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 62.94 s (26 us/read; 2.33 M reads/minute). === Summary === Total reads processed: 2,442,494 Reads with adapters: 362,345 (14.8%) Reads that were too short: 314,050 (12.9%) Reads written (passing filters): 48,295 (2.0%) Total basepairs processed: 735,190,694 bp Total written (filtered): 10,659,608 bp (1.4%) === Adapter 1 === Sequence: GCGGTT; Type: regular 5'; Length: 6; Trimmed: 362345 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 272 596.3 0 272 7 507 596.3 0 507 8 14110 596.3 0 14110 9 10171 596.3 0 10171 10 41 596.3 0 41 11 34 596.3 0 34 12 19 596.3 0 19 13 34 596.3 0 34 14 38 596.3 0 38 15 19 596.3 0 19 16 31 596.3 0 31 17 24 596.3 0 24 18 30 596.3 0 30 19 21 596.3 0 21 20 101 596.3 0 101 21 65 596.3 0 65 22 107 596.3 0 107 23 43 596.3 0 43 24 27 596.3 0 27 25 22 596.3 0 22 26 30 596.3 0 30 27 26 596.3 0 26 28 38 596.3 0 38 29 30 596.3 0 30 30 24 596.3 0 24 31 25 596.3 0 25 32 15 596.3 0 15 33 94 596.3 0 94 34 44 596.3 0 44 35 50 596.3 0 50 36 24 596.3 0 24 37 20 596.3 0 20 38 32 596.3 0 32 39 27 596.3 0 27 40 23 596.3 0 23 41 12 596.3 0 12 42 34 596.3 0 34 43 31 596.3 0 31 44 26 596.3 0 26 45 29 596.3 0 29 46 26 596.3 0 26 47 33 596.3 0 33 48 29 596.3 0 29 49 32 596.3 0 32 50 28 596.3 0 28 51 17 596.3 0 17 52 22 596.3 0 22 53 25 596.3 0 25 54 19 596.3 0 19 55 22 596.3 0 22 56 22 596.3 0 22 57 29 596.3 0 29 58 20 596.3 0 20 59 17 596.3 0 17 60 24 596.3 0 24 61 30 596.3 0 30 62 15 596.3 0 15 63 46 596.3 0 46 64 65 596.3 0 65 65 26 596.3 0 26 66 58 596.3 0 58 67 92 596.3 0 92 68 29 596.3 0 29 69 27 596.3 0 27 70 24 596.3 0 24 71 33 596.3 0 33 72 25 596.3 0 25 73 55 596.3 0 55 74 57 596.3 0 57 75 51 596.3 0 51 76 30 596.3 0 30 77 55 596.3 0 55 78 35 596.3 0 35 79 47 596.3 0 47 80 26 596.3 0 26 81 19 596.3 0 19 82 37 596.3 0 37 83 24 596.3 0 24 84 35 596.3 0 35 85 33 596.3 0 33 86 35 596.3 0 35 87 57 596.3 0 57 88 46 596.3 0 46 89 51 596.3 0 51 90 76 596.3 0 76 91 61 596.3 0 61 92 50 596.3 0 50 93 63 596.3 0 63 94 74 596.3 0 74 95 100 596.3 0 100 96 47 596.3 0 47 97 42 596.3 0 42 98 31 596.3 0 31 99 83 596.3 0 83 100 36 596.3 0 36 101 26 596.3 0 26 102 29 596.3 0 29 103 24 596.3 0 24 104 28 596.3 0 28 105 19 596.3 0 19 106 21 596.3 0 21 107 28 596.3 0 28 108 38 596.3 0 38 109 28 596.3 0 28 110 35 596.3 0 35 111 31 596.3 0 31 112 25 596.3 0 25 113 20 596.3 0 20 114 26 596.3 0 26 115 20 596.3 0 20 116 34 596.3 0 34 117 30 596.3 0 30 118 43 596.3 0 43 119 45 596.3 0 45 120 50 596.3 0 50 121 34 596.3 0 34 122 50 596.3 0 50 123 34 596.3 0 34 124 44 596.3 0 44 125 93 596.3 0 93 126 160 596.3 0 160 127 557 596.3 0 557 128 71 596.3 0 71 129 83 596.3 0 83 130 87 596.3 0 