This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CACTCT -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 59.60 s (27 us/read; 2.25 M reads/minute). === Summary === Total reads processed: 2,238,925 Reads with adapters: 304,499 (13.6%) Reads that were too short: 11,764 (0.5%) Reads written (passing filters): 292,735 (13.1%) Total basepairs processed: 673,916,425 bp Total written (filtered): 44,327,515 bp (6.6%) === Adapter 1 === Sequence: CACTCT; Type: regular 5'; Length: 6; Trimmed: 304499 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 182 546.6 0 182 7 4446 546.6 0 4446 8 49 546.6 0 49 9 4085 546.6 0 4085 10 20 546.6 0 20 11 14 546.6 0 14 12 16 546.6 0 16 13 18 546.6 0 18 14 26 546.6 0 26 15 18 546.6 0 18 16 21 546.6 0 21 17 17 546.6 0 17 18 22 546.6 0 22 19 17 546.6 0 17 20 9 546.6 0 9 21 15 546.6 0 15 22 44 546.6 0 44 23 27 546.6 0 27 24 42 546.6 0 42 25 33 546.6 0 33 26 21 546.6 0 21 27 20 546.6 0 20 28 13 546.6 0 13 29 13 546.6 0 13 30 27 546.6 0 27 31 37 546.6 0 37 32 24 546.6 0 24 33 21 546.6 0 21 34 27 546.6 0 27 35 34 546.6 0 34 36 30 546.6 0 30 37 29 546.6 0 29 38 15 546.6 0 15 39 23 546.6 0 23 40 28 546.6 0 28 41 18 546.6 0 18 42 21 546.6 0 21 43 25 546.6 0 25 44 18 546.6 0 18 45 23 546.6 0 23 46 214 546.6 0 214 47 67 546.6 0 67 48 119 546.6 0 119 49 23 546.6 0 23 50 32 546.6 0 32 51 27 546.6 0 27 52 24 546.6 0 24 53 33 546.6 0 33 54 31 546.6 0 31 55 33 546.6 0 33 56 29 546.6 0 29 57 24 546.6 0 24 58 28 546.6 0 28 59 26 546.6 0 26 60 28 546.6 0 28 61 28 546.6 0 28 62 43 546.6 0 43 63 21 546.6 0 21 64 17 546.6 0 17 65 18 546.6 0 18 66 25 546.6 0 25 67 85 546.6 0 85 68 35 546.6 0 35 69 38 546.6 0 38 70 103 546.6 0 103 71 18 546.6 0 18 72 24 546.6 0 24 73 36 546.6 0 36 74 41 546.6 0 41 75 19 546.6 0 19 76 21 546.6 0 21 77 15 546.6 0 15 78 25 546.6 0 25 79 20 546.6 0 20 80 30 546.6 0 30 81 18 546.6 0 18 82 40 546.6 0 40 83 39 546.6 0 39 84 18 546.6 0 18 85 33 546.6 0 33 86 36 546.6 0 36 87 45 546.6 0 45 88 62 546.6 0 62 89 46 546.6 0 46 90 54 546.6 0 54 91 54 546.6 0 54 92 57 546.6 0 57 93 32 546.6 0 32 94 62 546.6 0 62 95 61 546.6 0 61 96 55 546.6 0 55 97 33 546.6 0 33 98 48 546.6 0 48 99 30 546.6 0 30 100 31 546.6 0 31 101 31 546.6 0 31 102 43 546.6 0 43 103 36 546.6 0 36 104 215 546.6 0 215 105 183 546.6 0 183 106 943 546.6 0 943 107 86 546.6 0 86 108 96 546.6 0 96 109 78 546.6 0 78 110 66 546.6 0 66 111 50 546.6 0 50 112 120 546.6 0 120 113 56 546.6 0 56 114 63 546.6 0 63 115 28 546.6 0 28 116 29 546.6 0 29 117 74 546.6 0 74 118 39 546.6 0 39 119 161 546.6 0 161 120 29 546.6 0 29 121 39 546.6 0 39 122 29 546.6 0 29 123 42 546.6 0 42 124 76 546.6 0 76 125 72 