This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CCTAAT -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 144.15 s (49 us/read; 1.23 M reads/minute). === Summary === Total reads processed: 2,949,860 Reads with adapters: 350,111 (11.9%) Reads that were too short: 6,551 (0.2%) Reads written (passing filters): 343,560 (11.6%) Total basepairs processed: 887,907,860 bp Total written (filtered): 62,924,998 bp (7.1%) === Adapter 1 === Sequence: CCTAAT; Type: regular 5'; Length: 6; Trimmed: 350111 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 418 720.2 0 418 7 31033 720.2 0 31033 8 2127 720.2 0 2127 9 32476 720.2 0 32476 10 67 720.2 0 67 11 21 720.2 0 21 12 35 720.2 0 35 13 42 720.2 0 42 14 62 720.2 0 62 15 56 720.2 0 56 16 33 720.2 0 33 17 26 720.2 0 26 18 34 720.2 0 34 19 40 720.2 0 40 20 43 720.2 0 43 21 47 720.2 0 47 22 31 720.2 0 31 23 40 720.2 0 40 24 43 720.2 0 43 25 47 720.2 0 47 26 44 720.2 0 44 27 166 720.2 0 166 28 146 720.2 0 146 29 192 720.2 0 192 30 25 720.2 0 25 31 22 720.2 0 22 32 33 720.2 0 33 33 37 720.2 0 37 34 67 720.2 0 67 35 33 720.2 0 33 36 44 720.2 0 44 37 50 720.2 0 50 38 40 720.2 0 40 39 28 720.2 0 28 40 34 720.2 0 34 41 54 720.2 0 54 42 24 720.2 0 24 43 31 720.2 0 31 44 51 720.2 0 51 45 55 720.2 0 55 46 39 720.2 0 39 47 50 720.2 0 50 48 68 720.2 0 68 49 76 720.2 0 76 50 88 720.2 0 88 51 66 720.2 0 66 52 118 720.2 0 118 53 60 720.2 0 60 54 40 720.2 0 40 55 30 720.2 0 30 56 28 720.2 0 28 57 83 720.2 0 83 58 143 720.2 0 143 59 290 720.2 0 290 60 56 720.2 0 56 61 43 720.2 0 43 62 37 720.2 0 37 63 39 720.2 0 39 64 51 720.2 0 51 65 40 720.2 0 40 66 38 720.2 0 38 67 49 720.2 0 49 68 32 720.2 0 32 69 47 720.2 0 47 70 40 720.2 0 40 71 47 720.2 0 47 72 39 720.2 0 39 73 55 720.2 0 55 74 48 720.2 0 48 75 44 720.2 0 44 76 30 720.2 0 30 77 51 720.2 0 51 78 62 720.2 0 62 79 41 720.2 0 41 80 39 720.2 0 39 81 145 720.2 0 145 82 39 720.2 0 39 83 35 720.2 0 35 84 32 720.2 0 32 85 45 720.2 0 45 86 46 720.2 0 46 87 44 720.2 0 44 88 67 720.2 0 67 89 69 720.2 0 69 90 73 720.2 0 73 91 181 720.2 0 181 92 111 720.2 0 111 93 110 720.2 0 110 94 77 720.2 0 77 95 122 720.2 0 122 96 185 720.2 0 185 97 73 720.2 0 73 98 72 720.2 0 72 99 47 720.2 0 47 100 73 720.2 0 73 101 97 720.2 0 97 102 126 720.2 0 126 103 210 720.2 0 210 104 339 720.2 0 339 105 393 720.2 0 393 106 807 720.2 0 807 107 1047 720.2 0 1047 108 20259 720.2 0 20259 109 10244 720.2 0 10244 110 32315 720.2 0 32315 111 248 720.2 0 248 112 55 720.2 0 55 113 37 720.2 0 37 114 42 720.2 0 42 115 63 720.2 0 63 116 85 720.2 0 85 117 79 720.2 0 79 118 69 720.2 0 69 119 68 720.2 0 68 120 84 720.2 0 84 121 152 720.2 0 152 122 85 720.2 0 85 123 82 720.2 0 82 124 