This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g GCGGTT -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 65.87 s (26 us/read; 2.32 M reads/minute). === Summary === Total reads processed: 2,546,118 Reads with adapters: 347,083 (13.6%) Reads that were too short: 292,855 (11.5%) Reads written (passing filters): 54,228 (2.1%) Total basepairs processed: 766,381,518 bp Total written (filtered): 12,154,928 bp (1.6%) === Adapter 1 === Sequence: GCGGTT; Type: regular 5'; Length: 6; Trimmed: 347083 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 306 621.6 0 306 7 633 621.6 0 633 8 15404 621.6 0 15404 9 11805 621.6 0 11805 10 76 621.6 0 76 11 50 621.6 0 50 12 48 621.6 0 48 13 46 621.6 0 46 14 56 621.6 0 56 15 36 621.6 0 36 16 50 621.6 0 50 17 54 621.6 0 54 18 39 621.6 0 39 19 39 621.6 0 39 20 122 621.6 0 122 21 94 621.6 0 94 22 139 621.6 0 139 23 59 621.6 0 59 24 63 621.6 0 63 25 54 621.6 0 54 26 47 621.6 0 47 27 55 621.6 0 55 28 42 621.6 0 42 29 41 621.6 0 41 30 21 621.6 0 21 31 43 621.6 0 43 32 49 621.6 0 49 33 150 621.6 0 150 34 58 621.6 0 58 35 80 621.6 0 80 36 49 621.6 0 49 37 34 621.6 0 34 38 48 621.6 0 48 39 51 621.6 0 51 40 43 621.6 0 43 41 40 621.6 0 40 42 50 621.6 0 50 43 42 621.6 0 42 44 48 621.6 0 48 45 48 621.6 0 48 46 48 621.6 0 48 47 63 621.6 0 63 48 45 621.6 0 45 49 53 621.6 0 53 50 51 621.6 0 51 51 57 621.6 0 57 52 30 621.6 0 30 53 44 621.6 0 44 54 40 621.6 0 40 55 36 621.6 0 36 56 45 621.6 0 45 57 49 621.6 0 49 58 42 621.6 0 42 59 24 621.6 0 24 60 30 621.6 0 30 61 48 621.6 0 48 62 45 621.6 0 45 63 84 621.6 0 84 64 87 621.6 0 87 65 59 621.6 0 59 66 102 621.6 0 102 67 113 621.6 0 113 68 51 621.6 0 51 69 54 621.6 0 54 70 32 621.6 0 32 71 57 621.6 0 57 72 29 621.6 0 29 73 62 621.6 0 62 74 68 621.6 0 68 75 76 621.6 0 76 76 52 621.6 0 52 77 59 621.6 0 59 78 54 621.6 0 54 79 52 621.6 0 52 80 50 621.6 0 50 81 39 621.6 0 39 82 57 621.6 0 57 83 25 621.6 0 25 84 46 621.6 0 46 85 47 621.6 0 47 86 68 621.6 0 68 87 58 621.6 0 58 88 89 621.6 0 89 89 73 621.6 0 73 90 58 621.6 0 58 91 66 621.6 0 66 92 68 621.6 0 68 93 94 621.6 0 94 94 122 621.6 0 122 95 162 621.6 0 162 96 73 621.6 0 73 97 93 621.6 0 93 98 60 621.6 0 60 99 127 621.6 0 127 100 62 621.6 0 62 101 52 621.6 0 52 102 44 621.6 0 44 103 44 621.6 0 44 104 40 621.6 0 40 105 37 621.6 0 37 106 52 621.6 0 52 107 45 621.6 0 45 108 54 621.6 0 54 109 51 621.6 0 51 110 40 621.6 0 40 111 36 621.6 0 36 112 43 621.6 0 43 113 44 621.6 0 44 114 33 621.6 0 33 115 33 621.6 0 33 116 55 621.6 0 55 117 66 621.6 0 66 118 56 621.6 0 56 119 71 621.6 0 71 120 67 621.6 0 67 121 48 621.6 0 48 122 53 621.6 0 53 123 54 621.6 0 54 124 115 621.6 0 115 125 110 621.6 0 110 126 136 621.6 0 136 127 241 621.6 0 241 128 75 621.6 