This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AGGATG -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 104.32 s (33 us/read; 1.83 M reads/minute). === Summary === Total reads processed: 3,184,960 Reads with adapters: 145,310 (4.6%) Reads that were too short: 24,442 (0.8%) Reads written (passing filters): 120,868 (3.8%) Total basepairs processed: 958,672,960 bp Total written (filtered): 21,879,746 bp (2.3%) === Adapter 1 === Sequence: AGGATG; Type: regular 5'; Length: 6; Trimmed: 145310 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 114 777.6 0 114 7 312 777.6 0 312 8 13280 777.6 0 13280 9 19 777.6 0 19 10 19 777.6 0 19 11 22 777.6 0 22 12 17 777.6 0 17 13 15 777.6 0 15 14 16 777.6 0 16 15 18 777.6 0 18 16 16 777.6 0 16 17 17 777.6 0 17 18 33 777.6 0 33 19 21 777.6 0 21 20 41 777.6 0 41 21 23 777.6 0 23 22 10 777.6 0 10 23 16 777.6 0 16 24 14 777.6 0 14 25 10 777.6 0 10 26 15 777.6 0 15 27 22 777.6 0 22 28 14 777.6 0 14 29 16 777.6 0 16 30 33 777.6 0 33 31 10 777.6 0 10 32 11 777.6 0 11 33 20 777.6 0 20 34 10 777.6 0 10 35 16 777.6 0 16 36 16 777.6 0 16 37 12 777.6 0 12 38 16 777.6 0 16 39 18 777.6 0 18 40 16 777.6 0 16 41 12 777.6 0 12 42 12 777.6 0 12 43 11 777.6 0 11 44 18 777.6 0 18 45 12 777.6 0 12 46 9 777.6 0 9 47 16 777.6 0 16 48 21 777.6 0 21 49 11 777.6 0 11 50 14 777.6 0 14 51 17 777.6 0 17 52 16 777.6 0 16 53 16 777.6 0 16 54 33 777.6 0 33 55 17 777.6 0 17 56 68 777.6 0 68 57 22 777.6 0 22 58 36 777.6 0 36 59 21 777.6 0 21 60 54 777.6 0 54 61 37 777.6 0 37 62 41 777.6 0 41 63 69 777.6 0 69 64 113 777.6 0 113 65 189 777.6 0 189 66 307 777.6 0 307 67 708 777.6 0 708 68 134 777.6 0 134 69 162 777.6 0 162 70 386 777.6 0 386 71 167 777.6 0 167 72 162 777.6 0 162 73 269 777.6 0 269 74 232 777.6 0 232 75 429 777.6 0 429 76 229 777.6 0 229 77 387 777.6 0 387 78 452 777.6 0 452 79 873 777.6 0 873 80 13916 777.6 0 13916 81 9545 777.6 0 9545 82 19588 777.6 0 19588 83 156 777.6 0 156 84 130 777.6 0 130 85 104 777.6 0 104 86 37 777.6 0 37 87 119 777.6 0 119 88 65 777.6 0 65 89 23 777.6 0 23 90 59 777.6 0 59 91 79 777.6 0 79 92 110 777.6 0 110 93 77 777.6 0 77 94 82 777.6 0 82 95 113 777.6 0 113 96 46 777.6 0 46 97 97 777.6 0 97 98 45 777.6 0 45 99 25 777.6 0 25 100 18 777.6 0 18 101 35 777.6 0 35 102 19 777.6 0 19 103 14 777.6 0 14 104 27 777.6 0 27 105 27 777.6 0 27 106 19 777.6 0 19 107 21 777.6 0 21 108 15 777.6 0 15 109 21 777.6 0 21 110 35 777.6 0 35 111 27 777.6 0 27 112 21 777.6 0 21 113 33 777.6 0 33 114 26 777.6 0 26 115 18 777.6 0 18 116 44 777.6 0 44 117 64 777.6 0 64 118 99 777.6 0 99 119 162 777.6 0 162 120 91 777.6 0 91 121 174 777.6 0 174 122 67 777.6 