This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AATCCT -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 67.13 s (27 us/read; 2.18 M reads/minute). === Summary === Total reads processed: 2,442,494 Reads with adapters: 1,126,430 (46.1%) Reads that were too short: 26,128 (1.1%) Reads written (passing filters): 1,100,302 (45.0%) Total basepairs processed: 735,190,694 bp Total written (filtered): 300,690,779 bp (40.9%) === Adapter 1 === Sequence: AATCCT; Type: regular 5'; Length: 6; Trimmed: 1126430 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1648 596.3 0 1648 7 48987 596.3 0 48987 8 3097 596.3 0 3097 9 51483 596.3 0 51483 10 1193 596.3 0 1193 11 1872 596.3 0 1872 12 100283 596.3 0 100283 13 2812 596.3 0 2812 14 476 596.3 0 476 15 1164 596.3 0 1164 16 422 596.3 0 422 17 700 596.3 0 700 18 2739 596.3 0 2739 19 838 596.3 0 838 20 965 596.3 0 965 21 324 596.3 0 324 22 517 596.3 0 517 23 1499 596.3 0 1499 24 1883 596.3 0 1883 25 3225 596.3 0 3225 26 5068 596.3 0 5068 27 5259 596.3 0 5259 28 10343 596.3 0 10343 29 21315 596.3 0 21315 30 282530 596.3 0 282530 31 171630 596.3 0 171630 32 363643 596.3 0 363643 33 1269 596.3 0 1269 34 115 596.3 0 115 35 197 596.3 0 197 36 413 596.3 0 413 37 378 596.3 0 378 38 30 596.3 0 30 39 183 596.3 0 183 40 27 596.3 0 27 41 17 596.3 0 17 42 16 596.3 0 16 43 19 596.3 0 19 44 25 596.3 0 25 45 50 596.3 0 50 46 16 596.3 0 16 47 38 596.3 0 38 48 16 596.3 0 16 49 18 596.3 0 18 50 21 596.3 0 21 51 25 596.3 0 25 52 27 596.3 0 27 53 40 596.3 0 40 54 254 596.3 0 254 55 584 596.3 0 584 56 462 596.3 0 462 57 12 596.3 0 12 58 18 596.3 0 18 59 14 596.3 0 14 60 14 596.3 0 14 61 17 596.3 0 17 62 8 596.3 0 8 63 12 596.3 0 12 64 11 596.3 0 11 65 18 596.3 0 18 66 12 596.3 0 12 67 15 596.3 0 15 68 9 596.3 0 9 69 34 596.3 0 34 70 39 596.3 0 39 71 42 596.3 0 42 72 25 596.3 0 25 73 28 596.3 0 28 74 16 596.3 0 16 75 18 596.3 0 18 76 16 596.3 0 16 77 12 596.3 0 12 78 7 596.3 0 7 79 16 596.3 0 16 80 28 596.3 0 28 81 35 596.3 0 35 82 35 596.3 0 35 83 61 596.3 0 61 84 17 596.3 0 17 85 30 596.3 0 30 86 23 596.3 0 23 87 56 596.3 0 56 88 157 596.3 0 157 89 43 596.3 0 43 90 20 596.3 0 20 91 20 596.3 0 20 92 32 596.3 0 32 93 12 596.3 0 12 94 28 596.3 0 28 95 12 596.3 0 12 96 27 596.3 0 27 97 36 596.3 0 36 98 52 596.3 0 52 99 21 596.3 0 21 100 26 596.3 0 26 101 50 596.3 0 50 102 201 596.3 0 201 103 303 596.3 0 303 104 576 596.3 0 576 