0 75 129 58 621.6 0 58 130 228 621.6 0 228 131 461 621.6 0 461 132 685 621.6 0 685 133 438 621.6 0 438 134 53 621.6 0 53 135 47 621.6 0 47 136 51 621.6 0 51 137 42 621.6 0 42 138 54 621.6 0 54 139 65 621.6 0 65 140 51 621.6 0 51 141 77 621.6 0 77 142 48 621.6 0 48 143 47 621.6 0 47 144 31 621.6 0 31 145 78 621.6 0 78 146 54 621.6 0 54 147 76 621.6 0 76 148 75 621.6 0 75 149 43 621.6 0 43 150 44 621.6 0 44 151 57 621.6 0 57 152 57 621.6 0 57 153 85 621.6 0 85 154 108 621.6 0 108 155 104 621.6 0 104 156 84 621.6 0 84 157 56 621.6 0 56 158 58 621.6 0 58 159 50 621.6 0 50 160 47 621.6 0 47 161 44 621.6 0 44 162 39 621.6 0 39 163 45 621.6 0 45 164 57 621.6 0 57 165 47 621.6 0 47 166 70 621.6 0 70 167 85 621.6 0 85 168 64 621.6 0 64 169 69 621.6 0 69 170 53 621.6 0 53 171 63 621.6 0 63 172 63 621.6 0 63 173 133 621.6 0 133 174 251 621.6 0 251 175 278 621.6 0 278 176 224 621.6 0 224 177 84 621.6 0 84 178 91 621.6 0 91 179 442 621.6 0 442 180 312 621.6 0 312 181 501 621.6 0 501 182 159 621.6 0 159 183 101 621.6 0 101 184 95 621.6 0 95 185 230 621.6 0 230 186 301 621.6 0 301 187 477 621.6 0 477 188 199 621.6 0 199 189 127 621.6 0 127 190 129 621.6 0 129 191 214 621.6 0 214 192 477 621.6 0 477 193 2423 621.6 0 2423 194 1842 621.6 0 1842 195 2505 621.6 0 2505 196 165 621.6 0 165 197 142 621.6 0 142 198 145 621.6 0 145 199 868 621.6 0 868 200 801 621.6 0 801 201 916 621.6 0 916 202 368 621.6 0 368 203 99 621.6 0 99 204 86 621.6 0 86 205 128 621.6 0 128 206 221 621.6 0 221 207 229 621.6 0 229 208 153 621.6 0 153 209 86 621.6 0 86 210 197 621.6 0 197 211 249 621.6 0 249 212 172 621.6 0 172 213 338 621.6 0 338 214 143 621.6 0 143 215 169 621.6 0 169 216 116 621.6 0 116 217 120 621.6 0 120 218 146 621.6 0 146 219 279 621.6 0 279 220 322 621.6 0 322 221 401 621.6 0 401 222 453 621.6 0 453 223 671 621.6 0 671 224 951 621.6 0 951 225 286 621.6 0 286 226 345 621.6 0 345 227 611 621.6 0 611 228 360 621.6 0 360 229 372 621.6 0 372 230 695 621.6 0 695 231 1001 621.6 0 1001 232 2977 621.6 0 2977 233 3358 621.6 0 3358 234 5537 621.6 0 5537 235 1937 621.6 0 1937 236 2435 621.6 0 2435 237 43406 621.6 0 43406 238 26484 621.6 0 26484 239 48677 621.6 0 48677 240 1687 621.6 0 1687 241 750 621.6 0 750 242 675 621.6 0 675 243 618 621.6 0 618 244 734 621.6 0 734 245 378 621.6 0 378 246 302 621.6 0 302 247 559 621.6 0 559 248 445 621.6 0 445 249 522 621.6 0 522 250 714 621.6 0 714 251 667 621.6 0 667 252 1272 621.6 0 1272 253 1052 621.6 0 1052 254 1654 621.6 0 1654 255 1904 621.6 0 1904 256 2250 621.6 0 2250 257 35144 621.6 0 35144 258 34875 621.6 0 34875 259 41417 621.6 0 41417 260 14866 621.6 0 14866 261 189 621.6 0 189 262 281 621.6 0 281 263 97 621.6 0 97 264 52 621.6 0 52 265 42 621.6 0 42 