This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CGGCCA -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 140.13 s (44 us/read; 1.36 M reads/minute). === Summary === Total reads processed: 3,166,434 Reads with adapters: 203,991 (6.4%) Reads that were too short: 72,662 (2.3%) Reads written (passing filters): 131,329 (4.1%) Total basepairs processed: 953,096,634 bp Total written (filtered): 33,741,101 bp (3.5%) === Adapter 1 === Sequence: CGGCCA; Type: regular 5'; Length: 6; Trimmed: 203991 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 9805 773.1 0 9805 7 38311 773.1 0 38311 8 2026 773.1 0 2026 9 45996 773.1 0 45996 10 80 773.1 0 80 11 184 773.1 0 184 12 67 773.1 0 67 13 17 773.1 0 17 14 24 773.1 0 24 15 12 773.1 0 12 16 22 773.1 0 22 17 23 773.1 0 23 18 15 773.1 0 15 19 30 773.1 0 30 20 33 773.1 0 33 21 47 773.1 0 47 22 31 773.1 0 31 23 21 773.1 0 21 24 36 773.1 0 36 25 22 773.1 0 22 26 21 773.1 0 21 27 28 773.1 0 28 28 18 773.1 0 18 29 15 773.1 0 15 30 25 773.1 0 25 31 29 773.1 0 29 32 58 773.1 0 58 33 28 773.1 0 28 34 28 773.1 0 28 35 27 773.1 0 27 36 20 773.1 0 20 37 41 773.1 0 41 38 37 773.1 0 37 39 33 773.1 0 33 40 61 773.1 0 61 41 298 773.1 0 298 42 343 773.1 0 343 43 247 773.1 0 247 44 30 773.1 0 30 45 25 773.1 0 25 46 34 773.1 0 34 47 39 773.1 0 39 48 37 773.1 0 37 49 44 773.1 0 44 50 65 773.1 0 65 51 66 773.1 0 66 52 57 773.1 0 57 53 30 773.1 0 30 54 45 773.1 0 45 55 48 773.1 0 48 56 42 773.1 0 42 57 24 773.1 0 24 58 31 773.1 0 31 59 30 773.1 0 30 60 23 773.1 0 23 61 18 773.1 0 18 62 33 773.1 0 33 63 46 773.1 0 46 64 266 773.1 0 266 65 245 773.1 0 245 66 266 773.1 0 266 67 25 773.1 0 25 68 29 773.1 0 29 69 30 773.1 0 30 70 35 773.1 0 35 71 41 773.1 0 41 72 57 773.1 0 57 73 110 773.1 0 110 74 765 773.1 0 765 75 488 773.1 0 488 76 566 773.1 0 566 77 27 773.1 0 27 78 42 773.1 0 42 79 32 773.1 0 32 80 46 773.1 0 46 81 40 773.1 0 40 82 29 773.1 0 29 83 34 773.1 0 34 84 30 773.1 0 30 85 23 773.1 0 23 86 33 773.1 0 33 87 142 773.1 0 142 88 132 773.1 0 132 89 236 773.1 0 236 90 26 773.1 0 26 91 23 773.1 0 23 92 46 773.1 0 46 93 41 773.1 0 41 94 31 773.1 0 31 95 30 773.1 0 30 96 27 773.1 0 27 97 25 773.1 0 25 98 29 773.1 0 29 99 40 773.1 0 40 100 39 773.1 0 39 101 23 773.1 0 23 102 25 773.1 0 25 103 21 773.1 0 21 104 29 773.1 0 29 105 32 773.1 0 32 106 18 773.1 0 18 107 17 773.1 0 17 108 27 773.1 0 27 109 30 773.1 0 30 110 25 773.1 0 25 111 28 773.1 0 28 112 32 773.1 0 32 113 30 773.1 0 30 114 29 773.1 0 29 115 38 773.1 0 38 116 31 773.1 0 31 117 44 773.1 0 44 118 47 773.1 0 47 119 28 773.1 0 28 120 30 773.1 0 30 121 23 773.1 0 23 122 35 773.1 0 35 123 34 773.1 0 34 124 35 773.1 0 35 125 62 773.1 0 62 126 50 773.1 0 50 127 64 773.1 0 64 128 57 773.1 0 57 129 43 773.1 0 43 130 25 773.1 0 25 131 38 773.1 0 38 132 58 773.1 0 58 133 35 773.1 0 35 134 45 773.1 0 45 135 37 773.1 0 37 136 35 773.1 0 35 