105 776 596.3 0 776 106 883 596.3 0 883 107 469 596.3 0 469 108 15 596.3 0 15 109 15 596.3 0 15 110 24 596.3 0 24 111 28 596.3 0 28 112 31 596.3 0 31 113 43 596.3 0 43 114 196 596.3 0 196 115 28 596.3 0 28 116 11 596.3 0 11 117 24 596.3 0 24 118 21 596.3 0 21 119 26 596.3 0 26 120 22 596.3 0 22 121 15 596.3 0 15 122 35 596.3 0 35 123 70 596.3 0 70 124 265 596.3 0 265 125 339 596.3 0 339 126 174 596.3 0 174 127 45 596.3 0 45 128 21 596.3 0 21 129 31 596.3 0 31 130 16 596.3 0 16 131 20 596.3 0 20 132 19 596.3 0 19 133 31 596.3 0 31 134 32 596.3 0 32 135 31 596.3 0 31 136 32 596.3 0 32 137 268 596.3 0 268 138 326 596.3 0 326 139 366 596.3 0 366 140 53 596.3 0 53 141 179 596.3 0 179 142 84 596.3 0 84 143 95 596.3 0 95 144 34 596.3 0 34 145 26 596.3 0 26 146 33 596.3 0 33 147 44 596.3 0 44 148 49 596.3 0 49 149 96 596.3 0 96 150 39 596.3 0 39 151 49 596.3 0 49 152 26 596.3 0 26 153 13 596.3 0 13 154 28 596.3 0 28 155 29 596.3 0 29 156 30 596.3 0 30 157 28 596.3 0 28 158 42 596.3 0 42 159 139 596.3 0 139 160 93 596.3 0 93 161 239 596.3 0 239 162 50 596.3 0 50 163 65 596.3 0 65 164 34 596.3 0 34 165 33 596.3 0 33 166 69 596.3 0 69 167 48 596.3 0 48 168 205 596.3 0 205 169 26 596.3 0 26 170 21 596.3 0 21 171 35 596.3 0 35 172 24 596.3 0 24 173 16 596.3 0 16 174 18 596.3 0 18 175 20 596.3 0 20 176 28 596.3 0 28 177 37 596.3 0 37 178 28 596.3 0 28 179 26 596.3 0 26 180 28 596.3 0 28 181 31 596.3 0 31 182 62 596.3 0 62 183 62 596.3 0 62 184 65 596.3 0 65 185 62 596.3 0 62 186 54 596.3 0 54 187 47 596.3 0 47 188 41 596.3 0 41 189 25 596.3 0 25 190 22 596.3 0 22 191 22 596.3 0 22 192 28 596.3 0 28 193 39 596.3 0 39 194 26 596.3 0 26 195 31 596.3 0 31 196 25 596.3 0 25 197 20 596.3 0 20 198 16 596.3 0 16 199 42 596.3 0 42 200 49 596.3 0 49 201 57 596.3 0 57 202 28 596.3 0 28 203 29 596.3 0 29 204 58 596.3 0 58 205 254 596.3 0 254 206 290 596.3 0 290 207 150 596.3 0 150 208 36 596.3 0 36 209 17 596.3 0 17 210 27 596.3 0 27 211 41 596.3 0 41 212 75 596.3 0 75 213 58 596.3 0 58 214 61 596.3 0 61 215 42 596.3 0 42 216 31 596.3 0 31 217 33 596.3 0 33 218 35 596.3 0 35 219 43 596.3 0 43 220 47 596.3 0 47 221 25 596.3 0 25 222 20 596.3 0 20 223 32 596.3 0 32 224 32 596.3 0 32 225 37 596.3 0 37 226 178 596.3 0 178 227 170 596.3 0 170 228 297 596.3 0 297 229 46 596.3 0 46 230 50 596.3 0 50 231 77 596.3 0 77 232 146 596.3 0 146 233 87 596.3 0 87 234 34 596.3 0 34 235 24 