This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AATCCT -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 73.67 s (28 us/read; 2.16 M reads/minute). === Summary === Total reads processed: 2,658,179 Reads with adapters: 1,128,227 (42.4%) Reads that were too short: 37,674 (1.4%) Reads written (passing filters): 1,090,553 (41.0%) Total basepairs processed: 800,111,879 bp Total written (filtered): 296,804,147 bp (37.1%) === Adapter 1 === Sequence: AATCCT; Type: regular 5'; Length: 6; Trimmed: 1128227 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1896 649.0 0 1896 7 65886 649.0 0 65886 8 3737 649.0 0 3737 9 65282 649.0 0 65282 10 410 649.0 0 410 11 277 649.0 0 277 12 693 649.0 0 693 13 1762 649.0 0 1762 14 476 649.0 0 476 15 1051 649.0 0 1051 16 411 649.0 0 411 17 548 649.0 0 548 18 1180 649.0 0 1180 19 672 649.0 0 672 20 606 649.0 0 606 21 233 649.0 0 233 22 540 649.0 0 540 23 1489 649.0 0 1489 24 1973 649.0 0 1973 25 3350 649.0 0 3350 26 5870 649.0 0 5870 27 6710 649.0 0 6710 28 14665 649.0 0 14665 29 28362 649.0 0 28362 30 314605 649.0 0 314605 31 322632 649.0 0 322632 32 229673 649.0 0 229673 33 987 649.0 0 987 34 131 649.0 0 131 35 283 649.0 0 283 36 137 649.0 0 137 37 576 649.0 0 576 38 43 649.0 0 43 39 23 649.0 0 23 40 35 649.0 0 35 41 28 649.0 0 28 42 26 649.0 0 26 43 47 649.0 0 47 44 80 649.0 0 80 45 29 649.0 0 29 46 27 649.0 0 27 47 34 649.0 0 34 48 17 649.0 0 17 49 23 649.0 0 23 50 22 649.0 0 22 51 31 649.0 0 31 52 28 649.0 0 28 53 25 649.0 0 25 54 280 649.0 0 280 55 301 649.0 0 301 56 373 649.0 0 373 57 26 649.0 0 26 58 23 649.0 0 23 59 19 649.0 0 19 60 33 649.0 0 33 61 53 649.0 0 53 62 23 649.0 0 23 63 28 649.0 0 28 64 12 649.0 0 12 65 21 649.0 0 21 66 19 649.0 0 19 67 50 649.0 0 50 68 29 649.0 0 29 69 29 649.0 0 29 70 61 649.0 0 61 71 69 649.0 0 69 72 29 649.0 0 29 73 37 649.0 0 37 74 65 649.0 0 65 75 23 649.0 0 23 76 63 649.0 0 63 77 151 649.0 0 151 78 12 649.0 0 12 79 32 649.0 0 32 80 67 649.0 0 67 81 56 649.0 0 56 82 80 649.0 0 80 83 72 649.0 0 72 84 37 649.0 0 37 85 41 649.0 0 41 86 31 649.0 0 31 87 45 649.0 0 45 88 51 649.0 0 51 89 56 649.0 0 56 90 35 649.0 0 35 91 53 649.0 0 53 92 59 649.0 0 59 93 31 649.0 0 31 94 28 649.0 0 28 95 30 649.0 0 30 96 30 649.0 0 30 97 75 649.0 0 75 98 39 649.0 0 39 99 22 649.0 0 22 100 37 649.0 0 37 101 72 649.0 0 72 102 215 649.0 0 215 103 243 649.0 0 243 