This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CGACGT -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 91.62 s (30 us/read; 2.03 M reads/minute). === Summary === Total reads processed: 3,094,653 Reads with adapters: 38,459 (1.2%) Reads that were too short: 23,693 (0.8%) Reads written (passing filters): 14,766 (0.5%) Total basepairs processed: 931,490,553 bp Total written (filtered): 3,338,988 bp (0.4%) === Adapter 1 === Sequence: CGACGT; Type: regular 5'; Length: 6; Trimmed: 38459 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 130 755.5 0 130 7 5329 755.5 0 5329 8 25 755.5 0 25 9 29 755.5 0 29 10 19 755.5 0 19 11 14 755.5 0 14 12 11 755.5 0 11 13 11 755.5 0 11 14 13 755.5 0 13 15 13 755.5 0 13 16 796 755.5 0 796 17 43 755.5 0 43 18 22 755.5 0 22 19 17 755.5 0 17 20 12 755.5 0 12 21 17 755.5 0 17 22 15 755.5 0 15 23 7 755.5 0 7 24 11 755.5 0 11 25 9 755.5 0 9 26 19 755.5 0 19 27 18 755.5 0 18 28 6 755.5 0 6 29 12 755.5 0 12 30 14 755.5 0 14 31 9 755.5 0 9 32 17 755.5 0 17 33 8 755.5 0 8 34 15 755.5 0 15 35 17 755.5 0 17 36 5 755.5 0 5 37 13 755.5 0 13 38 11 755.5 0 11 39 11 755.5 0 11 40 12 755.5 0 12 41 13 755.5 0 13 42 23 755.5 0 23 43 15 755.5 0 15 44 13 755.5 0 13 45 12 755.5 0 12 46 16 755.5 0 16 47 12 755.5 0 12 48 10 755.5 0 10 49 16 755.5 0 16 50 267 755.5 0 267 51 36 755.5 0 36 52 13 755.5 0 13 53 14 755.5 0 14 54 15 755.5 0 15 55 15 755.5 0 15 56 15 755.5 0 15 57 18 755.5 0 18 58 11 755.5 0 11 59 16 755.5 0 16 60 13 755.5 0 13 61 38 755.5 0 38 62 12 755.5 0 12 63 15 755.5 0 15 64 23 755.5 0 23 65 15 755.5 0 15 66 17 755.5 0 17 67 103 755.5 0 103 68 93 755.5 0 93 69 1004 755.5 0 1004 70 18 755.5 0 18 71 18 755.5 0 18 72 53 755.5 0 53 73 13 755.5 0 13 74 27 755.5 0 27 75 16 755.5 0 16 76 48 755.5 0 48 77 7 755.5 0 7 78 18 755.5 0 18 79 11 755.5 0 11 80 28 755.5 0 28 81 25 755.5 0 25 82 14 755.5 0 14 83 47 755.5 0 47 84 86 755.5 0 86 85 34 755.5 0 34 86 65 755.5 0 65 87 71 755.5 0 71 88 50 755.5 0 50 89 22 755.5 0 22 90 19 755.5 0 19 91 21 755.5 0 21 92 75 755.5 0 75 93 44 755.5 0 44 94 43 755.5 0 43 95 18 755.5 0 18 96 16 755.5 0 16 97 14 755.5 0 14 98 83 755.5 0 83 99 33 755.5 0 33 100 33 755.5 0 33 101 8 755.5 0 8 102 8 755.5 0 8 103 9 755.5 0 9 104 11 755.5 0 11 105 23 755.5 0 23 106 12 755.5 0 12 107 6 755.5 0 6 108 34 755.5 0 34 109 24 755.5 0 24 110 33 755.5 0 33 111 8 755.5 0 8 112 5 755.5 0 5 113 15 755.5 0 15 114 102 755.5 0 102 115 10 755.5 0 10 116 10 755.5 0 10 117 25 755.5 0 25 118 56 755.5 0 56 119 43 755.5 0 43 120 38 755.5 0 38 121 54 755.5 0 54 122 27 755.5 0 27 123 31 755.5 0 31 124 27 755.5 0 27 125 25 755.5 0 25 126 25 755.5 0 25 127 10 755.5 0 10 128 27 755.5 0 27 129 28 755.5 0 28 130 27 755.5 0 27 131 14 755.5 0 14 132 104 755.5 0 104 133 44 755.5 0 44 134 77 755.5 0 77 135 20 755.5 0 20 136 17 755.5 0 17 137 20 755.5 0 20 138 24 755.5 0 24 139 24 755.5 0 24 140 17 755.5 0 17 141 21 755.5 0 21 142 11 755.5 0 11 143 30 755.5 0 30 144 22 755.5 0 22 145 14 755.5 0 14 146 28 755.5 0 28 147 38 755.5 0 38 148 22 755.5 0 22 149 34 755.5 0 34 150 21 755.5 0 21 151 18 755.5 0 18 152 38 755.5 0 38 153 61 755.5 0 61 154 83 755.5 0 83 155 88 755.5 0 88 156 59 755.5 0 59 157 39 755.5 0 39 158 65 755.5 0 65 159 65 755.5 0 65 160 326 755.5 0 326 161 43 755.5 0 43 162 29 755.5 0 29 163 51 755.5 0 51 164 71 755.5 0 71 165 100 755.5 0 100 166 120 755.5 0 120 167 44 755.5 0 44 168 35 755.5 0 35 169 27 755.5 0 27 170 16 755.5 0 16 171 22 755.5 0 22 172 114 755.5 0 114 173 34 755.5 0 34 174 46 755.5 0 46 175 42 755.5 0 42 176 28 755.5 0 28 177 39 755.5 0 39 178 54 755.5 0 54 179 52 755.5 0 52 180 93 755.5 0 93 181 97 755.5 0 97 182 59 755.5 0 59 183 109 755.5 