0 67 123 53 777.6 0 53 124 69 777.6 0 69 125 324 777.6 0 324 126 53 777.6 0 53 127 233 777.6 0 233 128 94 777.6 0 94 129 406 777.6 0 406 130 44 777.6 0 44 131 60 777.6 0 60 132 49 777.6 0 49 133 53 777.6 0 53 134 48 777.6 0 48 135 47 777.6 0 47 136 27 777.6 0 27 137 39 777.6 0 39 138 44 777.6 0 44 139 56 777.6 0 56 140 47 777.6 0 47 141 52 777.6 0 52 142 57 777.6 0 57 143 54 777.6 0 54 144 89 777.6 0 89 145 104 777.6 0 104 146 126 777.6 0 126 147 49 777.6 0 49 148 256 777.6 0 256 149 93 777.6 0 93 150 312 777.6 0 312 151 34 777.6 0 34 152 35 777.6 0 35 153 38 777.6 0 38 154 40 777.6 0 40 155 53 777.6 0 53 156 34 777.6 0 34 157 38 777.6 0 38 158 58 777.6 0 58 159 51 777.6 0 51 160 74 777.6 0 74 161 49 777.6 0 49 162 67 777.6 0 67 163 55 777.6 0 55 164 77 777.6 0 77 165 61 777.6 0 61 166 70 777.6 0 70 167 113 777.6 0 113 168 92 777.6 0 92 169 48 777.6 0 48 170 87 777.6 0 87 171 203 777.6 0 203 172 89 777.6 0 89 173 120 777.6 0 120 174 249 777.6 0 249 175 417 777.6 0 417 176 149 777.6 0 149 177 236 777.6 0 236 178 289 777.6 0 289 179 154 777.6 0 154 180 237 777.6 0 237 181 241 777.6 0 241 182 256 777.6 0 256 183 374 777.6 0 374 184 261 777.6 0 261 185 327 777.6 0 327 186 618 777.6 0 618 187 7242 777.6 0 7242 188 22176 777.6 0 22176 189 4610 777.6 0 4610 190 8132 777.6 0 8132 191 641 777.6 0 641 192 400 777.6 0 400 193 708 777.6 0 708 194 367 777.6 0 367 195 1435 777.6 0 1435 196 629 777.6 0 629 197 33 777.6 0 33 198 51 777.6 0 51 199 81 777.6 0 81 200 195 777.6 0 195 201 283 777.6 0 283 202 53 777.6 0 53 203 60 777.6 0 60 204 113 777.6 0 113 205 107 777.6 0 107 206 981 777.6 0 981 207 506 777.6 0 506 208 1091 777.6 0 1091 209 59 777.6 0 59 210 68 777.6 0 68 211 310 777.6 0 310 212 688 777.6 0 688 213 1058 777.6 0 1058 214 112 777.6 0 112 215 75 777.6 0 75 216 51 777.6 0 51 217 41 777.6 0 41 218 49 777.6 0 49 219 37 777.6 0 37 220 54 777.6 0 54 221 231 777.6 0 231 222 44 777.6 0 44 223 106 777.6 0 106 224 73 777.6 0 73 225 71 777.6 0 71 226 48 777.6 0 48 227 58 777.6 0 58 228 75 777.6 0 75 229 85 777.6 0 85 230 72 777.6 0 72 231 66 777.6 0 66 232 135 777.6 0 135 233 60 777.6 0 60 234 42 777.6 0 42 235 55 777.6 0 55 236 86 777.6 0 86 237 95 777.6 0 95 238 69 777.6 0 69 239 153 777.6 0 153 240 198 777.6 0 198 241 246 777.6 0 246 242 112 777.6 0 112 243 36 777.6 0 36 244 51 777.6 0 51 245 48 777.6 0 48 246 58 777.6 0 58 247 68 777.6 0 68 248 148 777.6 0 148 249 57 777.6 0 57 250 105 777.6 0 105 251 97 777.6 0 97 252 103 777.6 0 103 253 80 777.6 0 80 254 45 777.6 0 45 255 39 777.6 0 39 256 67 777.6 0 67 257 161 777.6 0 161 258 97 777.6 0 97 259 46 777.6 0 46 260 77 777.6 0 77 261 85 777.6 