546.6 0 72 126 102 546.6 0 102 127 167 546.6 0 167 128 220 546.6 0 220 129 336 546.6 0 336 130 71 546.6 0 71 131 135 546.6 0 135 132 74 546.6 0 74 133 92 546.6 0 92 134 381 546.6 0 381 135 78 546.6 0 78 136 110 546.6 0 110 137 64 546.6 0 64 138 75 546.6 0 75 139 172 546.6 0 172 140 172 546.6 0 172 141 281 546.6 0 281 142 551 546.6 0 551 143 701 546.6 0 701 144 1399 546.6 0 1399 145 3560 546.6 0 3560 146 52754 546.6 0 52754 147 11478 546.6 0 11478 148 44522 546.6 0 44522 149 393 546.6 0 393 150 148 546.6 0 148 151 588 546.6 0 588 152 170 546.6 0 170 153 462 546.6 0 462 154 196 546.6 0 196 155 342 546.6 0 342 156 379 546.6 0 379 157 724 546.6 0 724 158 946 546.6 0 946 159 1820 546.6 0 1820 160 5460 546.6 0 5460 161 72354 546.6 0 72354 162 20259 546.6 0 20259 163 53560 546.6 0 53560 164 200 546.6 0 200 165 43 546.6 0 43 166 51 546.6 0 51 167 57 546.6 0 57 168 29 546.6 0 29 169 32 546.6 0 32 170 27 546.6 0 27 171 36 546.6 0 36 172 38 546.6 0 38 173 33 546.6 0 33 174 70 546.6 0 70 175 53 546.6 0 53 176 58 546.6 0 58 177 41 546.6 0 41 178 37 546.6 0 37 179 27 546.6 0 27 180 45 546.6 0 45 181 121 546.6 0 121 182 241 546.6 0 241 183 645 546.6 0 645 184 318 546.6 0 318 185 35 546.6 0 35 186 95 546.6 0 95 187 37 546.6 0 37 188 63 546.6 0 63 189 29 546.6 0 29 190 39 546.6 0 39 191 25 546.6 0 25 192 37 546.6 0 37 193 44 546.6 0 44 194 38 546.6 0 38 195 52 546.6 0 52 196 28 546.6 0 28 197 29 546.6 0 29 198 25 546.6 0 25 199 26 546.6 0 26 200 52 546.6 0 52 201 57 546.6 0 57 202 30 546.6 0 30 203 22 546.6 0 22 204 19 546.6 0 19 205 42 546.6 0 42 206 40 546.6 0 40 207 52 546.6 0 52 208 34 546.6 0 34 209 23 546.6 0 23 210 43 546.6 0 43 211 36 546.6 0 36 212 31 546.6 0 31 213 175 546.6 0 175 214 84 546.6 0 84 215 117 546.6 0 117 216 61 546.6 0 61 217 26 546.6 0 26 218 44 546.6 0 44 219 46 546.6 0 46 220 84 546.6 0 84 221 41 546.6 0 41 222 42 546.6 0 42 223 48 546.6 0 48 224 41 546.6 0 41 225 30 546.6 0 30 226 27 546.6 0 27 227 31 546.6 0 31 228 50 546.6 0 50 229 49 546.6 0 49 230 64 546.6 0 64 231 66 546.6 0 66 232 72 546.6 0 72 233 80 546.6 0 80 234 49 546.6 0 49 235 42 546.6 0 42 236 51 546.6 0 51 237 54 546.6 0 54 238 106 546.6 0 106 239 222 546.6 0 222 240 1680 546.6 0 1680 241 421 546.6 0 421 242 612 546.6 0 612 243 97 546.6 0 97 244 74 546.6 0 74 245 37 546.6 0 37 246 41 546.6 0 41 247 74 546.6 0 74 248 54 546.6 0 54 249 65 546.6 0 65 250 34 546.6 0 34 251 52 546.6 0 52 252 46 546.6 0 46 253 80 546.6 0 80 254 51 546.6 0 51 255 57 546.6 0 57 256 52 546.6 0 52 257 57 546.6 0 57 258 63 546.6 0 63 259 57 546.6 0 57 260 53 546.6 0 53 261 45 546.6 0 45 262 44 546.6 0 44 263 52 546.6 0 52 264 31 546.6 0 31 