This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TGATCC -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 94.23 s (27 us/read; 2.21 M reads/minute). === Summary === Total reads processed: 3,465,239 Reads with adapters: 470,658 (13.6%) Reads that were too short: 6,933 (0.2%) Reads written (passing filters): 463,725 (13.4%) Total basepairs processed: 1,043,036,939 bp Total written (filtered): 114,462,764 bp (11.0%) === Adapter 1 === Sequence: TGATCC; Type: regular 5'; Length: 6; Trimmed: 470658 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 83 846.0 0 83 7 63 846.0 0 63 8 1520 846.0 0 1520 9 8208 846.0 0 8208 10 124 846.0 0 124 11 68 846.0 0 68 12 129 846.0 0 129 13 19 846.0 0 19 14 12 846.0 0 12 15 19 846.0 0 19 16 19 846.0 0 19 17 46 846.0 0 46 18 21 846.0 0 21 19 47 846.0 0 47 20 32 846.0 0 32 21 69 846.0 0 69 22 235 846.0 0 235 23 46 846.0 0 46 24 117 846.0 0 117 25 95 846.0 0 95 26 113 846.0 0 113 27 239 846.0 0 239 28 106 846.0 0 106 29 135 846.0 0 135 30 115 846.0 0 115 31 67 846.0 0 67 32 124 846.0 0 124 33 230 846.0 0 230 34 330 846.0 0 330 35 802 846.0 0 802 36 856 846.0 0 856 37 1004 846.0 0 1004 38 1537 846.0 0 1537 39 61880 846.0 0 61880 40 21386 846.0 0 21386 41 33245 846.0 0 33245 42 372 846.0 0 372 43 397 846.0 0 397 44 892 846.0 0 892 45 2160 846.0 0 2160 46 2149 846.0 0 2149 47 282 846.0 0 282 48 428 846.0 0 428 49 981 846.0 0 981 50 1969 846.0 0 1969 51 1094 846.0 0 1094 52 837 846.0 0 837 53 875 846.0 0 875 54 825 846.0 0 825 55 1055 846.0 0 1055 56 1540 846.0 0 1540 57 1981 846.0 0 1981 58 5643 846.0 0 5643 59 213188 846.0 0 213188 60 31211 846.0 0 31211 61 54495 846.0 0 54495 62 423 846.0 0 423 63 8 846.0 0 8 64 8 846.0 0 8 65 6 846.0 0 6 66 9 846.0 0 9 67 9 846.0 0 9 68 4 846.0 0 4 69 7 846.0 0 7 70 8 846.0 0 8 71 19 846.0 0 19 72 149 846.0 0 149 73 207 846.0 0 207 74 45 846.0 0 45 75 91 846.0 0 91 76 9 846.0 0 9 77 1 846.0 0 1 78 6 846.0 0 6 79 7 846.0 0 7 80 8 846.0 0 8 81 29 846.0 0 29 82 181 846.0 0 181 83 34 846.0 0 34 84 7 846.0 0 7 85 6 846.0 0 6 86 2 846.0 0 2 87 4 846.0 0 4 88 7 846.0 0 7 89 7 846.0 0 7 90 15 846.0 0 15 91 5 846.0 0 5 92 7 846.0 0 7 93 5 846.0 0 5 94 7 846.0 0 7 95 9 846.0 0 9 96 18 846.0 0 18 97 19 846.0 0 19 98 22 846.0 0 22 99 70 846.0 0 70 100 39 846.0 0 39 101 366 846.0 0 366 102 691 846.0 0 691 103 138 846.0 0 138 104 8 846.0 0 8 105 18 846.0 0 18 106 7 846.0 0 7 107 3 846.0 0 3 108 1 846.0 0 1 109 4 846.0 0 4 110 8 846.0 0 8 111 20 846.0 0 20 112 35 846.0 0 35 113 198 846.0 0 198 114 6 846.0 0 6 115 1 846.0 0 1 116 5 846.0 