This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AGACCG -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 167.51 s (48 us/read; 1.24 M reads/minute). === Summary === Total reads processed: 3,470,393 Reads with adapters: 360,809 (10.4%) Reads that were too short: 36,487 (1.1%) Reads written (passing filters): 324,322 (9.3%) Total basepairs processed: 1,044,588,293 bp Total written (filtered): 93,251,222 bp (8.9%) === Adapter 1 === Sequence: AGACCG; Type: regular 5'; Length: 6; Trimmed: 360809 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 2120 847.3 0 2120 7 140574 847.3 0 140574 8 2230 847.3 0 2230 9 166037 847.3 0 166037 10 153 847.3 0 153 11 27 847.3 0 27 12 32 847.3 0 32 13 19 847.3 0 19 14 9 847.3 0 9 15 11 847.3 0 11 16 17 847.3 0 17 17 9 847.3 0 9 18 13 847.3 0 13 19 9 847.3 0 9 20 17 847.3 0 17 21 17 847.3 0 17 22 9 847.3 0 9 23 7 847.3 0 7 24 12 847.3 0 12 25 8 847.3 0 8 26 15 847.3 0 15 27 13 847.3 0 13 28 12 847.3 0 12 29 10 847.3 0 10 30 19 847.3 0 19 31 15 847.3 0 15 32 7 847.3 0 7 33 17 847.3 0 17 34 15 847.3 0 15 35 14 847.3 0 14 36 24 847.3 0 24 37 40 847.3 0 40 38 17 847.3 0 17 39 20 847.3 0 20 40 16 847.3 0 16 41 18 847.3 0 18 42 20 847.3 0 20 43 15 847.3 0 15 44 23 847.3 0 23 45 16 847.3 0 16 46 11 847.3 0 11 47 20 847.3 0 20 48 24 847.3 0 24 49 21 847.3 0 21 50 7 847.3 0 7 51 10 847.3 0 10 52 11 847.3 0 11 53 18 847.3 0 18 54 14 847.3 0 14 55 33 847.3 0 33 56 30 847.3 0 30 57 23 847.3 0 23 58 15 847.3 0 15 59 20 847.3 0 20 60 22 847.3 0 22 61 22 847.3 0 22 62 27 847.3 0 27 63 14 847.3 0 14 64 18 847.3 0 18 65 21 847.3 0 21 66 22 847.3 0 22 67 24 847.3 0 24 68 20 847.3 0 20 69 25 847.3 0 25 70 30 847.3 0 30 71 27 847.3 0 27 72 27 847.3 0 27 73 26 847.3 0 26 74 122 847.3 0 122 75 130 847.3 0 130 76 215 847.3 0 215 77 19 847.3 0 19 78 22 847.3 0 22 79 21 847.3 0 21 80 54 847.3 0 54 81 88 847.3 0 88 82 276 847.3 0 276 83 286 847.3 0 286 84 381 847.3 0 381 85 44 847.3 0 44 86 53 847.3 0 53 87 34 847.3 0 34 88 46 847.3 0 46 89 39 847.3 0 39 90 25 847.3 0 25 91 34 847.3 0 34 92 29 847.3 0 29 93 20 847.3 0 20 94 13 847.3 0 13 95 31 847.3 0 31 96 27 847.3 0 27 97 35 847.3 0 35 98 25 847.3 0 25 99 33 847.3 0 33 100 30 847.3 0 30 101 37 847.3 0 37 102 26 847.3 0 26 103 42 847.3 0 42 104 38 847.3 0 38 105 31 847.3 0 31 106 41 847.3 0 41 107 36 847.3 0 36 108 40 847.3 0 40 109 26 847.3 0 26 110 29 847.3 0 29 111 47 847.3 0 47 112 35 847.3 0 35 113 41 847.3 0 41 114 34 847.3 0 34 115 31 847.3 0 31 116 27 847.3 0 27 117 32 847.3 0 32 118 32 847.3 0 32 119 30 847.3 0 30 120 40 847.3 0 40 121 67 847.3 0 67 122 97 847.3 0 97 123 96 847.3 0 96 124 37 847.3 0 37 125 77 847.3 0 77 126 108 847.3 0 108 127 52 847.3 0 52 128 55 847.3 0 55 129 37 847.3 0 37 130 26 847.3 0 26 131 38 847.3 0 38 132 46 