This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g GTCCGG -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 86.81 s (25 us/read; 2.40 M reads/minute). === Summary === Total reads processed: 3,465,239 Reads with adapters: 355,838 (10.3%) Reads that were too short: 319,918 (9.2%) Reads written (passing filters): 35,920 (1.0%) Total basepairs processed: 1,043,036,939 bp Total written (filtered): 5,435,599 bp (0.5%) === Adapter 1 === Sequence: GTCCGG; Type: regular 5'; Length: 6; Trimmed: 355838 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 85 846.0 0 85 7 142 846.0 0 142 8 102 846.0 0 102 9 4323 846.0 0 4323 10 43 846.0 0 43 11 23 846.0 0 23 12 15 846.0 0 15 13 28 846.0 0 28 14 16 846.0 0 16 15 16 846.0 0 16 16 24 846.0 0 24 17 64 846.0 0 64 18 12 846.0 0 12 19 31 846.0 0 31 20 19 846.0 0 19 21 24 846.0 0 24 22 17 846.0 0 17 23 13 846.0 0 13 24 18 846.0 0 18 25 18 846.0 0 18 26 14 846.0 0 14 27 22 846.0 0 22 28 17 846.0 0 17 29 21 846.0 0 21 30 20 846.0 0 20 31 64 846.0 0 64 32 15 846.0 0 15 33 15 846.0 0 15 34 37 846.0 0 37 35 29 846.0 0 29 36 23 846.0 0 23 37 24 846.0 0 24 38 17 846.0 0 17 39 22 846.0 0 22 40 23 846.0 0 23 41 30 846.0 0 30 42 26 846.0 0 26 43 21 846.0 0 21 44 21 846.0 0 21 45 43 846.0 0 43 46 12 846.0 0 12 47 15 846.0 0 15 48 34 846.0 0 34 49 13 846.0 0 13 50 19 846.0 0 19 51 12 846.0 0 12 52 25 846.0 0 25 53 15 846.0 0 15 54 17 846.0 0 17 55 23 846.0 0 23 56 29 846.0 0 29 57 26 846.0 0 26 58 33 846.0 0 33 59 25 846.0 0 25 60 252 846.0 0 252 61 24 846.0 0 24 62 17 846.0 0 17 63 16 846.0 0 16 64 10 846.0 0 10 65 36 846.0 0 36 66 36 846.0 0 36 67 27 846.0 0 27 68 10 846.0 0 10 69 17 846.0 0 17 70 49 846.0 0 49 71 25 846.0 0 25 72 30 846.0 0 30 73 22 846.0 0 22 74 18 846.0 0 18 75 131 846.0 0 131 76 83 846.0 0 83 77 101 846.0 0 101 78 22 846.0 0 22 79 21 846.0 0 21 80 16 846.0 0 16 81 18 846.0 0 18 82 17 846.0 0 17 83 16 846.0 0 16 84 14 846.0 0 14 85 15 846.0 0 15 86 19 846.0 0 19 87 12 846.0 0 12 88 14 846.0 0 14 89 13 846.0 0 13 90 25 846.0 0 25 91 19 846.0 0 19 92 17 846.0 0 17 93 39 846.0 0 39 94 16 846.0 0 16 95 27 846.0 0 27 96 17 846.0 0 17 97 31 846.0 0 31 98 21 846.0 0 21 99 22 846.0 0 22 100 36 846.0 0 36 101 12 846.0 0 12 102 26 846.0 0 26 103 27 846.0 0 27 104 22 846.0 0 22 105 15 846.0 0 15 106 18 846.0 0 18 107 22 846.0 0 22 108 20 846.0 0 20 109 14 846.0 0 14 110 15 846.0 0 15 111 29 846.0 0 29 112 32 846.0 0 32 113 1206 846.0 0 1206 114 464 846.0 0 464 115 672 846.0 0 672 116 16 846.0 0 16 117 15 846.0 0 15 118 10 846.0 0 10 119 9 846.0 0 9 120 19 846.0 0 19 121 16 846.0 0 16 122 20 