0 5 117 51 846.0 0 51 118 47 846.0 0 47 119 26 846.0 0 26 120 12 846.0 0 12 121 17 846.0 0 17 122 18 846.0 0 18 123 20 846.0 0 20 124 33 846.0 0 33 125 47 846.0 0 47 126 16 846.0 0 16 127 25 846.0 0 25 128 7 846.0 0 7 129 33 846.0 0 33 130 60 846.0 0 60 131 25 846.0 0 25 132 29 846.0 0 29 133 21 846.0 0 21 134 13 846.0 0 13 135 16 846.0 0 16 136 23 846.0 0 23 137 25 846.0 0 25 138 27 846.0 0 27 139 34 846.0 0 34 140 10 846.0 0 10 141 23 846.0 0 23 142 28 846.0 0 28 143 23 846.0 0 23 144 23 846.0 0 23 145 21 846.0 0 21 146 26 846.0 0 26 147 19 846.0 0 19 148 96 846.0 0 96 149 33 846.0 0 33 150 29 846.0 0 29 151 28 846.0 0 28 152 20 846.0 0 20 153 20 846.0 0 20 154 19 846.0 0 19 155 24 846.0 0 24 156 46 846.0 0 46 157 26 846.0 0 26 158 38 846.0 0 38 159 61 846.0 0 61 160 30 846.0 0 30 161 101 846.0 0 101 162 41 846.0 0 41 163 51 846.0 0 51 164 24 846.0 0 24 165 26 846.0 0 26 166 30 846.0 0 30 167 39 846.0 0 39 168 52 846.0 0 52 169 158 846.0 0 158 170 154 846.0 0 154 171 161 846.0 0 161 172 27 846.0 0 27 173 19 846.0 0 19 174 21 846.0 0 21 175 15 846.0 0 15 176 49 846.0 0 49 177 67 846.0 0 67 178 76 846.0 0 76 179 39 846.0 0 39 180 26 846.0 0 26 181 30 846.0 0 30 182 28 846.0 0 28 183 66 846.0 0 66 184 87 846.0 0 87 185 56 846.0 0 56 186 108 846.0 0 108 187 78 846.0 0 78 188 111 846.0 0 111 189 75 846.0 0 75 190 19 846.0 0 19 191 18 846.0 0 18 192 27 846.0 0 27 193 33 846.0 0 33 194 34 846.0 0 34 195 45 846.0 0 45 196 86 846.0 0 86 197 87 846.0 0 87 198 461 846.0 0 461 199 859 846.0 0 859 200 345 846.0 0 345 201 87 846.0 0 87 202 24 846.0 0 24 203 33 846.0 0 33 204 47 846.0 0 47 205 85 846.0 0 85 206 36 846.0 0 36 207 50 846.0 0 50 208 53 846.0 0 53 209 45 846.0 0 45 210 32 846.0 0 32 211 29 846.0 0 29 212 55 846.0 0 55 213 66 846.0 0 66 214 55 846.0 0 55 215 41 846.0 0 41 216 31 846.0 0 31 217 32 846.0 0 32 218 34 846.0 0 34 219 44 846.0 0 44 220 28 846.0 0 28 221 41 846.0 0 41 222 62 846.0 0 62 223 87 846.0 0 87 224 105 846.0 0 105 225 155 846.0 0 155 226 155 846.0 0 155 227 460 846.0 0 460 228 929 846.0 0 929 229 782 846.0 0 782 230 69 846.0 0 69 231 26 846.0 0 26 232 25 846.0 0 25 233 36 846.0 0 36 234 26 846.0 0 26 235 24 846.0 0 24 236 28 846.0 0 28 237 34 846.0 0 34 238 60 846.0 0 60 239 35 846.0 0 35 240 27 846.0 0 27 241 40 846.0 0 40 242 52 846.0 0 52 243 41 846.0 0 41 244 54 846.0 0 54 245 35 846.0 0 35 246 26 846.0 0 26 247 31 846.0 0 31 248 29 846.0 0 29 249 38 846.0 0 38 250 37 846.0 0 37 251 26 846.0 0 26 252 13 846.0 0 13 253 20 846.0 0 20 254 45 846.0 0 45 255 48 846.0 0 48 256 