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 68.54 s (26 us/read; 2.33 M reads/minute). === Summary === Total reads processed: 2,658,179 Reads with adapters: 147,001 (5.5%) Reads that were too short: 43,548 (1.6%) Reads written (passing filters): 103,453 (3.9%) Total basepairs processed: 800,111,879 bp Total written (filtered): 28,860,469 bp (3.6%) === Adapter 1 === Sequence: AGACCG; Type: regular 5'; Length: 6; Trimmed: 147001 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 640 649.0 0 640 7 50826 649.0 0 50826 8 489 649.0 0 489 9 40549 649.0 0 40549 10 70 649.0 0 70 11 10 649.0 0 10 12 13 649.0 0 13 13 7 649.0 0 7 14 15 649.0 0 15 15 9 649.0 0 9 16 12 649.0 0 12 17 10 649.0 0 10 18 7 649.0 0 7 19 5 649.0 0 5 20 12 649.0 0 12 21 9 649.0 0 9 22 6 649.0 0 6 23 9 649.0 0 9 24 7 649.0 0 7 25 6 649.0 0 6 26 15 649.0 0 15 27 9 649.0 0 9 28 7 649.0 0 7 29 27 649.0 0 27 30 15 649.0 0 15 31 8 649.0 0 8 32 13 649.0 0 13 33 16 649.0 0 16 34 13 649.0 0 13 35 13 649.0 0 13 36 24 649.0 0 24 37 31 649.0 0 31 38 9 649.0 0 9 39 10 649.0 0 10 40 10 649.0 0 10 41 8 649.0 0 8 42 13 649.0 0 13 43 9 649.0 0 9 44 5 649.0 0 5 45 14 649.0 0 14 46 20 649.0 0 20 47 6 649.0 0 6 48 8 649.0 0 8 49 12 649.0 0 12 50 11 649.0 0 11 51 11 649.0 0 11 52 15 649.0 0 15 53 22 649.0 0 22 54 31 649.0 0 31 55 23 649.0 0 23 56 21 649.0 0 21 57 13 649.0 0 13 58 11 649.0 0 11 59 16 649.0 0 16 60 12 649.0 0 12 61 18 649.0 0 18 62 17 649.0 0 17 63 14 649.0 0 14 64 17 649.0 0 17 65 14 649.0 0 14 66 14 649.0 0 14 67 17 649.0 0 17 68 9 649.0 0 9 69 16 649.0 0 16 70 22 649.0 0 22 71 81 649.0 0 81 72 25 649.0 0 25 73 28 649.0 0 28 74 154 649.0 0 154 75 141 649.0 0 141 76 80 649.0 0 80 77 12 649.0 0 12 78 26 649.0 0 26 79 44 649.0 0 44 80 81 649.0 0 81 81 66 649.0 0 66 82 174 649.0 0 174 83 162 649.0 0 162 84 154 649.0 0 154 85 26 649.0 0 26 86 32 649.0 0 32 87 19 649.0 0 19 88 28 649.0 0 28 89 42 649.0 0 42 90 18 649.0 0 18 91 12 649.0 0 12 92 24 649.0 0 24 93 26 649.0 0 26 94 27 649.0 0 27 95 30 649.0 0 30 96 29 649.0 0 29 97 31 649.0 0 31 98 18 649.0 0 18 99 28 649.0 0 28 100 27 649.0 0 27 101 22 649.0 0 22 102 28 649.0 0 28 103 25 649.0 0 25 104 31 649.0 0 31 105 26 649.0 0 26 106 28 649.0 0 28 107 33 649.0 0 33 108 19 649.0 0 19 109 18 649.0 0 18 110 36 649.0 0 36 111 150 649.0 0 150 112 29 649.0 0 29 113 23 649.0 0 23 114 24 649.0 0 24 115 25 649.0 0 25 116 20 649.0 0 20 117 29 649.0 0 29 118 34 649.0 0 34 119 35 649.0 0 35 120 32 649.0 0 32 121 49 649.0 0 49 122 64 649.0 0 64 123 246 649.0 0 246 124 52 649.0 0 52 125 90 649.0 0 90 126 80 649.0 0 80 127 49 649.0 0 49 128 60 649.0 0 60 129 28 649.0 0 28 130 41 649.0 0 41 131 32 649.0 0 32 132 35 649.0 0 35 133 29 649.0 0 29 134 27 649.0 0 27 135 37 649.0 0 37 136 36 649.0 0 36 137 50 649.0 0 50 138 46 649.0 0 46 139 39 649.0 0 39 140 49 649.0 0 49 141 30 649.0 0 30 142 119 649.0 0 119 143 35 649.0 0 35 144 39 649.0 0 39 145 45 649.0 0 45 146 57 649.0 0 57 147 