This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TCGACG -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 95.90 s (30 us/read; 2.00 M reads/minute). === Summary === Total reads processed: 3,193,041 Reads with adapters: 162,254 (5.1%) Reads that were too short: 1,428 (0.0%) Reads written (passing filters): 160,826 (5.0%) Total basepairs processed: 961,105,341 bp Total written (filtered): 46,349,179 bp (4.8%) === Adapter 1 === Sequence: TCGACG; Type: regular 5'; Length: 6; Trimmed: 162254 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1244 779.6 0 1244 7 3521 779.6 0 3521 8 144493 779.6 0 144493 9 4118 779.6 0 4118 10 26 779.6 0 26 11 45 779.6 0 45 12 21 779.6 0 21 13 17 779.6 0 17 14 13 779.6 0 13 15 20 779.6 0 20 16 15 779.6 0 15 17 14 779.6 0 14 18 14 779.6 0 14 19 16 779.6 0 16 20 14 779.6 0 14 21 15 779.6 0 15 22 12 779.6 0 12 23 13 779.6 0 13 24 14 779.6 0 14 25 16 779.6 0 16 26 8 779.6 0 8 27 4 779.6 0 4 28 14 779.6 0 14 29 14 779.6 0 14 30 10 779.6 0 10 31 9 779.6 0 9 32 7 779.6 0 7 33 17 779.6 0 17 34 19 779.6 0 19 35 10 779.6 0 10 36 9 779.6 0 9 37 9 779.6 0 9 38 13 779.6 0 13 39 12 779.6 0 12 40 11 779.6 0 11 41 18 779.6 0 18 42 10 779.6 0 10 43 10 779.6 0 10 44 9 779.6 0 9 45 10 779.6 0 10 46 8 779.6 0 8 47 11 779.6 0 11 48 14 779.6 0 14 49 16 779.6 0 16 50 12 779.6 0 12 51 9 779.6 0 9 52 11 779.6 0 11 53 5 779.6 0 5 54 13 779.6 0 13 55 5 779.6 0 5 56 9 779.6 0 9 57 10 779.6 0 10 58 7 779.6 0 7 59 13 779.6 0 13 60 28 779.6 0 28 61 16 779.6 0 16 62 30 779.6 0 30 63 7 779.6 0 7 64 9 779.6 0 9 65 27 779.6 0 27 66 203 779.6 0 203 67 49 779.6 0 49 68 51 779.6 0 51 69 8 779.6 0 8 70 5 779.6 0 5 71 13 779.6 0 13 72 20 779.6 0 20 73 2 779.6 0 2 74 9 779.6 0 9 75 4 779.6 0 4 76 7 779.6 0 7 77 3 779.6 0 3 78 7 779.6 0 7 79 5 779.6 0 5 80 9 779.6 0 9 81 2 779.6 0 2 82 12 779.6 0 12 83 13 779.6 0 13 84 6 779.6 0 6 85 6 779.6 0 6 86 7 779.6 0 7 87 6 779.6 0 6 88 5 779.6 0 5 89 4 779.6 0 4 90 11 779.6 0 11 91 83 779.6 0 83 92 34 779.6 0 34 93 21 779.6 0 21 94 33 779.6 0 33 95 1 779.6 0 1 96 10 779.6 0 10 97 38 779.6 0 38 98 101 779.6 0 101 99 12 779.6 0 12 100 7 779.6 0 7 101 11 779.6 0 11 102 16 779.6 0 16 103 19 779.6 0 19 104 35 779.6 0 35 105 6 779.6 0 6 106 5 779.6 0 5 107 18 779.6 0 18 108 16 779.6 0 16 109 12 779.6 0 12 110 21 779.6 0 21 111 169 779.6 0 169 112 73 779.6 0 73 113 209 779.6 0 209 114 25 779.6 0 25 115 64 779.6 0 64 116 97 779.6 0 97 117 1255 779.6 0 1255 118 1092 779.6 0 1092 119 1409 779.6 0 1409 120 5 779.6 0 5 121 6 779.6 0 6 122 6 779.6 0 6 123 4 779.6 0 4 124 11 779.6 0 11 125 1 779.6 0 1 126 6 779.6 0 6 127 9 779.6 0 9 128 39 779.6 0 39 129 4 779.6 0 4 130 6 779.6 0 6 131 6 779.6 0 6 132 3 779.6 0 3 133 19 779.6 0 19 134 55 779.6 0 55 135 8 779.6 0 8 136 8 779.6 0 8 137 5 779.6 0 5 138 8 779.6 0 8 139 9 779.6 0 9 140 13 779.6 0 13 141 8 779.6 0 8 142 9 779.6 0 9 143 13 779.6 0 13 144 4 779.6 0 4 145 10 779.6 0 10 146 21 779.6 0 21 147 15 779.6 0 15 148 13 779.6 0 13 149 14 779.6 0 14 150 13 779.6 0 13 151 104 779.6 0 104 152 114 779.6 0 114 153 128 779.6 0 128 154 15 779.6 0 15 155 19 779.6 0 19 156 104 779.6 0 104 157 3 779.6 0 3 158 1 779.6 0 1 159 3 779.6 0 3 160 3 779.6 0 3 161 6 779.6 0 6 162 13 779.6 0 13 163 12 779.6 0 12 164 15 779.6 0 15 165 11 779.6 0 11 166 5 779.6 0 5 167 7 779.6 0 7 168 4 779.6 0 4 169 6 779.6 0 6 170 8 779.6 0 8 171 15 779.6 0 15 172 7 779.6 0 7 173 8 779.6 0 8 174 5 779.6 0 5 175 7 779.6 0 7 176 5 779.6 0 5 177 