This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CCGGAA -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 87.97 s (25 us/read; 2.36 M reads/minute). === Summary === Total reads processed: 3,465,239 Reads with adapters: 650,575 (18.8%) Reads that were too short: 578,683 (16.7%) Reads written (passing filters): 71,892 (2.1%) Total basepairs processed: 1,043,036,939 bp Total written (filtered): 11,595,225 bp (1.1%) === Adapter 1 === Sequence: CCGGAA; Type: regular 5'; Length: 6; Trimmed: 650575 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 421 846.0 0 421 7 3979 846.0 0 3979 8 201 846.0 0 201 9 58 846.0 0 58 10 16 846.0 0 16 11 12 846.0 0 12 12 22 846.0 0 22 13 7 846.0 0 7 14 18 846.0 0 18 15 11 846.0 0 11 16 25 846.0 0 25 17 14 846.0 0 14 18 41 846.0 0 41 19 25 846.0 0 25 20 35 846.0 0 35 21 21 846.0 0 21 22 20 846.0 0 20 23 34 846.0 0 34 24 16 846.0 0 16 25 20 846.0 0 20 26 23 846.0 0 23 27 25 846.0 0 25 28 28 846.0 0 28 29 14 846.0 0 14 30 14 846.0 0 14 31 27 846.0 0 27 32 16 846.0 0 16 33 32 846.0 0 32 34 59 846.0 0 59 35 29 846.0 0 29 36 38 846.0 0 38 37 38 846.0 0 38 38 21 846.0 0 21 39 74 846.0 0 74 40 155 846.0 0 155 41 17 846.0 0 17 42 17 846.0 0 17 43 24 846.0 0 24 44 17 846.0 0 17 45 28 846.0 0 28 46 22 846.0 0 22 47 55 846.0 0 55 48 158 846.0 0 158 49 124 846.0 0 124 50 46 846.0 0 46 51 47 846.0 0 47 52 72 846.0 0 72 53 13 846.0 0 13 54 20 846.0 0 20 55 18 846.0 0 18 56 12 846.0 0 12 57 21 846.0 0 21 58 31 846.0 0 31 59 28 846.0 0 28 60 34 846.0 0 34 61 36 846.0 0 36 62 27 846.0 0 27 63 55 846.0 0 55 64 30 846.0 0 30 65 16 846.0 0 16 66 61 846.0 0 61 67 26 846.0 0 26 68 23 846.0 0 23 69 16 846.0 0 16 70 10 846.0 0 10 71 19 846.0 0 19 72 28 846.0 0 28 73 25 846.0 0 25 74 68 846.0 0 68 75 24 846.0 0 24 76 14 846.0 0 14 77 82 846.0 0 82 78 77 846.0 0 77 79 87 846.0 0 87 80 21 846.0 0 21 81 10 846.0 0 10 82 8 846.0 0 8 83 22 846.0 0 22 84 23 846.0 0 23 85 34 846.0 0 34 86 63 846.0 0 63 87 27 846.0 0 27 88 18 846.0 0 18 89 17 846.0 0 17 90 21 846.0 0 21 91 23 846.0 0 23 92 24 846.0 0 24 93 32 846.0 0 32 94 77 846.0 0 77 95 76 846.0 0 76 96 84 846.0 0 84 97 180 846.0 0 180 98 48 846.0 0 48 99 34 846.0 0 34 100 25 846.0 0 25 101 35 846.0 0 35 102 49 846.0 0 49 103 49 846.0 0 49 104 35 846.0 0 35 105 36 846.0 0 36 106 25 846.0 0 25 107 26 846.0 0 26 108 38 846.0 0 38 109 67 846.0 0 67 110 31 846.0 0 31 111 25 846.0 0 25 112 27 846.0 0 27 113 24 846.0 0 24 114 33 846.0 0 33 115 147 846.0 0 147 116 436 846.0 0 436 117 496 846.0 0 496 118 67 846.0 0 67 119 107 846.0 0 107 120 39 846.0 0 39 121 46 846.0 0 