This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CGGCCA -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 103.02 s (32 us/read; 1.85 M reads/minute). === Summary === Total reads processed: 3,184,960 Reads with adapters: 178,453 (5.6%) Reads that were too short: 103,696 (3.3%) Reads written (passing filters): 74,757 (2.3%) Total basepairs processed: 958,672,960 bp Total written (filtered): 19,816,769 bp (2.1%) === Adapter 1 === Sequence: CGGCCA; Type: regular 5'; Length: 6; Trimmed: 178453 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 2709 777.6 0 2709 7 50416 777.6 0 50416 8 157 777.6 0 157 9 4260 777.6 0 4260 10 11 777.6 0 11 11 15 777.6 0 15 12 14 777.6 0 14 13 12 777.6 0 12 14 12 777.6 0 12 15 17 777.6 0 17 16 10 777.6 0 10 17 21 777.6 0 21 18 9 777.6 0 9 19 10 777.6 0 10 20 13 777.6 0 13 21 13 777.6 0 13 22 19 777.6 0 19 23 11 777.6 0 11 24 14 777.6 0 14 25 17 777.6 0 17 26 29 777.6 0 29 27 10 777.6 0 10 28 8 777.6 0 8 29 16 777.6 0 16 30 16 777.6 0 16 31 17 777.6 0 17 32 10 777.6 0 10 33 12 777.6 0 12 34 15 777.6 0 15 35 11 777.6 0 11 36 11 777.6 0 11 37 6 777.6 0 6 38 16 777.6 0 16 39 9 777.6 0 9 40 14 777.6 0 14 41 24 777.6 0 24 42 22 777.6 0 22 43 25 777.6 0 25 44 10 777.6 0 10 45 16 777.6 0 16 46 10 777.6 0 10 47 19 777.6 0 19 48 20 777.6 0 20 49 17 777.6 0 17 50 11 777.6 0 11 51 15 777.6 0 15 52 9 777.6 0 9 53 23 777.6 0 23 54 18 777.6 0 18 55 14 777.6 0 14 56 10 777.6 0 10 57 13 777.6 0 13 58 23 777.6 0 23 59 19 777.6 0 19 60 14 777.6 0 14 61 20 777.6 0 20 62 7 777.6 0 7 63 12 777.6 0 12 64 101 777.6 0 101 65 221 777.6 0 221 66 161 777.6 0 161 67 17 777.6 0 17 68 8 777.6 0 8 69 8 777.6 0 8 70 24 777.6 0 24 71 7 777.6 0 7 72 21 777.6 0 21 73 140 777.6 0 140 74 103 777.6 0 103 75 222 777.6 0 222 76 34 777.6 0 34 77 18 777.6 0 18 78 62 777.6 0 62 79 7 777.6 0 7 80 12 777.6 0 12 81 11 777.6 0 11 82 17 777.6 0 17 83 14 777.6 0 14 84 23 777.6 0 23 85 91 777.6 0 91 86 127 777.6 0 127 87 31 777.6 0 31 88 1444 777.6 0 1444 89 1527 777.6 0 1527 90 14 777.6 0 14 91 8 777.6 0 8 92 15 777.6 0 15 93 3 777.6 0 3 94 8 777.6 0 8 95 9 777.6 0 9 96 11 777.6 0 11 97 7 777.6 0 7 98 10 777.6 0 10 99 11 777.6 0 11 100 17 777.6 0 17 101 5 777.6 0 5 102 15 777.6 0 15 103 11 777.6 0 11 104 12 777.6 0 12 105 13 777.6 0 13 106 12 777.6 0 12 107 9 777.6 0 9 108 3 777.6 0 3 109 13 777.6 0 13 110 9 777.6 0 9 111 11 777.6 0 11 112 7 777.6 0 7 113 10 777.6 0 10 114 11 777.6 0 11 115 19 777.6 0 19 116 15 777.6 0 15 117 16 777.6 0 16 118 12 777.6 0 12 119 10 777.6 0 10 120 9 777.6 0 9 121 8 777.6 0 8 122 10 777.6 0 10 123 14 777.6 0 14 124 16 777.6 0 16 125 12 777.6 0 12 126 16 777.6 0 16 127 16 777.6 0 16 128 7 777.6 0 7 129 14 777.6 0 14 130 10 777.6 0 10 131 14 777.6 0 14 132 26 777.6 0 26 133 12 777.6 0 12 134 14 777.6 0 14 135 5 777.6 0 5 136 15 777.6 0 15 137 23 777.6 0 23 138 34 777.6 0 34 139 44 777.6 0 44 140 39 777.6 0 39 141 53 777.6 0 53 142 56 777.6 0 56 143 107 777.6 0 107 144 46 777.6 0 46 145 34 777.6 0 34 146 89 777.6 0 89 147 56 777.6 0 56 148 48 777.6 0 48 149 78 777.6 0 78 150 71 777.6 0 71 151 399 777.6 0 399 152 448 777.6 0 448 153 654 777.6 0 654 154 184 777.6 0 184 155 110 777.6 0 110 156 2026 777.6 0 2026 157 1406 777.6 0 1406 158 3064 777.6 0 3064 159 87 777.6 0 87 160 49 777.6 0 49 161 16 777.6 0 16 162 21 777.6 0 21 163 79 777.6 0 79 164 233 777.6 0 233 165 87 777.6 0 87 166 251 777.6 0 251 167 32 777.6 0 32 168 19 777.6 0 19 169 38 777.6 0 38 170 270 777.6 0 270 171 182 777.6 0 182 172 92 777.6 0 92 173 31 777.6 0 31 174 24 777.6 0 24 175 40 777.6 0 40 176 146 777.6 0 146 177 135 777.6 0 135 178 235 777.6 0 235 179 37 777.6 0 37 180 17 777.6 