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 75.35 s (26 us/read; 2.33 M reads/minute). === Summary === Total reads processed: 2,926,947 Reads with adapters: 257,786 (8.8%) Reads that were too short: 5,556 (0.2%) Reads written (passing filters): 252,230 (8.6%) Total basepairs processed: 881,011,047 bp Total written (filtered): 61,560,261 bp (7.0%) === Adapter 1 === Sequence: GGCGCA; Type: regular 5'; Length: 6; Trimmed: 257786 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 405 714.6 0 405 7 5979 714.6 0 5979 8 19803 714.6 0 19803 9 166 714.6 0 166 10 221 714.6 0 221 11 132 714.6 0 132 12 135 714.6 0 135 13 197 714.6 0 197 14 160 714.6 0 160 15 165 714.6 0 165 16 171 714.6 0 171 17 225 714.6 0 225 18 237 714.6 0 237 19 408 714.6 0 408 20 5855 714.6 0 5855 21 15018 714.6 0 15018 22 10998 714.6 0 10998 23 168 714.6 0 168 24 107 714.6 0 107 25 165 714.6 0 165 26 96 714.6 0 96 27 100 714.6 0 100 28 83 714.6 0 83 29 106 714.6 0 106 30 109 714.6 0 109 31 162 714.6 0 162 32 175 714.6 0 175 33 297 714.6 0 297 34 315 714.6 0 315 35 678 714.6 0 678 36 1552 714.6 0 1552 37 337 714.6 0 337 38 615 714.6 0 615 39 1366 714.6 0 1366 40 692 714.6 0 692 41 580 714.6 0 580 42 957 714.6 0 957 43 865 714.6 0 865 44 870 714.6 0 870 45 750 714.6 0 750 46 1000 714.6 0 1000 47 1052 714.6 0 1052 48 1885 714.6 0 1885 49 27776 714.6 0 27776 50 72070 714.6 0 72070 51 45113 714.6 0 45113 52 240 714.6 0 240 53 74 714.6 0 74 54 39 714.6 0 39 55 50 714.6 0 50 56 60 714.6 0 60 57 71 714.6 0 71 58 39 714.6 0 39 59 37 714.6 0 37 60 37 714.6 0 37 61 54 714.6 0 54 62 74 714.6 0 74 63 73 714.6 0 73 64 122 714.6 0 122 65 102 714.6 0 102 66 41 714.6 0 41 67 43 714.6 0 43 68 45 714.6 0 45 69 37 714.6 0 37 70 38 714.6 0 38 71 43 714.6 0 43 72 38 714.6 0 38 73 59 714.6 0 59 74 43 714.6 0 43 75 43 714.6 0 43 76 36 714.6 0 36 77 40 714.6 0 40 78 42 714.6 0 42 79 52 714.6 0 52 80 46 714.6 0 46 81 54 714.6 0 54 82 48 714.6 0 48 83 44 714.6 0 44 84 61 714.6 0 61 85 61 714.6 0 61 86 59 714.6 0 59 87 53 714.6 0 53 88 46 714.6 0 46 89 38 714.6 0 38 90 49 714.6 0 49 91 24 714.6 0 24 92 34 714.6 0 34 93 33 714.6 0 33 94 33 714.6 0 33 95 31 714.6 0 31 96 31 714.6 0 31 97 27 714.6 0 27 98 49 714.6 0 49 99 36 714.6 0 36 100 25 714.6 0 25 101 29 714.6 0 29 102 48 714.6 0 48 103 39 714.6 0 39 104 30 714.6 0 30 105 25 714.6 0 25 106 55 714.6 0 55 107 32 714.6 0 32 108 20 714.6 0 20 109 31 714.6 0 31 110 24 714.6 0 24 111 36 714.6 0 36 112 46 714.6 0 46 113 34 714.6 0 34 114 23 714.6 0 23 115 32 714.6 0 32 116 33 714.6 0 33 117 103 714.6 0 103 118 111 714.6 0 111 