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 68.46 s (26 us/read; 2.33 M reads/minute). === Summary === Total reads processed: 2,658,179 Reads with adapters: 143,555 (5.4%) Reads that were too short: 40,790 (1.5%) Reads written (passing filters): 102,765 (3.9%) Total basepairs processed: 800,111,879 bp Total written (filtered): 28,466,461 bp (3.6%) === Adapter 1 === Sequence: AGACCG; Type: regular 5'; Length: 6; Trimmed: 143555 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1483 649.0 0 1483 7 54383 649.0 0 54383 8 727 649.0 0 727 9 33122 649.0 0 33122 10 205 649.0 0 205 11 26 649.0 0 26 12 29 649.0 0 29 13 14 649.0 0 14 14 15 649.0 0 15 15 13 649.0 0 13 16 23 649.0 0 23 17 17 649.0 0 17 18 15 649.0 0 15 19 8 649.0 0 8 20 11 649.0 0 11 21 14 649.0 0 14 22 6 649.0 0 6 23 7 649.0 0 7 24 8 649.0 0 8 25 17 649.0 0 17 26 27 649.0 0 27 27 9 649.0 0 9 28 15 649.0 0 15 29 27 649.0 0 27 30 17 649.0 0 17 31 17 649.0 0 17 32 23 649.0 0 23 33 17 649.0 0 17 34 15 649.0 0 15 35 18 649.0 0 18 36 11 649.0 0 11 37 17 649.0 0 17 38 16 649.0 0 16 39 16 649.0 0 16 40 20 649.0 0 20 41 11 649.0 0 11 42 15 649.0 0 15 43 14 649.0 0 14 44 14 649.0 0 14 45 14 649.0 0 14 46 12 649.0 0 12 47 14 649.0 0 14 48 21 649.0 0 21 49 19 649.0 0 19 50 19 649.0 0 19 51 13 649.0 0 13 52 18 649.0 0 18 53 29 649.0 0 29 54 43 649.0 0 43 55 95 649.0 0 95 56 56 649.0 0 56 57 16 649.0 0 16 58 12 649.0 0 12 59 28 649.0 0 28 60 28 649.0 0 28 61 45 649.0 0 45 62 22 649.0 0 22 63 20 649.0 0 20 64 19 649.0 0 19 65 12 649.0 0 12 66 21 649.0 0 21 67 17 649.0 0 17 68 14 649.0 0 14 69 29 649.0 0 29 70 36 649.0 0 36 71 109 649.0 0 109 72 39 649.0 0 39 73 45 649.0 0 45 74 156 649.0 0 156 75 128 649.0 0 128 76 82 649.0 0 82 77 21 649.0 0 21 78 31 649.0 0 31 79 82 649.0 0 82 80 95 649.0 0 95 81 132 649.0 0 132 82 252 649.0 0 252 83 201 649.0 0 201 84 171 649.0 0 171 85 99 649.0 0 99 86 65 649.0 0 65 87 35 649.0 0 35 88 51 649.0 0 51 89 66 649.0 0 66 90 25 649.0 0 25 91 37 649.0 0 37 92 63 649.0 0 63 93 35 649.0 0 35 94 27 649.0 0 27 95 29 649.0 0 29 96 15 649.0 0 15 97 28 649.0 0 28 98 21 649.0 0 21 99 29 649.0 0 29 100 25 649.0 0 25 101 21 649.0 0 21 102 37 649.0 0 37 103 29 649.0 0 29 104 19 649.0 0 19 105 28 649.0 0 28 106 30 649.0 0 30 107 34 649.0 0 34 108 12 649.0 0 12 109 21 649.0 0 21 110 30 649.0 0 30 111 148 649.0 0 148 112 31 649.0 0 31 113 35 649.0 0 35 114 38 649.0 0 38 115 34 649.0 0 34 116 35 649.0 0 35 117 31 649.0 0 31 118 37 649.0 0 37 119 38 649.0 0 38 120 39 649.0 0 39 121 111 649.0 0 111 122 110 649.0 0 110 123 405 649.0 0 405 124 50 649.0 0 50 125 112 649.0 0 112 126 103 649.0 0 103 127 82 649.0 0 82 128 63 649.0 0 63 129 41 649.0 0 41 130 59 649.0 0 59 131 28 649.0 0 28 132 26 649.0 0 26 133 61 649.0 0 61 134 30 649.0 0 30 135 50 649.0 0 50 136 49 649.0 0 49 137 56 649.0 0 56 138 54 649.0 0 54 139 33 649.0 0 33 140 48 649.0 0 48 141 33 649.0 0 33 142 138 649.0 0 138 143 37 649.0 0 37 144 66 649.0 0 66 145 39 649.0 0 39 146 48 649.0 0 48 147 64 649.0 0 64 148 54 649.0 0 54 149 39 649.0 