This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g ACGCGC -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 90.21 s (26 us/read; 2.30 M reads/minute). === Summary === Total reads processed: 3,465,239 Reads with adapters: 244,943 (7.1%) Reads that were too short: 158,032 (4.6%) Reads written (passing filters): 86,911 (2.5%) Total basepairs processed: 1,043,036,939 bp Total written (filtered): 24,379,305 bp (2.3%) === Adapter 1 === Sequence: ACGCGC; Type: regular 5'; Length: 6; Trimmed: 244943 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1843 846.0 0 1843 7 76166 846.0 0 76166 8 104 846.0 0 104 9 29 846.0 0 29 10 25 846.0 0 25 11 24 846.0 0 24 12 25 846.0 0 25 13 20 846.0 0 20 14 32 846.0 0 32 15 14 846.0 0 14 16 21 846.0 0 21 17 28 846.0 0 28 18 30 846.0 0 30 19 42 846.0 0 42 20 21 846.0 0 21 21 61 846.0 0 61 22 32 846.0 0 32 23 27 846.0 0 27 24 22 846.0 0 22 25 26 846.0 0 26 26 25 846.0 0 25 27 30 846.0 0 30 28 24 846.0 0 24 29 15 846.0 0 15 30 26 846.0 0 26 31 20 846.0 0 20 32 25 846.0 0 25 33 20 846.0 0 20 34 31 846.0 0 31 35 17 846.0 0 17 36 57 846.0 0 57 37 28 846.0 0 28 38 20 846.0 0 20 39 22 846.0 0 22 40 28 846.0 0 28 41 23 846.0 0 23 42 22 846.0 0 22 43 13 846.0 0 13 44 22 846.0 0 22 45 17 846.0 0 17 46 24 846.0 0 24 47 39 846.0 0 39 48 26 846.0 0 26 49 29 846.0 0 29 50 16 846.0 0 16 51 16 846.0 0 16 52 17 846.0 0 17 53 52 846.0 0 52 54 24 846.0 0 24 55 27 846.0 0 27 56 38 846.0 0 38 57 24 846.0 0 24 58 20 846.0 0 20 59 28 846.0 0 28 60 26 846.0 0 26 61 29 846.0 0 29 62 23 846.0 0 23 63 32 846.0 0 32 64 20 846.0 0 20 65 17 846.0 0 17 66 12 846.0 0 12 67 17 846.0 0 17 68 24 846.0 0 24 69 13 846.0 0 13 70 15 846.0 0 15 71 17 846.0 0 17 72 26 846.0 0 26 73 17 846.0 0 17 74 25 846.0 0 25 75 16 846.0 0 16 76 16 846.0 0 16 77 17 846.0 0 17 78 18 846.0 0 18 79 13 846.0 0 13 80 15 846.0 0 15 81 28 846.0 0 28 82 17 846.0 0 17 83 36 846.0 0 36 84 20 846.0 0 20 85 28 846.0 0 28 86 31 846.0 0 31 87 16 846.0 0 16 88 12 846.0 0 12 89 12 846.0 0 12 90 11 846.0 0 11 91 20 846.0 0 20 92 15 846.0 0 15 93 24 846.0 0 24 94 13 846.0 0 13 95 32 846.0 0 32 96 20 846.0 0 20 97 11 846.0 0 11 98 20 846.0 0 20 99 15 846.0 0 15 100 24 846.0 0 24 101 33 846.0 0 33 102 9 846.0 0 9 103 20 846.0 0 20 104 20 846.0 0 20 105 27 846.0 0 27 106 16 846.0 0 16 107 9 846.0 0 9 108 28 846.0 0 28 109 18 846.0 0 18 110 18 846.0 0 18 111 22 846.0 0 22 112 25 846.0 0 25 113 22 846.0 0 22 114 15 846.0 0 15 115 24 846.0 0 24 116 33 846.0 0 33 117 33 846.0 0 33 118 30 846.0 0 30 119 30 846.0 0 30 120 22 846.0 0 22 121 19 846.0 0 19 122 37 846.0 0 37 123 50 846.0 0 50 124 32 846.0 0 32 125 56 846.0 0 56 126 28 846.0 0 28 127 57 846.0 0 57 128 30 846.0 0 30 129 33 846.0 0 33 130 41 846.0 0 41 131 22 846.0 0 22 132 30 846.0 0 30 133 30 846.0 0 30 134 58 846.0 0 58 135 34 846.0 0 34 136 33 846.0 0 33 137 37 846.0 0 37 138 41 846.0 0 41 139 41 846.0 0 41 140 20 846.0 0 20 141 32 846.0 0 32 142 94 846.0 0 94 143 33 846.0 0 33 144 31 846.0 0 31 145 29 846.0 0 29 146 31 846.0 0 31 147 20 846.0 0 20 148 20 846.0 0 20 149 36 846.0 0 36 150 65 846.0 0 65 151 24 846.0 0 24 152 33 846.0 0 33 153 46 846.0 0 46 154 30 846.0 0 30 155 29 846.0 0 29 156 26 846.0 0 26 157 29 846.0 0 29 158 24 846.0 0 24 159 34 846.0 0 34 160 69 846.0 0 69 161 45 846.0 0 45 162 44 846.0 0 44 163 34 846.0 0 34 164 39 846.0 0 39 165 194 846.0 0 194 166 64 846.0 0 64 167 140 846.0 0 140 168 66 846.0 0 66 169 46 846.0 0 46 170 85 846.0 0 85 171 44 846.0 0 44 172 45 846.0 0 45 173 51 846.0 0 51 174 22 846.0 0 22 175 28 846.0 0 28 176 32 846.0 0 32 177 48 846.0 0 48 178 41 846.0 0 41 179 41 846.0 0 41 180 34 846.0 0 34 181 43 846.0 0 43 182 39 846.0 0 39 183 51 846.0 0 51 184 44 846.0 0 44 185 219 846.0 0 219 