This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TTCGGA -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 (29 us/read; 2.06 M reads/minute). === Summary === Total reads processed: 3,094,653 Reads with adapters: 237,014 (7.7%) Reads that were too short: 16,941 (0.5%) Reads written (passing filters): 220,073 (7.1%) Total basepairs processed: 931,490,553 bp Total written (filtered): 47,714,932 bp (5.1%) === Adapter 1 === Sequence: TTCGGA; Type: regular 5'; Length: 6; Trimmed: 237014 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 436 755.5 0 436 7 370 755.5 0 370 8 1382 755.5 0 1382 9 21744 755.5 0 21744 10 4527 755.5 0 4527 11 20 755.5 0 20 12 13 755.5 0 13 13 10 755.5 0 10 14 11 755.5 0 11 15 5 755.5 0 5 16 10 755.5 0 10 17 4 755.5 0 4 18 11 755.5 0 11 19 8 755.5 0 8 20 12 755.5 0 12 21 11 755.5 0 11 22 8 755.5 0 8 23 9 755.5 0 9 24 9 755.5 0 9 25 11 755.5 0 11 26 16 755.5 0 16 27 10 755.5 0 10 28 15 755.5 0 15 29 10 755.5 0 10 30 10 755.5 0 10 31 8 755.5 0 8 32 10 755.5 0 10 33 8 755.5 0 8 34 8 755.5 0 8 35 7 755.5 0 7 36 10 755.5 0 10 37 11 755.5 0 11 38 19 755.5 0 19 39 20 755.5 0 20 40 8 755.5 0 8 41 25 755.5 0 25 42 21 755.5 0 21 43 14 755.5 0 14 44 9 755.5 0 9 45 117 755.5 0 117 46 20 755.5 0 20 47 14 755.5 0 14 48 17 755.5 0 17 49 5 755.5 0 5 50 16 755.5 0 16 51 19 755.5 0 19 52 43 755.5 0 43 53 7 755.5 0 7 54 11 755.5 0 11 55 11 755.5 0 11 56 10 755.5 0 10 57 29 755.5 0 29 58 13 755.5 0 13 59 33 755.5 0 33 60 39 755.5 0 39 61 6 755.5 0 6 62 16 755.5 0 16 63 25 755.5 0 25 64 27 755.5 0 27 65 29 755.5 0 29 66 55 755.5 0 55 67 20 755.5 0 20 68 66 755.5 0 66 69 31 755.5 0 31 70 29 755.5 0 29 71 24 755.5 0 24 72 63 755.5 0 63 73 25 755.5 0 25 74 47 755.5 0 47 75 86 755.5 0 86 76 125 755.5 0 125 77 219 755.5 0 219 78 406 755.5 0 406 79 1010 755.5 0 1010 80 195 755.5 0 195 81 279 755.5 0 279 82 713 755.5 0 713 83 421 755.5 0 421 84 371 755.5 0 371 85 687 755.5 0 687 86 1018 755.5 0 1018 87 702 755.5 0 702 88 923 755.5 0 923 89 1007 755.5 0 1007 90 1138 755.5 0 1138 91 1454 755.5 0 1454 92 12118 755.5 0 12118 93 26962 755.5 0 26962 94 134570 755.5 0 134570 95 945 755.5 0 945 96 43 755.5 0 43 97 9 755.5 0 9 98 8 755.5 0 8 99 4 755.5 0 4 100 11 755.5 0 11 101 10 755.5 0 10 102 7 755.5 0 7 103 5 755.5 0 5 104 9 755.5 0 9 105 8 755.5 0 8 106 8 755.5 0 8 107 13 755.5 0 13 108 11 755.5 0 11 109 76 755.5 0 76 110 17 755.5 0 17 111 14 755.5 0 14 112 29 755.5 0 29 113 3 755.5 0 3 114 15 755.5 0 15 115 13 755.5 0 13 116 13 755.5 0 13 117 12 755.5 0 12 118 6 755.5 0 6 119 7 755.5 0 7 120 9 755.5 0 9 121 2 755.5 0 2 122 3 755.5 0 3 123 1 755.5 0 1 124 3 755.5 0 3 125 8 755.5 0 8 126 8 755.5 0 8 127 2 755.5 0 2 128 5 755.5 0 5 129 6 755.5 0 6 130 5 755.5 0 5 131 9 755.5 0 9 132 7 755.5 0 7 133 19 755.5 0 19 134 2 755.5 0 2 135 8 755.5 0 8 136 9 755.5 0 9 137 14 755.5 0 14 138 12 755.5 0 12 139 6 755.5 0 6 140 6 755.5 0 6 141 79 755.5 0 79 142 5 755.5 0 5 143 9 755.5 0 9 144 8 755.5 0 8 145 4 755.5 0 4 146 3 755.5 0 3 147 10 755.5 0 10 148 3 755.5 0 3 149 8 755.5 0 8 150 4 755.5 0 4 151 10 755.5 0 10 152 3 755.5 0 3 154 5 755.5 0 5 155 3 755.5 0 3 156 18 755.5 0 18 157 7 755.5 0 7 158 11 755.5 0 11 159 2 755.5 0 2 160 3 755.5 0 3 161 2 755.5 0 2 162 4 755.5 0 4 163 9 755.5 0 9 164 4 755.5 0 4 165 4 755.5 0 4 166 8 755.5 0 8 167 4 755.5 0 4 168 13 755.5 0 13 169 11 755.5 0 11 170 3 755.5 0 3 171 4 755.5 0 4 172 8 755.5 0 8 173 6 755.5 0 6 174 8 755.5 0 8 175 8 755.5 0 8 176 19 755.5 0 19 177 207 755.5 0 207 178 297 755.5 0 297 179 28 755.5 0 28 180 162 755.5 0 162 181 10 755.5 0 10 182 9 755.5 0 9 183 12 755.5 0 12 184 18 755.5 0 18 185 19 755.5 0 19 186 