This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TGCGTG -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 58.15 s (26 us/read; 2.31 M reads/minute). === Summary === Total reads processed: 2,238,925 Reads with adapters: 41,910 (1.9%) Reads that were too short: 17,557 (0.8%) Reads written (passing filters): 24,353 (1.1%) Total basepairs processed: 673,916,425 bp Total written (filtered): 5,075,531 bp (0.8%) === Adapter 1 === Sequence: TGCGTG; Type: regular 5'; Length: 6; Trimmed: 41910 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 466 546.6 0 466 7 2027 546.6 0 2027 8 2289 546.6 0 2289 9 33 546.6 0 33 10 72 546.6 0 72 11 26 546.6 0 26 12 24 546.6 0 24 13 38 546.6 0 38 14 49 546.6 0 49 15 26 546.6 0 26 16 28 546.6 0 28 17 38 546.6 0 38 18 26 546.6 0 26 19 27 546.6 0 27 20 37 546.6 0 37 21 23 546.6 0 23 22 15 546.6 0 15 23 27 546.6 0 27 24 22 546.6 0 22 25 29 546.6 0 29 26 43 546.6 0 43 27 23 546.6 0 23 28 37 546.6 0 37 29 38 546.6 0 38 30 38 546.6 0 38 31 28 546.6 0 28 32 31 546.6 0 31 33 33 546.6 0 33 34 23 546.6 0 23 35 32 546.6 0 32 36 25 546.6 0 25 37 25 546.6 0 25 38 36 546.6 0 36 39 30 546.6 0 30 40 41 546.6 0 41 41 20 546.6 0 20 42 57 546.6 0 57 43 44 546.6 0 44 44 33 546.6 0 33 45 26 546.6 0 26 46 61 546.6 0 61 47 51 546.6 0 51 48 27 546.6 0 27 49 44 546.6 0 44 50 30 546.6 0 30 51 24 546.6 0 24 52 34 546.6 0 34 53 49 546.6 0 49 54 53 546.6 0 53 55 40 546.6 0 40 56 39 546.6 0 39 57 37 546.6 0 37 58 46 546.6 0 46 59 41 546.6 0 41 60 49 546.6 0 49 61 38 546.6 0 38 62 722 546.6 0 722 63 97 546.6 0 97 64 51 546.6 0 51 65 37 546.6 0 37 66 40 546.6 0 40 67 52 546.6 0 52 68 42 546.6 0 42 69 47 546.6 0 47 70 48 546.6 0 48 71 52 546.6 0 52 72 52 546.6 0 52 73 215 546.6 0 215 74 429 546.6 0 429 75 605 546.6 0 605 76 75 546.6 0 75 77 1069 546.6 0 1069 78 697 546.6 0 697 79 938 546.6 0 938 80 40 546.6 0 40 81 27 546.6 0 27 82 30 546.6 0 30 83 31 546.6 0 31 84 29 546.6 0 29 85 31 546.6 0 31 86 43 546.6 0 43 87 23 546.6 0 23 88 45 546.6 0 45 89 46 546.6 0 46 90 31 546.6 0 31 91 31 546.6 0 31 92 48 546.6 0 48 93 36 546.6 0 36 94 30 546.6 0 30 95 31 546.6 0 31 96 29 546.6 0 29 97 31 546.6 0 31 98 37 546.6 0 37 99 48 546.6 0 48 100 37 546.6 0 37 101 47 546.6 0 47 102 19 546.6 0 19 103 28 546.6 0 28 104 59 546.6 0 59 105 85 546.6 0 85 106 326 546.6 0 326 107 98 546.6 0 98 108 743 546.6 0 743 109 52 546.6 0 52 110 40 546.6 0 40 111 39 546.6 0 39 112 87 546.6 0 87 113 38 546.6 0 38 114 49 546.6 0 49 115 50 546.6 0 50 116 36 546.6 0 36 117 52 546.6 0 52 118 45 546.6 0 45 119 50 546.6 0 50 