This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CGAATC -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 102.59 s (32 us/read; 1.87 M reads/minute). === Summary === Total reads processed: 3,193,041 Reads with adapters: 57,240 (1.8%) Reads that were too short: 6,221 (0.2%) Reads written (passing filters): 51,019 (1.6%) Total basepairs processed: 961,105,341 bp Total written (filtered): 12,673,509 bp (1.3%) === Adapter 1 === Sequence: CGAATC; Type: regular 5'; Length: 6; Trimmed: 57240 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 126 779.6 0 126 7 757 779.6 0 757 8 510 779.6 0 510 9 20523 779.6 0 20523 10 23 779.6 0 23 11 5 779.6 0 5 12 11 779.6 0 11 13 3 779.6 0 3 14 8 779.6 0 8 15 7 779.6 0 7 16 5 779.6 0 5 17 4 779.6 0 4 18 10 779.6 0 10 19 7 779.6 0 7 20 8 779.6 0 8 21 8 779.6 0 8 22 9 779.6 0 9 23 5 779.6 0 5 24 18 779.6 0 18 25 6 779.6 0 6 26 9 779.6 0 9 27 37 779.6 0 37 28 14 779.6 0 14 29 19 779.6 0 19 30 40 779.6 0 40 31 13 779.6 0 13 32 10 779.6 0 10 33 72 779.6 0 72 34 73 779.6 0 73 35 100 779.6 0 100 36 18 779.6 0 18 37 40 779.6 0 40 38 9 779.6 0 9 39 23 779.6 0 23 40 12 779.6 0 12 41 33 779.6 0 33 42 50 779.6 0 50 43 16 779.6 0 16 44 25 779.6 0 25 45 12 779.6 0 12 46 14 779.6 0 14 47 28 779.6 0 28 48 29 779.6 0 29 49 73 779.6 0 73 50 93 779.6 0 93 51 120 779.6 0 120 52 219 779.6 0 219 53 353 779.6 0 353 54 5466 779.6 0 5466 55 4092 779.6 0 4092 56 4984 779.6 0 4984 57 34 779.6 0 34 58 10 779.6 0 10 59 10 779.6 0 10 60 11 779.6 0 11 61 5 779.6 0 5 62 6 779.6 0 6 63 2 779.6 0 2 64 4 779.6 0 4 65 7 779.6 0 7 66 5 779.6 0 5 67 3 779.6 0 3 68 8 779.6 0 8 69 7 779.6 0 7 70 10 779.6 0 10 71 6 779.6 0 6 72 3 779.6 0 3 73 6 779.6 0 6 74 4 779.6 0 4 75 8 779.6 0 8 76 12 779.6 0 12 77 13 779.6 0 13 78 10 779.6 0 10 79 19 779.6 0 19 80 40 779.6 0 40 81 72 779.6 0 72 82 17 779.6 0 17 83 25 779.6 0 25 84 58 779.6 0 58 85 14 779.6 0 14 86 15 779.6 0 15 87 24 779.6 0 24 88 85 779.6 0 85 89 30 779.6 0 30 90 33 779.6 0 33 91 62 779.6 0 62 92 146 779.6 0 146 93 100 779.6 0 100 94 693 779.6 0 693 95 1306 779.6 0 1306 96 3273 779.6 0 3273 97 36 779.6 0 36 98 45 779.6 0 45 99 5 779.6 0 5 100 7 779.6 0 7 101 7 779.6 0 7 102 13 779.6 0 13 103 10 779.6 0 10 104 20 779.6 0 20 105 10 779.6 0 10 106 5 779.6 0 5 107 18 779.6 0 18 108 37 779.6 0 37 109 34 779.6 0 34 110 42 779.6 0 42 111 175 779.6 0 175 112 10 779.6 0 10 113 9 779.6 0 9 114 12 779.6 0 12 115 9 779.6 0 9 116 33 779.6 0 33 117 40 779.6 0 40 118 24 779.6 0 24 119 69 779.6 0 69 120 83 779.6 0 83 121 430 779.6 0 430 122 164 779.6 0 164 123 421 779.6 0 421 124 27 779.6 0 27 125 16 779.6 0 16 126 24 779.6 0 24 127 21 779.6 0 21 128 26 779.6 0 26 129 49 779.6 0 49 130 25 779.6 0 25 131 15 779.6 0 15 132 20 779.6 0 20 133 25 779.6 0 25 134 25 779.6 0 25 135 18 779.6 0 18 136 39 779.6 0 39 137 43 779.6 0 43 138 37 779.6 0 37 139 55 779.6 0 55 140 45 779.6 0 45 141 43 779.6 0 43 142 26 779.6 0 26 143 38 779.6 0 38 144 14 779.6 0 14 145 24 779.6 0 24 146 20 779.6 0 20 147 63 779.6 0 63 148 58 779.6 0 58 149 31 779.6 0 31 150 36 779.6 0 36 151 24 779.6 0 24 152 31 779.6 0 31 153 14 779.6 0 14 154 19 779.6 0 19 155 18 779.6 0 18 156 41 779.6 0 41 157 34 779.6 0 34 158 36 779.6 0 36 159 68 779.6 0 68 160 87 779.6 0 87 161 98 779.6 0 98 162 79 779.6 0 79 163 55 779.6 0 55 164 20 779.6 0 20 165 40 779.6 0 40 166 39 779.6 0 39 167 87 779.6 0 87 168 60 779.6 0 60 169 31 779.6 0 31 170 17 779.6 0 17 171 49 779.6 0 49 172 76 779.6 0 76 173 25 779.6 0 25 174 22 779.6 0 22 175 65 779.6 0 65 176 684 779.6 0 684 177 631 779.6 0 631 178 901 779.6 0 901 179 20 779.6 0 20 180 