This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g ACGCGC -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 105.88 s (33 us/read; 1.80 M reads/minute). === Summary === Total reads processed: 3,184,960 Reads with adapters: 428,413 (13.5%) Reads that were too short: 168,077 (5.3%) Reads written (passing filters): 260,336 (8.2%) Total basepairs processed: 958,672,960 bp Total written (filtered): 75,559,731 bp (7.9%) === Adapter 1 === Sequence: ACGCGC; Type: regular 5'; Length: 6; Trimmed: 428413 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 3589 777.6 0 3589 7 244157 777.6 0 244157 8 333 777.6 0 333 9 4881 777.6 0 4881 10 35 777.6 0 35 11 28 777.6 0 28 12 27 777.6 0 27 13 19 777.6 0 19 14 22 777.6 0 22 15 23 777.6 0 23 16 27 777.6 0 27 17 42 777.6 0 42 18 35 777.6 0 35 19 26 777.6 0 26 20 26 777.6 0 26 21 27 777.6 0 27 22 20 777.6 0 20 23 20 777.6 0 20 24 13 777.6 0 13 25 12 777.6 0 12 26 19 777.6 0 19 27 16 777.6 0 16 28 19 777.6 0 19 29 13 777.6 0 13 30 19 777.6 0 19 31 27 777.6 0 27 32 14 777.6 0 14 33 13 777.6 0 13 34 12 777.6 0 12 35 15 777.6 0 15 36 20 777.6 0 20 37 12 777.6 0 12 38 12 777.6 0 12 39 21 777.6 0 21 40 17 777.6 0 17 41 11 777.6 0 11 42 15 777.6 0 15 43 20 777.6 0 20 44 9 777.6 0 9 45 15 777.6 0 15 46 17 777.6 0 17 47 68 777.6 0 68 48 28 777.6 0 28 49 32 777.6 0 32 50 24 777.6 0 24 51 19 777.6 0 19 52 13 777.6 0 13 53 20 777.6 0 20 54 20 777.6 0 20 55 27 777.6 0 27 56 12 777.6 0 12 57 15 777.6 0 15 58 11 777.6 0 11 59 13 777.6 0 13 60 10 777.6 0 10 61 18 777.6 0 18 62 19 777.6 0 19 63 14 777.6 0 14 64 12 777.6 0 12 65 9 777.6 0 9 66 8 777.6 0 8 67 10 777.6 0 10 68 3 777.6 0 3 69 9 777.6 0 9 70 12 777.6 0 12 71 15 777.6 0 15 72 38 777.6 0 38 73 42 777.6 0 42 74 25 777.6 0 25 75 11 777.6 0 11 76 8 777.6 0 8 77 9 777.6 0 9 78 22 777.6 0 22 79 9 777.6 0 9 80 11 777.6 0 11 81 7 777.6 0 7 82 23 777.6 0 23 83 43 777.6 0 43 84 23 777.6 0 23 85 35 777.6 0 35 86 10 777.6 0 10 87 24 777.6 0 24 88 16 777.6 0 16 89 17 777.6 0 17 90 10 777.6 0 10 91 19 777.6 0 19 92 8 777.6 0 8 93 35 777.6 0 35 94 27 777.6 0 27 95 19 777.6 0 19 96 8 777.6 0 8 97 2 777.6 0 2 98 8 777.6 0 8 99 12 777.6 0 12 100 13 777.6 0 13 101 19 777.6 0 19 102 12 777.6 0 12 103 10 777.6 0 10 104 9 777.6 0 9 105 6 777.6 0 6 106 5 777.6 0 5 107 9 777.6 0 9 108 15 777.6 0 15 109 8 777.6 0 8 110 5 777.6 0 5 111 8 777.6 0 8 112 15 777.6 0 15 113 30 777.6 0 30 114 13 777.6 0 13 115 13 777.6 0 13 116 35 777.6 0 35 117 32 777.6 0 32 118 28 777.6 0 28 119 41 777.6 0 41 120 14 777.6 0 14 121 35 777.6 0 35 122 21 777.6 0 21 123 130 777.6 0 130 124 61 777.6 0 61 125 127 777.6 0 127 126 45 777.6 0 45 127 83 777.6 0 83 128 152 777.6 0 152 129 18 777.6 0 18 130 24 777.6 0 24 131 9 777.6 0 9 132 24 777.6 0 24 133 15 777.6 0 15 134 23 777.6 0 23 135 18 777.6 0 18 136 25 777.6 0 25 137 33 777.6 0 