This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AGCTGG -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 92.76 s (27 us/read; 2.24 M reads/minute). === Summary === Total reads processed: 3,465,239 Reads with adapters: 323,733 (9.3%) Reads that were too short: 61,714 (1.8%) Reads written (passing filters): 262,019 (7.6%) Total basepairs processed: 1,043,036,939 bp Total written (filtered): 52,838,454 bp (5.1%) === Adapter 1 === Sequence: AGCTGG; Type: regular 5'; Length: 6; Trimmed: 323733 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 369 846.0 0 369 7 5379 846.0 0 5379 8 325 846.0 0 325 9 7196 846.0 0 7196 10 505 846.0 0 505 11 19042 846.0 0 19042 12 113 846.0 0 113 13 53 846.0 0 53 14 45 846.0 0 45 15 40 846.0 0 40 16 35 846.0 0 35 17 33 846.0 0 33 18 46 846.0 0 46 19 54 846.0 0 54 20 52 846.0 0 52 21 45 846.0 0 45 22 62 846.0 0 62 23 47 846.0 0 47 24 46 846.0 0 46 25 38 846.0 0 38 26 57 846.0 0 57 27 50 846.0 0 50 28 51 846.0 0 51 29 51 846.0 0 51 30 68 846.0 0 68 31 66 846.0 0 66 32 85 846.0 0 85 33 55 846.0 0 55 34 65 846.0 0 65 35 171 846.0 0 171 36 81 846.0 0 81 37 65 846.0 0 65 38 80 846.0 0 80 39 81 846.0 0 81 40 75 846.0 0 75 41 51 846.0 0 51 42 55 846.0 0 55 43 64 846.0 0 64 44 1198 846.0 0 1198 45 74 846.0 0 74 46 54 846.0 0 54 47 59 846.0 0 59 48 64 846.0 0 64 49 44 846.0 0 44 50 59 846.0 0 59 51 59 846.0 0 59 52 75 846.0 0 75 53 57 846.0 0 57 54 48 846.0 0 48 55 210 846.0 0 210 56 75 846.0 0 75 57 86 846.0 0 86 58 47 846.0 0 47 59 55 846.0 0 55 60 44 846.0 0 44 61 64 846.0 0 64 62 56 846.0 0 56 63 61 846.0 0 61 64 67 846.0 0 67 65 51 846.0 0 51 66 31 846.0 0 31 67 78 846.0 0 78 68 53 846.0 0 53 69 65 846.0 0 65 70 49 846.0 0 49 71 91 846.0 0 91 72 68 846.0 0 68 73 45 846.0 0 45 74 47 846.0 0 47 75 57 846.0 0 57 76 43 846.0 0 43 77 45 846.0 0 45 78 58 846.0 0 58 79 337 846.0 0 337 80 89 846.0 0 89 81 165 846.0 0 165 82 78 846.0 0 78 83 224 846.0 0 224 84 135 846.0 0 135 85 177 846.0 0 177 86 73 846.0 0 73 87 107 846.0 0 107 88 68 846.0 0 68 89 283 846.0 0 283 90 137 846.0 0 137 91 85 846.0 0 85 92 94 846.0 0 94 93 233 846.0 0 233 94 118 846.0 0 118 95 152 846.0 0 152 96 211 846.0 0 211 97 351 846.0 0 351 98 861 846.0 0 861 99 1923 846.0 0 1923 100 1368 846.0 0 1368 101 225 846.0 0 225 102 250 846.0 0 250 103 397 846.0 0 397 104 1388 846.0 0 1388 105 789 846.0 0 789 106 429 846.0 0 429 107 645 846.0 0 645 108 642 846.0 0 642 109 861 846.0 0 861 110 1272 846.0 0 1272 111 1447 846.0 0 1447 112 5719 846.0 0 5719 113 184102 846.0 0 184102 114 2957 846.0 0 2957 115 7181 846.0 0 7181 116 117 846.0 0 117 117 55 846.0 0 55 118 47 846.0 0 47 119 61 846.0 0 61 120 47 846.0 0 47 121 27 846.0 0 27 122 47 846.0 0 47 123 62 846.0 0 62 124 57 846.0 0 57 125 57 846.0 0 57 