266 50 621.6 0 50 267 82 621.6 0 82 268 127 621.6 0 127 269 94 621.6 0 94 270 112 621.6 0 112 271 63 621.6 0 63 272 73 621.6 0 73 273 67 621.6 0 67 274 68 621.6 0 68 275 60 621.6 0 60 276 71 621.6 0 71 277 61 621.6 0 61 278 49 621.6 0 49 279 83 621.6 0 83 280 73 621.6 0 73 281 85 621.6 0 85 282 111 621.6 0 111 283 116 621.6 0 116 284 125 621.6 0 125 285 204 621.6 0 204 286 177 621.6 0 177 287 307 621.6 0 307 288 164 621.6 0 164 289 180 621.6 0 180 290 218 621.6 0 218 291 386 621.6 0 386 292 316 621.6 0 316 293 524 621.6 0 524 294 234 621.6 0 234 295 137 621.6 0 137 296 142 621.6 0 142 297 116 621.6 0 116 298 63 621.6 0 63 299 82 621.6 0 82 300 118 621.6 0 118 301 193 621.6 0 193 Finished in 2.54 s (47 us/read; 1.28 M reads/minute). === Summary === Total reads processed: 54,228 Reads with adapters: 12,988 (24.0%) Reads that were too short: 27 (0.0%) Reads written (passing filters): 12,961 (23.9%) Total basepairs processed: 12,154,928 bp Total written (filtered): 3,520,861 bp (29.0%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 12988 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 1 0.0 3 0 0 0 0 1 18 15 0.0 3 0 0 9 4 2 19 278 0.0 3 0 243 22 7 6 20 12531 0.0 4 11631 716 130 40 14 21 42 0.0 4 4 32 3 1 2 22 5 0.0 4 2 1 1 0 1 23 32 0.0 4 1 0 0 20 11 26 1 0.0 4 0 0 0 0 1 40 1 0.0 4 0 0 0 0 1 41 2 0.0 4 0 0 0 0 2 42 1 0.0 4 0 0 0 0 1 43 2 0.0 4 0 0 0 0 2 47 1 0.0 4 0 0 0 0 1 60 1 0.0 4 0 0 0 0 1 61 1 0.0 4 0 0 0 0 1 63 1 0.0 4 0 0 0 0 1 69 1 0.0 4 0 0 0 0 1 72 1 0.0 4 0 0 0 0 1 73 1 0.0 4 0 0 0 0 1 90 4 0.0 4 0 0 0 0 4 92 2 0.0 4 0 0 0 0 2 112 1 0.0 4 0 0 0 0 1 126 1 0.0 4 0 0 0 0 1 127 44 0.0 4 0 0 0 1 43 132 1 0.0 4 0 0 1 133 1 0.0 4 0 0 0 0 1 135 1 0.0 4 0 0 0 0 1 138 1 0.0 4 1 148 1 0.0 4 0 0 0 0 1 160 1 0.0 4 0 0 0 0 1 202 1 0.0 4 0 0 0 0 1 205 1 0.0 4 0 0 0 0 1 208 1 0.0 4 0 0 0 0 1 218 1 0.0 4 0 0 0 0 1 228 4 0.0 4 0 0 0 2 2 233 1 0.0 4 0 0 0 0 1 235 1 0.0 4 0 0 0 0 1 252 1 0.0 4 0 0 0 0 1 262 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 0.47 s (36 us/read; 1.65 M reads/minute). === Summary === Total reads processed: 12,961 Reads with adapters: 3,320 (25.6%) Reads written (passing filters): 12,961 (100.0%) Total basepairs processed: 3,520,861 bp Total written (filtered): 3,486,626 bp (99.0%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 3320 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 2.3% C: 8.2% G: 86.9% T: 2.6% 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 6 202.5 0 6 4 4 50.6 0 4 7 2 0.8 0 2 8 9 0.2 0 9 9 998 0.0 0 86 912 10 1860 0.0 1 121 1739 11 411 0.0 1 13 398 12 11 0.0 1 0 11 13 9 0.0 1 0 9 14 1 0.0 1 0 1 142 1 0.0 1 1 150 1 0.0 1 0 1 208 6 0.0 1 5 1 209 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.