0 39 150 41 649.0 0 41 151 52 649.0 0 52 152 53 649.0 0 53 153 63 649.0 0 63 154 54 649.0 0 54 155 44 649.0 0 44 156 47 649.0 0 47 157 37 649.0 0 37 158 38 649.0 0 38 159 45 649.0 0 45 160 38 649.0 0 38 161 43 649.0 0 43 162 54 649.0 0 54 163 73 649.0 0 73 164 63 649.0 0 63 165 79 649.0 0 79 166 96 649.0 0 96 167 1118 649.0 0 1118 168 324 649.0 0 324 169 442 649.0 0 442 170 124 649.0 0 124 171 241 649.0 0 241 172 199 649.0 0 199 173 153 649.0 0 153 174 56 649.0 0 56 175 61 649.0 0 61 176 32 649.0 0 32 177 58 649.0 0 58 178 42 649.0 0 42 179 49 649.0 0 49 180 79 649.0 0 79 181 48 649.0 0 48 182 131 649.0 0 131 183 81 649.0 0 81 184 130 649.0 0 130 185 77 649.0 0 77 186 88 649.0 0 88 187 80 649.0 0 80 188 86 649.0 0 86 189 122 649.0 0 122 190 72 649.0 0 72 191 80 649.0 0 80 192 49 649.0 0 49 193 49 649.0 0 49 194 78 649.0 0 78 195 180 649.0 0 180 196 61 649.0 0 61 197 92 649.0 0 92 198 79 649.0 0 79 199 185 649.0 0 185 200 419 649.0 0 419 201 536 649.0 0 536 202 227 649.0 0 227 203 92 649.0 0 92 204 65 649.0 0 65 205 103 649.0 0 103 206 78 649.0 0 78 207 66 649.0 0 66 208 34 649.0 0 34 209 34 649.0 0 34 210 57 649.0 0 57 211 77 649.0 0 77 212 63 649.0 0 63 213 83 649.0 0 83 214 127 649.0 0 127 215 100 649.0 0 100 216 178 649.0 0 178 217 96 649.0 0 96 218 95 649.0 0 95 219 103 649.0 0 103 220 118 649.0 0 118 221 118 649.0 0 118 222 108 649.0 0 108 223 166 649.0 0 166 224 271 649.0 0 271 225 325 649.0 0 325 226 471 649.0 0 471 227 1122 649.0 0 1122 228 4677 649.0 0 4677 229 12156 649.0 0 12156 230 5385 649.0 0 5385 231 217 649.0 0 217 232 123 649.0 0 123 233 60 649.0 0 60 234 44 649.0 0 44 235 54 649.0 0 54 236 54 649.0 0 54 237 94 649.0 0 94 238 82 649.0 0 82 239 87 649.0 0 87 240 80 649.0 0 80 241 59 649.0 0 59 242 63 649.0 0 63 243 190 649.0 0 190 244 128 649.0 0 128 245 263 649.0 0 263 246 216 649.0 0 216 247 306 649.0 0 306 248 338 649.0 0 338 249 162 649.0 0 162 250 130 649.0 0 130 251 123 649.0 0 123 252 96 649.0 0 96 253 69 649.0 0 69 254 70 649.0 0 70 255 124 649.0 0 124 256 443 649.0 0 443 257 321 649.0 0 321 258 616 649.0 0 616 259 110 649.0 0 110 260 119 649.0 0 119 261 325 649.0 0 325 262 387 649.0 0 387 263 605 649.0 0 605 264 344 649.0 0 344 265 283 649.0 0 283 266 185 649.0 0 185 267 173 649.0 0 173 268 699 649.0 0 699 269 617 649.0 0 617 270 631 649.0 0 631 271 215 649.0 0 215 272 82 649.0 0 82 273 74 649.0 0 74 274 110 649.0 0 110 275 109 649.0 0 109 276 100 649.0 0 100 277 91 649.0 0 91 278 88 649.0 0 88 279 74 649.0 0 74 280 109 649.0 0 109 281 240 649.0 0 240 282 213 649.0 0 213 283 304 649.0 0 304 284 87 649.0 0 87 285 110 649.0 0 110 286 117 649.0 0 117 287 134 649.0 0 134 288 164 649.0 0 164 289 133 649.0 0 133 290 89 649.0 0 89 291 105 649.0 0 105 292 353 649.0 0 353 293 338 649.0 0 338 294 375 649.0 0 375 295 141 649.0 0 141 296 103 649.0 0 103 297 79 649.0 0 79 298 79 649.0 0 79 299 166 649.0 0 166 300 437 649.0 0 437 301 286 649.0 0 286 Finished in 5.47 s (53 us/read; 1.13 M reads/minute). === Summary === Total reads processed: 102,765 