846.0 0 20 123 19 846.0 0 19 124 13 846.0 0 13 125 24 846.0 0 24 126 19 846.0 0 19 127 21 846.0 0 21 128 18 846.0 0 18 129 27 846.0 0 27 130 20 846.0 0 20 131 22 846.0 0 22 132 20 846.0 0 20 133 27 846.0 0 27 134 37 846.0 0 37 135 24 846.0 0 24 136 28 846.0 0 28 137 37 846.0 0 37 138 89 846.0 0 89 139 117 846.0 0 117 140 92 846.0 0 92 141 28 846.0 0 28 142 203 846.0 0 203 143 169 846.0 0 169 144 179 846.0 0 179 145 29 846.0 0 29 146 40 846.0 0 40 147 304 846.0 0 304 148 491 846.0 0 491 149 1032 846.0 0 1032 150 80 846.0 0 80 151 26 846.0 0 26 152 11 846.0 0 11 153 14 846.0 0 14 154 18 846.0 0 18 155 24 846.0 0 24 156 21 846.0 0 21 157 19 846.0 0 19 158 11 846.0 0 11 159 10 846.0 0 10 160 14 846.0 0 14 161 22 846.0 0 22 162 25 846.0 0 25 163 29 846.0 0 29 164 22 846.0 0 22 165 31 846.0 0 31 166 18 846.0 0 18 167 15 846.0 0 15 168 31 846.0 0 31 169 19 846.0 0 19 170 53 846.0 0 53 171 22 846.0 0 22 172 29 846.0 0 29 173 30 846.0 0 30 174 37 846.0 0 37 175 20 846.0 0 20 176 28 846.0 0 28 177 29 846.0 0 29 178 36 846.0 0 36 179 76 846.0 0 76 180 61 846.0 0 61 181 182 846.0 0 182 182 89 846.0 0 89 183 69 846.0 0 69 184 88 846.0 0 88 185 149 846.0 0 149 186 141 846.0 0 141 187 216 846.0 0 216 188 219 846.0 0 219 189 891 846.0 0 891 190 4378 846.0 0 4378 191 1551 846.0 0 1551 192 1435 846.0 0 1435 193 659 846.0 0 659 194 485 846.0 0 485 195 821 846.0 0 821 196 1063 846.0 0 1063 197 716 846.0 0 716 198 874 846.0 0 874 199 1953 846.0 0 1953 200 2939 846.0 0 2939 201 3087 846.0 0 3087 202 6042 846.0 0 6042 203 2093 846.0 0 2093 204 3894 846.0 0 3894 205 92369 846.0 0 92369 206 16051 846.0 0 16051 207 50567 846.0 0 50567 208 18027 846.0 0 18027 209 5806 846.0 0 5806 210 17391 846.0 0 17391 211 927 846.0 0 927 212 1162 846.0 0 1162 213 4693 846.0 0 4693 214 325 846.0 0 325 215 308 846.0 0 308 216 394 846.0 0 394 217 419 846.0 0 419 218 685 846.0 0 685 219 1946 846.0 0 1946 220 2432 846.0 0 2432 221 2429 846.0 0 2429 222 1746 846.0 0 1746 223 550 846.0 0 550 224 1186 846.0 0 1186 225 3102 846.0 0 3102 226 9589 846.0 0 9589 227 13678 846.0 0 13678 228 17884 846.0 0 17884 229 573 846.0 0 573 230 223 846.0 0 223 231 144 846.0 0 144 232 23 846.0 0 23 233 10 846.0 0 10 234 21 846.0 0 21 235 56 846.0 0 56 236 116 846.0 0 116 237 15 846.0 0 15 238 39 846.0 0 39 239 23 846.0 0 23 240 22 846.0 0 22 241 36 846.0 0 36 242 23 846.0 0 23 243 35 846.0 0 35 244 334 846.0 0 334 245 167 846.0 0 167 246 243 846.0 0 243 247 224 846.0 0 224 248 223 846.0 0 223 249 331 846.0 0 331 250 68 846.0 0 68 251 104 846.0 0 104 252 202 846.0 0 202 253 211 846.0 0 211 254 133 846.0 