This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CACTCT -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g ggactacnngggtatctaat -e 0.2 -O 20 - Trimming 1 adapter with at most 20.0% errors in single-end mode ... Finished in 166.92 s (48 us/read; 1.25 M reads/minute). === Summary === Total reads processed: 3,470,393 Reads with adapters: 454,839 (13.1%) Reads that were too short: 19,503 (0.6%) Reads written (passing filters): 435,336 (12.5%) Total basepairs processed: 1,044,588,293 bp Total written (filtered): 75,149,416 bp (7.2%) === Adapter 1 === Sequence: CACTCT; Type: regular 5'; Length: 6; Trimmed: 454839 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1902 847.3 0 1902 7 41511 847.3 0 41511 8 311 847.3 0 311 9 28400 847.3 0 28400 10 36 847.3 0 36 11 28 847.3 0 28 12 35 847.3 0 35 13 20 847.3 0 20 14 23 847.3 0 23 15 22 847.3 0 22 16 33 847.3 0 33 17 43 847.3 0 43 18 26 847.3 0 26 19 24 847.3 0 24 20 27 847.3 0 27 21 15 847.3 0 15 22 26 847.3 0 26 23 31 847.3 0 31 24 32 847.3 0 32 25 39 847.3 0 39 26 27 847.3 0 27 27 24 847.3 0 24 28 33 847.3 0 33 29 29 847.3 0 29 30 29 847.3 0 29 31 37 847.3 0 37 32 24 847.3 0 24 33 33 847.3 0 33 34 35 847.3 0 35 35 51 847.3 0 51 36 47 847.3 0 47 37 40 847.3 0 40 38 23 847.3 0 23 39 41 847.3 0 41 40 29 847.3 0 29 41 26 847.3 0 26 42 26 847.3 0 26 43 48 847.3 0 48 44 44 847.3 0 44 45 18 847.3 0 18 46 99 847.3 0 99 47 122 847.3 0 122 48 242 847.3 0 242 49 58 847.3 0 58 50 36 847.3 0 36 51 30 847.3 0 30 52 22 847.3 0 22 53 42 847.3 0 42 54 82 847.3 0 82 55 54 847.3 0 54 56 43 847.3 0 43 57 30 847.3 0 30 58 38 847.3 0 38 59 35 847.3 0 35 60 30 847.3 0 30 61 35 847.3 0 35 62 38 847.3 0 38 63 35 847.3 0 35 64 40 847.3 0 40 65 29 847.3 0 29 66 30 847.3 0 30 67 25 847.3 0 25 68 48 847.3 0 48 69 49 847.3 0 49 70 88 847.3 0 88 71 64 847.3 0 64 72 83 847.3 0 83 73 44 847.3 0 44 74 35 847.3 0 35 75 36 847.3 0 36 76 25 847.3 0 25 77 31 847.3 0 31 78 27 847.3 0 27 79 37 847.3 0 37 80 36 847.3 0 36 81 45 847.3 0 45 82 38 847.3 0 38 83 45 847.3 0 45 84 59 847.3 0 59 85 61 847.3 0 61 86 43 847.3 0 43 87 71 847.3 0 71 88 96 847.3 0 96 89 79 847.3 0 79 90 109 847.3 0 109 91 114 847.3 0 114 92 77 847.3 0 77 93 69 847.3 0 69 94 110 847.3 0 110 95 113 847.3 0 113 96 98 847.3 0 98 97 58 847.3 0 58 98 58 847.3 0 58 99 54 847.3 0 54 100 51 847.3 0 51 101 36 847.3 0 36 102 47 847.3 0 47 103 60 847.3 0 60 104 296 847.3 0 296 105 432 847.3 0 432 106 718 847.3 0 718 107 147 847.3 0 147 108 88 847.3 0 88 109 148 847.3 0 148 110 149 847.3 0 149 111 106 847.3 0 106 112 219 847.3 0 219 113 147 847.3 0 147 114 176 847.3 0 176 115 67 847.3 0 67 116 136 847.3 0 136 117 80 847.3 0 80 118 124 847.3 0 124 119 448 847.3 0 448 120 58 847.3 0 58 121 81 847.3 0 81 122 