186.6 0 2 4 1 46.6 0 1 6 1 2.9 0 1 9 805 0.0 0 17 788 10 615 0.0 1 12 603 11 77 0.0 1 1 76 13 2 0.0 1 0 2 22 1 0.0 1 1 102 1 0.0 1 1 113 2 0.0 1 1 1 169 1 0.0 1 1 208 1 0.0 1 0 1 267 72 0.0 1 64 8 268 4 0.0 1 4 269 3 0.0 1 3 270 3 0.0 1 3 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.