120 37 546.6 0 37 121 44 546.6 0 44 122 36 546.6 0 36 123 46 546.6 0 46 124 32 546.6 0 32 125 51 546.6 0 51 126 54 546.6 0 54 127 57 546.6 0 57 128 90 546.6 0 90 129 666 546.6 0 666 130 238 546.6 0 238 131 56 546.6 0 56 132 60 546.6 0 60 133 138 546.6 0 138 134 190 546.6 0 190 135 233 546.6 0 233 136 156 546.6 0 156 137 56 546.6 0 56 138 61 546.6 0 61 139 63 546.6 0 63 140 90 546.6 0 90 141 59 546.6 0 59 142 55 546.6 0 55 143 63 546.6 0 63 144 73 546.6 0 73 145 157 546.6 0 157 146 607 546.6 0 607 147 1430 546.6 0 1430 148 1590 546.6 0 1590 149 40 546.6 0 40 150 46 546.6 0 46 151 29 546.6 0 29 152 23 546.6 0 23 153 42 546.6 0 42 154 54 546.6 0 54 155 246 546.6 0 246 156 192 546.6 0 192 157 202 546.6 0 202 158 66 546.6 0 66 159 42 546.6 0 42 160 40 546.6 0 40 161 51 546.6 0 51 162 50 546.6 0 50 163 30 546.6 0 30 164 60 546.6 0 60 165 63 546.6 0 63 166 72 546.6 0 72 167 51 546.6 0 51 168 59 546.6 0 59 169 52 546.6 0 52 170 37 546.6 0 37 171 31 546.6 0 31 172 27 546.6 0 27 173 19 546.6 0 19 174 26 546.6 0 26 175 32 546.6 0 32 176 30 546.6 0 30 177 24 546.6 0 24 178 33 546.6 0 33 179 26 546.6 0 26 180 31 546.6 0 31 181 35 546.6 0 35 182 39 546.6 0 39 183 26 546.6 0 26 184 119 546.6 0 119 185 110 546.6 0 110 186 204 546.6 0 204 187 87 546.6 0 87 188 25 546.6 0 25 189 21 546.6 0 21 190 27 546.6 0 27 191 25 546.6 0 25 192 42 546.6 0 42 193 43 546.6 0 43 194 32 546.6 0 32 195 104 546.6 0 104 196 122 546.6 0 122 197 133 546.6 0 133 198 59 546.6 0 59 199 96 546.6 0 96 200 67 546.6 0 67 201 30 546.6 0 30 202 25 546.6 0 25 203 37 546.6 0 37 204 158 546.6 0 158 205 37 546.6 0 37 206 69 546.6 0 69 207 29 546.6 0 29 208 42 546.6 0 42 209 44 546.6 0 44 210 27 546.6 0 27 211 34 546.6 0 34 212 30 546.6 0 30 213 28 546.6 0 28 214 44 546.6 0 44 215 40 546.6 0 40 216 77 546.6 0 77 217 114 546.6 0 114 218 52 546.6 0 52 219 49 546.6 0 49 220 50 546.6 0 50 221 41 546.6 0 41 222 45 546.6 0 45 223 34 546.6 0 34 224 40 546.6 0 40 225 44 546.6 0 44 226 47 546.6 0 47 227 37 546.6 0 37 228 36 546.6 0 36 229 43 546.6 0 43 230 41 546.6 0 41 231 57 546.6 0 57 232 89 546.6 0 89 233 96 546.6 0 96 234 143 546.6 0 143 235 383 546.6 0 383 236 3830 546.6 0 3830 237 1492 546.6 0 1492 238 4876 546.6 0 4876 239 80 546.6 0 80 240 28 546.6 0 28 241 45 546.6 0 45 242 54 546.6 0 54 243 26 546.6 0 26 244 29 546.6 0 29 245 39 546.6 0 39 246 72 546.6 0 72 247 177 546.6 0 177 248 139 546.6 0 139 249 74 546.6 0 74 250 69 546.6 0 69 251 141 546.6 0 141 252 110 546.6 0 110 253 74 546.6 0 74 254 37 546.6 0 37 255 39 546.6 0 39 256 50 546.6 0 50 257 