119 83 714.6 0 83 120 47 714.6 0 47 121 43 714.6 0 43 122 43 714.6 0 43 123 45 714.6 0 45 124 34 714.6 0 34 125 45 714.6 0 45 126 40 714.6 0 40 127 45 714.6 0 45 128 175 714.6 0 175 129 38 714.6 0 38 130 62 714.6 0 62 131 60 714.6 0 60 132 41 714.6 0 41 133 33 714.6 0 33 134 27 714.6 0 27 135 38 714.6 0 38 136 26 714.6 0 26 137 35 714.6 0 35 138 43 714.6 0 43 139 65 714.6 0 65 140 40 714.6 0 40 141 43 714.6 0 43 142 42 714.6 0 42 143 33 714.6 0 33 144 48 714.6 0 48 145 40 714.6 0 40 146 64 714.6 0 64 147 90 714.6 0 90 148 43 714.6 0 43 149 39 714.6 0 39 150 51 714.6 0 51 151 56 714.6 0 56 152 53 714.6 0 53 153 43 714.6 0 43 154 27 714.6 0 27 155 46 714.6 0 46 156 28 714.6 0 28 157 42 714.6 0 42 158 56 714.6 0 56 159 48 714.6 0 48 160 39 714.6 0 39 161 39 714.6 0 39 162 24 714.6 0 24 163 26 714.6 0 26 164 44 714.6 0 44 165 40 714.6 0 40 166 41 714.6 0 41 167 40 714.6 0 40 168 46 714.6 0 46 169 43 714.6 0 43 170 56 714.6 0 56 171 73 714.6 0 73 172 61 714.6 0 61 173 50 714.6 0 50 174 47 714.6 0 47 175 54 714.6 0 54 176 72 714.6 0 72 177 84 714.6 0 84 178 109 714.6 0 109 179 147 714.6 0 147 180 187 714.6 0 187 181 444 714.6 0 444 182 5384 714.6 0 5384 183 4220 714.6 0 4220 184 656 714.6 0 656 185 111 714.6 0 111 186 96 714.6 0 96 187 72 714.6 0 72 188 88 714.6 0 88 189 105 714.6 0 105 190 89 714.6 0 89 191 117 714.6 0 117 192 129 714.6 0 129 193 440 714.6 0 440 194 3284 714.6 0 3284 195 1435 714.6 0 1435 196 3651 714.6 0 3651 197 4120 714.6 0 4120 198 725 714.6 0 725 199 45 714.6 0 45 200 47 714.6 0 47 201 29 714.6 0 29 202 31 714.6 0 31 203 44 714.6 0 44 204 27 714.6 0 27 205 57 714.6 0 57 206 40 714.6 0 40 207 35 714.6 0 35 208 35 714.6 0 35 209 39 714.6 0 39 210 43 714.6 0 43 211 48 714.6 0 48 212 35 714.6 0 35 213 57 714.6 0 57 214 97 714.6 0 97 215 87 714.6 0 87 216 71 714.6 0 71 217 54 714.6 0 54 218 57 714.6 0 57 219 63 714.6 0 63 220 83 714.6 0 83 221 86 714.6 0 86 222 64 714.6 0 64 223 60 714.6 0 60 224 47 714.6 0 47 225 39 714.6 0 39 226 42 714.6 0 42 227 50 714.6 0 50 228 54 714.6 0 54 229 47 714.6 0 47 230 42 714.6 0 42 231 42 714.6 0 42 232 40 714.6 0 40 233 38 714.6 0 38 234 59 714.6 0 59 235 37 714.6 0 37 236 81 714.6 0 81 237 49 714.6 0 49 238 55 714.6 0 55 239 67 714.6 0 67 240 94 714.6 0 94 241 64 714.6 0 64 242 39 714.6 0 39 243 22 714.6 0 22 244 39 714.6 0 39 245 35 714.6 0 35 246 73 714.6 0 73 247 55 714.6 0 55 248 45 714.6 0 45 249 52 714.6 0 52 250 54 714.6 0 54 251 129 714.6 0 129 252 95 714.6 0 95 253 39 714.6 0 39 254 26 714.6 0 26 255 51 714.6 0 51 256 54 714.6 0 54 257 66 714.6 0 66 258 53 714.6 