44 846.0 0 44 257 78 846.0 0 78 258 78 846.0 0 78 259 52 846.0 0 52 260 40 846.0 0 40 261 31 846.0 0 31 262 28 846.0 0 28 263 108 846.0 0 108 264 101 846.0 0 101 265 57 846.0 0 57 266 28 846.0 0 28 267 16 846.0 0 16 268 14 846.0 0 14 269 25 846.0 0 25 270 42 846.0 0 42 271 51 846.0 0 51 272 57 846.0 0 57 273 120 846.0 0 120 274 124 846.0 0 124 275 76 846.0 0 76 276 57 846.0 0 57 277 37 846.0 0 37 278 28 846.0 0 28 279 30 846.0 0 30 280 26 846.0 0 26 281 43 846.0 0 43 282 60 846.0 0 60 283 30 846.0 0 30 284 43 846.0 0 43 285 113 846.0 0 113 286 55 846.0 0 55 287 22 846.0 0 22 288 27 846.0 0 27 289 55 846.0 0 55 290 85 846.0 0 85 291 80 846.0 0 80 292 52 846.0 0 52 293 68 846.0 0 68 294 55 846.0 0 55 295 41 846.0 0 41 296 21 846.0 0 21 297 28 846.0 0 28 298 39 846.0 0 39 299 44 846.0 0 44 300 50 846.0 0 50 301 53 846.0 0 53 Finished in 20.79 s (45 us/read; 1.34 M reads/minute). === Summary === Total reads processed: 463,725 Reads with adapters: 3,892 (0.8%) Reads that were too short: 36 (0.0%) Reads written (passing filters): 3,856 (0.8%) Total basepairs processed: 114,462,764 bp Total written (filtered): 793,433 bp (0.7%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 3892 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 19 5 0.0 3 0 5 20 1416 0.0 4 1400 14 0 1 1 21 5 0.0 4 0 5 22 3 0.0 4 3 23 2 0.0 4 0 0 0 2 24 2 0.0 4 0 0 0 0 2 40 3 0.0 4 0 0 0 0 3 43 1 0.0 4 0 0 0 1 73 1 0.0 4 0 0 0 0 1 74 2 0.0 4 0 0 0 0 2 75 2338 0.0 4 0 0 0 0 2338 88 2 0.0 4 0 0 0 0 2 95 1 0.0 4 0 0 0 0 1 114 1 0.0 4 0 0 0 0 1 123 1 0.0 4 0 0 0 0 1 126 71 0.0 4 0 0 0 0 71 139 3 0.0 4 0 0 0 0 3 149 1 0.0 4 0 0 0 0 1 168 1 0.0 4 0 0 0 0 1 170 1 0.0 4 0 0 0 0 1 175 1 0.0 4 0 0 0 0 1 176 13 0.0 4 0 0 0 0 13 177 1 0.0 4 0 0 0 1 178 1 0.0 4 0 0 0 0 1 182 1 0.0 4 0 0 0 0 1 206 1 0.0 4 0 0 0 0 1 227 1 0.0 4 0 0 0 0 1 228 1 0.0 4 0 0 0 0 1 230 5 0.0 4 0 0 0 0 5 231 3 0.0 4 0 0 0 0 3 232 1 0.0 4 0 0 0 0 1 233 1 0.0 4 0 0 0 0 1 237 1 0.0 4 0 0 0 0 1 281 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 0.11 s (29 us/read; 2.10 M reads/minute). === Summary === Total reads processed: 3,856 Reads with adapters: 63 (1.6%) Reads written (passing filters): 3,856 (100.0%) Total basepairs processed: 793,433 bp Total written (filtered): 792,058 bp (99.8%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 63 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 19.0% C: 6.3% G: 73.0% T: 1.6% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 1 60.2 0 1 4 10 15.1 0 10 10 11 0.0 1 2 9 11 38 0.0 1 0 38 262 1 0.0 1 1 271 2 0.0 1 2