This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TCACTC -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 130.41 s (44 us/read; 1.36 M reads/minute). === Summary === Total reads processed: 2,949,860 Reads with adapters: 58,072 (2.0%) Reads that were too short: 16,184 (0.5%) Reads written (passing filters): 41,888 (1.4%) Total basepairs processed: 887,907,860 bp Total written (filtered): 6,745,217 bp (0.8%) === Adapter 1 === Sequence: TCACTC; Type: regular 5'; Length: 6; Trimmed: 58072 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 136 720.2 0 136 7 153 720.2 0 153 8 16 720.2 0 16 9 104 720.2 0 104 10 83 720.2 0 83 11 15 720.2 0 15 12 21 720.2 0 21 13 25 720.2 0 25 14 14 720.2 0 14 15 19 720.2 0 19 16 16 720.2 0 16 17 20 720.2 0 20 18 17 720.2 0 17 19 8 720.2 0 8 20 29 720.2 0 29 21 21 720.2 0 21 22 18 720.2 0 18 23 17 720.2 0 17 24 17 720.2 0 17 25 17 720.2 0 17 26 18 720.2 0 18 27 17 720.2 0 17 28 25 720.2 0 25 29 18 720.2 0 18 30 18 720.2 0 18 31 19 720.2 0 19 32 13 720.2 0 13 33 18 720.2 0 18 34 23 720.2 0 23 35 24 720.2 0 24 36 25 720.2 0 25 37 31 720.2 0 31 38 78 720.2 0 78 39 37 720.2 0 37 40 135 720.2 0 135 41 27 720.2 0 27 42 28 720.2 0 28 43 18 720.2 0 18 44 13 720.2 0 13 45 20 720.2 0 20 46 23 720.2 0 23 47 22 720.2 0 22 48 16 720.2 0 16 49 27 720.2 0 27 50 31 720.2 0 31 51 23 720.2 0 23 52 16 720.2 0 16 53 126 720.2 0 126 54 80 720.2 0 80 55 143 720.2 0 143 56 116 720.2 0 116 57 3120 720.2 0 3120 58 39 720.2 0 39 59 27 720.2 0 27 60 28 720.2 0 28 61 19 720.2 0 19 62 17 720.2 0 17 63 32 720.2 0 32 64 18 720.2 0 18 65 25 720.2 0 25 66 59 720.2 0 59 67 25 720.2 0 25 68 45 720.2 0 45 69 116 720.2 0 116 70 556 720.2 0 556 71 80 720.2 0 80 72 33 720.2 0 33 73 48 720.2 0 48 74 14 720.2 0 14 75 10 720.2 0 10 76 18 720.2 0 18 77 15 720.2 0 15 78 18 720.2 0 18 79 25 720.2 0 25 80 29 720.2 0 29 81 27 720.2 0 27 82 23 720.2 0 23 83 32 720.2 0 32 84 19 720.2 0 19 85 23 720.2 0 23 86 21 720.2 0 21 87 26 720.2 0 26 88 22 720.2 0 22 89 36 720.2 0 36 90 18 720.2 0 18 91 38 720.2 0 38 92 21 720.2 0 21 93 30 720.2 0 30 94 42 720.2 0 42 95 46 720.2 0 46 96 30 720.2 0 30 97 13 720.2 0 13 98 23 720.2 0 23 99 19 720.2 0 19 100 22 720.2 0 22 101 28 720.2 0 28 102 43 720.2 0 43 103 48 720.2 0 48 104 41 720.2 0 41 105 77 720.2 0 77 106 33 720.2 0 33 107 44 720.2 0 44 108 30 720.2 0 30 109 45 720.2 0 45 110 35 720.2 0 35 111 48 720.2 0 48 112 54 720.2 0 54 113 64 720.2 0 64 114 43 720.2 0 43 115 32 720.2 0 32 116 48 720.2 0 48 117 36 720.2 0 36 118 25 720.2 0 25 119 34 720.2 0 34 120 48 720.2 0 48 121 62 720.2 0 62 122 51 720.2 0 51 123 94 720.2 0 94 124 111 720.2 0 111 125 1375 720.2 0 1375 126 566 720.2 0 566 127 1796 720.2 0 1796 128 43 720.2 0 43 129 42 720.2 0 42 130 79 720.2 0 79 131 40 720.2 0 40 132 38 720.2 0 38 133 55 720.2 0 55 134 48 720.2 0 48 135 47 720.2 0 47 136 26 720.2 0 26 137 28 720.2 0 28 138 111 720.2 0 111 139 32 720.2 0 32 140 47 720.2 0 47 141 40 720.2 0 40 142 41 720.2 0 41 143 78 720.2 0 78 144 166 720.2 0 166 145 469 720.2 0 469 146 553 720.2 0 553 147 206 720.2 0 206 148 84 720.2 0 84 149 66 720.2 0 66 150 296 720.2 0 296 151 151 720.2 0 151 152 280 720.2 0 280 153 95 720.2 0 95 154 133 720.2 0 133 155 182 720.2 0 182 156 424 720.2 0 424 157 464 720.2 0 464 158 824 720.2 0 824 159 688 720.2 0 688 160 6480 720.2 0 6480 161 2674 720.2 0 2674 162 9844 720.2 0 9844 163 85 720.2 0 85 164 84 720.2 0 84 165 43 720.2 0 43 166 53 720.2 0 53 167 46 720.2 0 46 168 33 720.2 0 33 169 60 720.2 0 60 170 76 720.2 0 76 171 110 720.2 0 110 172 29 720.2 0 29 173 41 720.2 0 41 174 48 720.2 0 48 175 186 720.2 0 186 176 208 720.2 0 208 177 245 720.2 0 245 178 50 720.2 0 50 179 75 720.2 0 75 180 472 720.2 0 472 181 993 720.2 0 993 182 819 720.2 0 819 183 635 720.2 0 635 184 40 720.2 0 40 185 64 720.2 0 64 186 60 720.2 0 60 187 46 