26 546.6 0 26 258 34 546.6 0 34 259 24 546.6 0 24 260 30 546.6 0 30 261 40 546.6 0 40 262 29 546.6 0 29 263 36 546.6 0 36 264 43 546.6 0 43 265 57 546.6 0 57 266 47 546.6 0 47 267 38 546.6 0 38 268 58 546.6 0 58 269 35 546.6 0 35 270 44 546.6 0 44 271 33 546.6 0 33 272 41 546.6 0 41 273 36 546.6 0 36 274 67 546.6 0 67 275 44 546.6 0 44 276 52 546.6 0 52 277 42 546.6 0 42 278 112 546.6 0 112 279 55 546.6 0 55 280 208 546.6 0 208 281 209 546.6 0 209 282 163 546.6 0 163 283 179 546.6 0 179 284 91 546.6 0 91 285 89 546.6 0 89 286 85 546.6 0 85 287 48 546.6 0 48 288 51 546.6 0 51 289 57 546.6 0 57 290 49 546.6 0 49 291 48 546.6 0 48 292 49 546.6 0 49 293 61 546.6 0 61 294 79 546.6 0 79 295 145 546.6 0 145 296 387 546.6 0 387 297 293 546.6 0 293 298 239 546.6 0 239 299 88 546.6 0 88 300 84 546.6 0 84 301 189 546.6 0 189 Finished in 0.95 s (39 us/read; 1.54 M reads/minute). === Summary === Total reads processed: 24,353 Reads with adapters: 2,181 (9.0%) Reads that were too short: 22 (0.1%) Reads written (passing filters): 2,159 (8.9%) Total basepairs processed: 5,075,531 bp Total written (filtered): 574,302 bp (11.3%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 2181 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 0 1 16 17 0.0 3 0 16 1 17 1988 0.0 3 1945 41 2 18 5 0.0 3 0 5 30 1 0.0 3 0 0 0 1 33 1 0.0 3 0 0 0 1 39 23 0.0 3 0 0 0 23 40 1 0.0 3 0 0 0 1 45 21 0.0 3 0 0 0 21 46 3 0.0 3 0 0 0 3 48 2 0.0 3 0 0 0 2 49 1 0.0 3 0 0 0 1 50 1 0.0 3 0 0 0 1 51 2 0.0 3 0 0 0 2 60 1 0.0 3 0 0 0 1 63 1 0.0 3 0 0 0 1 64 6 0.0 3 0 0 0 6 65 1 0.0 3 0 0 0 1 88 1 0.0 3 0 0 0 1 91 2 0.0 3 0 0 0 2 98 2 0.0 3 0 0 0 2 99 1 0.0 3 0 0 0 1 101 1 0.0 3 0 0 0 1 103 1 0.0 3 0 0 0 1 110 1 0.0 3 0 0 0 1 111 1 0.0 3 0 0 0 1 114 48 0.0 3 0 0 0 48 115 19 0.0 3 0 0 0 19 117 3 0.0 3 0 0 0 3 118 8 0.0 3 0 0 0 8 119 1 0.0 3 0 0 0 1 122 1 0.0 3 0 0 0 1 124 1 0.0 3 0 0 0 1 131 1 0.0 3 0 0 0 1 133 1 0.0 3 0 0 0 1 145 1 0.0 3 0 0 0 1 149 1 0.0 3 0 0 0 1 174 3 0.0 3 0 0 0 3 210 1 0.0 3 0 0 0 1 213 1 0.0 3 0 0 0 1 215 4 0.0 3 0 0 0 4 219 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 0.08 s (37 us/read; 1.62 M reads/minute). === Summary === Total reads processed: 2,159 Reads with adapters: 4 (0.2%) Reads written (passing filters): 2,159 (100.0%) Total basepairs processed: 574,302 bp Total written (filtered): 574,290 bp (100.0%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 4 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 0.0% C: 25.0% G: 50.0% T: 25.0% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 4 33.7 0 4