186 100 846.0 0 100 187 1077 846.0 0 1077 188 1042 846.0 0 1042 189 273 846.0 0 273 190 30 846.0 0 30 191 36 846.0 0 36 192 51 846.0 0 51 193 21 846.0 0 21 194 26 846.0 0 26 195 36 846.0 0 36 196 33 846.0 0 33 197 70 846.0 0 70 198 129 846.0 0 129 199 54 846.0 0 54 200 145 846.0 0 145 201 61 846.0 0 61 202 14 846.0 0 14 203 38 846.0 0 38 204 39 846.0 0 39 205 48 846.0 0 48 206 30 846.0 0 30 207 42 846.0 0 42 208 35 846.0 0 35 209 28 846.0 0 28 210 170 846.0 0 170 211 32 846.0 0 32 212 37 846.0 0 37 213 43 846.0 0 43 214 38 846.0 0 38 215 32 846.0 0 32 216 70 846.0 0 70 217 83 846.0 0 83 218 103 846.0 0 103 219 126 846.0 0 126 220 980 846.0 0 980 221 568 846.0 0 568 222 2227 846.0 0 2227 223 489 846.0 0 489 224 433 846.0 0 433 225 298 846.0 0 298 226 166 846.0 0 166 227 168 846.0 0 168 228 76 846.0 0 76 229 94 846.0 0 94 230 166 846.0 0 166 231 193 846.0 0 193 232 398 846.0 0 398 233 614 846.0 0 614 234 968 846.0 0 968 235 1275 846.0 0 1275 236 2109 846.0 0 2109 237 56161 846.0 0 56161 238 45965 846.0 0 45965 239 37543 846.0 0 37543 240 1579 846.0 0 1579 241 459 846.0 0 459 242 51 846.0 0 51 243 49 846.0 0 49 244 61 846.0 0 61 245 372 846.0 0 372 246 271 846.0 0 271 247 514 846.0 0 514 248 185 846.0 0 185 249 120 846.0 0 120 250 70 846.0 0 70 251 102 846.0 0 102 252 133 846.0 0 133 253 28 846.0 0 28 254 22 846.0 0 22 255 43 846.0 0 43 256 27 846.0 0 27 257 29 846.0 0 29 258 11 846.0 0 11 259 16 846.0 0 16 260 24 846.0 0 24 261 18 846.0 0 18 262 44 846.0 0 44 263 29 846.0 0 29 264 30 846.0 0 30 265 45 846.0 0 45 266 33 846.0 0 33 267 37 846.0 0 37 268 25 846.0 0 25 269 48 846.0 0 48 270 54 846.0 0 54 271 51 846.0 0 51 272 223 846.0 0 223 273 106 846.0 0 106 274 52 846.0 0 52 275 46 846.0 0 46 276 21 846.0 0 21 277 51 846.0 0 51 278 29 846.0 0 29 279 29 846.0 0 29 280 31 846.0 0 31 281 32 846.0 0 32 282 30 846.0 0 30 283 47 846.0 0 47 284 53 846.0 0 53 285 60 846.0 0 60 286 46 846.0 0 46 287 43 846.0 0 43 288 34 846.0 0 34 289 49 846.0 0 49 290 104 846.0 0 104 291 136 846.0 0 136 292 50 846.0 0 50 293 18 846.0 0 18 294 52 846.0 0 52 295 28 846.0 0 28 296 45 846.0 0 45 297 20 846.0 0 20 298 20 846.0 0 20 299 36 846.0 0 36 300 41 846.0 0 41 301 21 846.0 0 21 Finished in 4.01 s (46 us/read; 1.30 M reads/minute). === Summary === Total reads processed: 86,911 Reads with adapters: 76,996 (88.6%) Reads that were too short: 3 (0.0%) Reads written (passing filters): 76,993 (88.6%) Total basepairs processed: 24,379,305 bp Total written (filtered): 21,095,449 bp (86.5%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 76996 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 15 0.0 3 0 0 0 2 13 18 10 0.0 3 0 0 9 0 1 19 515 0.0 3 0 503 12 20 76175 0.0 4 75207 924 36 7 1 21 211 0.0 4 29 181 0 1 22 21 0.0 4 6 0 12 1 2 23 25 0.0 4 1 0 0 24 24 5 0.0 4 0 0 0 0 5 32 1 0.0 4 0 0 1 34 1 0.0 4 1 59 1 0.0 4 0 0 0 0 1 79 1 0.0 4 1 105 1 0.0 4 0 0 0 0 1 126 1 0.0 4 0 0 0 0 1 128 1 0.0 4 0 0 0 0 1 129 1 0.0 4 0 0 0 0 1 130 11 0.0 4 0 0 0 0 11 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 2.58 s (34 us/read; 1.79 M reads/minute). === Summary === Total reads processed: 76,993 Reads with adapters: 887 (1.2%) Reads written (passing filters): 76,993 (100.0%) Total basepairs processed: 21,095,449 bp Total written (filtered): 21,083,639 bp (99.9%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 887 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 3.6% C: 1.9% G: 93.6% T: 0.9% 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 27 1203.0 0 27 4 6 300.8 0 6 10 10 0.1 1 0 10 11 797 0.0 1 2 795 12 35 0.0 1 2 33 13 1 0.0 1 1 16 1 0.0 1 0 1 152 1 0.0 1 0 1 171 2 0.0 1 2 265 1 0.0 1 1 271 2 0.0 1 2 272 4 0.0 1 4 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.