104 934 649.0 0 934 105 619 649.0 0 619 106 518 649.0 0 518 107 159 649.0 0 159 108 15 649.0 0 15 109 34 649.0 0 34 110 36 649.0 0 36 111 48 649.0 0 48 112 64 649.0 0 64 113 54 649.0 0 54 114 35 649.0 0 35 115 48 649.0 0 48 116 95 649.0 0 95 117 43 649.0 0 43 118 59 649.0 0 59 119 74 649.0 0 74 120 45 649.0 0 45 121 45 649.0 0 45 122 57 649.0 0 57 123 72 649.0 0 72 124 131 649.0 0 131 125 226 649.0 0 226 126 190 649.0 0 190 127 77 649.0 0 77 128 59 649.0 0 59 129 136 649.0 0 136 130 36 649.0 0 36 131 40 649.0 0 40 132 40 649.0 0 40 133 52 649.0 0 52 134 65 649.0 0 65 135 97 649.0 0 97 136 64 649.0 0 64 137 385 649.0 0 385 138 295 649.0 0 295 139 348 649.0 0 348 140 91 649.0 0 91 141 90 649.0 0 90 142 144 649.0 0 144 143 131 649.0 0 131 144 47 649.0 0 47 145 34 649.0 0 34 146 50 649.0 0 50 147 77 649.0 0 77 148 74 649.0 0 74 149 105 649.0 0 105 150 75 649.0 0 75 151 56 649.0 0 56 152 39 649.0 0 39 153 40 649.0 0 40 154 39 649.0 0 39 155 31 649.0 0 31 156 50 649.0 0 50 157 44 649.0 0 44 158 66 649.0 0 66 159 169 649.0 0 169 160 104 649.0 0 104 161 203 649.0 0 203 162 54 649.0 0 54 163 63 649.0 0 63 164 58 649.0 0 58 165 87 649.0 0 87 166 59 649.0 0 59 167 96 649.0 0 96 168 80 649.0 0 80 169 61 649.0 0 61 170 33 649.0 0 33 171 77 649.0 0 77 172 128 649.0 0 128 173 56 649.0 0 56 174 41 649.0 0 41 175 41 649.0 0 41 176 37 649.0 0 37 177 57 649.0 0 57 178 43 649.0 0 43 179 56 649.0 0 56 180 65 649.0 0 65 181 50 649.0 0 50 182 90 649.0 0 90 183 92 649.0 0 92 184 109 649.0 0 109 185 73 649.0 0 73 186 45 649.0 0 45 187 52 649.0 0 52 188 61 649.0 0 61 189 77 649.0 0 77 190 42 649.0 0 42 191 44 649.0 0 44 192 49 649.0 0 49 193 55 649.0 0 55 194 80 649.0 0 80 195 50 649.0 0 50 196 47 649.0 0 47 197 29 649.0 0 29 198 36 649.0 0 36 199 73 649.0 0 73 200 77 649.0 0 77 201 89 649.0 0 89 202 57 649.0 0 57 203 61 649.0 0 61 204 114 649.0 0 114 205 478 649.0 0 478 206 346 649.0 0 346 207 296 649.0 0 296 208 35 649.0 0 35 209 55 649.0 0 55 210 45 649.0 0 45 211 58 649.0 0 58 212 59 649.0 0 59 213 66 649.0 0 66 214 38 649.0 0 38 215 69 649.0 0 69 216 50 649.0 0 50 217 46 649.0 0 46 218 53 649.0 0 53 219 74 649.0 0 74 220 91 649.0 0 91 221 71 649.0 0 71 222 36 649.0 0 36 223 39 649.0 0 39 224 52 649.0 0 52 225 66 649.0 0 66 226 295 649.0 0 295 227 172 649.0 0 172 228 180 649.0 0 180 229 52 649.0 0 52 230 79 649.0 0 79 231 130 649.0 0 130 232 