2 779.6 0 2 178 9 779.6 0 9 179 9 779.6 0 9 180 98 779.6 0 98 181 39 779.6 0 39 182 45 779.6 0 45 183 4 779.6 0 4 184 40 779.6 0 40 185 8 779.6 0 8 187 5 779.6 0 5 188 6 779.6 0 6 189 4 779.6 0 4 190 7 779.6 0 7 191 15 779.6 0 15 192 10 779.6 0 10 193 3 779.6 0 3 194 4 779.6 0 4 195 7 779.6 0 7 196 5 779.6 0 5 197 3 779.6 0 3 198 2 779.6 0 2 199 4 779.6 0 4 200 6 779.6 0 6 201 9 779.6 0 9 202 3 779.6 0 3 203 5 779.6 0 5 204 5 779.6 0 5 205 3 779.6 0 3 206 5 779.6 0 5 207 3 779.6 0 3 208 2 779.6 0 2 209 2 779.6 0 2 210 29 779.6 0 29 211 9 779.6 0 9 212 14 779.6 0 14 213 6 779.6 0 6 214 19 779.6 0 19 215 15 779.6 0 15 216 15 779.6 0 15 217 19 779.6 0 19 218 60 779.6 0 60 219 124 779.6 0 124 220 86 779.6 0 86 221 20 779.6 0 20 222 3 779.6 0 3 223 4 779.6 0 4 224 9 779.6 0 9 225 12 779.6 0 12 226 19 779.6 0 19 227 11 779.6 0 11 228 17 779.6 0 17 229 15 779.6 0 15 230 13 779.6 0 13 231 14 779.6 0 14 232 55 779.6 0 55 233 73 779.6 0 73 234 10 779.6 0 10 235 9 779.6 0 9 236 28 779.6 0 28 237 10 779.6 0 10 238 14 779.6 0 14 239 20 779.6 0 20 240 8 779.6 0 8 241 5 779.6 0 5 242 5 779.6 0 5 243 4 779.6 0 4 244 2 779.6 0 2 245 7 779.6 0 7 246 9 779.6 0 9 247 9 779.6 0 9 248 23 779.6 0 23 249 24 779.6 0 24 250 32 779.6 0 32 251 3 779.6 0 3 252 6 779.6 0 6 253 20 779.6 0 20 254 37 779.6 0 37 255 38 779.6 0 38 256 64 779.6 0 64 257 15 779.6 0 15 258 6 779.6 0 6 259 5 779.6 0 5 260 6 779.6 0 6 261 8 779.6 0 8 262 5 779.6 0 5 263 4 779.6 0 4 264 16 779.6 0 16 265 9 779.6 0 9 266 6 779.6 0 6 267 9 779.6 0 9 268 6 779.6 0 6 269 9 779.6 0 9 270 5 779.6 0 5 271 7 779.6 0 7 272 8 779.6 0 8 273 3 779.6 0 3 274 3 779.6 0 3 275 6 779.6 0 6 276 9 779.6 0 9 277 12 779.6 0 12 278 13 779.6 0 13 279 7 779.6 0 7 280 28 779.6 0 28 281 5 779.6 0 5 282 12 779.6 0 12 283 8 779.6 0 8 284 7 779.6 0 7 285 12 779.6 0 12 286 12 779.6 0 12 287 6 779.6 0 6 288 8 779.6 0 8 289 5 779.6 0 5 290 7 779.6 0 7 291 6 779.6 0 6 292 6 779.6 0 6 293 10 779.6 0 10 294 10 779.6 0 10 295 2 779.6 0 2 296 4 779.6 0 4 297 9 779.6 0 9 298 5 779.6 0 5 299 5 779.6 0 5 300 8 779.6 0 8 Finished in 9.49 s (59 us/read; 1.02 M reads/minute). === Summary === Total reads processed: 160,826 Reads with adapters: 4,353 (2.7%) Reads that were too short: 12 (0.0%) Reads written (passing filters): 4,341 (2.7%) Total basepairs processed: 46,349,179 bp Total written (filtered): 1,159,891 bp (2.5%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 4353 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 17 5 0.0 3 0 0 0 0 5 18 3 0.0 3 0 0 2 0 1 19 69 0.0 3 0 69 20 4083 0.0 4 4026 53 1 0 3 21 12 0.0 4 3 9 22 2 0.0 4 0 0 2 23 2 0.0 4 0 0 0 2 24 1 0.0 4 1 28 1 0.0 4 0 0 0 0 1 32 1 0.0 4 1 35 1 0.0 4 1 100 1 0.0 4 0 0 0 0 1 126 4 0.0 4 0 0 0 0 4 136 1 0.0 4 0 1 153 160 0.0 4 0 0 0 1 159 228 1 0.0 4 0 0 0 0 1 287 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 0.16 s (37 us/read; 1.63 M reads/minute). === Summary === Total reads processed: 4,341 Reads with adapters: 57 (1.3%) Reads written (passing filters): 4,341 (100.0%) Total basepairs processed: 1,159,891 bp Total written (filtered): 1,158,811 bp (99.9%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 57 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.8% C: 5.3% G: 86.0% T: 5.3% none/other: 1.8% 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 1 67.8 0 1 4 2 17.0 0 2 9 1 0.0 0 0 1 10 41 0.0 1 2 39 11 10 0.0 1 0 10 268 1 0.0 1 1 272 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.