Reads with adapters: 34,884 (33.9%) Reads that were too short: 57 (0.1%) Reads written (passing filters): 34,827 (33.9%) Total basepairs processed: 28,466,461 bp Total written (filtered): 9,429,141 bp (33.1%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 34884 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 4 0.0 3 0 0 0 1 3 18 22 0.0 3 0 0 12 6 4 19 342 0.0 3 0 295 24 15 8 20 33781 0.0 4 32142 1391 177 50 21 21 94 0.0 4 20 68 4 1 1 22 7 0.0 4 0 0 7 23 133 0.0 4 0 0 0 106 27 24 2 0.0 4 1 0 0 0 1 27 5 0.0 4 0 0 0 0 5 38 1 0.0 4 0 0 0 0 1 41 3 0.0 4 0 0 1 0 2 44 1 0.0 4 0 0 0 0 1 45 1 0.0 4 1 50 2 0.0 4 0 0 0 0 2 51 1 0.0 4 0 0 0 0 1 53 1 0.0 4 0 0 0 0 1 54 1 0.0 4 0 0 0 0 1 57 1 0.0 4 0 0 0 0 1 61 1 0.0 4 0 0 0 0 1 68 3 0.0 4 0 0 0 0 3 70 2 0.0 4 0 0 0 0 2 79 2 0.0 4 0 0 0 0 2 80 1 0.0 4 1 90 1 0.0 4 0 0 0 0 1 92 1 0.0 4 0 0 0 0 1 118 1 0.0 4 0 0 0 0 1 119 1 0.0 4 0 0 0 0 1 123 3 0.0 4 0 0 0 0 3 124 1 0.0 4 0 0 0 0 1 125 3 0.0 4 1 0 0 0 2 126 6 0.0 4 0 0 0 0 6 127 400 0.0 4 0 0 0 0 400 128 1 0.0 4 0 0 0 0 1 131 1 0.0 4 0 0 0 0 1 134 1 0.0 4 0 0 0 0 1 136 1 0.0 4 0 0 0 0 1 143 1 0.0 4 0 1 147 1 0.0 4 0 0 0 0 1 149 1 0.0 4 1 153 2 0.0 4 0 0 0 0 2 157 1 0.0 4 0 0 0 0 1 159 1 0.0 4 0 0 0 0 1 170 1 0.0 4 0 0 0 0 1 183 2 0.0 4 1 0 0 0 1 189 1 0.0 4 0 0 0 0 1 202 2 0.0 4 0 0 0 0 2 208 2 0.0 4 0 0 0 0 2 213 1 0.0 4 0 0 0 0 1 216 2 0.0 4 0 0 1 0 1 218 1 0.0 4 0 1 226 1 0.0 4 0 0 0 0 1 228 6 0.0 4 0 0 0 0 6 229 8 0.0 4 0 0 0 1 7 230 1 0.0 4 0 0 0 0 1 231 1 0.0 4 0 0 0 0 1 233 2 0.0 4 0 0 0 0 2 234 3 0.0 4 0 1 0 0 2 237 1 0.0 4 0 0 0 0 1 238 2 0.0 4 0 0 1 0 1 249 1 0.0 4 0 0 0 0 1 250 1 0.0 4 0 0 1 262 1 0.0 4 0 0 0 0 1 265 2 0.0 4 0 0 0 0 2 273 1 0.0 4 0 0 0 0 1 287 1 0.0 4 0 0 0 0 1 289 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 1.26 s (36 us/read; 1.66 M reads/minute). === Summary === Total reads processed: 34,827 Reads with adapters: 8,121 (23.3%) Reads written (passing filters): 34,827 (100.0%) Total basepairs processed: 9,429,141 bp Total written (filtered): 9,301,480 bp (98.6%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 8121 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 4.5% C: 8.9% G: 81.6% T: 5.0% 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 43 544.2 0 43 4 11 136.0 0 11 6 2 8.5 0 2 8 2 0.5 0 2 9 1735 0.1 0 130 1605 10 3621 0.0 1 229 3392 11 2058 0.0 1 75 1983 12 24 0.0 1 1 23 13 15 0.0 1 0 15 14 6 0.0 1 1 5 16 1 0.0 1 0 1 17 1 0.0 1 1 18 148 0.0 1 105 43 19 31 0.0 1 21 10 20 3 0.0 1 3 21 13 0.0 1 8 5 22 63 0.0 1 46 17 23 1 0.0 1 0 1 24 2 0.0 1 2 29 1 0.0 1 1 35 52 0.0 1 38 14 36 4 0.0 1 4 37 2 0.0 1 1 1 38 1 0.0 1 0 1 40 1 0.0 1 0 1 42 3 0.0 1 1 2 43 1 0.0 1 1 81 1 0.0 1 1 83 2 0.0 1 2 84 1 0.0 1 1 86 1 0.0 1 1 114 2 0.0 1 2 128 1 0.0 1 1 149 1 0.0 1 1 150 4 0.0 1 3 1 155 1 0.0 1 0 1 156 208 0.0 1 171 37 157 8 0.0 1 7 1 158 5 0.0 1 5 159 1 0.0 1 1 168 1 0.0 1 1 208 12 0.0 1 8 4 210 1 0.0 1 1 213 3 0.0 1 3 223 16 0.0 1 16 225 1 0.0 1 1 230 2 0.0 1 2 235 3 0.0 1 3 239 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.