126 72 846.0 0 72 127 65 846.0 0 65 128 51 846.0 0 51 129 102 846.0 0 102 130 311 846.0 0 311 131 868 846.0 0 868 132 66 846.0 0 66 133 52 846.0 0 52 134 53 846.0 0 53 135 66 846.0 0 66 136 84 846.0 0 84 137 49 846.0 0 49 138 61 846.0 0 61 139 63 846.0 0 63 140 76 846.0 0 76 141 106 846.0 0 106 142 60 846.0 0 60 143 242 846.0 0 242 144 179 846.0 0 179 145 52 846.0 0 52 146 48 846.0 0 48 147 57 846.0 0 57 148 128 846.0 0 128 149 69 846.0 0 69 150 50 846.0 0 50 151 56 846.0 0 56 152 52 846.0 0 52 153 63 846.0 0 63 154 119 846.0 0 119 155 427 846.0 0 427 156 703 846.0 0 703 157 160 846.0 0 160 158 364 846.0 0 364 159 46 846.0 0 46 160 45 846.0 0 45 161 50 846.0 0 50 162 46 846.0 0 46 163 58 846.0 0 58 164 63 846.0 0 63 165 53 846.0 0 53 166 48 846.0 0 48 167 154 846.0 0 154 168 266 846.0 0 266 169 241 846.0 0 241 170 45 846.0 0 45 171 36 846.0 0 36 172 49 846.0 0 49 173 36 846.0 0 36 174 37 846.0 0 37 175 34 846.0 0 34 176 39 846.0 0 39 177 39 846.0 0 39 178 57 846.0 0 57 179 45 846.0 0 45 180 53 846.0 0 53 181 51 846.0 0 51 182 42 846.0 0 42 183 54 846.0 0 54 184 42 846.0 0 42 185 40 846.0 0 40 186 58 846.0 0 58 187 46 846.0 0 46 188 46 846.0 0 46 189 78 846.0 0 78 190 64 846.0 0 64 191 47 846.0 0 47 192 47 846.0 0 47 193 43 846.0 0 43 194 36 846.0 0 36 195 31 846.0 0 31 196 60 846.0 0 60 197 48 846.0 0 48 198 52 846.0 0 52 199 36 846.0 0 36 200 133 846.0 0 133 201 168 846.0 0 168 202 377 846.0 0 377 203 109 846.0 0 109 204 73 846.0 0 73 205 54 846.0 0 54 206 47 846.0 0 47 207 40 846.0 0 40 208 41 846.0 0 41 209 71 846.0 0 71 210 48 846.0 0 48 211 70 846.0 0 70 212 81 846.0 0 81 213 111 846.0 0 111 214 66 846.0 0 66 215 55 846.0 0 55 216 68 846.0 0 68 217 79 846.0 0 79 218 117 846.0 0 117 219 38 846.0 0 38 220 23 846.0 0 23 221 43 846.0 0 43 222 43 846.0 0 43 223 50 846.0 0 50 224 57 846.0 0 57 225 65 846.0 0 65 226 50 846.0 0 50 227 60 846.0 0 60 228 270 846.0 0 270 229 76 846.0 0 76 230 213 846.0 0 213 231 65 846.0 0 65 232 58 846.0 0 58 233 216 846.0 0 216 234 107 846.0 0 107 235 89 846.0 0 89 236 73 846.0 0 73 237 74 846.0 0 74 238 42 846.0 0 42 239 47 846.0 0 47 240 69 846.0 0 69 241 27 846.0 0 27 242 41 846.0 0 41 243 76 846.0 0 76 244 44 846.0 0 44 245 46 846.0 0 46 246 54 846.0 0 54 247 29 846.0 0 29 248 52 846.0 0 52 249 21 846.0 0 21 250 34 846.0 0 34 251 59 846.0 0 59 252 339 846.0 0 339 253 114 846.0 0 114 254 99 846.0 0 99 255 392 846.0 0 392 256 114 846.0 0 114 257 62 846.0 0 62 258 42 846.0 0 42 259 32 846.0 0 32 260 29 846.0 0 29 261 70 846.0 0 70 262 50 846.0 0 50 263 57 846.0 0 57 264 66 846.0 0 66 265 47 846.0 0 47 266 47 846.0 0 47 267 30 846.0 0 30 268 34 846.0 0 34 269 77 846.0 0 77 270 119 846.0 0 119 271 90 846.0 0 90 272 87 846.0 0 87 273 58 846.0 0 58 274 59 846.0 0 59 