137 76 773.1 0 76 138 70 773.1 0 70 139 54 773.1 0 54 140 27 773.1 0 27 141 35 773.1 0 35 142 88 773.1 0 88 143 92 773.1 0 92 144 73 773.1 0 73 145 44 773.1 0 44 146 59 773.1 0 59 147 58 773.1 0 58 148 65 773.1 0 65 149 100 773.1 0 100 150 194 773.1 0 194 151 1275 773.1 0 1275 152 1082 773.1 0 1082 153 905 773.1 0 905 154 349 773.1 0 349 155 243 773.1 0 243 156 2871 773.1 0 2871 157 2872 773.1 0 2872 158 3110 773.1 0 3110 159 727 773.1 0 727 160 109 773.1 0 109 161 85 773.1 0 85 162 73 773.1 0 73 163 114 773.1 0 114 164 603 773.1 0 603 165 344 773.1 0 344 166 351 773.1 0 351 167 182 773.1 0 182 168 196 773.1 0 196 169 178 773.1 0 178 170 525 773.1 0 525 171 900 773.1 0 900 172 691 773.1 0 691 173 257 773.1 0 257 174 127 773.1 0 127 175 208 773.1 0 208 176 1155 773.1 0 1155 177 1464 773.1 0 1464 178 1436 773.1 0 1436 179 670 773.1 0 670 180 273 773.1 0 273 181 220 773.1 0 220 182 242 773.1 0 242 183 146 773.1 0 146 184 102 773.1 0 102 185 112 773.1 0 112 186 100 773.1 0 100 187 59 773.1 0 59 188 225 773.1 0 225 189 192 773.1 0 192 190 143 773.1 0 143 191 55 773.1 0 55 192 48 773.1 0 48 193 41 773.1 0 41 194 65 773.1 0 65 195 75 773.1 0 75 196 82 773.1 0 82 197 48 773.1 0 48 198 57 773.1 0 57 199 60 773.1 0 60 200 236 773.1 0 236 201 299 773.1 0 299 202 192 773.1 0 192 203 74 773.1 0 74 204 47 773.1 0 47 205 73 773.1 0 73 206 71 773.1 0 71 207 68 773.1 0 68 208 44 773.1 0 44 209 43 773.1 0 43 210 49 773.1 0 49 211 33 773.1 0 33 212 42 773.1 0 42 213 42 773.1 0 42 214 87 773.1 0 87 215 153 773.1 0 153 216 131 773.1 0 131 217 54 773.1 0 54 218 60 773.1 0 60 219 75 773.1 0 75 220 57 773.1 0 57 221 59 773.1 0 59 222 67 773.1 0 67 223 81 773.1 0 81 224 88 773.1 0 88 225 91 773.1 0 91 226 79 773.1 0 79 227 82 773.1 0 82 228 115 773.1 0 115 229 144 773.1 0 144 230 176 773.1 0 176 231 95 773.1 0 95 232 277 773.1 0 277 233 820 773.1 0 820 234 420 773.1 0 420 235 364 773.1 0 364 236 554 773.1 0 554 237 314 773.1 0 314 238 482 773.1 0 482 239 126 773.1 0 126 240 165 773.1 0 165 241 76 773.1 0 76 242 77 773.1 0 77 243 87 773.1 0 87 244 74 773.1 0 74 245 106 773.1 0 106 246 69 773.1 0 69 247 86 773.1 0 86 248 167 773.1 0 167 249 501 773.1 0 501 250 496 773.1 0 496 251 456 773.1 0 456 252 211 773.1 0 211 253 837 773.1 0 837 254 559 773.1 0 559 255 910 773.1 0 910 256 159 773.1 0 159 257 342 773.1 0 342 258 455 773.1 0 455 259 800 773.1 0 800 260 1020 773.1 0 1020 261 6042 773.1 0 6042 262 9920 773.1 0 9920 263 13565 773.1 0 13565 264 10258 773.1 0 10258 265 4441 773.1 0 4441 266 92 773.1 0 92 267 74 773.1 0 74 268 81 773.1 0 81 269 95 773.1 0 95 270 81 773.1 0 81 271 52 773.1 0 52 272 66 773.1 0 66 273 91 773.1 0 91 274 99 773.1 0 99 275 85 773.1 0 85 276 113 773.1 0 113 277 282 773.1 0 282 278 215 773.1 0 215 279 128 773.1 0 128 280 136 773.1 0 136 281 129 773.1 0 129 282 254 773.1 0 254 283 209 773.1 0 209 284 185 773.1 0 185 285 