46 122 44 846.0 0 44 123 47 846.0 0 47 124 59 846.0 0 59 125 60 846.0 0 60 126 56 846.0 0 56 127 38 846.0 0 38 128 58 846.0 0 58 129 106 846.0 0 106 130 91 846.0 0 91 131 131 846.0 0 131 132 153 846.0 0 153 133 222 846.0 0 222 134 398 846.0 0 398 135 588 846.0 0 588 136 22209 846.0 0 22209 137 4072 846.0 0 4072 138 10899 846.0 0 10899 139 721 846.0 0 721 140 55 846.0 0 55 141 43 846.0 0 43 142 83 846.0 0 83 143 49 846.0 0 49 144 45 846.0 0 45 145 33 846.0 0 33 146 35 846.0 0 35 147 27 846.0 0 27 148 36 846.0 0 36 149 28 846.0 0 28 150 55 846.0 0 55 151 52 846.0 0 52 152 30 846.0 0 30 153 34 846.0 0 34 154 50 846.0 0 50 155 95 846.0 0 95 156 93 846.0 0 93 157 102 846.0 0 102 158 68 846.0 0 68 159 67 846.0 0 67 160 168 846.0 0 168 161 726 846.0 0 726 162 880 846.0 0 880 163 1106 846.0 0 1106 164 43 846.0 0 43 165 57 846.0 0 57 166 63 846.0 0 63 167 67 846.0 0 67 168 53 846.0 0 53 169 54 846.0 0 54 170 50 846.0 0 50 171 44 846.0 0 44 172 52 846.0 0 52 173 58 846.0 0 58 174 98 846.0 0 98 175 144 846.0 0 144 176 83 846.0 0 83 177 67 846.0 0 67 178 65 846.0 0 65 179 52 846.0 0 52 180 86 846.0 0 86 181 130 846.0 0 130 182 120 846.0 0 120 183 266 846.0 0 266 184 143 846.0 0 143 185 106 846.0 0 106 186 109 846.0 0 109 187 260 846.0 0 260 188 236 846.0 0 236 189 289 846.0 0 289 190 434 846.0 0 434 191 782 846.0 0 782 192 1054 846.0 0 1054 193 1861 846.0 0 1861 194 1995 846.0 0 1995 195 757 846.0 0 757 196 652 846.0 0 652 197 1211 846.0 0 1211 198 1553 846.0 0 1553 199 1183 846.0 0 1183 200 1221 846.0 0 1221 201 2660 846.0 0 2660 202 4029 846.0 0 4029 203 5126 846.0 0 5126 204 10115 846.0 0 10115 205 25987 846.0 0 25987 206 24630 846.0 0 24630 207 105922 846.0 0 105922 208 25744 846.0 0 25744 209 79430 846.0 0 79430 210 18617 846.0 0 18617 211 6859 846.0 0 6859 212 18573 846.0 0 18573 213 1059 846.0 0 1059 214 1656 846.0 0 1656 215 4722 846.0 0 4722 216 449 846.0 0 449 217 861 846.0 0 861 218 502 846.0 0 502 219 612 846.0 0 612 220 1155 846.0 0 1155 221 1326 846.0 0 1326 222 8511 846.0 0 8511 223 9121 846.0 0 9121 224 11125 846.0 0 11125 225 951 846.0 0 951 226 1428 846.0 0 1428 227 20222 846.0 0 20222 228 16798 846.0 0 16798 229 38687 846.0 0 38687 230 1306 846.0 0 1306 231 84 846.0 0 84 232 75 846.0 0 75 233 89 846.0 0 89 234 137 846.0 0 137 235 176 846.0 0 176 236 660 846.0 0 660 237 23145 846.0 0 23145 238 247 846.0 0 247 239 868 846.0 0 868 240 14 846.0 0 14 241 13 846.0 0 13 242 11 846.0 0 11 243 11 846.0 0 11 244 22 846.0 0 22 245 17 846.0 0 17 246 61 846.0 0 61 247 70 846.0 0 70 248 227 846.0 0 227 249 51 846.0 0 51 250 33 