57 847.3 0 57 123 65 847.3 0 65 124 118 847.3 0 118 125 114 847.3 0 114 126 268 847.3 0 268 127 295 847.3 0 295 128 426 847.3 0 426 129 791 847.3 0 791 130 139 847.3 0 139 131 361 847.3 0 361 132 213 847.3 0 213 133 374 847.3 0 374 134 1428 847.3 0 1428 135 747 847.3 0 747 136 567 847.3 0 567 137 175 847.3 0 175 138 220 847.3 0 220 139 533 847.3 0 533 140 459 847.3 0 459 141 838 847.3 0 838 142 1249 847.3 0 1249 143 1309 847.3 0 1309 144 2749 847.3 0 2749 145 3108 847.3 0 3108 146 41295 847.3 0 41295 147 43820 847.3 0 43820 148 88580 847.3 0 88580 149 1200 847.3 0 1200 150 602 847.3 0 602 151 706 847.3 0 706 152 580 847.3 0 580 153 779 847.3 0 779 154 529 847.3 0 529 155 598 847.3 0 598 156 712 847.3 0 712 157 1196 847.3 0 1196 158 1201 847.3 0 1201 159 2391 847.3 0 2391 160 2956 847.3 0 2956 161 29726 847.3 0 29726 162 45831 847.3 0 45831 163 70743 847.3 0 70743 164 361 847.3 0 361 165 134 847.3 0 134 166 72 847.3 0 72 167 94 847.3 0 94 168 58 847.3 0 58 169 81 847.3 0 81 170 38 847.3 0 38 171 58 847.3 0 58 172 51 847.3 0 51 173 75 847.3 0 75 174 108 847.3 0 108 175 131 847.3 0 131 176 123 847.3 0 123 177 70 847.3 0 70 178 49 847.3 0 49 179 87 847.3 0 87 180 77 847.3 0 77 181 476 847.3 0 476 182 927 847.3 0 927 183 324 847.3 0 324 184 192 847.3 0 192 185 71 847.3 0 71 186 83 847.3 0 83 187 96 847.3 0 96 188 99 847.3 0 99 189 95 847.3 0 95 190 55 847.3 0 55 191 54 847.3 0 54 192 73 847.3 0 73 193 64 847.3 0 64 194 90 847.3 0 90 195 200 847.3 0 200 196 84 847.3 0 84 197 91 847.3 0 91 198 66 847.3 0 66 199 67 847.3 0 67 200 79 847.3 0 79 201 78 847.3 0 78 202 71 847.3 0 71 203 45 847.3 0 45 204 65 847.3 0 65 205 62 847.3 0 62 206 62 847.3 0 62 207 65 847.3 0 65 208 56 847.3 0 56 209 58 847.3 0 58 210 64 847.3 0 64 211 51 847.3 0 51 212 50 847.3 0 50 213 68 847.3 0 68 214 117 847.3 0 117 215 119 847.3 0 119 216 113 847.3 0 113 217 88 847.3 0 88 218 93 847.3 0 93 219 109 847.3 0 109 220 128 847.3 0 128 221 105 847.3 0 105 222 95 847.3 0 95 223 81 847.3 0 81 224 64 847.3 0 64 225 63 847.3 0 63 226 70 847.3 0 70 227 63 847.3 0 63 228 99 847.3 0 99 229 99 847.3 0 99 230 95 847.3 0 95 231 123 847.3 0 123 232 119 847.3 0 119 233 108 847.3 0 108 234 94 847.3 0 94 235 92 847.3 0 92 236 90 847.3 0 90 237 98 847.3 0 98 238 160 847.3 0 160 239 310 847.3 0 310 240 756 847.3 0 756 241 1679 847.3 0 1679 242 1415 847.3 0 1415 243 255 847.3 0 255 244 197 847.3 0 197 245 150 847.3 0 150 246 76 847.3 0 76 247 86 847.3 0 86 248 108 847.3 0 108 249 102 847.3 0 102 250 98 847.3 0 98 251 89 847.3 0 89 252 78 847.3 0 78 253 114 847.3 0 114 254 123 847.3 0 123 255 125 847.3 0 125 256 98 847.3 0 98 257 94 847.3 0 94 258 75 847.3 0 75 259 113 847.3 0 113 260 99 847.3 0 99 261 87 847.3 0 87 262 80 847.3 0 