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 58.42 s (27 us/read; 2.25 M reads/minute). === Summary === Total reads processed: 2,192,295 Reads with adapters: 329,060 (15.0%) Reads that were too short: 15,906 (0.7%) Reads written (passing filters): 313,154 (14.3%) Total basepairs processed: 659,880,795 bp Total written (filtered): 45,747,231 bp (6.9%) === Adapter 1 === Sequence: CACTCT; Type: regular 5'; Length: 6; Trimmed: 329060 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 148 535.2 0 148 7 1585 535.2 0 1585 8 28 535.2 0 28 9 1414 535.2 0 1414 10 47 535.2 0 47 11 21 535.2 0 21 12 54 535.2 0 54 13 17 535.2 0 17 14 33 535.2 0 33 15 29 535.2 0 29 16 14 535.2 0 14 17 32 535.2 0 32 18 22 535.2 0 22 19 18 535.2 0 18 20 21 535.2 0 21 21 18 535.2 0 18 22 18 535.2 0 18 23 24 535.2 0 24 24 29 535.2 0 29 25 21 535.2 0 21 26 30 535.2 0 30 27 20 535.2 0 20 28 18 535.2 0 18 29 20 535.2 0 20 30 40 535.2 0 40 31 26 535.2 0 26 32 27 535.2 0 27 33 27 535.2 0 27 34 30 535.2 0 30 35 34 535.2 0 34 36 57 535.2 0 57 37 46 535.2 0 46 38 21 535.2 0 21 39 28 535.2 0 28 40 37 535.2 0 37 41 31 535.2 0 31 42 21 535.2 0 21 43 47 535.2 0 47 44 67 535.2 0 67 45 30 535.2 0 30 46 208 535.2 0 208 47 101 535.2 0 101 48 166 535.2 0 166 49 32 535.2 0 32 50 44 535.2 0 44 51 31 535.2 0 31 52 41 535.2 0 41 53 36 535.2 0 36 54 41 535.2 0 41 55 33 535.2 0 33 56 45 535.2 0 45 57 52 535.2 0 52 58 19 535.2 0 19 59 17 535.2 0 17 60 39 535.2 0 39 61 36 535.2 0 36 62 35 535.2 0 35 63 32 535.2 0 32 64 27 535.2 0 27 65 31 535.2 0 31 66 33 535.2 0 33 67 126 535.2 0 126 68 48 535.2 0 48 69 56 535.2 0 56 70 25 535.2 0 25 71 69 535.2 0 69 72 81 535.2 0 81 73 48 535.2 0 48 74 44 535.2 0 44 75 27 535.2 0 27 76 20 535.2 0 20 77 21 535.2 0 21 78 44 535.2 0 44 79 31 535.2 0 31 80 36 535.2 0 36 81 32 535.2 0 32 82 35 535.2 0 35 83 39 535.2 0 39 84 45 535.2 0 45 85 36 535.2 0 36 86 28 535.2 0 28 87 37 535.2 0 37 88 64 535.2 0 64 89 46 535.2 0 46 90 63 535.2 0 63 91 72 535.2 0 72 92 56 535.2 0 56 93 43 535.2 0 43 94 52 535.2 0 52 95 49 535.2 0 49 96 66 535.2 0 66 97 45 535.2 0 45 98 53 535.2 0 53 99 41 535.2 0 41 100 37 535.2 0 37 101 44 535.2 0 44 102 30 535.2 0 30 103 75 535.2 0 75 104 115 535.2 0 115 105 199 535.2 0 199 106 444 535.2 0 444 107 141 535.2 0 141 108 125 535.2 0 125 109 83 535.2 0 83 110 82 535.2 0 82 111 84 535.2 0 84 112 111 535.2 0 111 113 74 535.2 0 74 114 92 535.2 0 92 115 41 535.2 0 41 116 61 535.2 0 61 117 48 535.2 0 48 118 87 535.2 0 87 119 137 535.2 0 137 120 30 535.2 0 30 121 54 535.2 0 54 122 58 535.2 0 58 123 56 535.2 0 56 124 117 535.2 0 117 125 81 535.2 0 81 126 114 535.2 0 114 127 196 535.2 0 196 128 159 535.2 0 159 129 320 535.2 0 320 130 111 535.2 0 111 131 197 535.2 0 197 132 90 535.2 0 90 133 133 535.2 0 133 134 718 535.2 0 718 135 156 535.2 0 156 136 168 535.2 0 168 137 73 535.2 0 73 138 123 535.2 0 123 139 183 535.2 0 183 140 190 535.2 0 190 141 414 535.2 0 414 142 417 535.2 0 417 143 764 535.2 0 764 144 1390 535.2 0 1390 145 1421 535.2 0 1421 146 22689 535.2 0 22689 147 19210 535.2 0 19210 148 27924 535.2 0 27924 149 624 535.2 0 624 150 440 535.2 0 440 151 995 535.2 0 995 152 415 535.2 0 415 153 961 535.2 0 961 154 445 535.2 0 445 155 545 535.2 0 545 156 863 535.2 0 863 157 1043 535.2 0 1043 158 1504 535.2 0 1504 159 3161 535.2 0 3161 160 5215 535.2 0 5215 161 83079 535.2 0 83079 162 53924 535.2 0 53924 163 68630 535.2 0 68630 164 365 535.2 0 365 165 64 535.2 0 64 166 60 535.2 0 60 167 69 535.2 0 69 168 38 535.2 0 38 169 57 535.2 0 57 170 33 535.2 0 33 171 41 535.2 0 41 172 42 535.2 0 42 173 52 535.2 0 52 174 177 535.2 0 177 175 101 535.2 0 101 176 104 535.2 0 104 177 48 