106 720.2 0 106 125 113 720.2 0 113 126 64 720.2 0 64 127 140 720.2 0 140 128 172 720.2 0 172 129 157 720.2 0 157 130 139 720.2 0 139 131 182 720.2 0 182 132 208 720.2 0 208 133 273 720.2 0 273 134 4970 720.2 0 4970 135 5215 720.2 0 5215 136 9906 720.2 0 9906 137 366 720.2 0 366 138 103 720.2 0 103 139 61 720.2 0 61 140 119 720.2 0 119 141 108 720.2 0 108 142 146 720.2 0 146 143 187 720.2 0 187 144 238 720.2 0 238 145 368 720.2 0 368 146 798 720.2 0 798 147 1640 720.2 0 1640 148 320 720.2 0 320 149 446 720.2 0 446 150 647 720.2 0 647 151 319 720.2 0 319 152 312 720.2 0 312 153 728 720.2 0 728 154 790 720.2 0 790 155 3348 720.2 0 3348 156 1295 720.2 0 1295 157 4917 720.2 0 4917 158 1549 720.2 0 1549 159 1845 720.2 0 1845 160 37444 720.2 0 37444 161 78168 720.2 0 78168 162 45021 720.2 0 45021 163 200 720.2 0 200 164 44 720.2 0 44 165 50 720.2 0 50 166 53 720.2 0 53 167 32 720.2 0 32 168 35 720.2 0 35 169 38 720.2 0 38 170 51 720.2 0 51 171 40 720.2 0 40 172 43 720.2 0 43 173 27 720.2 0 27 174 56 720.2 0 56 175 61 720.2 0 61 176 53 720.2 0 53 177 50 720.2 0 50 178 54 720.2 0 54 179 54 720.2 0 54 180 74 720.2 0 74 181 52 720.2 0 52 182 40 720.2 0 40 183 48 720.2 0 48 184 36 720.2 0 36 185 40 720.2 0 40 186 38 720.2 0 38 187 49 720.2 0 49 188 29 720.2 0 29 189 21 720.2 0 21 190 44 720.2 0 44 191 144 720.2 0 144 192 78 720.2 0 78 193 94 720.2 0 94 194 43 720.2 0 43 195 40 720.2 0 40 196 23 720.2 0 23 197 30 720.2 0 30 198 40 720.2 0 40 199 34 720.2 0 34 200 35 720.2 0 35 201 23 720.2 0 23 202 29 720.2 0 29 203 38 720.2 0 38 204 70 720.2 0 70 205 29 720.2 0 29 206 29 720.2 0 29 207 35 720.2 0 35 208 39 720.2 0 39 209 36 720.2 0 36 210 22 720.2 0 22 211 26 720.2 0 26 212 21 720.2 0 21 213 27 720.2 0 27 214 30 720.2 0 30 215 32 720.2 0 32 216 35 720.2 0 35 217 32 720.2 0 32 218 46 720.2 0 46 219 45 720.2 0 45 220 47 720.2 0 47 221 86 720.2 0 86 222 286 720.2 0 286 223 134 720.2 0 134 224 139 720.2 0 139 225 61 720.2 0 61 226 46 720.2 0 46 227 55 720.2 0 55 228 44 720.2 0 44 229 37 720.2 0 37 230 39 720.2 0 39 231 54 720.2 0 54 232 53 720.2 0 53 233 52 720.2 0 52 234 86 720.2 0 86 235 81 720.2 0 81 236 120 720.2 0 120 237 147 720.2 0 147 238 36 720.2 0 36 239 34 720.2 0 34 240 27 720.2 0 27 241 34 720.2 0 34 242 48 720.2 0 48 243 66 720.2 0 66 244 45 720.2 0 45 245 31 720.2 0 31 246 38 720.2 0 38 247 37 720.2 0 37 248 60 720.2 0 60 249 53 720.2 0 53 250 113 720.2 0 113 251 314 720.2 0 314 252 302 720.2 0 302 253 427 720.2 0 427 254 263 720.2 0 263 255 103 720.2 0 103 256 109 720.2 0 109 257 35 720.2 0 35 258 43 720.2 0 43 259 31 720.2 0 31 260 32 720.2 0 32 261 50 720.2 0 50 262 62 720.2 0 62 263 82 720.2 0 82 264 42 720.2 0 42 265 46 