0 85 262 75 777.6 0 75 263 81 777.6 0 81 264 54 777.6 0 54 265 74 777.6 0 74 266 88 777.6 0 88 267 54 777.6 0 54 268 350 777.6 0 350 269 267 777.6 0 267 270 183 777.6 0 183 271 952 777.6 0 952 272 1875 777.6 0 1875 273 1132 777.6 0 1132 274 304 777.6 0 304 275 104 777.6 0 104 276 73 777.6 0 73 277 91 777.6 0 91 278 53 777.6 0 53 279 74 777.6 0 74 280 74 777.6 0 74 281 90 777.6 0 90 282 845 777.6 0 845 283 484 777.6 0 484 284 719 777.6 0 719 285 45 777.6 0 45 286 97 777.6 0 97 287 99 777.6 0 99 288 158 777.6 0 158 289 103 777.6 0 103 290 137 777.6 0 137 291 382 777.6 0 382 292 1158 777.6 0 1158 293 1647 777.6 0 1647 294 1327 777.6 0 1327 295 188 777.6 0 188 296 110 777.6 0 110 297 86 777.6 0 86 298 784 777.6 0 784 299 587 777.6 0 587 300 157 777.6 0 157 301 120 777.6 0 120 Finished in 5.67 s (47 us/read; 1.28 M reads/minute). === Summary === Total reads processed: 120,868 Reads with adapters: 13,590 (11.2%) Reads that were too short: 58 (0.0%) Reads written (passing filters): 13,532 (11.2%) Total basepairs processed: 21,879,746 bp Total written (filtered): 3,688,946 bp (16.9%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 13590 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 10 0.0 3 0 0 0 1 9 18 5 0.0 3 0 0 5 19 153 0.0 3 0 139 7 3 4 20 13259 0.0 4 12869 357 26 7 21 51 0.0 4 11 34 1 3 2 22 5 0.0 4 2 0 2 0 1 23 10 0.0 4 0 1 0 7 2 24 1 0.0 4 0 0 0 1 30 1 0.0 4 0 0 0 0 1 39 1 0.0 4 0 0 0 0 1 50 1 0.0 4 0 0 0 0 1 55 2 0.0 4 0 0 0 0 2 61 2 0.0 4 0 0 0 0 2 62 1 0.0 4 0 0 0 0 1 72 1 0.0 4 0 0 0 0 1 73 30 0.0 4 0 0 0 0 30 96 1 0.0 4 0 0 0 0 1 129 1 0.0 4 0 0 0 0 1 139 1 0.0 4 0 0 0 0 1 140 2 0.0 4 0 0 0 0 2 154 1 0.0 4 0 0 0 0 1 155 32 0.0 4 0 0 0 1 31 156 4 0.0 4 0 0 0 0 4 157 1 0.0 4 0 0 0 0 1 158 1 0.0 4 0 0 0 0 1 161 2 0.0 4 0 0 0 0 2 162 1 0.0 4 0 0 0 0 1 165 1 0.0 4 0 0 0 1 166 1 0.0 4 0 0 0 0 1 177 1 0.0 4 0 0 0 0 1 179 1 0.0 4 0 0 0 0 1 184 1 0.0 4 0 0 0 0 1 200 1 0.0 4 0 0 0 0 1 209 2 0.0 4 0 0 0 0 2 212 1 0.0 4 0 0 0 0 1 232 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 0.57 s (42 us/read; 1.42 M reads/minute). === Summary === Total reads processed: 13,532 Reads with adapters: 901 (6.7%) Reads written (passing filters): 13,532 (100.0%) Total basepairs processed: 3,688,946 bp Total written (filtered): 3,678,552 bp (99.7%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 901 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.4% C: 2.6% G: 93.6% T: 2.4% 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 1 211.4 0 1 4 1 52.9 0 1 10 27 0.0 1 0 27 11 865 0.0 1 2 863 12 2 0.0 1 0 2 14 3 0.0 1 0 3 268 2 0.0 1 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.