846.0 0 33 251 15 846.0 0 15 252 82 846.0 0 82 253 61 846.0 0 61 254 71 846.0 0 71 255 89 846.0 0 89 256 207 846.0 0 207 257 445 846.0 0 445 258 1061 846.0 0 1061 259 715 846.0 0 715 260 518 846.0 0 518 261 1623 846.0 0 1623 262 2563 846.0 0 2563 263 1658 846.0 0 1658 264 588 846.0 0 588 265 216 846.0 0 216 266 327 846.0 0 327 267 251 846.0 0 251 268 363 846.0 0 363 269 526 846.0 0 526 270 612 846.0 0 612 271 2461 846.0 0 2461 272 86417 846.0 0 86417 273 976 846.0 0 976 274 1175 846.0 0 1175 275 70 846.0 0 70 276 58 846.0 0 58 277 92 846.0 0 92 278 63 846.0 0 63 279 196 846.0 0 196 280 89 846.0 0 89 281 20 846.0 0 20 282 55 846.0 0 55 283 52 846.0 0 52 284 1121 846.0 0 1121 285 55 846.0 0 55 286 243 846.0 0 243 287 326 846.0 0 326 288 281 846.0 0 281 289 48 846.0 0 48 290 17 846.0 0 17 291 33 846.0 0 33 292 231 846.0 0 231 293 173 846.0 0 173 294 45 846.0 0 45 295 79 846.0 0 79 296 144 846.0 0 144 297 199 846.0 0 199 298 225 846.0 0 225 299 115 846.0 0 115 300 30 846.0 0 30 301 69 846.0 0 69 Finished in 2.60 s (36 us/read; 1.66 M reads/minute). === Summary === Total reads processed: 71,892 Reads with adapters: 4,234 (5.9%) Reads that were too short: 8 (0.0%) Reads written (passing filters): 4,226 (5.9%) Total basepairs processed: 11,595,225 bp Total written (filtered): 1,151,459 bp (9.9%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 4234 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 18 3 0.0 3 0 0 3 19 35 0.0 3 0 34 0 1 20 3741 0.0 4 3701 37 3 21 15 0.0 4 2 12 0 0 1 22 10 0.0 4 2 7 0 0 1 23 358 0.0 4 352 5 0 1 34 1 0.0 4 0 0 0 0 1 52 1 0.0 4 0 0 0 0 1 54 1 0.0 4 0 0 0 0 1 75 1 0.0 4 0 0 0 0 1 80 13 0.0 4 0 0 0 1 12 81 24 0.0 4 0 0 0 4 20 82 1 0.0 4 0 0 0 0 1 85 1 0.0 4 0 0 0 1 102 1 0.0 4 0 0 0 0 1 103 1 0.0 4 0 0 0 0 1 109 6 0.0 4 0 0 0 1 5 111 18 0.0 4 0 0 1 16 1 128 1 0.0 4 0 0 0 0 1 159 1 0.0 4 0 0 0 0 1 249 1 0.0 4 0 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 0.15 s (35 us/read; 1.69 M reads/minute). === Summary === Total reads processed: 4,226 Reads with adapters: 58 (1.4%) Reads written (passing filters): 4,226 (100.0%) Total basepairs processed: 1,151,459 bp Total written (filtered): 1,144,295 bp (99.4%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 58 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 13.8% C: 8.6% G: 75.9% T: 1.7% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 2 66.0 0 2 10 7 0.0 1 0 7 11 22 0.0 1 0 22 12 1 0.0 1 0 1 171 1 0.0 1 1 256 2 0.0 1 1 1 257 1 0.0 1 1 261 1 0.0 1 1 263 7 0.0 1 6 1 265 1 0.0 1 1 270 1 0.0 1 1 271 8 0.0 1 8 272 3 0.0 1 3 273 1 0.0 1 1