45 649.0 0 45 148 45 649.0 0 45 149 43 649.0 0 43 150 40 649.0 0 40 151 46 649.0 0 46 152 48 649.0 0 48 153 62 649.0 0 62 154 50 649.0 0 50 155 47 649.0 0 47 156 52 649.0 0 52 157 57 649.0 0 57 158 48 649.0 0 48 159 48 649.0 0 48 160 44 649.0 0 44 161 43 649.0 0 43 162 54 649.0 0 54 163 59 649.0 0 59 164 47 649.0 0 47 165 84 649.0 0 84 166 103 649.0 0 103 167 1139 649.0 0 1139 168 336 649.0 0 336 169 376 649.0 0 376 170 79 649.0 0 79 171 196 649.0 0 196 172 195 649.0 0 195 173 149 649.0 0 149 174 43 649.0 0 43 175 83 649.0 0 83 176 60 649.0 0 60 177 63 649.0 0 63 178 41 649.0 0 41 179 67 649.0 0 67 180 74 649.0 0 74 181 60 649.0 0 60 182 102 649.0 0 102 183 87 649.0 0 87 184 88 649.0 0 88 185 76 649.0 0 76 186 67 649.0 0 67 187 65 649.0 0 65 188 80 649.0 0 80 189 98 649.0 0 98 190 82 649.0 0 82 191 85 649.0 0 85 192 78 649.0 0 78 193 60 649.0 0 60 194 88 649.0 0 88 195 207 649.0 0 207 196 69 649.0 0 69 197 72 649.0 0 72 198 86 649.0 0 86 199 105 649.0 0 105 200 280 649.0 0 280 201 406 649.0 0 406 202 228 649.0 0 228 203 91 649.0 0 91 204 70 649.0 0 70 205 80 649.0 0 80 206 86 649.0 0 86 207 72 649.0 0 72 208 68 649.0 0 68 209 66 649.0 0 66 210 94 649.0 0 94 211 106 649.0 0 106 212 85 649.0 0 85 213 90 649.0 0 90 214 124 649.0 0 124 215 117 649.0 0 117 216 162 649.0 0 162 217 103 649.0 0 103 218 111 649.0 0 111 219 112 649.0 0 112 220 101 649.0 0 101 221 153 649.0 0 153 222 129 649.0 0 129 223 197 649.0 0 197 224 257 649.0 0 257 225 313 649.0 0 313 226 403 649.0 0 403 227 1262 649.0 0 1262 228 5522 649.0 0 5522 229 14866 649.0 0 14866 230 6366 649.0 0 6366 231 157 649.0 0 157 232 147 649.0 0 147 233 90 649.0 0 90 234 82 649.0 0 82 235 83 649.0 0 83 236 98 649.0 0 98 237 90 649.0 0 90 238 93 649.0 0 93 239 101 649.0 0 101 240 90 649.0 0 90 241 78 649.0 0 78 242 90 649.0 0 90 243 145 649.0 0 145 244 112 649.0 0 112 245 189 649.0 0 189 246 124 649.0 0 124 247 202 649.0 0 202 248 140 649.0 0 140 249 120 649.0 0 120 250 103 649.0 0 103 251 93 649.0 0 93 252 116 649.0 0 116 253 66 649.0 0 66 254 121 649.0 0 121 255 117 649.0 0 117 256 407 649.0 0 407 257 348 649.0 0 348 258 491 649.0 0 491 259 133 649.0 0 133 260 122 649.0 0 122 261 231 649.0 0 231 262 277 649.0 0 277 263 635 649.0 0 635 264 288 649.0 0 288 265 219 649.0 0 219 266 170 649.0 0 170 267 144 649.0 0 144 268 426 649.0 0 426 269 613 649.0 0 613 270 595 649.0 0 595 271 205 649.0 0 205 272 118 649.0 0 118 273 109 649.0 0 109 274 108 649.0 0 108 275 117 649.0 0 117 276 99 649.0 0 99 277 116 649.0 0 116 278 111 649.0 0 111 279 96 649.0 0 96 280 124 649.0 0 124 281 178 649.0 0 178 282 136 649.0 0 136 283 202 649.0 0 202 284 124 649.0 0 124 285 112 649.0 0 112 286 102 649.0 0 102 287 128 649.0 0 128 288 151 649.0 0 151 289 175 649.0 0 175 290 88 649.0 0 88 291 134 649.0 0 134 292 152 649.0 0 152 293 134 649.0 0 134 294 204 649.0 0 204 295 119 649.0 0 119 296 93 649.0 0 93 297 119 649.0 0 119 298 100 649.0 0 100 299 129 649.0 0 