This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AATAGG -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 169.71 s (47 us/read; 1.28 M reads/minute). === Summary === Total reads processed: 3,634,272 Reads with adapters: 116,408 (3.2%) Reads that were too short: 12,131 (0.3%) Reads written (passing filters): 104,277 (2.9%) Total basepairs processed: 1,093,915,872 bp Total written (filtered): 29,150,601 bp (2.7%) === Adapter 1 === Sequence: AATAGG; Type: regular 5'; Length: 6; Trimmed: 116408 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 407 887.3 0 407 7 944 887.3 0 944 8 45181 887.3 0 45181 9 45065 887.3 0 45065 10 86 887.3 0 86 11 16 887.3 0 16 12 22 887.3 0 22 13 12 887.3 0 12 14 10 887.3 0 10 15 15 887.3 0 15 16 14 887.3 0 14 17 9 887.3 0 9 18 37 887.3 0 37 19 44 887.3 0 44 20 33 887.3 0 33 21 18 887.3 0 18 22 13 887.3 0 13 23 17 887.3 0 17 24 16 887.3 0 16 25 21 887.3 0 21 26 15 887.3 0 15 27 13 887.3 0 13 28 23 887.3 0 23 29 34 887.3 0 34 30 32 887.3 0 32 31 14 887.3 0 14 32 22 887.3 0 22 33 20 887.3 0 20 34 24 887.3 0 24 35 35 887.3 0 35 36 39 887.3 0 39 37 37 887.3 0 37 38 20 887.3 0 20 39 17 887.3 0 17 40 18 887.3 0 18 41 15 887.3 0 15 42 50 887.3 0 50 43 32 887.3 0 32 44 62 887.3 0 62 45 473 887.3 0 473 46 293 887.3 0 293 47 557 887.3 0 557 48 14 887.3 0 14 49 10 887.3 0 10 50 23 887.3 0 23 51 25 887.3 0 25 52 20 887.3 0 20 53 10 887.3 0 10 54 10 887.3 0 10 55 21 887.3 0 21 56 14 887.3 0 14 57 17 887.3 0 17 58 9 887.3 0 9 59 6 887.3 0 6 60 21 887.3 0 21 61 14 887.3 0 14 62 15 887.3 0 15 63 15 887.3 0 15 64 14 887.3 0 14 65 17 887.3 0 17 66 16 887.3 0 16 67 17 887.3 0 17 68 86 887.3 0 86 69 61 887.3 0 61 70 31 887.3 0 31 71 111 887.3 0 111 72 134 887.3 0 134 73 62 887.3 0 62 74 16 887.3 0 16 75 17 887.3 0 17 76 18 887.3 0 18 77 12 887.3 0 12 78 31 887.3 0 31 79 54 887.3 0 54 80 42 887.3 0 42 81 34 887.3 0 34 82 32 887.3 0 32 83 39 887.3 0 39 84 37 887.3 0 37 85 47 887.3 0 47 86 46 887.3 0 46 87 26 887.3 0 26 88 50 887.3 0 50 89 51 887.3 0 51 90 59 887.3 0 59 91 58 887.3 0 58 92 48 887.3 0 48 93 44 887.3 0 44 94 58 887.3 0 58 95 307 887.3 0 307 96 392 887.3 0 392 97 243 887.3 0 243 98 37 887.3 0 37 99 34 887.3 0 34 100 45 887.3 0 45 101 33 887.3 0 33 102 21 887.3 0 21 103 20 887.3 0 20 104 27 887.3 0 27 105 29 887.3 0 29 106 34 887.3 0 34 107 39 887.3 0 39 108 20 887.3 0 20 109 28 887.3 0 28 110 30 887.3 0 30 111 22 887.3 0 22 112 39 887.3 0 39 113 336 887.3 0 336 114 305 887.3 0 305 115 219 887.3 0 219 116 225 887.3 0 225 117 50 887.3 0 50 118 18 887.3 0 18 119 34 887.3 0 34 120 37 887.3 0 37 121 29 887.3 0 29 122 49 887.3 0 49 