596.3 0 24 236 49 596.3 0 49 237 34 596.3 0 34 238 32 596.3 0 32 239 25 596.3 0 25 240 39 596.3 0 39 241 50 596.3 0 50 242 53 596.3 0 53 243 44 596.3 0 44 244 45 596.3 0 45 245 48 596.3 0 48 246 88 596.3 0 88 247 142 596.3 0 142 248 64 596.3 0 64 249 95 596.3 0 95 250 114 596.3 0 114 251 83 596.3 0 83 252 76 596.3 0 76 253 128 596.3 0 128 254 1098 596.3 0 1098 255 1860 596.3 0 1860 256 1279 596.3 0 1279 257 954 596.3 0 954 258 284 596.3 0 284 259 298 596.3 0 298 260 2316 596.3 0 2316 261 3518 596.3 0 3518 262 3909 596.3 0 3909 263 139 596.3 0 139 264 60 596.3 0 60 265 66 596.3 0 66 266 52 596.3 0 52 267 80 596.3 0 80 268 121 596.3 0 121 269 148 596.3 0 148 270 126 596.3 0 126 271 60 596.3 0 60 272 141 596.3 0 141 273 197 596.3 0 197 274 426 596.3 0 426 275 943 596.3 0 943 276 668 596.3 0 668 277 960 596.3 0 960 278 274 596.3 0 274 279 226 596.3 0 226 280 258 596.3 0 258 281 480 596.3 0 480 282 397 596.3 0 397 283 271 596.3 0 271 284 34 596.3 0 34 285 20 596.3 0 20 286 38 596.3 0 38 287 48 596.3 0 48 288 47 596.3 0 47 289 42 596.3 0 42 290 44 596.3 0 44 291 42 596.3 0 42 292 33 596.3 0 33 293 54 596.3 0 54 294 76 596.3 0 76 295 47 596.3 0 47 296 36 596.3 0 36 297 23 596.3 0 23 298 21 596.3 0 21 299 33 596.3 0 33 300 36 596.3 0 36 301 26 596.3 0 26 Finished in 51.55 s (47 us/read; 1.28 M reads/minute). === Summary === Total reads processed: 1,100,302 Reads with adapters: 53,560 (4.9%) Reads that were too short: 152 (0.0%) Reads written (passing filters): 53,408 (4.9%) Total basepairs processed: 300,690,779 bp Total written (filtered): 14,115,413 bp (4.7%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 53560 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 2 0.0 3 0 0 0 2 18 23 0.0 3 0 0 22 1 19 439 0.0 3 0 388 33 15 3 20 48043 0.0 4 45469 2160 317 76 21 21 104 0.0 4 13 80 7 1 3 22 8 0.0 4 0 2 5 0 1 23 68 0.0 4 1 0 0 49 18 24 2 0.0 4 0 0 0 0 2 25 1 0.0 4 1 28 3 0.0 4 0 0 0 0 3 30 1 0.0 4 0 0 0 0 1 37 1 0.0 4 0 0 0 0 1 39 1 0.0 4 0 0 0 0 1 54 1 0.0 4 1 57 1 0.0 4 1 58 1 0.0 4 0 0 0 0 1 60 1 0.0 4 0 0 0 0 1 67 1 0.0 4 0 1 74 1 0.0 4 0 0 0 1 75 1 0.0 4 0 1 77 1 0.0 4 1 80 8 0.0 4 0 0 0 0 8 83 2 0.0 4 0 0 0 0 2 84 265 0.0 4 0 0 0 3 262 91 2 0.0 4 0 0 0 0 2 92 2 0.0 4 1 0 0 1 96 1 0.0 4 0 0 1 99 1 0.0 4 0 0 0 0 1 110 1 0.0 4 1 113 1 0.0 4 0 0 0 0 1 118 1 0.0 4 0 0 0 0 1 122 7 0.0 4 0 0 0 0 7 123 34 0.0 4 0 0 0 0 34 124 3339 0.0 4 0 0 0 0 3339 125 5 