847.3 0 46 133 53 847.3 0 53 134 40 847.3 0 40 135 51 847.3 0 51 136 42 847.3 0 42 137 54 847.3 0 54 138 99 847.3 0 99 139 49 847.3 0 49 140 217 847.3 0 217 141 234 847.3 0 234 142 49 847.3 0 49 143 54 847.3 0 54 144 40 847.3 0 40 145 49 847.3 0 49 146 51 847.3 0 51 147 50 847.3 0 50 148 45 847.3 0 45 149 59 847.3 0 59 150 52 847.3 0 52 151 48 847.3 0 48 152 37 847.3 0 37 153 71 847.3 0 71 154 46 847.3 0 46 155 61 847.3 0 61 156 64 847.3 0 64 157 71 847.3 0 71 158 50 847.3 0 50 159 60 847.3 0 60 160 63 847.3 0 63 161 67 847.3 0 67 162 53 847.3 0 53 163 69 847.3 0 69 164 99 847.3 0 99 165 92 847.3 0 92 166 100 847.3 0 100 167 169 847.3 0 169 168 442 847.3 0 442 169 1442 847.3 0 1442 170 89 847.3 0 89 171 266 847.3 0 266 172 189 847.3 0 189 173 293 847.3 0 293 174 91 847.3 0 91 175 68 847.3 0 68 176 76 847.3 0 76 177 78 847.3 0 78 178 57 847.3 0 57 179 84 847.3 0 84 180 103 847.3 0 103 181 94 847.3 0 94 182 132 847.3 0 132 183 109 847.3 0 109 184 106 847.3 0 106 185 83 847.3 0 83 186 118 847.3 0 118 187 93 847.3 0 93 188 100 847.3 0 100 189 119 847.3 0 119 190 102 847.3 0 102 191 125 847.3 0 125 192 99 847.3 0 99 193 94 847.3 0 94 194 104 847.3 0 104 195 101 847.3 0 101 196 95 847.3 0 95 197 102 847.3 0 102 198 130 847.3 0 130 199 122 847.3 0 122 200 261 847.3 0 261 201 426 847.3 0 426 202 424 847.3 0 424 203 194 847.3 0 194 204 109 847.3 0 109 205 121 847.3 0 121 206 105 847.3 0 105 207 108 847.3 0 108 208 93 847.3 0 93 209 102 847.3 0 102 210 128 847.3 0 128 211 135 847.3 0 135 212 114 847.3 0 114 213 113 847.3 0 113 214 126 847.3 0 126 215 142 847.3 0 142 216 216 847.3 0 216 217 167 847.3 0 167 218 155 847.3 0 155 219 128 847.3 0 128 220 130 847.3 0 130 221 152 847.3 0 152 222 151 847.3 0 151 223 151 847.3 0 151 224 192 847.3 0 192 225 237 847.3 0 237 226 326 847.3 0 326 227 458 847.3 0 458 228 3928 847.3 0 3928 229 3632 847.3 0 3632 230 5827 847.3 0 5827 231 291 847.3 0 291 232 131 847.3 0 131 233 107 847.3 0 107 234 117 847.3 0 117 235 117 847.3 0 117 236 110 847.3 0 110 237 110 847.3 0 110 238 121 847.3 0 121 239 135 847.3 0 135 240 123 847.3 0 123 241 105 847.3 0 105 242 123 847.3 0 123 243 159 847.3 0 159 244 142 847.3 0 142 245 133 847.3 0 133 246 184 847.3 0 184 247 210 847.3 0 210 248 219 847.3 0 219 249 143 847.3 0 143 250 162 847.3 0 162 251 118 847.3 0 118 252 131 847.3 0 131 253 142 847.3 0 142 254 237 847.3 0 237 255 153 847.3 0 153 256 387 847.3 0 387 257 462 847.3 0 462 258 400 847.3 0 400 259 203 847.3 0 203 260 211 847.3 0 211 261 901 847.3 0 901 262 2042 847.3 0 2042 263 1439 847.3 0 1439 264 832 847.3 0 832 265 523 847.3 0 523 266 196 847.3 0 196 267 233 847.3 0 233 268 659 847.3 0 659 269 781 847.3 0 781 270 476 847.3 0 476 271 199 847.3 0 199 272 177 847.3 0 177 273 160 847.3 0 160 274 114 