720.2 0 46 188 43 720.2 0 43 189 32 720.2 0 32 190 42 720.2 0 42 191 46 720.2 0 46 192 45 720.2 0 45 193 28 720.2 0 28 194 27 720.2 0 27 195 43 720.2 0 43 196 47 720.2 0 47 197 44 720.2 0 44 198 42 720.2 0 42 199 49 720.2 0 49 200 48 720.2 0 48 201 25 720.2 0 25 202 32 720.2 0 32 203 41 720.2 0 41 204 28 720.2 0 28 205 37 720.2 0 37 206 41 720.2 0 41 207 48 720.2 0 48 208 60 720.2 0 60 209 69 720.2 0 69 210 86 720.2 0 86 211 91 720.2 0 91 212 1604 720.2 0 1604 213 478 720.2 0 478 214 2293 720.2 0 2293 215 65 720.2 0 65 216 41 720.2 0 41 217 56 720.2 0 56 218 80 720.2 0 80 219 65 720.2 0 65 220 57 720.2 0 57 221 60 720.2 0 60 222 52 720.2 0 52 223 36 720.2 0 36 224 61 720.2 0 61 225 82 720.2 0 82 226 107 720.2 0 107 227 60 720.2 0 60 228 48 720.2 0 48 229 52 720.2 0 52 230 47 720.2 0 47 231 24 720.2 0 24 232 35 720.2 0 35 233 58 720.2 0 58 234 55 720.2 0 55 235 49 720.2 0 49 236 56 720.2 0 56 237 58 720.2 0 58 238 123 720.2 0 123 239 196 720.2 0 196 240 87 720.2 0 87 241 105 720.2 0 105 242 51 720.2 0 51 243 84 720.2 0 84 244 73 720.2 0 73 245 86 720.2 0 86 246 77 720.2 0 77 247 61 720.2 0 61 248 120 720.2 0 120 249 77 720.2 0 77 250 43 720.2 0 43 251 56 720.2 0 56 252 69 720.2 0 69 253 58 720.2 0 58 254 82 720.2 0 82 255 107 720.2 0 107 256 290 720.2 0 290 257 486 720.2 0 486 258 611 720.2 0 611 259 194 720.2 0 194 260 138 720.2 0 138 261 73 720.2 0 73 262 65 720.2 0 65 263 45 720.2 0 45 264 56 720.2 0 56 265 55 720.2 0 55 266 143 720.2 0 143 267 199 720.2 0 199 268 426 720.2 0 426 269 149 720.2 0 149 270 108 720.2 0 108 271 126 720.2 0 126 272 233 720.2 0 233 273 648 720.2 0 648 274 596 720.2 0 596 275 650 720.2 0 650 276 209 720.2 0 209 277 177 720.2 0 177 278 191 720.2 0 191 279 90 720.2 0 90 280 156 720.2 0 156 281 161 720.2 0 161 282 114 720.2 0 114 283 84 720.2 0 84 284 99 720.2 0 99 285 123 720.2 0 123 286 113 720.2 0 113 287 171 720.2 0 171 288 189 720.2 0 189 289 181 720.2 0 181 290 55 720.2 0 55 291 74 720.2 0 74 292 89 720.2 0 89 293 159 720.2 0 159 294 112 720.2 0 112 295 76 720.2 0 76 296 49 720.2 0 49 297 74 720.2 0 74 298 107 720.2 0 107 299 95 720.2 0 95 300 77 720.2 0 77 301 101 720.2 0 101 Finished in 2.24 s (53 us/read; 1.12 M reads/minute). === Summary === Total reads processed: 41,888 Reads with adapters: 326 (0.8%) Reads that were too short: 14 (0.0%) Reads written (passing filters): 312 (0.7%) Total basepairs processed: 6,745,217 bp Total written (filtered): 76,701 bp (1.1%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 326 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 49 0.0 3 0 0 0 0 49 19 3 0.0 3 0 3 20 138 0.0 4 134 4 21 2 0.0 4 0 1 1 23 111 0.0 4 111 30 1 0.0 4 0 0 0 0 1 60 1 0.0 4 0 0 0 0 1 82 1 0.0 4 0 0 0 0 1 90 1 0.0 4 0 0 1 92 1 0.0 4 0 1 101 2 0.0 4 1 0 0 0 1 103 1 0.0 4 0 0 1 104 1 0.0 4 1 105 1 0.0 4 0 0 0 1 112 1 0.0 4 0 0 0 0 1 121 1 0.0 4 0 0 0 0 1 124 1 0.0 4 0 0 0 0 1 127 3 0.0 4 0 0 0 0 3 137 1 0.0 4 0 0 0 0 1 206 2 0.0 4 1 0 0 1 208 3 0.0 4 1 1 0 1 251 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 0.01 s (32 us/read; 1.87 M reads/minute). === Summary === Total reads processed: 312 Reads with adapters: 85 (27.2%) Reads written (passing filters): 312 (100.0%) Total basepairs processed: 76,701 bp Total written (filtered): 57,517 bp (75.0%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 85 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 3.5% C: 82.4% G: 11.8% T: 2.4% none/other: 0.0% WARNING: The adapter is preceded by "C" extremely often. The provided adapter sequence may be incomplete. To fix the problem, add "C" to the beginning of the adapter sequence. Overview of removed sequences length count expect max.err error counts 3 1 4.9 0 1 9 5 0.0 0 0 5 10 6 0.0 1 0 6 59 1 0.0 1 1 264 67 0.0 1 64 3 265 4 0.0 1 4 269 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.