80 263 91 847.3 0 91 264 68 847.3 0 68 265 104 847.3 0 104 266 103 847.3 0 103 267 348 847.3 0 348 268 537 847.3 0 537 269 777 847.3 0 777 270 507 847.3 0 507 271 186 847.3 0 186 272 218 847.3 0 218 273 174 847.3 0 174 274 154 847.3 0 154 275 352 847.3 0 352 276 346 847.3 0 346 277 622 847.3 0 622 278 1016 847.3 0 1016 279 916 847.3 0 916 280 639 847.3 0 639 281 246 847.3 0 246 282 192 847.3 0 192 283 166 847.3 0 166 284 110 847.3 0 110 285 73 847.3 0 73 286 117 847.3 0 117 287 99 847.3 0 99 288 173 847.3 0 173 289 157 847.3 0 157 290 148 847.3 0 148 291 110 847.3 0 110 292 135 847.3 0 135 293 131 847.3 0 131 294 180 847.3 0 180 295 164 847.3 0 164 296 117 847.3 0 117 297 87 847.3 0 87 298 87 847.3 0 87 299 74 847.3 0 74 300 66 847.3 0 66 301 104 847.3 0 104 Finished in 25.37 s (58 us/read; 1.03 M reads/minute). === Summary === Total reads processed: 435,336 Reads with adapters: 42,983 (9.9%) Reads that were too short: 12 (0.0%) Reads written (passing filters): 42,971 (9.9%) Total basepairs processed: 75,149,416 bp Total written (filtered): 11,772,485 bp (15.7%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 42983 times. No. of allowed errors: 0-4 bp: 0; 5-9 bp: 1; 10-14 bp: 2; 15-19 bp: 3; 20 bp: 4 Overview of removed sequences length count expect max.err error counts 17 13 0.0 3 0 0 0 1 12 18 14 0.0 3 0 0 14 19 478 0.0 3 0 463 11 1 3 20 41989 0.0 4 41358 607 21 2 1 21 130 0.0 4 19 110 1 22 15 0.0 4 8 0 6 1 23 308 0.0 4 269 7 0 27 5 24 1 0.0 4 0 1 26 1 0.0 4 1 27 1 0.0 4 0 0 1 28 16 0.0 4 0 0 0 0 16 34 1 0.0 4 1 35 1 0.0 4 0 0 0 0 1 36 1 0.0 4 0 0 0 0 1 46 1 0.0 4 0 0 0 0 1 48 1 0.0 4 0 0 0 0 1 59 1 0.0 4 0 0 0 0 1 104 1 0.0 4 0 0 0 0 1 129 1 0.0 4 0 0 0 0 1 130 2 0.0 4 0 0 0 0 2 134 1 0.0 4 0 0 0 0 1 138 1 0.0 4 0 0 0 0 1 153 1 0.0 4 0 0 1 235 1 0.0 4 0 0 0 0 1 263 1 0.0 4 0 0 0 0 1 276 1 0.0 4 0 0 0 0 1 277 1 0.0 4 0 0 0 1 This is cutadapt 1.11 with Python 2.7.12 Command line parameters: -a CTGSTGCVYCCCRTAGG - Trimming 1 adapter with at most 10.0% errors in single-end mode ... Finished in 2.42 s (56 us/read; 1.07 M reads/minute). === Summary === Total reads processed: 42,971 Reads with adapters: 269 (0.6%) Reads written (passing filters): 42,971 (100.0%) Total basepairs processed: 11,772,485 bp Total written (filtered): 11,767,397 bp (100.0%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 269 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 10.0% C: 9.7% G: 75.8% T: 4.5% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 30 671.4 0 30 4 8 167.9 0 8 5 3 42.0 0 3 9 63 0.2 0 3 60 10 14 0.0 1 0 14 11 89 0.0 1 1 88 12 41 0.0 1 1 40 13 1 0.0 1 0 1 14 1 0.0 1 0 1 15 4 0.0 1 0 4 150 1 0.0 1 0 1 152 9 0.0 1 0 9 153 1 0.0 1 0 1 210 1 0.0 1 0 1 268 2 0.0 1 2 269 1 0.0 1 1