0 53 259 34 714.6 0 34 260 60 714.6 0 60 261 73 714.6 0 73 262 37 714.6 0 37 263 88 714.6 0 88 264 114 714.6 0 114 265 117 714.6 0 117 266 160 714.6 0 160 267 72 714.6 0 72 268 52 714.6 0 52 269 32 714.6 0 32 270 35 714.6 0 35 271 50 714.6 0 50 272 34 714.6 0 34 273 38 714.6 0 38 274 39 714.6 0 39 275 46 714.6 0 46 276 31 714.6 0 31 277 32 714.6 0 32 278 63 714.6 0 63 279 49 714.6 0 49 280 48 714.6 0 48 281 23 714.6 0 23 282 43 714.6 0 43 283 44 714.6 0 44 284 44 714.6 0 44 285 42 714.6 0 42 286 41 714.6 0 41 287 42 714.6 0 42 288 80 714.6 0 80 289 128 714.6 0 128 290 163 714.6 0 163 291 39 714.6 0 39 292 50 714.6 0 50 293 53 714.6 0 53 294 51 714.6 0 51 295 29 714.6 0 29 296 31 714.6 0 31 297 25 714.6 0 25 298 35 714.6 0 35 299 26 714.6 0 26 300 83 714.6 0 83 301 93 714.6 0 93 Finished in 11.92 s (47 us/read; 1.27 M reads/minute). === Summary === Total reads processed: 252,230 Reads with adapters: 21,534 (8.5%) Reads that were too short: 37 (0.0%) Reads written (passing filters): 21,497 (8.5%) Total basepairs processed: 61,560,261 bp Total written (filtered): 5,815,912 bp (9.4%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 21534 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 3 0.0 3 0 0 0 0 3 18 7 0.0 3 0 0 6 1 19 265 0.0 3 0 253 2 2 8 20 20650 0.0 4 20437 205 7 0 1 21 49 0.0 4 5 42 0 0 2 22 6 0.0 4 0 0 5 0 1 23 6 0.0 4 0 0 0 5 1 50 3 0.0 4 0 0 0 0 3 57 1 0.0 4 1 84 1 0.0 4 0 0 0 0 1 85 421 0.0 4 0 0 0 0 421 110 1 0.0 4 0 0 0 0 1 111 3 0.0 4 0 0 0 2 1 114 79 0.0 4 0 0 0 0 79 122 2 0.0 4 0 0 0 0 2 186 19 0.0 4 0 0 0 1 18 187 1 0.0 4 0 0 0 0 1 188 1 0.0 4 0 0 0 0 1 190 1 0.0 4 0 0 0 0 1 196 1 0.0 4 0 0 0 0 1 200 1 0.0 4 0 0 0 0 1 222 2 0.0 4 0 0 0 0 2 224 1 0.0 4 0 0 0 0 1 225 2 0.0 4 0 0 0 0 2 228 1 0.0 4 0 0 0 0 1 229 1 0.0 4 0 0 0 0 1 240 1 0.0 4 0 0 0 0 1 243 1 0.0 4 0 0 0 0 1 249 1 0.0 4 0 0 0 0 1 251 1 0.0 4 0 0 0 0 1 269 1 0.0 4 0 0 0 0 1 277 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 0.74 s (34 us/read; 1.74 M reads/minute). === Summary === Total reads processed: 21,497 Reads with adapters: 1,137 (5.3%) Reads written (passing filters): 21,497 (100.0%) Total basepairs processed: 5,815,912 bp Total written (filtered): 5,803,287 bp (99.8%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 1137 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.8% C: 1.1% G: 96.7% T: 0.4% 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 10 335.9 0 10 4 7 84.0 0 7 5 4 21.0 0 4 6 89 5.2 0 89 10 54 0.0 1 1 53 11 970 0.0 1 6 964 260 1 0.0 1 1 271 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.