87 131 458 596.3 0 458 132 915 596.3 0 915 133 533 596.3 0 533 134 39 596.3 0 39 135 40 596.3 0 40 136 31 596.3 0 31 137 36 596.3 0 36 138 40 596.3 0 40 139 47 596.3 0 47 140 29 596.3 0 29 141 51 596.3 0 51 142 43 596.3 0 43 143 31 596.3 0 31 144 48 596.3 0 48 145 45 596.3 0 45 146 42 596.3 0 42 147 66 596.3 0 66 148 68 596.3 0 68 149 44 596.3 0 44 150 54 596.3 0 54 151 33 596.3 0 33 152 47 596.3 0 47 153 67 596.3 0 67 154 108 596.3 0 108 155 99 596.3 0 99 156 66 596.3 0 66 157 45 596.3 0 45 158 32 596.3 0 32 159 20 596.3 0 20 160 28 596.3 0 28 161 25 596.3 0 25 162 33 596.3 0 33 163 34 596.3 0 34 164 34 596.3 0 34 165 43 596.3 0 43 166 85 596.3 0 85 167 45 596.3 0 45 168 45 596.3 0 45 169 45 596.3 0 45 170 33 596.3 0 33 171 57 596.3 0 57 172 60 596.3 0 60 173 194 596.3 0 194 174 262 596.3 0 262 175 323 596.3 0 323 176 242 596.3 0 242 177 76 596.3 0 76 178 83 596.3 0 83 179 197 596.3 0 197 180 514 596.3 0 514 181 614 596.3 0 614 182 270 596.3 0 270 183 107 596.3 0 107 184 98 596.3 0 98 185 612 596.3 0 612 186 215 596.3 0 215 187 448 596.3 0 448 188 130 596.3 0 130 189 115 596.3 0 115 190 108 596.3 0 108 191 140 596.3 0 140 192 365 596.3 0 365 193 2286 596.3 0 2286 194 1784 596.3 0 1784 195 2317 596.3 0 2317 196 233 596.3 0 233 197 102 596.3 0 102 198 108 596.3 0 108 199 388 596.3 0 388 200 996 596.3 0 996 201 870 596.3 0 870 202 414 596.3 0 414 203 111 596.3 0 111 204 63 596.3 0 63 205 111 596.3 0 111 206 187 596.3 0 187 207 181 596.3 0 181 208 142 596.3 0 142 209 77 596.3 0 77 210 115 596.3 0 115 211 169 596.3 0 169 212 130 596.3 0 130 213 298 596.3 0 298 214 187 596.3 0 187 215 140 596.3 0 140 216 85 596.3 0 85 217 101 596.3 0 101 218 130 596.3 0 130 219 261 596.3 0 261 220 287 596.3 0 287 221 379 596.3 0 379 222 403 596.3 0 403 223 606 596.3 0 606 224 1026 596.3 0 1026 225 342 596.3 0 342 226 372 596.3 0 372 227 753 596.3 0 753 228 415 596.3 0 415 229 476 596.3 0 476 230 803 596.3 0 803 231 1162 596.3 0 1162 232 5937 596.3 0 5937 233 8238 596.3 0 8238 234 6992 596.3 0 6992 235 2254 596.3 0 2254 236 2032 596.3 0 2032 237 23697 596.3 0 23697 238 42330 596.3 0 42330 239 41753 596.3 0 41753 240 8124 596.3 0 8124 241 1592 596.3 0 1592 242 1344 596.3 0 1344 243 1981 596.3 0 1981 244 1275 596.3 0 1275 245 401 596.3 0 401 246 469 596.3 0 469 247 757 596.3 0 757 248 1201 596.3 0 1201 249 694 596.3 0 694 250 1589 596.3 0 1589 251 2095 596.3 0 2095 252 2496 596.3 0 2496 253 2719 596.3 0 2719 254 3287 596.3 0 3287 255 1475 596.3 0 1475 256 1925 596.3 0 1925 257 27585 596.3 0 27585 258 49506 596.3 0 49506 259 43811 596.3 0 43811 260 10137 596.3 0 10137 261 146 596.3 0 146 262 153 596.3 0 153 263 202 596.3 0 202 264 52 596.3 0 52 