33 138 28 777.6 0 28 139 32 777.6 0 32 140 13 777.6 0 13 141 20 777.6 0 20 142 14 777.6 0 14 143 9 777.6 0 9 144 16 777.6 0 16 145 25 777.6 0 25 146 27 777.6 0 27 147 22 777.6 0 22 148 6 777.6 0 6 149 21 777.6 0 21 150 42 777.6 0 42 151 39 777.6 0 39 152 56 777.6 0 56 153 18 777.6 0 18 154 29 777.6 0 29 155 29 777.6 0 29 156 31 777.6 0 31 157 53 777.6 0 53 158 48 777.6 0 48 159 44 777.6 0 44 160 69 777.6 0 69 161 87 777.6 0 87 162 79 777.6 0 79 163 42 777.6 0 42 164 49 777.6 0 49 165 183 777.6 0 183 166 272 777.6 0 272 167 333 777.6 0 333 168 63 777.6 0 63 169 49 777.6 0 49 170 49 777.6 0 49 171 53 777.6 0 53 172 88 777.6 0 88 173 30 777.6 0 30 174 25 777.6 0 25 175 4 777.6 0 4 176 11 777.6 0 11 177 21 777.6 0 21 178 43 777.6 0 43 179 53 777.6 0 53 180 67 777.6 0 67 181 72 777.6 0 72 182 53 777.6 0 53 183 35 777.6 0 35 184 46 777.6 0 46 185 263 777.6 0 263 186 170 777.6 0 170 187 267 777.6 0 267 188 457 777.6 0 457 189 67 777.6 0 67 190 40 777.6 0 40 191 53 777.6 0 53 192 49 777.6 0 49 193 26 777.6 0 26 194 17 777.6 0 17 195 23 777.6 0 23 196 20 777.6 0 20 197 74 777.6 0 74 198 186 777.6 0 186 199 59 777.6 0 59 200 180 777.6 0 180 201 44 777.6 0 44 202 25 777.6 0 25 203 51 777.6 0 51 204 83 777.6 0 83 205 39 777.6 0 39 206 45 777.6 0 45 207 78 777.6 0 78 208 28 777.6 0 28 209 53 777.6 0 53 210 336 777.6 0 336 211 67 777.6 0 67 212 38 777.6 0 38 213 36 777.6 0 36 214 37 777.6 0 37 215 52 777.6 0 52 216 68 777.6 0 68 217 177 777.6 0 177 218 337 777.6 0 337 219 194 777.6 0 194 220 636 777.6 0 636 221 1960 777.6 0 1960 222 3417 777.6 0 3417 223 2134 777.6 0 2134 224 1111 777.6 0 1111 225 447 777.6 0 447 226 344 777.6 0 344 227 447 777.6 0 447 228 83 777.6 0 83 229 154 777.6 0 154 230 213 777.6 0 213 231 304 777.6 0 304 232 630 777.6 0 630 233 822 777.6 0 822 234 1316 777.6 0 1316 235 2056 777.6 0 2056 236 2668 777.6 0 2668 237 30343 777.6 0 30343 238 66625 777.6 0 66625 239 31853 777.6 0 31853 240 2852 777.6 0 2852 241 1654 777.6 0 1654 242 221 777.6 0 221 243 129 777.6 0 129 244 327 777.6 0 327 245 2218 777.6 0 2218 246 2388 777.6 0 2388 247 2693 777.6 0 2693 248 356 777.6 0 356 249 1205 777.6 0 1205 250 336 777.6 0 336 251 702 777.6 0 702 252 233 777.6 0 233 253 93 777.6 0 93 254 72 777.6 0 72 255 111 777.6 0 111 256 37 777.6 0 37 257 60 777.6 0 60 258 7 777.6 0 7 259 4 777.6 0 4 260 6 777.6 0 6 261 3 777.6 0 3 262 12 777.6 0 12 263 30 777.6 0 30 264 49 777.6 0 49 265 44 777.6 0 44 266 54 777.6 0 54 267 20 777.6 0 20 268 44 777.6 0 44 269 81 777.6 0 81 270 51 777.6 0 51 271 74 777.6 0 74 272 163 777.6 0 163 273 176 777.6 0 176 274 91 777.6 0 91 275 29 777.6 0 29 276 19 777.6 0 19 277 45 777.6 0 45 278 56 777.6 0 56 279 98 777.6 0 98 280 36 777.6 0 36 281 34 777.6 0 34 282 69 777.6 0 69 283 56 777.6 0 56 284 68 777.6 0 68 285 77 777.6 0 77 286 104 777.6 0 104 287 64 777.6 0 