0.0 4 0 0 0 0 5 126 10 0.0 4 0 0 0 0 10 127 762 0.0 4 0 0 0 0 762 128 1 0.0 4 0 0 0 0 1 130 1 0.0 4 0 0 0 0 1 134 1 0.0 4 0 0 0 0 1 141 2 0.0 4 0 0 0 0 2 142 39 0.0 4 0 0 0 0 39 147 1 0.0 4 0 0 0 0 1 148 188 0.0 4 0 0 0 0 188 149 17 0.0 4 0 0 0 0 17 150 4 0.0 4 0 0 0 0 4 152 1 0.0 4 0 0 0 0 1 153 1 0.0 4 0 0 0 0 1 160 2 0.0 4 0 0 0 0 2 166 4 0.0 4 0 0 0 0 4 167 1 0.0 4 0 0 0 0 1 178 1 0.0 4 0 0 0 0 1 179 1 0.0 4 0 0 0 0 1 182 5 0.0 4 0 0 0 0 5 183 1 0.0 4 0 0 0 0 1 184 1 0.0 4 0 0 0 0 1 192 1 0.0 4 0 0 0 0 1 193 1 0.0 4 0 0 0 0 1 199 1 0.0 4 0 0 0 0 1 200 1 0.0 4 0 0 0 0 1 201 2 0.0 4 0 0 0 0 2 203 3 0.0 4 0 0 0 0 3 204 2 0.0 4 0 0 0 0 2 207 3 0.0 4 0 0 0 0 3 210 1 0.0 4 0 0 0 0 1 211 3 0.0 4 0 0 0 1 2 212 3 0.0 4 0 0 0 0 3 213 1 0.0 4 0 0 0 0 1 214 2 0.0 4 0 0 0 0 2 215 3 0.0 4 1 0 0 0 2 217 1 0.0 4 0 0 0 0 1 219 1 0.0 4 0 0 0 0 1 222 1 0.0 4 0 0 0 0 1 225 17 0.0 4 0 0 0 1 16 226 11 0.0 4 0 0 0 1 10 227 3 0.0 4 0 0 0 0 3 228 21 0.0 4 0 0 0 1 20 229 10 0.0 4 0 0 0 2 8 230 1 0.0 4 0 0 0 0 1 231 4 0.0 4 0 0 0 0 4 233 2 0.0 4 0 0 0 0 2 234 1 0.0 4 0 0 0 0 1 235 2 0.0 4 0 0 0 1 1 239 1 0.0 4 0 0 0 0 1 247 1 0.0 4 0 0 0 0 1 249 1 0.0 4 0 0 0 0 1 251 1 0.0 4 0 0 0 0 1 254 2 0.0 4 0 0 0 1 1 255 3 0.0 4 0 0 0 0 3 256 3 0.0 4 0 0 0 1 2 257 1 0.0 4 0 0 0 0 1 258 1 0.0 4 0 0 0 0 1 260 1 0.0 4 0 0 0 0 1 261 1 0.0 4 0 0 0 0 1 262 2 0.0 4 0 0 0 0 2 266 1 0.0 4 0 0 0 0 1 267 4 0.0 4 0 0 0 0 4 269 1 0.0 4 0 0 0 0 1 271 1 0.0 4 0 0 0 0 1 272 1 0.0 4 0 0 0 0 1 276 1 0.0 4 0 0 0 0 1 279 2 0.0 4 0 0 0 0 2 280 2 0.0 4 0 0 0 0 2 281 1 0.0 4 0 0 0 0 1 282 3 0.0 4 0 0 0 1 2 283 1 0.0 4 0 0 0 0 1 287 1 0.0 4 0 0 0 0 1 288 1 0.0 4 0 0 0 0 1 289 2 0.0 4 0 0 0 0 2 292 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 1.81 s (34 us/read; 1.77 M reads/minute). === Summary === Total reads processed: 53,408 Reads with adapters: 2,450 (4.6%) Reads written (passing filters): 53,408 (100.0%) Total basepairs processed: 14,115,413 bp Total written (filtered): 14,086,331 bp (99.8%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 2450 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 8.6% C: 13.2% G: 75.6% T: 2.6% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 242 834.5 0 242 4 23 208.6 0 23 9 9 0.2 0 1 8 10 104 0.1 1 7 97 11 1380 0.0 1 46 1334 12 625 0.0 1 13 612 13 43 0.0 1 1 42 15 3 0.0 1 0 3 124 1 0.0 1 1 152 8 0.0 1 4 4 208 1 0.0 1 1 210 10 0.0 1 7 3 211 1 0.0 1 1