This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g GGCGCA -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 69.16 s (26 us/read; 2.35 M reads/minute). === Summary === Total reads processed: 2,708,680 Reads with adapters: 268,886 (9.9%) Reads that were too short: 6,961 (0.3%) Reads written (passing filters): 261,925 (9.7%) Total basepairs processed: 815,312,680 bp Total written (filtered): 63,367,919 bp (7.8%) === Adapter 1 === Sequence: GGCGCA; Type: regular 5'; Length: 6; Trimmed: 268886 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 141 661.3 0 141 7 1055 661.3 0 1055 8 153 661.3 0 153 9 208 661.3 0 208 10 288 661.3 0 288 11 180 661.3 0 180 12 149 661.3 0 149 13 342 661.3 0 342 14 424 661.3 0 424 15 442 661.3 0 442 16 250 661.3 0 250 17 306 661.3 0 306 18 377 661.3 0 377 19 538 661.3 0 538 20 8840 661.3 0 8840 21 20047 661.3 0 20047 22 30616 661.3 0 30616 23 191 661.3 0 191 24 149 661.3 0 149 25 130 661.3 0 130 26 102 661.3 0 102 27 74 661.3 0 74 28 85 661.3 0 85 29 96 661.3 0 96 30 73 661.3 0 73 31 165 661.3 0 165 32 210 661.3 0 210 33 375 661.3 0 375 34 335 661.3 0 335 35 687 661.3 0 687 36 1561 661.3 0 1561 37 362 661.3 0 362 38 558 661.3 0 558 39 1084 661.3 0 1084 40 604 661.3 0 604 41 502 661.3 0 502 42 765 661.3 0 765 43 766 661.3 0 766 44 1046 661.3 0 1046 45 782 661.3 0 782 46 845 661.3 0 845 47 1046 661.3 0 1046 48 1689 661.3 0 1689 49 29668 661.3 0 29668 50 49202 661.3 0 49202 51 68876 661.3 0 68876 52 369 661.3 0 369 53 47 661.3 0 47 54 78 661.3 0 78 55 39 661.3 0 39 56 93 661.3 0 93 57 113 661.3 0 113 58 53 661.3 0 53 59 50 661.3 0 50 60 55 661.3 0 55 61 50 661.3 0 50 62 103 661.3 0 103 63 83 661.3 0 83 64 252 661.3 0 252 65 321 661.3 0 321 66 32 661.3 0 32 67 44 661.3 0 44 68 43 661.3 0 43 69 42 661.3 0 42 70 48 661.3 0 48 71 45 661.3 0 45 72 36 661.3 0 36 73 52 661.3 0 52 74 54 661.3 0 54 75 45 661.3 0 45 76 61 661.3 0 61 77 39 661.3 0 39 78 39 661.3 0 39 79 40 661.3 0 40 80 151 661.3 0 151 81 40 661.3 0 40 82 36 661.3 0 36 83 47 661.3 0 47 84 72 661.3 0 72 85 63 661.3 0 63 86 71 661.3 0 71 87 40 661.3 0 40 88 60 661.3 0 60 89 40 661.3 0 40 90 36 661.3 0 36 91 26 661.3 0 26 92 36 661.3 0 36 93 58 661.3 0 58 94 35 661.3 0 35 95 35 661.3 0 35 96 32 661.3 0 32 97 40 661.3 0 40 98 67 661.3 0 67 99 40 661.3 0 40 100 24 661.3 0 24 101 42 661.3 0 42 102 44 661.3 0 44 103 49 661.3 0 49 104 39 661.3 0 39 105 37 661.3 0 37 106 49 661.3 0 49 107 35 661.3 0 35 108 46 661.3 0 46 109 35 661.3 0 35 110 37 661.3 0 37 111 32 661.3 0 32 112 41 661.3 0 41 113 33 661.3 0 33 114 35 661.3 0 35 115 36 661.3 0 36 116 24 661.3 0 24 117 128 