123 53 887.3 0 53 124 49 887.3 0 49 125 38 887.3 0 38 126 52 887.3 0 52 127 38 887.3 0 38 128 39 887.3 0 39 129 51 887.3 0 51 130 46 887.3 0 46 131 63 887.3 0 63 132 52 887.3 0 52 133 53 887.3 0 53 134 74 887.3 0 74 135 197 887.3 0 197 136 225 887.3 0 225 137 210 887.3 0 210 138 691 887.3 0 691 139 328 887.3 0 328 140 175 887.3 0 175 141 46 887.3 0 46 142 78 887.3 0 78 143 131 887.3 0 131 144 86 887.3 0 86 145 54 887.3 0 54 146 69 887.3 0 69 147 45 887.3 0 45 148 36 887.3 0 36 149 49 887.3 0 49 150 50 887.3 0 50 151 46 887.3 0 46 152 45 887.3 0 45 153 29 887.3 0 29 154 48 887.3 0 48 155 38 887.3 0 38 156 50 887.3 0 50 157 31 887.3 0 31 158 35 887.3 0 35 159 27 887.3 0 27 160 33 887.3 0 33 161 40 887.3 0 40 162 78 887.3 0 78 163 65 887.3 0 65 164 72 887.3 0 72 165 37 887.3 0 37 166 45 887.3 0 45 167 125 887.3 0 125 168 180 887.3 0 180 169 136 887.3 0 136 170 71 887.3 0 71 171 37 887.3 0 37 172 47 887.3 0 47 173 53 887.3 0 53 174 40 887.3 0 40 175 31 887.3 0 31 176 28 887.3 0 28 177 22 887.3 0 22 178 33 887.3 0 33 179 75 887.3 0 75 180 51 887.3 0 51 181 53 887.3 0 53 182 39 887.3 0 39 183 67 887.3 0 67 184 166 887.3 0 166 185 217 887.3 0 217 186 178 887.3 0 178 187 71 887.3 0 71 188 40 887.3 0 40 189 47 887.3 0 47 190 41 887.3 0 41 191 35 887.3 0 35 192 38 887.3 0 38 193 37 887.3 0 37 194 40 887.3 0 40 195 31 887.3 0 31 196 36 887.3 0 36 197 39 887.3 0 39 198 45 887.3 0 45 199 68 887.3 0 68 200 74 887.3 0 74 201 50 887.3 0 50 202 46 887.3 0 46 203 55 887.3 0 55 204 136 887.3 0 136 205 152 887.3 0 152 206 159 887.3 0 159 207 71 887.3 0 71 208 51 887.3 0 51 209 58 887.3 0 58 210 78 887.3 0 78 211 57 887.3 0 57 212 52 887.3 0 52 213 50 887.3 0 50 214 45 887.3 0 45 215 60 887.3 0 60 216 86 887.3 0 86 217 46 887.3 0 46 218 60 887.3 0 60 219 35 887.3 0 35 220 43 887.3 0 43 221 58 887.3 0 58 222 66 887.3 0 66 223 78 887.3 0 78 224 202 887.3 0 202 225 2050 887.3 0 2050 226 2858 887.3 0 2858 227 1501 887.3 0 1501 228 520 887.3 0 520 229 38 887.3 0 38 230 30 887.3 0 30 231 51 887.3 0 51 232 43 887.3 0 43 233 43 887.3 0 43 234 34 887.3 0 34 235 61 887.3 0 61 236 79 887.3 0 79 237 54 887.3 0 54 238 40 887.3 0 40 239 49 887.3 0 49 240 49 887.3 0 49 241 52 887.3 0 52 242 71 887.3 0 71 243 101 887.3 0 101 244 76 887.3 0 76 245 29 887.3 0 29 246 29 887.3 0 29 247 37 887.3 0 37 248 49 887.3 0 49 249 33 887.3 0 33 250 29 887.3 0 29 251 21 887.3 0 21 252 33 887.3 0 33 253 55 887.3 0 55 254 33 887.3 0 33 255 35 887.3 0 35 256 21 887.3 0 21 257 38 887.3 0 38 258 32 887.3 0 32 259 72 887.3 0 72 260 51 887.3 0 51 261 36 887.3 0 36 262 39 887.3 0 39 263 38 887.3 0 38 264 40 887.3 0 40 