34 755.5 0 34 187 52 755.5 0 52 188 111 755.5 0 111 189 35 755.5 0 35 190 38 755.5 0 38 191 96 755.5 0 96 192 48 755.5 0 48 193 63 755.5 0 63 194 58 755.5 0 58 195 56 755.5 0 56 196 88 755.5 0 88 197 64 755.5 0 64 198 81 755.5 0 81 199 126 755.5 0 126 200 218 755.5 0 218 201 2272 755.5 0 2272 202 6118 755.5 0 6118 203 5898 755.5 0 5898 204 91 755.5 0 91 205 232 755.5 0 232 206 141 755.5 0 141 207 174 755.5 0 174 208 154 755.5 0 154 209 94 755.5 0 94 210 19 755.5 0 19 211 17 755.5 0 17 212 22 755.5 0 22 213 19 755.5 0 19 214 49 755.5 0 49 215 23 755.5 0 23 216 25 755.5 0 25 217 28 755.5 0 28 218 170 755.5 0 170 219 17 755.5 0 17 220 13 755.5 0 13 221 10 755.5 0 10 222 24 755.5 0 24 223 100 755.5 0 100 224 19 755.5 0 19 225 120 755.5 0 120 226 75 755.5 0 75 227 288 755.5 0 288 228 210 755.5 0 210 229 519 755.5 0 519 230 7 755.5 0 7 231 6 755.5 0 6 232 7 755.5 0 7 233 8 755.5 0 8 234 4 755.5 0 4 235 3 755.5 0 3 236 11 755.5 0 11 237 8 755.5 0 8 238 19 755.5 0 19 239 1 755.5 0 1 240 2 755.5 0 2 241 3 755.5 0 3 242 3 755.5 0 3 243 4 755.5 0 4 244 4 755.5 0 4 245 3 755.5 0 3 246 13 755.5 0 13 247 9 755.5 0 9 248 12 755.5 0 12 249 2 755.5 0 2 250 1 755.5 0 1 251 3 755.5 0 3 252 4 755.5 0 4 253 6 755.5 0 6 254 11 755.5 0 11 255 18 755.5 0 18 256 17 755.5 0 17 257 18 755.5 0 18 258 61 755.5 0 61 259 309 755.5 0 309 260 240 755.5 0 240 261 93 755.5 0 93 262 361 755.5 0 361 263 44 755.5 0 44 264 6 755.5 0 6 265 10 755.5 0 10 266 35 755.5 0 35 267 4 755.5 0 4 268 5 755.5 0 5 269 4 755.5 0 4 270 40 755.5 0 40 271 33 755.5 0 33 272 20 755.5 0 20 273 7 755.5 0 7 274 5 755.5 0 5 275 6 755.5 0 6 276 5 755.5 0 5 277 34 755.5 0 34 278 12 755.5 0 12 279 121 755.5 0 121 280 12 755.5 0 12 281 8 755.5 0 8 282 14 755.5 0 14 283 15 755.5 0 15 284 170 755.5 0 170 285 68 755.5 0 68 286 166 755.5 0 166 287 76 755.5 0 76 288 5 755.5 0 5 289 2 755.5 0 2 290 2 755.5 0 2 291 1 755.5 0 1 292 2 755.5 0 2 293 12 755.5 0 12 294 10 755.5 0 10 295 25 755.5 0 25 296 3 755.5 0 3 297 3 755.5 0 3 298 3 755.5 0 3 299 7 755.5 0 7 300 4 755.5 0 4 301 2 755.5 0 2 Finished in 10.31 s (47 us/read; 1.28 M reads/minute). === Summary === Total reads processed: 220,073 Reads with adapters: 22,310 (10.1%) Reads that were too short: 9 (0.0%) Reads written (passing filters): 22,301 (10.1%) Total basepairs processed: 47,714,932 bp Total written (filtered): 6,056,434 bp (12.7%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 22310 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 15 0.0 3 0 0 15 19 502 0.0 3 0 495 5 0 2 20 21615 0.0 4 21276 323 11 1 4 21 63 0.0 4 15 46 2 22 1 0.0 4 0 0 1 23 14 0.0 4 1 0 0 13 24 1 0.0 4 0 0 0 0 1 45 1 0.0 4 1 67 19 0.0 4 0 0 0 0 19 68 70 0.0 4 0 0 0 1 69 123 1 0.0 4 0 0 0 0 1 125 1 0.0 4 1 137 1 0.0 4 0 0 0 0 1 139 1 0.0 4 0 0 0 0 1 148 1 0.0 4 0 0 0 0 1 149 1 0.0 4 0 0 0 0 1 171 1 0.0 4 0 0 0 0 1 196 2 0.0 4 0 0 0 0 2 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 0.84 s (38 us/read; 1.59 M reads/minute). === Summary === Total reads processed: 22,301 Reads with adapters: 315 (1.4%) Reads written (passing filters): 22,301 (100.0%) Total basepairs processed: 6,056,434 bp Total written (filtered): 6,050,840 bp (99.9%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 315 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 3.8% C: 3.2% G: 90.2% T: 2.2% none/other: 0.6% 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 1 348.5 0 1 4 5 87.1 0 5 5 4 21.8 0 4 9 31 0.1 0 0 31 10 141 0.0 1 4 137 11 122 0.0 1 0 122 95 1 0.0 1 0 1 208 1 0.0 1 0 1 223 3 0.0 1 2 1 227 1 0.0 1 1 257 2 0.0 1 2 263 1 0.0 1 1 272 2 0.0 1 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.