661.3 0 128 118 76 661.3 0 76 119 120 661.3 0 120 120 57 661.3 0 57 121 48 661.3 0 48 122 49 661.3 0 49 123 40 661.3 0 40 124 97 661.3 0 97 125 49 661.3 0 49 126 54 661.3 0 54 127 55 661.3 0 55 128 38 661.3 0 38 129 38 661.3 0 38 130 56 661.3 0 56 131 67 661.3 0 67 132 32 661.3 0 32 133 41 661.3 0 41 134 46 661.3 0 46 135 42 661.3 0 42 136 51 661.3 0 51 137 38 661.3 0 38 138 50 661.3 0 50 139 40 661.3 0 40 140 57 661.3 0 57 141 51 661.3 0 51 142 29 661.3 0 29 143 58 661.3 0 58 144 76 661.3 0 76 145 29 661.3 0 29 146 64 661.3 0 64 147 38 661.3 0 38 148 41 661.3 0 41 149 39 661.3 0 39 150 50 661.3 0 50 151 46 661.3 0 46 152 44 661.3 0 44 153 37 661.3 0 37 154 34 661.3 0 34 155 53 661.3 0 53 156 44 661.3 0 44 157 90 661.3 0 90 158 45 661.3 0 45 159 47 661.3 0 47 160 43 661.3 0 43 161 52 661.3 0 52 162 37 661.3 0 37 163 39 661.3 0 39 164 51 661.3 0 51 165 50 661.3 0 50 166 45 661.3 0 45 167 57 661.3 0 57 168 37 661.3 0 37 169 51 661.3 0 51 170 86 661.3 0 86 171 67 661.3 0 67 172 62 661.3 0 62 173 56 661.3 0 56 174 53 661.3 0 53 175 49 661.3 0 49 176 78 661.3 0 78 177 93 661.3 0 93 178 85 661.3 0 85 179 166 661.3 0 166 180 271 661.3 0 271 181 914 661.3 0 914 182 9635 661.3 0 9635 183 681 661.3 0 681 184 1652 661.3 0 1652 185 131 661.3 0 131 186 98 661.3 0 98 187 80 661.3 0 80 188 132 661.3 0 132 189 98 661.3 0 98 190 120 661.3 0 120 191 98 661.3 0 98 192 103 661.3 0 103 193 483 661.3 0 483 194 779 661.3 0 779 195 2355 661.3 0 2355 196 2380 661.3 0 2380 197 7731 661.3 0 7731 198 101 661.3 0 101 199 57 661.3 0 57 200 64 661.3 0 64 201 48 661.3 0 48 202 37 661.3 0 37 203 38 661.3 0 38 204 34 661.3 0 34 205 37 661.3 0 37 206 34 661.3 0 34 207 32 661.3 0 32 208 47 661.3 0 47 209 30 661.3 0 30 210 31 661.3 0 31 211 42 661.3 0 42 212 41 661.3 0 41 213 95 661.3 0 95 214 74 661.3 0 74 215 90 661.3 0 90 216 69 661.3 0 69 217 59 661.3 0 59 218 69 661.3 0 69 219 78 661.3 0 78 220 108 661.3 0 108 221 100 661.3 0 100 222 205 661.3 0 205 223 45 661.3 0 45 224 39 661.3 0 39 225 53 661.3 0 53 226 35 661.3 0 35 227 38 661.3 0 38 228 48 661.3 0 48 229 41 661.3 0 41 230 39 661.3 0 39 231 49 661.3 0 49 232 46 661.3 0 46 233 51 661.3 0 51 234 81 661.3 0 81 235 64 661.3 0 64 236 61 661.3 0 61 237 49 661.3 0 49 238 47 661.3 0 47 239 87 661.3 0 87 240 129 661.3 0 129 241 212 661.3 0 212 242 75 661.3 0 75 243 41 661.3 0 41 244 56 661.3 0 56 245 47 661.3 0 47 246 60 661.3 0 60 247 54 661.3 0 54 248 66 661.3 0 66 249 60 661.3 0 60 250 102 661.3 0 102 251 133 661.3 0 133 252 197 661.3 0 197 253 100 661.3 0 100 254 36 661.3 0 36 255 57 661.3 0 57 256 52 661.3 0 52 257 68 661.3 0 68 258 