0 109 184 165 755.5 0 165 185 194 755.5 0 194 186 39 755.5 0 39 187 31 755.5 0 31 188 35 755.5 0 35 189 66 755.5 0 66 190 80 755.5 0 80 191 43 755.5 0 43 192 105 755.5 0 105 193 110 755.5 0 110 194 39 755.5 0 39 195 38 755.5 0 38 196 97 755.5 0 97 197 73 755.5 0 73 198 32 755.5 0 32 199 52 755.5 0 52 200 227 755.5 0 227 201 127 755.5 0 127 202 80 755.5 0 80 203 38 755.5 0 38 204 55 755.5 0 55 205 40 755.5 0 40 206 46 755.5 0 46 207 59 755.5 0 59 208 79 755.5 0 79 209 92 755.5 0 92 210 74 755.5 0 74 211 37 755.5 0 37 212 74 755.5 0 74 213 60 755.5 0 60 214 84 755.5 0 84 215 152 755.5 0 152 216 115 755.5 0 115 217 208 755.5 0 208 218 359 755.5 0 359 219 5218 755.5 0 5218 220 2643 755.5 0 2643 221 2754 755.5 0 2754 222 109 755.5 0 109 223 47 755.5 0 47 224 49 755.5 0 49 225 55 755.5 0 55 226 79 755.5 0 79 227 63 755.5 0 63 228 54 755.5 0 54 229 36 755.5 0 36 230 42 755.5 0 42 231 39 755.5 0 39 232 53 755.5 0 53 233 96 755.5 0 96 234 80 755.5 0 80 235 26 755.5 0 26 236 64 755.5 0 64 237 52 755.5 0 52 238 44 755.5 0 44 239 51 755.5 0 51 240 144 755.5 0 144 241 63 755.5 0 63 242 74 755.5 0 74 243 55 755.5 0 55 244 60 755.5 0 60 245 49 755.5 0 49 246 57 755.5 0 57 247 71 755.5 0 71 248 129 755.5 0 129 249 882 755.5 0 882 250 1933 755.5 0 1933 251 3398 755.5 0 3398 252 65 755.5 0 65 253 73 755.5 0 73 254 155 755.5 0 155 255 70 755.5 0 70 256 79 755.5 0 79 257 74 755.5 0 74 258 81 755.5 0 81 259 32 755.5 0 32 260 51 755.5 0 51 261 30 755.5 0 30 262 32 755.5 0 32 263 37 755.5 0 37 264 71 755.5 0 71 265 48 755.5 0 48 266 40 755.5 0 40 267 21 755.5 0 21 268 33 755.5 0 33 269 67 755.5 0 67 270 68 755.5 0 68 271 68 755.5 0 68 272 49 755.5 0 49 273 41 755.5 0 41 274 55 755.5 0 55 275 32 755.5 0 32 276 55 755.5 0 55 277 58 755.5 0 58 278 70 755.5 0 70 279 333 755.5 0 333 280 149 755.5 0 149 281 129 755.5 0 129 282 135 755.5 0 135 283 64 755.5 0 64 284 45 755.5 0 45 285 119 755.5 0 119 286 69 755.5 0 69 287 48 755.5 0 48 288 44 755.5 0 44 289 52 755.5 0 52 290 91 755.5 0 91 291 91 755.5 0 91 292 86 755.5 0 86 293 43 755.5 0 43 294 47 755.5 0 47 295 65 755.5 0 65 296 49 755.5 0 49 297 72 755.5 0 72 298 107 755.5 0 107 299 35 755.5 0 35 300 17 755.5 0 17 301 27 755.5 0 27 Finished in 0.70 s (47 us/read; 1.27 M reads/minute). === Summary === Total reads processed: 14,766 Reads with adapters: 5,420 (36.7%) Reads that were too short: 2 (0.0%) Reads written (passing filters): 5,418 (36.7%) Total basepairs processed: 3,338,988 bp Total written (filtered): 1,484,494 bp (44.5%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 5420 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 2 0.0 3 0 0 1 0 1 19 70 0.0 3 0 66 3 1 20 5334 0.0 4 5212 106 10 5 1 21 5 0.0 4 1 4 23 4 0.0 4 0 0 0 3 1 29 1 0.0 4 1 81 1 0.0 4 0 0 0 0 1 92 1 0.0 4 0 0 0 0 1 93 1 0.0 4 0 0 0 0 1 159 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 0.21 s (39 us/read; 1.55 M reads/minute). === Summary === Total reads processed: 5,418 Reads with adapters: 167 (3.1%) Reads written (passing filters): 5,418 (100.0%) Total basepairs processed: 1,484,494 bp Total written (filtered): 1,481,641 bp (99.8%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 167 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 2.4% C: 2.4% G: 89.8% T: 5.4% none/other: 0.0% WARNING: The adapter is preceded by "G" extremely often. The provided adapter sequence may be incomplete. To fix the problem, add "G" to the beginning of the adapter sequence. Overview of removed sequences length count expect max.err error counts 3 2 84.7 0 2 4 2 21.2 0 2 11 147 0.0 1 0 147 12 11 0.0 1 0 11 13 1 0.0 1 0 1 269 3 0.0 1 3 270 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.