129 300 198 649.0 0 198 301 187 649.0 0 187 Finished in 5.45 s (53 us/read; 1.14 M reads/minute). === Summary === Total reads processed: 103,453 Reads with adapters: 42,015 (40.6%) Reads that were too short: 45 (0.0%) Reads written (passing filters): 41,970 (40.6%) Total basepairs processed: 28,860,469 bp Total written (filtered): 11,368,145 bp (39.4%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 42015 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 1 0.0 3 0 0 0 0 1 17 1 0.0 3 0 0 0 0 1 18 16 0.0 3 0 0 15 1 19 346 0.0 3 0 339 7 20 41014 0.0 4 40180 807 25 2 21 91 0.0 4 21 66 2 1 1 22 3 0.0 4 0 0 3 23 25 0.0 4 0 0 0 21 4 26 1 0.0 4 1 27 3 0.0 4 0 0 0 0 3 34 1 0.0 4 0 0 0 0 1 41 1 0.0 4 0 0 0 0 1 43 1 0.0 4 0 0 0 0 1 53 1 0.0 4 0 0 0 0 1 54 1 0.0 4 1 69 1 0.0 4 0 0 0 0 1 83 1 0.0 4 0 0 0 0 1 101 1 0.0 4 1 103 1 0.0 4 0 0 0 0 1 111 3 0.0 4 0 0 0 0 3 115 1 0.0 4 1 123 4 0.0 4 0 0 0 0 4 125 1 0.0 4 0 0 0 0 1 126 6 0.0 4 1 0 0 0 5 127 436 0.0 4 0 0 0 0 436 129 1 0.0 4 0 0 0 0 1 130 3 0.0 4 0 0 0 0 3 131 1 0.0 4 0 0 0 0 1 134 1 0.0 4 1 136 1 0.0 4 1 137 1 0.0 4 1 142 1 0.0 4 0 0 0 0 1 143 1 0.0 4 1 148 1 0.0 4 1 153 1 0.0 4 0 0 0 0 1 165 1 0.0 4 1 172 1 0.0 4 1 176 1 0.0 4 0 0 0 0 1 190 1 0.0 4 1 191 1 0.0 4 0 1 196 1 0.0 4 0 0 0 0 1 202 1 0.0 4 0 0 0 0 1 212 1 0.0 4 1 216 1 0.0 4 0 0 0 0 1 218 2 0.0 4 1 1 219 1 0.0 4 1 227 1 0.0 4 1 228 9 0.0 4 0 0 0 1 8 229 3 0.0 4 0 0 0 0 3 230 1 0.0 4 0 0 0 0 1 236 1 0.0 4 1 237 1 0.0 4 0 0 0 0 1 238 1 0.0 4 1 240 1 0.0 4 0 1 246 1 0.0 4 0 1 247 1 0.0 4 0 0 0 1 261 1 0.0 4 0 1 262 1 0.0 4 0 0 0 0 1 263 1 0.0 4 0 0 0 0 1 264 1 0.0 4 0 0 0 0 1 269 1 0.0 4 0 0 1 272 1 0.0 4 0 0 0 0 1 275 1 0.0 4 0 0 0 0 1 282 2 0.0 4 2 294 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 1.50 s (36 us/read; 1.68 M reads/minute). === Summary === Total reads processed: 41,970 Reads with adapters: 6,586 (15.7%) Reads written (passing filters): 41,970 (100.0%) Total basepairs processed: 11,368,145 bp Total written (filtered): 11,253,824 bp (99.0%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 6586 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 6.5% C: 3.7% G: 84.1% T: 5.7% 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 56 655.8 0 56 4 4 163.9 0 4 5 1 41.0 0 1 6 2 10.2 0 2 8 1 0.6 0 1 9 3095 0.2 0 91 3004 10 1888 0.0 1 71 1817 11 791 0.0 1 4 787 12 3 0.0 1 0 3 13 3 0.0 1 0 3 14 2 0.0 1 0 2 16 1 0.0 1 1 17 3 0.0 1 2 1 18 198 0.0 1 152 46 19 39 0.0 1 28 11 20 2 0.0 1 2 21 21 0.0 1 19 2 22 104 0.0 1 89 15 23 1 0.0 1 1 35 56 0.0 1 46 10 36 4 0.0 1 2 2 42 5 0.0 1 4 1 56 1 0.0 1 1 81 1 0.0 1 0 1 83 3 0.0 1 3 84 1 0.0 1 1 86 1 0.0 1 0 1 108 2 0.0 1 2 114 2 0.0 1 0 2 116 1 0.0 1 0 1 128 1 0.0 1 1 150 4 0.0 1 2 2 155 1 0.0 1 1 156 247 0.0 1 225 22 157 6 0.0 1 6 159 1 0.0 1 1 169 1 0.0 1 1 176 1 0.0 1 1 208 3 0.0 1 0 3 213 2 0.0 1 2 214 1 0.0 1 1 223 22 0.0 1 21 1 235 2 0.0 1 2 239 2 0.0 1 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.