71 661.3 0 71 259 45 661.3 0 45 260 60 661.3 0 60 261 52 661.3 0 52 262 97 661.3 0 97 263 88 661.3 0 88 264 175 661.3 0 175 265 116 661.3 0 116 266 78 661.3 0 78 267 77 661.3 0 77 268 52 661.3 0 52 269 41 661.3 0 41 270 39 661.3 0 39 271 43 661.3 0 43 272 48 661.3 0 48 273 43 661.3 0 43 274 47 661.3 0 47 275 58 661.3 0 58 276 38 661.3 0 38 277 35 661.3 0 35 278 55 661.3 0 55 279 51 661.3 0 51 280 47 661.3 0 47 281 45 661.3 0 45 282 43 661.3 0 43 283 49 661.3 0 49 284 45 661.3 0 45 285 76 661.3 0 76 286 53 661.3 0 53 287 44 661.3 0 44 288 104 661.3 0 104 289 302 661.3 0 302 290 399 661.3 0 399 291 61 661.3 0 61 292 48 661.3 0 48 293 87 661.3 0 87 294 55 661.3 0 55 295 35 661.3 0 35 296 27 661.3 0 27 297 36 661.3 0 36 298 32 661.3 0 32 299 31 661.3 0 31 300 78 661.3 0 78 301 87 661.3 0 87 Finished in 11.96 s (46 us/read; 1.31 M reads/minute). === Summary === Total reads processed: 261,925 Reads with adapters: 3,818 (1.5%) Reads that were too short: 23 (0.0%) Reads written (passing filters): 3,795 (1.4%) Total basepairs processed: 63,367,919 bp Total written (filtered): 633,692 bp (1.0%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 3818 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 20 27 0.0 4 27 22 3 0.0 4 3 50 1 0.0 4 0 0 0 0 1 55 3 0.0 4 1 0 0 0 2 68 2 0.0 4 0 1 1 83 4 0.0 4 0 0 0 0 4 84 3 0.0 4 1 0 0 0 2 85 3143 0.0 4 0 0 0 0 3143 88 1 0.0 4 0 0 0 0 1 97 1 0.0 4 1 111 2 0.0 4 0 0 0 0 2 113 2 0.0 4 0 0 0 0 2 114 601 0.0 4 0 0 0 0 601 122 2 0.0 4 0 0 0 0 2 140 1 0.0 4 0 0 0 0 1 161 1 0.0 4 0 0 0 0 1 173 1 0.0 4 0 0 0 0 1 186 6 0.0 4 0 0 0 0 6 187 3 0.0 4 0 0 0 0 3 215 2 0.0 4 0 0 0 0 2 222 1 0.0 4 0 0 0 0 1 228 1 0.0 4 0 0 0 0 1 238 1 0.0 4 0 0 0 0 1 245 1 0.0 4 0 0 1 247 1 0.0 4 0 0 0 0 1 269 1 0.0 4 0 0 0 0 1 270 2 0.0 4 0 0 0 0 2 271 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 0.09 s (24 us/read; 2.53 M reads/minute). === Summary === Total reads processed: 3,795 Reads with adapters: 24 (0.6%) Reads written (passing filters): 3,795 (100.0%) Total basepairs processed: 633,692 bp Total written (filtered): 633,592 bp (100.0%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 24 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 91.7% C: 4.2% G: 4.2% T: 0.0% none/other: 0.0% WARNING: The adapter is preceded by "A" extremely often. The provided adapter sequence may be incomplete. To fix the problem, add "A" to the beginning of the adapter sequence. Overview of removed sequences length count expect max.err error counts 3 4 59.3 0 4 4 18 14.8 0 18 5 1 3.7 0 1 11 1 0.0 1 0 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.