0 133 255 196 846.0 0 196 256 187 846.0 0 187 257 253 846.0 0 253 258 183 846.0 0 183 259 293 846.0 0 293 260 379 846.0 0 379 261 413 846.0 0 413 262 8058 846.0 0 8058 263 6800 846.0 0 6800 264 22270 846.0 0 22270 265 186 846.0 0 186 266 55 846.0 0 55 267 16 846.0 0 16 268 19 846.0 0 19 269 11 846.0 0 11 270 19 846.0 0 19 271 18 846.0 0 18 272 11 846.0 0 11 273 11 846.0 0 11 274 69 846.0 0 69 275 13 846.0 0 13 276 23 846.0 0 23 277 8 846.0 0 8 278 9 846.0 0 9 279 24 846.0 0 24 280 14 846.0 0 14 281 15 846.0 0 15 282 23 846.0 0 23 283 25 846.0 0 25 284 23 846.0 0 23 285 26 846.0 0 26 286 26 846.0 0 26 287 17 846.0 0 17 288 4 846.0 0 4 289 13 846.0 0 13 290 24 846.0 0 24 291 27 846.0 0 27 292 257 846.0 0 257 293 94 846.0 0 94 294 113 846.0 0 113 295 38 846.0 0 38 296 274 846.0 0 274 297 17 846.0 0 17 298 26 846.0 0 26 299 13 846.0 0 13 300 12 846.0 0 12 301 19 846.0 0 19 Finished in 1.14 s (32 us/read; 1.89 M reads/minute). === Summary === Total reads processed: 35,920 Reads with adapters: 4,610 (12.8%) Reads that were too short: 119 (0.3%) Reads written (passing filters): 4,491 (12.5%) Total basepairs processed: 5,435,599 bp Total written (filtered): 1,227,842 bp (22.6%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 4610 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 14 2 0.0 2 0 0 0 2 15 4 0.0 3 0 0 3 1 16 54 0.0 3 0 53 1 17 4340 0.0 3 4200 120 13 7 18 18 0.0 3 2 6 6 4 19 21 0.0 3 2 0 3 16 20 7 0.0 3 3 1 0 3 26 2 0.0 3 0 0 0 2 30 1 0.0 3 0 0 0 1 35 1 0.0 3 0 0 1 44 1 0.0 3 0 0 0 1 48 3 0.0 3 0 0 0 3 51 1 0.0 3 0 0 0 1 58 4 0.0 3 0 0 0 4 75 9 0.0 3 0 0 0 9 77 1 0.0 3 0 0 0 1 78 82 0.0 3 0 0 1 81 79 1 0.0 3 0 0 0 1 80 11 0.0 3 0 0 0 11 81 18 0.0 3 0 0 0 18 96 3 0.0 3 0 0 0 3 98 1 0.0 3 0 0 0 1 99 4 0.0 3 0 0 0 4 100 1 0.0 3 0 0 1 104 1 0.0 3 0 0 0 1 110 1 0.0 3 0 0 0 1 115 1 0.0 3 0 0 0 1 132 1 0.0 3 0 0 0 1 146 1 0.0 3 0 0 0 1 150 2 0.0 3 0 0 0 2 157 1 0.0 3 0 0 0 1 165 1 0.0 3 0 0 0 1 168 1 0.0 3 0 0 0 1 170 3 0.0 3 0 0 0 3 173 2 0.0 3 0 0 0 2 180 3 0.0 3 0 0 0 3 211 1 0.0 3 0 0 0 1 227 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 0.16 s (36 us/read; 1.68 M reads/minute). === Summary === Total reads processed: 4,491 Reads with adapters: 182 (4.1%) Reads written (passing filters): 4,491 (100.0%) Total basepairs processed: 1,227,842 bp Total written (filtered): 1,227,293 bp (100.0%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 182 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 58.8% C: 6.0% G: 34.1% T: 1.1% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 180 70.2 0 180 4 1 17.5 0 1 5 1 4.4 0 1