123 773.1 0 123 286 119 773.1 0 119 287 872 773.1 0 872 288 1487 773.1 0 1487 289 927 773.1 0 927 290 179 773.1 0 179 291 229 773.1 0 229 292 621 773.1 0 621 293 589 773.1 0 589 294 481 773.1 0 481 295 561 773.1 0 561 296 472 773.1 0 472 297 691 773.1 0 691 298 1367 773.1 0 1367 299 1455 773.1 0 1455 300 1979 773.1 0 1979 301 335 773.1 0 335 Finished in 9.37 s (71 us/read; 0.84 M reads/minute). === Summary === Total reads processed: 131,329 Reads with adapters: 47,425 (36.1%) Reads that were too short: 50 (0.0%) Reads written (passing filters): 47,375 (36.1%) Total basepairs processed: 33,741,101 bp Total written (filtered): 12,945,990 bp (38.4%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 47425 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 18 3 0.0 3 0 0 1 2 19 258 0.0 3 0 205 35 14 4 20 41083 0.0 4 39410 1388 214 54 17 21 83 0.0 4 8 66 3 6 22 101 0.0 4 10 81 7 1 2 23 5564 0.0 4 5235 231 39 48 11 24 17 0.0 4 9 7 0 1 26 17 0.0 4 0 0 0 11 6 28 1 0.0 4 0 0 0 0 1 64 6 0.0 4 0 0 0 0 6 65 3 0.0 4 0 0 0 0 3 66 2 0.0 4 0 0 0 0 2 67 1 0.0 4 0 0 0 0 1 68 1 0.0 4 0 0 0 0 1 70 30 0.0 4 0 0 0 0 30 75 1 0.0 4 0 0 0 1 77 2 0.0 4 0 0 0 0 2 78 1 0.0 4 0 0 0 0 1 88 1 0.0 4 0 0 0 0 1 92 1 0.0 4 0 0 0 0 1 94 3 0.0 4 0 0 0 0 3 102 1 0.0 4 0 0 0 0 1 103 1 0.0 4 0 0 0 0 1 105 1 0.0 4 0 0 0 0 1 113 2 0.0 4 0 0 0 0 2 114 2 0.0 4 0 0 0 0 2 115 3 0.0 4 0 0 0 0 3 122 1 0.0 4 0 0 0 0 1 123 1 0.0 4 0 0 0 0 1 124 2 0.0 4 0 0 0 0 2 125 1 0.0 4 0 0 0 0 1 126 3 0.0 4 0 0 0 0 3 127 198 0.0 4 0 0 0 0 198 128 1 0.0 4 0 0 0 0 1 132 1 0.0 4 0 0 0 0 1 135 2 0.0 4 0 0 0 0 2 137 1 0.0 4 0 0 1 140 1 0.0 4 0 0 0 0 1 144 3 0.0 4 0 0 0 0 3 153 1 0.0 4 0 0 0 0 1 168 1 0.0 4 0 0 0 0 1 196 1 0.0 4 0 0 0 0 1 203 1 0.0 4 0 0 0 0 1 208 1 0.0 4 0 0 0 0 1 214 3 0.0 4 0 0 0 0 3 228 1 0.0 4 0 0 0 0 1 229 1 0.0 4 0 0 0 0 1 236 1 0.0 4 0 0 0 0 1 253 1 0.0 4 0 0 0 0 1 260 2 0.0 4 0 0 0 0 2 262 2 0.0 4 0 0 0 0 2 281 2 0.0 4 0 0 0 0 2 285 1 0.0 4 0 0 0 0 1 291 1 0.0 4 0 0 0 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 2.61 s (55 us/read; 1.09 M reads/minute). === Summary === Total reads processed: 47,375 Reads with adapters: 6,755 (14.3%) Reads written (passing filters): 47,375 (100.0%) Total basepairs processed: 12,945,990 bp Total written (filtered): 12,870,567 bp (99.4%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 6755 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.7% C: 5.1% G: 91.4% T: 1.8% 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 3 110 740.2 0 110 4 20 185.1 0 20 5 4 46.3 0 4 8 1 0.7 0 1 9 651 0.2 0 44 607 10 671 0.0 1 45 626 11 4963 0.0 1 90 4873 12 298 0.0 1 18 280 13 9 0.0 1 1 8 14 1 0.0 1 0 1 15 3 0.0 1 0 3 114 3 0.0 1 3 120 1 0.0 1 1 152 7 0.0 1 5 2 153 2 0.0 1 1 1 171 1 0.0 1 1 189 1 0.0 1 0 1 191 2 0.0 1 0 2 192 2 0.0 1 0 2 208 3 0.0 1 3 225 1 0.0 1 1 264 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.