This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TGCGTG -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 56.77 s (25 us/read; 2.37 M reads/minute). === Summary === Total reads processed: 2,238,925 Reads with adapters: 41,910 (1.9%) Reads that were too short: 17,557 (0.8%) Reads written (passing filters): 24,353 (1.1%) Total basepairs processed: 673,916,425 bp Total written (filtered): 5,075,531 bp (0.8%) === Adapter 1 === Sequence: TGCGTG; Type: regular 5'; Length: 6; Trimmed: 41910 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 466 546.6 0 466 7 2027 546.6 0 2027 8 2289 546.6 0 2289 9 33 546.6 0 33 10 72 546.6 0 72 11 26 546.6 0 26 12 24 546.6 0 24 13 38 546.6 0 38 14 49 546.6 0 49 15 26 546.6 0 26 16 28 546.6 0 28 17 38 546.6 0 38 18 26 546.6 0 26 19 27 546.6 0 27 20 37 546.6 0 37 21 23 546.6 0 23 22 15 546.6 0 15 23 27 546.6 0 27 24 22 546.6 0 22 25 29 546.6 0 29 26 43 546.6 0 43 27 23 546.6 0 23 28 37 546.6 0 37 29 38 546.6 0 38 30 38 546.6 0 38 31 28 546.6 0 28 32 31 546.6 0 31 33 33 546.6 0 33 34 23 546.6 0 23 35 32 546.6 0 32 36 25 546.6 0 25 37 25 546.6 0 25 38 36 546.6 0 36 39 30 546.6 0 30 40 41 546.6 0 41 41 20 546.6 0 20 42 57 546.6 0 57 43 44 546.6 0 44 44 33 546.6 0 33 45 26 546.6 0 26 46 61 546.6 0 61 47 51 546.6 0 51 48 27 546.6 0 27 49 44 546.6 0 44 50 30 546.6 0 30 51 24 546.6 0 24 52 34 546.6 0 34 53 49 546.6 0 49 54 53 546.6 0 53 55 40 546.6 0 40 56 39 546.6 0 39 57 37 546.6 0 37 58 46 546.6 0 46 59 41 546.6 0 41 60 49 546.6 0 49 61 38 546.6 0 38 62 722 546.6 0 722 63 97 546.6 0 97 64 51 546.6 0 51 65 37 546.6 0 37 66 40 546.6 0 40 67 52 546.6 0 52 68 42 546.6 0 42 69 47 546.6 0 47 70 48 546.6 0 48 71 52 546.6 0 52 72 52 546.6 0 52 73 215 546.6 0 215 74 429 546.6 0 429 75 605 546.6 0 605 76 75 546.6 0 75 77 1069 546.6 0 1069 78 697 546.6 0 697 79 938 546.6 0 938 80 40 546.6 0 40 81 27 546.6 0 27 82 30 546.6 0 30 83 31 546.6 0 31 84 29 546.6 0 29 85 31 546.6 0 31 86 43 546.6 0 43 87 23 546.6 0 23 88 45 546.6 0 45 89 46 546.6 0 46 90 31 546.6 0 31 91 31 546.6 0 31 92 48 546.6 0 48 93 36 546.6 0 36 94 30 546.6 0 30 95 31 546.6 0 31 96 29 546.6 0 29 97 31 546.6 0 31 98 37 546.6 0 37 99 48 546.6 0 48 100 37 546.6 0 37 101 47 546.6 0 47 102 19 546.6 0 19 103 28 546.6 0 28 104 59 546.6 0 59 105 85 546.6 0 85 106 326 546.6 0 326 107 98 546.6 0 98 108 743 546.6 0 743 109 52 546.6 0 52 110 40 546.6 0 40 111 39 546.6 0 39 112 87 546.6 0 87 113 38 546.6 0 38 114 49 546.6 0 49 115 50 546.6 0 50 116 36 546.6 0 36 117 52 546.6 0 52 118 45 546.6 0 45 119 50 546.6 0 50 120 37 546.6 0 37 121 44 546.6 0 44 122 36 546.6 0 36 123 46 546.6 0 46 124 32 546.6 0 32 125 51 546.6 0 51 126 54 546.6 0 54 127 57 546.6 0 57 128 90 546.6 0 90 129 666 546.6 0 666 130 238 546.6 0 238 131 56 546.6 0 56 132 60 546.6 0 60 133 138 546.6 0 138 134 190 546.6 0 190 135 233 546.6 0 233 136 156 546.6 0 156 137 56 546.6 0 56 138 61 546.6 0 61 139 63 546.6 0 63 140 90 546.6 0 90 141 59 546.6 0 59 142 55 546.6 0 55 143 63 546.6 0 63 144 73 546.6 0 73 145 157 546.6 0 157 146 607 546.6 0 607 147 1430 546.6 0 1430 148 1590 546.6 0 1590 149 40 546.6 0 40 150 46 546.6 0 46 151 29 546.6 0 29 152 23 546.6 0 23 153 42 546.6 0 42 154 54 546.6 0 54 155 246 546.6 0 246 156 192 546.6 0 192 157 202 546.6 0 202 158 66 546.6 0 66 159 42 546.6 0 42 160 40 546.6 0 40 161 51 546.6 0 51 162 50 546.6 0 50 163 30 546.6 0 30 164 60 546.6 0 60 165 63 546.6 0 63 166 72 546.6 0 72 167 51 546.6 0 51 168 59 546.6 0 59 169 52 546.6 0 52 170 37 546.6 0 37 171 31 546.6 0 31 172 27 546.6 0 27 173 19 546.6 0 19 174 26 546.6 0 26 175 32 546.6 0 32 176 30 546.6 0 30 177 24 546.6 0 24 178 33 546.6 0 33 179 26 546.6 0 26 180 31 546.6 0 31 181 35 