0 17 181 14 777.6 0 14 182 20 777.6 0 20 183 9 777.6 0 9 184 23 777.6 0 23 185 15 777.6 0 15 186 17 777.6 0 17 187 20 777.6 0 20 188 13 777.6 0 13 189 15 777.6 0 15 190 4 777.6 0 4 191 7 777.6 0 7 192 7 777.6 0 7 193 14 777.6 0 14 194 12 777.6 0 12 195 9 777.6 0 9 196 5 777.6 0 5 197 6 777.6 0 6 198 8 777.6 0 8 199 9 777.6 0 9 200 6 777.6 0 6 201 8 777.6 0 8 202 15 777.6 0 15 203 3 777.6 0 3 204 7 777.6 0 7 205 35 777.6 0 35 206 25 777.6 0 25 207 13 777.6 0 13 208 10 777.6 0 10 209 14 777.6 0 14 210 13 777.6 0 13 211 10 777.6 0 10 212 9 777.6 0 9 213 13 777.6 0 13 214 22 777.6 0 22 215 14 777.6 0 14 216 15 777.6 0 15 217 25 777.6 0 25 218 28 777.6 0 28 219 22 777.6 0 22 220 23 777.6 0 23 221 7 777.6 0 7 222 7 777.6 0 7 223 17 777.6 0 17 224 63 777.6 0 63 225 23 777.6 0 23 226 21 777.6 0 21 227 26 777.6 0 26 228 37 777.6 0 37 229 59 777.6 0 59 230 55 777.6 0 55 231 42 777.6 0 42 232 50 777.6 0 50 233 200 777.6 0 200 234 181 777.6 0 181 235 507 777.6 0 507 236 36 777.6 0 36 237 35 777.6 0 35 238 32 777.6 0 32 239 74 777.6 0 74 240 51 777.6 0 51 241 59 777.6 0 59 242 87 777.6 0 87 243 151 777.6 0 151 244 248 777.6 0 248 245 347 777.6 0 347 246 749 777.6 0 749 247 105 777.6 0 105 248 139 777.6 0 139 249 236 777.6 0 236 250 197 777.6 0 197 251 178 777.6 0 178 252 313 777.6 0 313 253 623 777.6 0 623 254 403 777.6 0 403 255 751 777.6 0 751 256 688 777.6 0 688 257 547 777.6 0 547 258 1328 777.6 0 1328 259 3819 777.6 0 3819 260 72242 777.6 0 72242 261 1270 777.6 0 1270 262 321 777.6 0 321 263 618 777.6 0 618 264 1535 777.6 0 1535 265 531 777.6 0 531 266 20 777.6 0 20 267 14 777.6 0 14 268 7 777.6 0 7 269 4 777.6 0 4 270 12 777.6 0 12 271 5 777.6 0 5 272 20 777.6 0 20 273 15 777.6 0 15 274 36 777.6 0 36 275 12 777.6 0 12 276 15 777.6 0 15 277 163 777.6 0 163 278 23 777.6 0 23 279 193 777.6 0 193 280 31 777.6 0 31 281 21 777.6 0 21 282 50 777.6 0 50 283 78 777.6 0 78 284 97 777.6 0 97 285 214 777.6 0 214 286 70 777.6 0 70 287 231 777.6 0 231 288 197 777.6 0 197 289 83 777.6 0 83 290 88 777.6 0 88 291 99 777.6 0 99 292 260 777.6 0 260 293 309 777.6 0 309 294 123 777.6 0 123 295 88 777.6 0 88 296 75 777.6 0 75 297 211 777.6 0 211 298 3357 777.6 0 3357 299 2406 777.6 0 2406 300 5703 777.6 0 5703 301 42 777.6 0 42 Finished in 3.77 s (50 us/read; 1.19 M reads/minute). === Summary === Total reads processed: 74,757 Reads with adapters: 53,056 (71.0%) Reads that were too short: 3 (0.0%) Reads written (passing filters): 53,053 (71.0%) Total basepairs processed: 19,816,769 bp Total written (filtered): 14,536,237 bp (73.4%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 53056 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 1 18 8 0.0 3 0 0 6 2 19 271 0.0 3 0 243 12 7 9 20 52235 0.0 4 51465 739 26 4 1 21 99 0.0 4 11 87 1 22 16 0.0 4 1 10 5 23 395 0.0 4 370 4 0 20 1 24 9 0.0 4 1 2 0 0 6 26 1 0.0 4 0 0 0 1 32 1 0.0 4 0 0 0 0 1 56 1 0.0 4 0 0 0 0 1 70 13 0.0 4 0 0 0 0 13 82 1 0.0 4 1 114 1 0.0 4 0 0 0 0 1 127 3 0.0 4 0 0 0 0 3 137 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 2.24 s (42 us/read; 1.42 M reads/minute). === Summary === Total reads processed: 53,053 Reads with adapters: 313 (0.6%) Reads written (passing filters): 53,053 (100.0%) Total basepairs processed: 14,536,237 bp Total written (filtered): 14,490,980 bp (99.7%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 313 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 4.2% C: 5.1% G: 29.1% T: 61.7% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 15 829.0 0 15 4 2 207.2 0 2 5 2 51.8 0 2 10 1 0.1 1 0 1 11 81 0.0 1 1 80 12 13 0.0 1 1 12 15 1 0.0 1 0 1 152 6 0.0 1 1 5 225 182 0.0 1 165 17 226 10 0.0 1 8 2