847.3 0 114 275 153 847.3 0 153 276 181 847.3 0 181 277 153 847.3 0 153 278 124 847.3 0 124 279 121 847.3 0 121 280 132 847.3 0 132 281 187 847.3 0 187 282 229 847.3 0 229 283 211 847.3 0 211 284 154 847.3 0 154 285 136 847.3 0 136 286 177 847.3 0 177 287 237 847.3 0 237 288 278 847.3 0 278 289 168 847.3 0 168 290 110 847.3 0 110 291 131 847.3 0 131 292 158 847.3 0 158 293 192 847.3 0 192 294 202 847.3 0 202 295 129 847.3 0 129 296 127 847.3 0 127 297 116 847.3 0 116 298 141 847.3 0 141 299 144 847.3 0 144 300 175 847.3 0 175 301 239 847.3 0 239 Finished in 25.49 s (79 us/read; 0.76 M reads/minute). === Summary === Total reads processed: 324,322 Reads with adapters: 170,903 (52.7%) Reads that were too short: 28 (0.0%) Reads written (passing filters): 170,875 (52.7%) Total basepairs processed: 93,251,222 bp Total written (filtered): 46,415,377 bp (49.8%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 170903 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 16 4 0.0 3 0 0 0 0 4 17 3 0.0 3 0 0 0 2 1 18 63 0.0 3 0 0 59 4 19 1431 0.0 3 0 1382 32 3 14 20 168173 0.0 4 165393 2676 91 9 4 21 403 0.0 4 74 315 12 1 1 22 23 0.0 4 4 0 19 23 109 0.0 4 1 0 0 95 13 24 3 0.0 4 0 0 0 1 2 26 1 0.0 4 1 27 2 0.0 4 2 28 1 0.0 4 1 29 1 0.0 4 0 0 0 0 1 31 1 0.0 4 1 44 1 0.0 4 1 47 1 0.0 4 1 66 1 0.0 4 1 76 1 0.0 4 0 0 0 0 1 97 1 0.0 4 0 0 0 0 1 104 1 0.0 4 0 0 0 0 1 112 1 0.0 4 1 125 1 0.0 4 0 0 0 0 1 126 9 0.0 4 0 0 0 0 9 127 625 0.0 4 0 0 0 0 625 128 6 0.0 4 0 0 0 0 6 129 1 0.0 4 0 0 0 0 1 130 1 0.0 4 0 0 0 0 1 139 3 0.0 4 0 0 0 0 3 152 2 0.0 4 0 0 0 0 2 153 4 0.0 4 0 0 0 0 4 199 1 0.0 4 1 204 1 0.0 4 0 1 221 1 0.0 4 0 0 0 0 1 228 4 0.0 4 0 0 0 0 4 233 1 0.0 4 0 0 0 0 1 234 2 0.0 4 0 0 0 0 2 235 1 0.0 4 0 0 0 0 1 236 1 0.0 4 0 0 0 0 1 260 4 0.0 4 0 0 0 0 4 262 2 0.0 4 0 0 0 0 2 263 2 0.0 4 0 0 0 0 2 264 1 0.0 4 0 0 0 0 1 265 1 0.0 4 0 0 0 0 1 282 1 0.0 4 0 0 0 0 1 283 1 0.0 4 0 0 0 0 1 289 1 0.0 4 0 1 293 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 10.64 s (62 us/read; 0.96 M reads/minute). === Summary === Total reads processed: 170,875 Reads with adapters: 37,505 (21.9%) Reads written (passing filters): 170,875 (100.0%) Total basepairs processed: 46,415,377 bp Total written (filtered): 46,059,206 bp (99.2%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 37505 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 0.6% C: 1.6% G: 96.9% 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 37 2669.9 0 37 4 27 667.5 0 27 5 9 166.9 0 9 6 3 41.7 0 3 7 2 10.4 0 2 8 4 2.6 0 4 9 29424 0.7 0 617 28807 10 6513 0.2 1 201 6312 11 1389 0.0 1 13 1376 12 31 0.0 1 0 31 13 12 0.0 1 3 9 35 4 0.0 1 4 150 9 0.0 1 1 8 208 35 0.0 1 10 25 209 2 0.0 1 1 1 223 2 0.0 1 2 228 2 0.0 1 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.