265 59 887.3 0 59 266 37 887.3 0 37 267 33 887.3 0 33 268 37 887.3 0 37 269 50 887.3 0 50 270 35 887.3 0 35 271 85 887.3 0 85 272 48 887.3 0 48 273 55 887.3 0 55 274 39 887.3 0 39 275 33 887.3 0 33 276 45 887.3 0 45 277 33 887.3 0 33 278 25 887.3 0 25 279 72 887.3 0 72 280 54 887.3 0 54 281 108 887.3 0 108 282 38 887.3 0 38 283 23 887.3 0 23 284 32 887.3 0 32 285 27 887.3 0 27 286 37 887.3 0 37 287 26 887.3 0 26 288 27 887.3 0 27 289 49 887.3 0 49 290 31 887.3 0 31 291 47 887.3 0 47 292 38 887.3 0 38 293 46 887.3 0 46 294 57 887.3 0 57 295 62 887.3 0 62 296 57 887.3 0 57 297 51 887.3 0 51 298 106 887.3 0 106 299 46 887.3 0 46 300 31 887.3 0 31 301 158 887.3 0 158 Finished in 7.66 s (73 us/read; 0.82 M reads/minute). === Summary === Total reads processed: 104,277 Reads with adapters: 43,229 (41.5%) Reads that were too short: 16 (0.0%) Reads written (passing filters): 43,213 (41.4%) Total basepairs processed: 29,150,601 bp Total written (filtered): 11,919,118 bp (40.9%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 43229 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 10 0.0 3 0 0 8 2 16 236 0.0 3 0 232 4 17 42758 0.0 3 41944 778 32 4 18 114 0.0 3 22 89 1 2 19 22 0.0 3 4 1 15 2 20 18 0.0 3 0 0 0 18 21 1 0.0 3 0 0 0 1 24 3 0.0 3 0 0 0 3 25 1 0.0 3 0 0 0 1 35 1 0.0 3 0 0 0 1 38 1 0.0 3 0 0 0 1 48 1 0.0 3 0 0 0 1 52 4 0.0 3 0 0 0 4 53 1 0.0 3 0 0 0 1 54 4 0.0 3 0 0 0 4 55 1 0.0 3 0 0 0 1 56 9 0.0 3 0 0 0 9 58 2 0.0 3 0 0 0 2 68 1 0.0 3 0 0 0 1 78 3 0.0 3 0 0 0 3 79 1 0.0 3 0 0 0 1 80 1 0.0 3 0 0 0 1 81 1 0.0 3 0 0 0 1 96 1 0.0 3 0 0 0 1 99 2 0.0 3 0 0 0 2 113 1 0.0 3 0 0 0 1 114 1 0.0 3 0 0 0 1 126 5 0.0 3 0 0 0 5 128 1 0.0 3 0 0 0 1 129 2 0.0 3 0 0 0 2 132 1 0.0 3 0 0 0 1 145 1 0.0 3 0 0 0 1 146 1 0.0 3 0 0 0 1 147 2 0.0 3 0 0 0 2 152 1 0.0 3 0 0 0 1 156 1 0.0 3 0 0 0 1 163 1 0.0 3 0 0 0 1 179 1 0.0 3 0 0 0 1 181 1 0.0 3 0 0 0 1 183 2 0.0 3 0 0 0 2 184 1 0.0 3 0 0 0 1 190 1 0.0 3 0 0 0 1 215 1 0.0 3 0 0 0 1 221 2 0.0 3 0 0 0 2 237 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 1 281 1 0.0 3 0 0 0 1 282 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 2.48 s (57 us/read; 1.05 M reads/minute). === Summary === Total reads processed: 43,213 Reads with adapters: 572 (1.3%) Reads written (passing filters): 43,213 (100.0%) Total basepairs processed: 11,919,118 bp Total written (filtered): 11,916,974 bp (100.0%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 572 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 24.1% C: 2.6% G: 71.7% T: 1.6% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 149 675.2 0 149 4 418 168.8 0 418 5 5 42.2 0 5