546.6 0 35 182 39 546.6 0 39 183 26 546.6 0 26 184 119 546.6 0 119 185 110 546.6 0 110 186 204 546.6 0 204 187 87 546.6 0 87 188 25 546.6 0 25 189 21 546.6 0 21 190 27 546.6 0 27 191 25 546.6 0 25 192 42 546.6 0 42 193 43 546.6 0 43 194 32 546.6 0 32 195 104 546.6 0 104 196 122 546.6 0 122 197 133 546.6 0 133 198 59 546.6 0 59 199 96 546.6 0 96 200 67 546.6 0 67 201 30 546.6 0 30 202 25 546.6 0 25 203 37 546.6 0 37 204 158 546.6 0 158 205 37 546.6 0 37 206 69 546.6 0 69 207 29 546.6 0 29 208 42 546.6 0 42 209 44 546.6 0 44 210 27 546.6 0 27 211 34 546.6 0 34 212 30 546.6 0 30 213 28 546.6 0 28 214 44 546.6 0 44 215 40 546.6 0 40 216 77 546.6 0 77 217 114 546.6 0 114 218 52 546.6 0 52 219 49 546.6 0 49 220 50 546.6 0 50 221 41 546.6 0 41 222 45 546.6 0 45 223 34 546.6 0 34 224 40 546.6 0 40 225 44 546.6 0 44 226 47 546.6 0 47 227 37 546.6 0 37 228 36 546.6 0 36 229 43 546.6 0 43 230 41 546.6 0 41 231 57 546.6 0 57 232 89 546.6 0 89 233 96 546.6 0 96 234 143 546.6 0 143 235 383 546.6 0 383 236 3830 546.6 0 3830 237 1492 546.6 0 1492 238 4876 546.6 0 4876 239 80 546.6 0 80 240 28 546.6 0 28 241 45 546.6 0 45 242 54 546.6 0 54 243 26 546.6 0 26 244 29 546.6 0 29 245 39 546.6 0 39 246 72 546.6 0 72 247 177 546.6 0 177 248 139 546.6 0 139 249 74 546.6 0 74 250 69 546.6 0 69 251 141 546.6 0 141 252 110 546.6 0 110 253 74 546.6 0 74 254 37 546.6 0 37 255 39 546.6 0 39 256 50 546.6 0 50 257 26 546.6 0 26 258 34 546.6 0 34 259 24 546.6 0 24 260 30 546.6 0 30 261 40 546.6 0 40 262 29 546.6 0 29 263 36 546.6 0 36 264 43 546.6 0 43 265 57 546.6 0 57 266 47 546.6 0 47 267 38 546.6 0 38 268 58 546.6 0 58 269 35 546.6 0 35 270 44 546.6 0 44 271 33 546.6 0 33 272 41 546.6 0 41 273 36 546.6 0 36 274 67 546.6 0 67 275 44 546.6 0 44 276 52 546.6 0 52 277 42 546.6 0 42 278 112 546.6 0 112 279 55 546.6 0 55 280 208 546.6 0 208 281 209 546.6 0 209 282 163 546.6 0 163 283 179 546.6 0 179 284 91 546.6 0 91 285 89 546.6 0 89 286 85 546.6 0 85 287 48 546.6 0 48 288 51 546.6 0 51 289 57 546.6 0 57 290 49 546.6 0 49 291 48 546.6 0 48 292 49 546.6 0 49 293 61 546.6 0 61 294 79 546.6 0 79 295 145 546.6 0 145 296 387 546.6 0 387 297 293 546.6 0 293 298 239 546.6 0 239 299 88 546.6 0 88 300 84 546.6 0 84 301 189 546.6 0 189 Finished in 1.06 s (44 us/read; 1.38 M reads/minute). === Summary === Total reads processed: 24,353 Reads with adapters: 2,738 (11.2%) Reads that were too short: 6 (0.0%) Reads written (passing filters): 2,732 (11.2%) Total basepairs processed: 5,075,531 bp Total written (filtered): 736,726 bp (14.5%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 2738 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 1 0.0 3 0 0 1 19 26 0.0 3 0 25 0 0 1 20 2253 0.0 4 2214 38 1 21 7 0.0 4 0 6 0 0 1 22 177 0.0 4 173 2 2 23 183 0.0 4 177 4 0 2 24 1 0.0 4 0 0 0 0 1 26 1 0.0 4 0 0 0 0 1 28 1 0.0 4 0 0 1 57 19 0.0 4 0 0 0 0 19 61 7 0.0 4 0 0 0 0 7 62 1 0.0 4 0 0 0 0 1 83 1 0.0 4 0 0 0 0 1 94 1 0.0 4 0 0 0 0 1 107 1 0.0 4 0 0 0 0 1 127 54 0.0 4 0 0 0 0 54 164 1 0.0 4 0 0 0 0 1 167 1 0.0 4 0 0 0 0 1 178 1 0.0 4 0 0 0 0 1 237 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 0.08 s (29 us/read; 2.05 M reads/minute). === Summary === Total reads processed: 2,732 Reads with adapters: 186 (6.8%) Reads written (passing filters): 2,732 (100.0%) Total basepairs processed: 736,726 bp Total written (filtered): 734,592 bp (99.7%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 186 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 0.0% C: 1.6% G: 96.8% T: 1.6% 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 9 14 0.0 0 0 14 10 30 0.0 1 0 30 11 140 0.0 1 1 139 12 1 0.0 1 0 1 156 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.