720.2 0 46 266 41 720.2 0 41 267 32 720.2 0 32 268 40 720.2 0 40 269 59 720.2 0 59 270 73 720.2 0 73 271 49 720.2 0 49 272 41 720.2 0 41 273 35 720.2 0 35 274 38 720.2 0 38 275 46 720.2 0 46 276 24 720.2 0 24 277 58 720.2 0 58 278 80 720.2 0 80 279 96 720.2 0 96 280 71 720.2 0 71 281 85 720.2 0 85 282 82 720.2 0 82 283 105 720.2 0 105 284 85 720.2 0 85 285 49 720.2 0 49 286 30 720.2 0 30 287 32 720.2 0 32 288 25 720.2 0 25 289 37 720.2 0 37 290 37 720.2 0 37 291 47 720.2 0 47 292 55 720.2 0 55 293 41 720.2 0 41 294 29 720.2 0 29 295 35 720.2 0 35 296 47 720.2 0 47 297 29 720.2 0 29 298 50 720.2 0 50 299 40 720.2 0 40 300 31 720.2 0 31 301 46 720.2 0 46 Finished in 21.14 s (62 us/read; 0.98 M reads/minute). === Summary === Total reads processed: 343,560 Reads with adapters: 35,739 (10.4%) Reads that were too short: 30 (0.0%) Reads written (passing filters): 35,709 (10.4%) Total basepairs processed: 62,924,998 bp Total written (filtered): 9,657,260 bp (15.3%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 35739 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 6 0.0 3 0 0 3 3 19 107 0.0 3 0 106 1 20 34927 0.0 4 34394 509 22 1 1 21 77 0.0 4 5 69 3 22 5 0.0 4 1 0 4 23 26 0.0 4 0 0 0 21 5 24 2 0.0 4 0 0 0 1 1 30 1 0.0 4 1 32 1 0.0 4 1 36 2 0.0 4 2 39 1 0.0 4 1 54 1 0.0 4 0 0 0 0 1 67 1 0.0 4 1 72 1 0.0 4 1 73 1 0.0 4 1 77 9 0.0 4 0 0 0 0 9 80 4 0.0 4 0 0 0 0 4 81 3 0.0 4 0 0 0 0 3 82 3 0.0 4 0 0 0 0 3 84 1 0.0 4 0 0 0 0 1 94 2 0.0 4 2 96 1 0.0 4 1 106 1 0.0 4 0 0 0 0 1 119 1 0.0 4 0 0 0 0 1 121 1 0.0 4 0 1 122 2 0.0 4 0 0 0 0 2 125 1 0.0 4 0 0 1 126 2 0.0 4 0 0 0 0 2 127 533 0.0 4 0 0 0 0 533 128 1 0.0 4 0 0 0 0 1 130 1 0.0 4 0 0 0 0 1 136 1 0.0 4 1 138 1 0.0 4 0 1 153 2 0.0 4 0 0 0 0 2 155 1 0.0 4 0 0 0 0 1 156 1 0.0 4 0 0 0 1 182 1 0.0 4 0 1 203 1 0.0 4 0 0 0 0 1 208 1 0.0 4 1 209 1 0.0 4 0 0 0 0 1 228 1 0.0 4 0 0 0 0 1 229 1 0.0 4 0 0 0 0 1 266 1 0.0 4 0 0 0 0 1 267 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 2.18 s (61 us/read; 0.98 M reads/minute). === Summary === Total reads processed: 35,709 Reads with adapters: 8,474 (23.7%) Reads written (passing filters): 35,709 (100.0%) Total basepairs processed: 9,657,260 bp Total written (filtered): 9,578,267 bp (99.2%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 8474 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 0.6% C: 1.9% G: 96.6% T: 1.0% 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 7 558.0 0 7 4 6 139.5 0 6 6 2 8.7 0 2 7 1 2.2 0 1 8 2 0.5 0 2 9 6731 0.1 0 150 6581 10 1501 0.0 1 31 1470 11 213 0.0 1 1 212 12 3 0.0 1 0 3 13 3 0.0 1 0 3 150 2 0.0 1 0 2 190 1 0.0 1 0 1 208 2 0.0 1 0 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.