40 779.6 0 40 181 43 779.6 0 43 182 50 779.6 0 50 183 38 779.6 0 38 184 22 779.6 0 22 185 21 779.6 0 21 186 35 779.6 0 35 187 27 779.6 0 27 188 43 779.6 0 43 189 38 779.6 0 38 190 19 779.6 0 19 191 10 779.6 0 10 192 20 779.6 0 20 193 19 779.6 0 19 194 41 779.6 0 41 195 42 779.6 0 42 196 48 779.6 0 48 197 20 779.6 0 20 198 9 779.6 0 9 199 15 779.6 0 15 200 33 779.6 0 33 201 39 779.6 0 39 202 23 779.6 0 23 203 23 779.6 0 23 204 22 779.6 0 22 205 50 779.6 0 50 206 32 779.6 0 32 207 32 779.6 0 32 208 47 779.6 0 47 209 26 779.6 0 26 210 17 779.6 0 17 211 20 779.6 0 20 212 37 779.6 0 37 213 59 779.6 0 59 214 36 779.6 0 36 215 36 779.6 0 36 216 52 779.6 0 52 217 25 779.6 0 25 218 32 779.6 0 32 219 41 779.6 0 41 220 47 779.6 0 47 221 124 779.6 0 124 222 72 779.6 0 72 223 23 779.6 0 23 224 33 779.6 0 33 225 42 779.6 0 42 226 75 779.6 0 75 227 49 779.6 0 49 228 40 779.6 0 40 229 53 779.6 0 53 230 31 779.6 0 31 231 26 779.6 0 26 232 100 779.6 0 100 233 94 779.6 0 94 234 36 779.6 0 36 235 16 779.6 0 16 236 25 779.6 0 25 237 46 779.6 0 46 238 35 779.6 0 35 239 27 779.6 0 27 240 38 779.6 0 38 241 39 779.6 0 39 242 39 779.6 0 39 243 24 779.6 0 24 244 22 779.6 0 22 245 27 779.6 0 27 246 35 779.6 0 35 247 33 779.6 0 33 248 85 779.6 0 85 249 139 779.6 0 139 250 73 779.6 0 73 251 31 779.6 0 31 252 31 779.6 0 31 253 54 779.6 0 54 254 49 779.6 0 49 255 56 779.6 0 56 256 36 779.6 0 36 257 48 779.6 0 48 258 54 779.6 0 54 259 55 779.6 0 55 260 81 779.6 0 81 261 93 779.6 0 93 262 179 779.6 0 179 263 105 779.6 0 105 264 103 779.6 0 103 265 37 779.6 0 37 266 45 779.6 0 45 267 31 779.6 0 31 268 34 779.6 0 34 269 84 779.6 0 84 270 57 779.6 0 57 271 48 779.6 0 48 272 47 779.6 0 47 273 53 779.6 0 53 274 24 779.6 0 24 275 51 779.6 0 51 276 43 779.6 0 43 277 71 779.6 0 71 278 285 779.6 0 285 279 56 779.6 0 56 280 76 779.6 0 76 281 83 779.6 0 83 282 182 779.6 0 182 283 88 779.6 0 88 284 65 779.6 0 65 285 41 779.6 0 41 286 21 779.6 0 21 287 36 779.6 0 36 288 117 779.6 0 117 289 487 779.6 0 487 290 121 779.6 0 121 291 101 779.6 0 101 292 48 779.6 0 48 293 45 779.6 0 45 294 71 779.6 0 71 295 168 779.6 0 168 296 84 779.6 0 84 297 28 779.6 0 28 298 56 779.6 0 56 299 47 779.6 0 47 300 106 779.6 0 106 301 51 779.6 0 51 Finished in 2.45 s (48 us/read; 1.25 M reads/minute). === Summary === Total reads processed: 51,019 Reads with adapters: 21,948 (43.0%) Reads that were too short: 2 (0.0%) Reads written (passing filters): 21,946 (43.0%) Total basepairs processed: 12,673,509 bp Total written (filtered): 6,013,701 bp (47.5%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 21948 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 7 0.0 3 0 0 7 16 190 0.0 3 0 188 2 17 20891 0.0 3 20412 467 11 1 18 65 0.0 3 1 60 3 1 19 632 0.0 3 602 14 14 2 20 17 0.0 3 0 1 0 16 21 1 0.0 3 0 0 1 22 2 0.0 3 1 0 0 1 46 1 0.0 3 0 0 0 1 49 3 0.0 3 0 0 0 3 50 12 0.0 3 0 0 0 12 72 8 0.0 3 0 0 0 8 75 1 0.0 3 0 0 0 1 91 1 0.0 3 0 0 0 1 97 3 0.0 3 0 0 0 3 98 109 0.0 3 0 0 0 109 99 1 0.0 3 0 0 0 1 100 1 0.0 3 0 0 0 1 158 1 0.0 3 0 0 0 1 163 1 0.0 3 0 0 0 1 198 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 0.99 s (45 us/read; 1.33 M reads/minute). === Summary === Total reads processed: 21,946 Reads with adapters: 2,142 (9.8%) Reads written (passing filters): 21,946 (100.0%) Total basepairs processed: 6,013,701 bp Total written (filtered): 6,007,271 bp (99.9%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 2142 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 61.1% C: 5.6% G: 32.7% T: 0.6% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 2138 342.9 0 2138 4 4 85.7 0 4