64 288 21 777.6 0 21 289 118 777.6 0 118 290 327 777.6 0 327 291 454 777.6 0 454 292 124 777.6 0 124 293 28 777.6 0 28 294 63 777.6 0 63 295 79 777.6 0 79 296 122 777.6 0 122 297 19 777.6 0 19 298 41 777.6 0 41 299 7 777.6 0 7 300 6 777.6 0 6 301 10 777.6 0 10 Finished in 14.46 s (56 us/read; 1.08 M reads/minute). === Summary === Total reads processed: 260,336 Reads with adapters: 5,387 (2.1%) Reads that were too short: 314 (0.1%) Reads written (passing filters): 5,073 (1.9%) Total basepairs processed: 75,559,731 bp Total written (filtered): 1,388,457 bp (1.8%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 5387 times. No. of allowed errors: 0-4 bp: 0; 5-9 bp: 1; 10-14 bp: 2; 15-17 bp: 3 Overview of removed sequences length count expect max.err error counts 16 28 0.0 3 0 25 1 2 17 4972 0.0 3 4769 168 24 11 18 9 0.0 3 0 2 1 6 19 10 0.0 3 1 0 4 5 20 7 0.0 3 0 0 0 7 21 3 0.0 3 0 0 0 3 22 1 0.0 3 0 0 0 1 32 2 0.0 3 0 0 0 2 35 2 0.0 3 0 0 0 2 48 2 0.0 3 0 0 0 2 50 1 0.0 3 0 0 0 1 51 2 0.0 3 0 0 0 2 59 2 0.0 3 0 0 0 2 66 1 0.0 3 0 0 0 1 74 1 0.0 3 0 0 0 1 77 1 0.0 3 0 0 0 1 84 1 0.0 3 0 0 0 1 85 1 0.0 3 0 0 0 1 90 1 0.0 3 0 0 0 1 94 1 0.0 3 0 0 0 1 96 1 0.0 3 0 0 0 1 101 1 0.0 3 0 0 0 1 102 1 0.0 3 0 0 0 1 112 1 0.0 3 0 0 1 118 2 0.0 3 0 0 0 2 127 2 0.0 3 0 0 0 2 128 1 0.0 3 0 0 0 1 130 1 0.0 3 0 0 0 1 131 2 0.0 3 0 0 0 2 136 1 0.0 3 0 0 0 1 150 3 0.0 3 0 0 0 3 151 1 0.0 3 0 0 1 156 2 0.0 3 0 0 0 2 160 1 0.0 3 0 0 0 1 163 1 0.0 3 0 0 0 1 164 1 0.0 3 0 0 0 1 165 1 0.0 3 0 0 1 173 1 0.0 3 0 0 0 1 178 1 0.0 3 0 0 0 1 186 1 0.0 3 0 0 0 1 191 2 0.0 3 0 0 0 2 192 13 0.0 3 0 0 0 13 193 1 0.0 3 0 0 0 1 194 1 0.0 3 0 0 0 1 195 1 0.0 3 0 0 0 1 204 1 0.0 3 0 0 0 1 216 1 0.0 3 0 0 0 1 217 87 0.0 3 0 0 3 84 218 1 0.0 3 0 0 0 1 221 3 0.0 3 0 0 0 3 227 1 0.0 3 0 0 0 1 232 1 0.0 3 0 0 0 1 238 1 0.0 3 0 0 0 1 243 1 0.0 3 0 0 0 1 244 1 0.0 3 0 0 0 1 252 1 0.0 3 0 0 0 1 262 1 0.0 3 0 0 0 1 268 1 0.0 3 0 0 0 1 270 5 0.0 3 0 0 0 5 271 1 0.0 3 0 0 0 1 279 2 0.0 3 0 0 0 2 280 2 0.0 3 0 0 0 2 281 46 0.0 3 0 0 0 46 282 101 0.0 3 0 0 1 100 283 20 0.0 3 0 0 0 20 288 5 0.0 3 0 0 0 5 289 7 0.0 3 0 0 0 7 290 3 0.0 3 0 0 0 3 293 1 0.0 3 0 0 0 1 294 1 0.0 3 0 0 0 1 This is cutadapt 1.11 with Python 2.7.12 Command line parameters: -a taatctatgggnncatcagg - Trimming 1 adapter with at most 10.0% errors in single-end mode ... Finished in 0.23 s (45 us/read; 1.32 M reads/minute). === Summary === Total reads processed: 5,073 Reads with adapters: 441 (8.7%) Reads written (passing filters): 5,073 (100.0%) Total basepairs processed: 1,388,457 bp Total written (filtered): 1,387,100 bp (99.9%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 441 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 36.5% C: 10.7% G: 39.9% T: 12.9% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 407 79.3 0 407 4 34 19.8 0 34