275 35 846.0 0 35 276 53 846.0 0 53 277 45 846.0 0 45 278 85 846.0 0 85 279 95 846.0 0 95 280 92 846.0 0 92 281 93 846.0 0 93 282 76 846.0 0 76 283 126 846.0 0 126 284 231 846.0 0 231 285 371 846.0 0 371 286 98 846.0 0 98 287 109 846.0 0 109 288 121 846.0 0 121 289 68 846.0 0 68 290 161 846.0 0 161 291 296 846.0 0 296 292 317 846.0 0 317 293 286 846.0 0 286 294 383 846.0 0 383 295 680 846.0 0 680 296 5085 846.0 0 5085 297 22781 846.0 0 22781 298 11431 846.0 0 11431 299 4714 846.0 0 4714 300 7865 846.0 0 7865 301 85 846.0 0 85 Finished in 9.06 s (35 us/read; 1.74 M reads/minute). === Summary === Total reads processed: 262,019 Reads with adapters: 5,261 (2.0%) Reads that were too short: 138 (0.1%) Reads written (passing filters): 5,123 (2.0%) Total basepairs processed: 52,838,454 bp Total written (filtered): 1,399,163 bp (2.6%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 5261 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 16 28 0.0 3 0 25 3 17 4907 0.0 3 4782 110 13 2 18 19 0.0 3 0 11 8 19 27 0.0 3 9 2 6 10 20 3 0.0 3 0 0 0 3 21 1 0.0 3 0 0 1 23 20 0.0 3 0 0 0 20 24 1 0.0 3 0 0 0 1 32 23 0.0 3 0 0 0 23 35 6 0.0 3 0 0 0 6 38 1 0.0 3 0 0 0 1 43 1 0.0 3 0 0 0 1 48 1 0.0 3 0 0 0 1 49 2 0.0 3 0 0 0 2 50 3 0.0 3 0 0 0 3 53 32 0.0 3 0 0 1 31 56 7 0.0 3 0 0 0 7 58 3 0.0 3 0 0 0 3 62 1 0.0 3 0 0 0 1 65 1 0.0 3 0 0 0 1 73 2 0.0 3 1 0 1 76 1 0.0 3 0 0 0 1 77 23 0.0 3 0 0 2 21 79 2 0.0 3 0 0 0 2 80 1 0.0 3 0 0 0 1 81 1 0.0 3 0 0 0 1 87 1 0.0 3 0 0 0 1 104 10 0.0 3 0 0 0 10 106 2 0.0 3 0 0 0 2 108 1 0.0 3 0 0 0 1 117 1 0.0 3 0 0 1 119 1 0.0 3 0 0 0 1 121 2 0.0 3 0 0 0 2 122 24 0.0 3 0 0 0 24 125 2 0.0 3 0 0 0 2 138 1 0.0 3 0 0 0 1 153 41 0.0 3 0 0 0 41 154 15 0.0 3 0 0 0 15 155 5 0.0 3 0 0 0 5 156 2 0.0 3 0 0 0 2 162 1 0.0 3 0 0 0 1 164 1 0.0 3 0 0 0 1 165 1 0.0 3 0 0 0 1 166 1 0.0 3 0 0 0 1 168 1 0.0 3 0 0 0 1 173 3 0.0 3 0 0 0 3 177 1 0.0 3 0 0 0 1 180 2 0.0 3 0 0 0 2 185 10 0.0 3 0 0 0 10 188 1 0.0 3 0 0 0 1 190 1 0.0 3 0 0 0 1 200 1 0.0 3 0 0 0 1 207 1 0.0 3 0 0 0 1 209 1 0.0 3 0 0 0 1 219 1 0.0 3 0 0 0 1 259 1 0.0 3 0 0 0 1 268 1 0.0 3 0 0 0 1 278 1 0.0 3 0 0 0 1 279 1 0.0 3 0 0 0 1 280 2 0.0 3 0 0 0 2 281 1 0.0 3 0 0 0 1 282 2 0.0 3 0 0 0 2 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 0.18 s (35 us/read; 1.71 M reads/minute). === Summary === Total reads processed: 5,123 Reads with adapters: 506 (9.9%) Reads written (passing filters): 5,123 (100.0%) Total basepairs processed: 1,399,163 bp Total written (filtered): 1,397,636 bp (99.9%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 506 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 25.1% C: 66.0% G: 4.3% T: 4.5% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 502 80.0 0 502 4 2 20.0 0 2 6 1 1.3 0 1 7 1 0.3 0 1