265 70 596.3 0 70 266 64 596.3 0 64 267 101 596.3 0 101 268 302 596.3 0 302 269 180 596.3 0 180 270 223 596.3 0 223 271 183 596.3 0 183 272 1094 596.3 0 1094 273 75 596.3 0 75 274 50 596.3 0 50 275 62 596.3 0 62 276 62 596.3 0 62 277 35 596.3 0 35 278 39 596.3 0 39 279 63 596.3 0 63 280 97 596.3 0 97 281 122 596.3 0 122 282 115 596.3 0 115 283 72 596.3 0 72 284 54 596.3 0 54 285 70 596.3 0 70 286 200 596.3 0 200 287 208 596.3 0 208 288 104 596.3 0 104 289 162 596.3 0 162 290 205 596.3 0 205 291 404 596.3 0 404 292 315 596.3 0 315 293 368 596.3 0 368 294 135 596.3 0 135 295 144 596.3 0 144 296 121 596.3 0 121 297 74 596.3 0 74 298 40 596.3 0 40 299 56 596.3 0 56 300 82 596.3 0 82 301 124 596.3 0 124 Finished in 2.27 s (47 us/read; 1.28 M reads/minute). === Summary === Total reads processed: 48,295 Reads with adapters: 10,996 (22.8%) Reads that were too short: 37 (0.1%) Reads written (passing filters): 10,959 (22.7%) Total basepairs processed: 10,659,608 bp Total written (filtered): 2,975,462 bp (27.9%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 10996 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 1 3 18 5 0.0 3 0 0 5 19 206 0.0 3 0 193 8 4 1 20 10598 0.0 4 9987 492 83 26 10 21 27 0.0 4 6 14 5 1 1 22 10 0.0 4 8 1 0 0 1 23 46 0.0 4 1 2 0 31 12 24 3 0.0 4 0 0 0 0 3 40 2 0.0 4 0 0 0 0 2 41 3 0.0 4 0 0 0 1 2 42 4 0.0 4 0 0 0 0 4 71 1 0.0 4 0 0 0 0 1 90 2 0.0 4 0 0 0 0 2 92 2 0.0 4 0 0 0 0 2 100 1 0.0 4 0 0 0 0 1 106 2 0.0 4 0 0 0 0 2 114 1 0.0 4 0 0 0 1 115 1 0.0 4 0 0 0 0 1 126 1 0.0 4 0 0 0 0 1 127 53 0.0 4 0 0 0 0 53 130 1 0.0 4 0 0 0 0 1 141 1 0.0 4 0 0 0 0 1 153 2 0.0 4 0 0 0 0 2 158 1 0.0 4 0 0 0 0 1 202 1 0.0 4 0 0 0 0 1 203 1 0.0 4 0 0 0 0 1 225 2 0.0 4 0 0 0 0 2 226 1 0.0 4 0 0 0 0 1 228 5 0.0 4 0 0 0 0 5 229 4 0.0 4 0 0 0 1 3 230 1 0.0 4 0 0 0 0 1 264 1 0.0 4 0 0 0 0 1 265 1 0.0 4 0 0 0 0 1 271 1 0.0 4 0 0 0 0 1 290 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 0.40 s (36 us/read; 1.64 M reads/minute). === Summary === Total reads processed: 10,959 Reads with adapters: 2,625 (24.0%) Reads written (passing filters): 10,959 (100.0%) Total basepairs processed: 2,975,462 bp Total written (filtered): 2,944,367 bp (99.0%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 2625 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 3.1% C: 10.1% G: 84.0% T: 2.8% 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 2 171.2 0 2 4 1 42.8 0 1 8 1 0.2 0 1 9 577 0.0 0 49 528 10 1736 0.0 1 134 1602 11 262 0.0 1 9 253 12 11 0.0 1 0 11 13 7 0.0 1 0 7 14 1 0.0 1 0 1 138 4 0.0 1 3 1 150 2 0.0 1 2 208 8 0.0 1 6 2 209 1 0.0 1 1 223 10 0.0 1 9 1 224 1 0.0 1 1 226 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.