124 649.0 0 124 233 143 649.0 0 143 234 57 649.0 0 57 235 42 649.0 0 42 236 97 649.0 0 97 237 47 649.0 0 47 238 40 649.0 0 40 239 53 649.0 0 53 240 78 649.0 0 78 241 136 649.0 0 136 242 66 649.0 0 66 243 73 649.0 0 73 244 77 649.0 0 77 245 83 649.0 0 83 246 122 649.0 0 122 247 160 649.0 0 160 248 125 649.0 0 125 249 114 649.0 0 114 250 174 649.0 0 174 251 147 649.0 0 147 252 190 649.0 0 190 253 358 649.0 0 358 254 4245 649.0 0 4245 255 1674 649.0 0 1674 256 3287 649.0 0 3287 257 510 649.0 0 510 258 391 649.0 0 391 259 516 649.0 0 516 260 6530 649.0 0 6530 261 4506 649.0 0 4506 262 2720 649.0 0 2720 263 215 649.0 0 215 264 162 649.0 0 162 265 93 649.0 0 93 266 76 649.0 0 76 267 152 649.0 0 152 268 165 649.0 0 165 269 168 649.0 0 168 270 223 649.0 0 223 271 81 649.0 0 81 272 158 649.0 0 158 273 244 649.0 0 244 274 316 649.0 0 316 275 748 649.0 0 748 276 800 649.0 0 800 277 650 649.0 0 650 278 256 649.0 0 256 279 280 649.0 0 280 280 569 649.0 0 569 281 478 649.0 0 478 282 363 649.0 0 363 283 248 649.0 0 248 284 37 649.0 0 37 285 52 649.0 0 52 286 64 649.0 0 64 287 62 649.0 0 62 288 61 649.0 0 61 289 48 649.0 0 48 290 61 649.0 0 61 291 61 649.0 0 61 292 62 649.0 0 62 293 61 649.0 0 61 294 95 649.0 0 95 295 73 649.0 0 73 296 90 649.0 0 90 297 37 649.0 0 37 298 40 649.0 0 40 299 48 649.0 0 48 300 50 649.0 0 50 301 79 649.0 0 79 Finished in 50.82 s (47 us/read; 1.29 M reads/minute). === Summary === Total reads processed: 1,090,553 Reads with adapters: 67,095 (6.2%) Reads that were too short: 103 (0.0%) Reads written (passing filters): 66,992 (6.1%) Total basepairs processed: 296,804,147 bp Total written (filtered): 18,263,664 bp (6.2%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 67095 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 1 0.0 3 0 0 0 1 18 19 0.0 3 0 0 14 4 1 19 593 0.0 3 0 530 38 21 4 20 65335 0.0 4 62428 2420 367 96 24 21 150 0.0 4 13 121 8 4 4 22 13 0.0 4 0 2 6 1 4 23 103 0.0 4 0 0 0 73 30 24 1 0.0 4 0 0 0 0 1 26 1 0.0 4 0 0 0 0 1 34 1 0.0 4 0 0 0 0 1 35 2 0.0 4 0 0 0 0 2 40 1 0.0 4 0 0 0 0 1 50 1 0.0 4 0 0 0 0 1 61 1 0.0 4 1 62 1 0.0 4 1 79 1 0.0 4 0 0 0 1 80 8 0.0 4 0 0 0 0 8 84 13 0.0 4 0 0 0 1 12 85 1 0.0 4 0 0 0 0 1 89 1 0.0 4 0 0 0 0 1 92 1 0.0 4 0 0 0 0 1 96 1 0.0 4 0 0 0 0 1 99 1 0.0 4 1 100 1 0.0 4 0 1 101 1 0.0 4 0 0 0 0 1 103 1 0.0 4 0 0 0 1 109 1 0.0 4 0 0 0 0 1 111 1 0.0 4 0 0 0 0 1 114 1 