265 34 546.6 0 34 266 55 546.6 0 55 267 183 546.6 0 183 268 269 546.6 0 269 269 410 546.6 0 410 270 220 546.6 0 220 271 103 546.6 0 103 272 81 546.6 0 81 273 66 546.6 0 66 274 139 546.6 0 139 275 247 546.6 0 247 276 305 546.6 0 305 277 662 546.6 0 662 278 401 546.6 0 401 279 717 546.6 0 717 280 202 546.6 0 202 281 146 546.6 0 146 282 110 546.6 0 110 283 92 546.6 0 92 284 56 546.6 0 56 285 43 546.6 0 43 286 53 546.6 0 53 287 51 546.6 0 51 288 101 546.6 0 101 289 67 546.6 0 67 290 91 546.6 0 91 291 62 546.6 0 62 292 71 546.6 0 71 293 80 546.6 0 80 294 99 546.6 0 99 295 93 546.6 0 93 296 103 546.6 0 103 297 56 546.6 0 56 298 55 546.6 0 55 299 37 546.6 0 37 300 37 546.6 0 37 301 64 546.6 0 64 Finished in 8.93 s (31 us/read; 1.97 M reads/minute). === Summary === Total reads processed: 292,735 Reads with adapters: 4,277 (1.5%) Reads that were too short: 82 (0.0%) Reads written (passing filters): 4,195 (1.4%) Total basepairs processed: 44,327,515 bp Total written (filtered): 1,146,953 bp (2.6%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 4277 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 15 1 0.0 3 0 0 1 16 40 0.0 3 0 37 2 1 17 4090 0.0 3 4021 64 5 18 11 0.0 3 0 10 1 19 1 0.0 3 0 0 1 20 10 0.0 3 0 0 0 10 22 1 0.0 3 0 0 0 1 29 2 0.0 3 0 0 0 2 39 1 0.0 3 0 0 0 1 40 1 0.0 3 0 0 0 1 41 1 0.0 3 0 0 0 1 46 2 0.0 3 0 0 0 2 48 1 0.0 3 0 0 0 1 49 1 0.0 3 0 0 0 1 51 2 0.0 3 0 0 0 2 52 1 0.0 3 0 0 0 1 53 1 0.0 3 0 0 0 1 55 4 0.0 3 0 0 0 4 56 2 0.0 3 0 0 1 1 63 1 0.0 3 0 0 0 1 67 3 0.0 3 0 0 1 2 69 1 0.0 3 1 70 1 0.0 3 0 0 0 1 80 1 0.0 3 0 0 0 1 84 1 0.0 3 0 0 0 1 85 1 0.0 3 0 1 87 22 0.0 3 0 0 0 22 88 2 0.0 3 0 0 0 2 90 1 0.0 3 1 100 1 0.0 3 0 0 0 1 101 1 0.0 3 0 1 102 1 0.0 3 1 111 1 0.0 3 0 0 0 1 112 1 0.0 3 0 0 0 1 116 1 0.0 3 0 0 0 1 122 2 0.0 3 0 0 0 2 125 10 0.0 3 0 0 0 10 126 8 0.0 3 0 0 0 8 127 10 0.0 3 0 0 0 10 128 6 0.0 3 0 0 0 6 129 2 0.0 3 0 0 0 2 130 1 0.0 3 0 0 0 1 131 3 0.0 3 0 0 0 3 135 1 0.0 3 0 0 0 1 137 1 0.0 3 0 0 0 1 139 2 0.0 3 0 0 0 2 140 4 0.0 3 0 0 0 4 141 6 0.0 3 0 0 0 6 142 2 0.0 3 0 0 0 2 147 2 0.0 3 0 0 0 2 154 1 0.0 3 1 159 1 0.0 3 0 0 1 188 1 0.0 3 0 0 0 1 189 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 0.15 s (36 us/read; 1.68 M reads/minute). === Summary === Total reads processed: 4,195 Reads with adapters: 2 (0.0%) Reads written (passing filters): 4,195 (100.0%) Total basepairs processed: 1,146,953 bp Total written (filtered): 1,146,947 bp (100.0%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 2 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 0.0% C: 0.0% G: 100.0% T: 0.0% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 2 65.5 0 2