535.2 0 48 178 40 535.2 0 40 179 59 535.2 0 59 180 76 535.2 0 76 181 418 535.2 0 418 182 854 535.2 0 854 183 691 535.2 0 691 184 249 535.2 0 249 185 58 535.2 0 58 186 89 535.2 0 89 187 219 535.2 0 219 188 72 535.2 0 72 189 68 535.2 0 68 190 47 535.2 0 47 191 30 535.2 0 30 192 51 535.2 0 51 193 57 535.2 0 57 194 55 535.2 0 55 195 29 535.2 0 29 196 60 535.2 0 60 197 45 535.2 0 45 198 44 535.2 0 44 199 42 535.2 0 42 200 59 535.2 0 59 201 54 535.2 0 54 202 36 535.2 0 36 203 39 535.2 0 39 204 47 535.2 0 47 205 49 535.2 0 49 206 26 535.2 0 26 207 47 535.2 0 47 208 59 535.2 0 59 209 48 535.2 0 48 210 36 535.2 0 36 211 29 535.2 0 29 212 36 535.2 0 36 213 79 535.2 0 79 214 135 535.2 0 135 215 127 535.2 0 127 216 85 535.2 0 85 217 37 535.2 0 37 218 51 535.2 0 51 219 52 535.2 0 52 220 88 535.2 0 88 221 65 535.2 0 65 222 55 535.2 0 55 223 53 535.2 0 53 224 53 535.2 0 53 225 52 535.2 0 52 226 52 535.2 0 52 227 58 535.2 0 58 228 57 535.2 0 57 229 65 535.2 0 65 230 67 535.2 0 67 231 84 535.2 0 84 232 75 535.2 0 75 233 74 535.2 0 74 234 59 535.2 0 59 235 64 535.2 0 64 236 67 535.2 0 67 237 64 535.2 0 64 238 172 535.2 0 172 239 525 535.2 0 525 240 1785 535.2 0 1785 241 1355 535.2 0 1355 242 804 535.2 0 804 243 117 535.2 0 117 244 128 535.2 0 128 245 70 535.2 0 70 246 38 535.2 0 38 247 69 535.2 0 69 248 65 535.2 0 65 249 67 535.2 0 67 250 55 535.2 0 55 251 66 535.2 0 66 252 62 535.2 0 62 253 63 535.2 0 63 254 77 535.2 0 77 255 93 535.2 0 93 256 50 535.2 0 50 257 70 535.2 0 70 258 70 535.2 0 70 259 87 535.2 0 87 260 69 535.2 0 69 261 56 535.2 0 56 262 75 535.2 0 75 263 69 535.2 0 69 264 41 535.2 0 41 265 66 535.2 0 66 266 56 535.2 0 56 267 195 535.2 0 195 268 272 535.2 0 272 269 463 535.2 0 463 270 241 535.2 0 241 271 128 535.2 0 128 272 131 535.2 0 131 273 92 535.2 0 92 274 127 535.2 0 127 275 282 535.2 0 282 276 303 535.2 0 303 277 770 535.2 0 770 278 825 535.2 0 825 279 686 535.2 0 686 280 822 535.2 0 822 281 194 535.2 0 194 282 146 535.2 0 146 283 94 535.2 0 94 284 77 535.2 0 77 285 62 535.2 0 62 286 69 535.2 0 69 287 84 535.2 0 84 288 129 535.2 0 129 289 113 535.2 0 113 290 118 535.2 0 118 291 97 535.2 0 97 292 91 535.2 0 91 293 129 535.2 0 129 294 132 535.2 0 132 295 129 535.2 0 129 296 122 535.2 0 122 297 61 535.2 0 61 298 60 535.2 0 60 299 41 535.2 0 41 300 45 535.2 0 45 301 86 535.2 0 86 Finished in 10.04 s (32 us/read; 1.87 M reads/minute). === Summary === Total reads processed: 313,154 Reads with adapters: 1,697 (0.5%) Reads that were too short: 15 (0.0%) Reads written (passing filters): 1,682 (0.5%) Total basepairs processed: 45,747,231 bp Total written (filtered): 459,500 bp (1.0%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 1697 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 19 18 0.0 3 0 18 20 1605 0.0 4 1567 36 2 21 7 0.0 4 2 5 23 40 0.0 4 40 28 10 0.0 4 0 0 0 0 10 29 1 0.0 4 0 0 0 0 1 51 1 0.0 4 1 59 1 0.0 4 0 0 0 0 1 60 1 0.0 4 0 0 0 1 61 1 0.0 4 0 0 0 0 1 88 1 0.0 4 1 89 1 0.0 4 1 104 1 0.0 4 0 1 113 1 0.0 4 0 0 0 0 1 127 1 0.0 4 0 0 0 0 1 156 1 0.0 4 0 0 0 0 1 191 6 0.0 4 0 0 0 0 6 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 0.06 s (36 us/read; 1.68 M reads/minute). === Summary === Total reads processed: 1,682 Reads with adapters: 14 (0.8%) Reads written (passing filters): 1,682 (100.0%) Total basepairs processed: 459,500 bp Total written (filtered): 458,668 bp (99.8%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 14 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 35.7% C: 0.0% G: 64.3% T: 0.0% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 2 26.3 0 2 9 4 0.0 0 0 4 11 2 0.0 1 0 2 12 3 0.0 1 0 3 210 1 0.0 1 0 1 261 2 0.0 1 2