0.0 4 0 0 0 0 1 115 1 0.0 4 0 0 0 1 117 1 0.0 4 1 120 1 0.0 4 1 122 1 0.0 4 0 0 1 124 2 0.0 4 0 0 0 0 2 125 2 0.0 4 0 0 0 0 2 126 6 0.0 4 0 0 0 0 6 127 508 0.0 4 0 0 0 0 508 128 2 0.0 4 0 0 0 0 2 129 4 0.0 4 0 0 0 0 4 130 10 0.0 4 0 0 0 0 10 138 1 0.0 4 0 1 142 14 0.0 4 0 0 0 0 14 143 2 0.0 4 0 0 0 0 2 144 1 0.0 4 0 0 0 1 147 1 0.0 4 0 0 0 0 1 148 142 0.0 4 0 0 0 0 142 149 19 0.0 4 0 0 0 0 19 150 1 0.0 4 0 0 0 0 1 152 1 0.0 4 0 0 0 0 1 153 4 0.0 4 0 0 0 1 3 155 2 0.0 4 0 0 0 0 2 166 1 0.0 4 0 0 0 0 1 167 1 0.0 4 0 0 0 0 1 169 16 0.0 4 0 0 0 0 16 178 1 0.0 4 0 0 0 0 1 180 2 0.0 4 0 0 0 0 2 182 4 0.0 4 0 0 0 1 3 185 1 0.0 4 0 0 0 0 1 191 1 0.0 4 0 0 0 0 1 192 1 0.0 4 0 0 0 0 1 193 1 0.0 4 0 0 0 0 1 196 1 0.0 4 0 0 0 1 202 1 0.0 4 0 0 0 0 1 204 1 0.0 4 0 0 0 0 1 206 1 0.0 4 0 0 0 0 1 207 4 0.0 4 0 0 0 1 3 208 2 0.0 4 0 0 0 0 2 209 2 0.0 4 0 0 0 0 2 210 1 0.0 4 0 0 0 0 1 212 1 0.0 4 0 0 0 0 1 214 3 0.0 4 0 0 0 1 2 215 1 0.0 4 0 0 0 0 1 217 1 0.0 4 0 0 0 0 1 220 2 0.0 4 0 0 0 0 2 225 1 0.0 4 0 0 0 0 1 226 1 0.0 4 0 0 0 0 1 227 2 0.0 4 0 0 0 1 1 228 23 0.0 4 0 0 0 1 22 229 11 0.0 4 0 0 0 0 11 230 3 0.0 4 0 0 0 0 3 234 5 0.0 4 0 0 0 0 5 235 1 0.0 4 0 0 0 0 1 240 1 0.0 4 0 0 0 0 1 252 1 0.0 4 0 0 0 0 1 254 1 0.0 4 0 0 0 0 1 255 2 0.0 4 0 0 0 0 2 258 1 0.0 4 0 0 0 0 1 259 1 0.0 4 0 0 0 0 1 264 3 0.0 4 0 0 0 0 3 265 1 0.0 4 0 0 0 0 1 280 2 0.0 4 0 0 0 0 2 282 1 0.0 4 0 0 0 0 1 285 1 0.0 4 0 0 0 0 1 292 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 2.32 s (35 us/read; 1.73 M reads/minute). === Summary === Total reads processed: 66,992 Reads with adapters: 3,298 (4.9%) Reads written (passing filters): 66,992 (100.0%) Total basepairs processed: 18,263,664 bp Total written (filtered): 18,193,704 bp (99.6%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 3298 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 8.7% C: 15.4% G: 73.6% T: 2.3% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 267 1046.8 0 267 4 32 261.7 0 32 5 3 65.4 0 3 6 1 16.4 0 1 8 1 1.0 0 1 9 15 0.3 0 1 14 10 46 0.1 1 2 44 11 2153 0.0 1 86 2067 12 514 0.0 1 15 499 13 67 0.0 1 1 66 14 2 0.0 1 0 2 15 6 0.0 1 0 6 16 2 0.0 1 0 2 20 3 0.0 1 2 1 21 3 0.0 1 2 1 24 25 0.0 1 17 8 32 1 0.0 1 1 94 14 0.0 1 10 4 114 1 0.0 1 1 115 1 0.0 1 1 152 6 0.0 1 3 3 198 1 0.0 1 1 210 32 0.0 1 22 10 225 3 0.0 1 2 1 268 1 0.0 1 1 269 1 0.0 1 1 270 94 0.0 1 90 4 271 3 0.0 1 2 1