This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CCGTCC -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 135.29 s (46 us/read; 1.31 M reads/minute). === Summary === Total reads processed: 2,949,860 Reads with adapters: 41,189 (1.4%) Reads that were too short: 21,430 (0.7%) Reads written (passing filters): 19,759 (0.7%) Total basepairs processed: 887,907,860 bp Total written (filtered): 3,737,682 bp (0.4%) === Adapter 1 === Sequence: CCGTCC; Type: regular 5'; Length: 6; Trimmed: 41189 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 26 720.2 0 26 7 44 720.2 0 44 8 373 720.2 0 373 9 441 720.2 0 441 10 35 720.2 0 35 11 23 720.2 0 23 12 17 720.2 0 17 13 27 720.2 0 27 14 26 720.2 0 26 15 23 720.2 0 23 16 26 720.2 0 26 17 25 720.2 0 25 18 21 720.2 0 21 19 22 720.2 0 22 20 36 720.2 0 36 21 24 720.2 0 24 22 26 720.2 0 26 23 29 720.2 0 29 24 32 720.2 0 32 25 34 720.2 0 34 26 27 720.2 0 27 27 30 720.2 0 30 28 32 720.2 0 32 29 26 720.2 0 26 30 17 720.2 0 17 31 33 720.2 0 33 32 34 720.2 0 34 33 20 720.2 0 20 34 25 720.2 0 25 35 27 720.2 0 27 36 128 720.2 0 128 37 50 720.2 0 50 38 30 720.2 0 30 39 28 720.2 0 28 40 43 720.2 0 43 41 40 720.2 0 40 42 31 720.2 0 31 43 17 720.2 0 17 44 23 720.2 0 23 45 36 720.2 0 36 46 20 720.2 0 20 47 31 720.2 0 31 48 27 720.2 0 27 49 37 720.2 0 37 50 52 720.2 0 52 51 25 720.2 0 25 52 37 720.2 0 37 53 33 720.2 0 33 54 37 720.2 0 37 55 58 720.2 0 58 56 459 720.2 0 459 57 48 720.2 0 48 58 48 720.2 0 48 59 34 720.2 0 34 60 18 720.2 0 18 61 32 720.2 0 32 62 20 720.2 0 20 63 32 720.2 0 32 64 23 720.2 0 23 65 35 720.2 0 35 66 30 720.2 0 30 67 48 720.2 0 48 68 67 720.2 0 67 69 65 720.2 0 65 70 55 720.2 0 55 71 107 720.2 0 107 72 673 720.2 0 673 73 1857 720.2 0 1857 74 1371 720.2 0 1371 75 1565 720.2 0 1565 76 22 720.2 0 22 77 25 720.2 0 25 78 25 720.2 0 25 79 36 720.2 0 36 80 39 720.2 0 39 81 21 720.2 0 21 82 24 720.2 0 24 83 33 720.2 0 33 84 22 720.2 0 22 85 42 720.2 0 42 86 47 720.2 0 47 87 38 720.2 0 38 88 63 720.2 0 63 89 53 720.2 0 53 90 31 720.2 0 31 91 28 720.2 0 28 92 26 720.2 0 26 93 30 720.2 0 30 94 30 720.2 0 30 95 32 720.2 0 32 96 31 720.2 0 31 97 22 720.2 0 22 98 14 720.2 0 14 99 28 720.2 0 28 100 67 720.2 0 67 101 39 720.2 0 39 102 26 720.2 0 26 103 30 720.2 0 30 104 34 720.2 0 34 105 179 720.2 0 179 106 36 720.2 0 36 107 68 720.2 0 68 108 37 720.2 0 37 109 50 720.2 0 50 110 35 720.2 0 35 111 39 720.2 0 39 112 25 720.2 0 25 113 27 720.2 0 27 114 27 720.2 0 27 115 45 720.2 0 45 116 28 720.2 0 28 117 31 720.2 0 31 118 28 720.2 0 28 119 25 720.2 0 25 120 26 720.2 0 26 121 36 720.2 0 36 122 23 720.2 0 23 123 27 720.2 0 27 124 26 720.2 0 26 125 27 720.2 0 27 126 31 720.2 0 31 127 34 720.2 0 34 128 60 720.2 0 60 129 59 720.2 0 59 130 37 720.2 0 37 131 30 720.2 0 30 132 25 720.2 0 25 133 20 720.2 0 20 134 54 720.2 0 54 135 27 720.2 0 27 136 67 720.2 0 67 137 56 720.2 0 56 138 155 720.2 0 155 139 22 720.2 0 22 140 28 720.2 0 28 141 42 720.2 0 42 142 33 720.2 0 33 143 42 720.2 0 42 144 39 720.2 0 39 145 207 720.2 0 207 146 313 720.2 0 313 147 635 720.2 0 635 148 139 720.2 0 139 149 54 720.2 0 54 150 87 720.2 0 87 151 37 720.2 0 37 152 30 720.2 0 30 153 35 720.2 0 35 154 52 720.2 0 52 155 51 720.2 0 51 156 91 720.2 0 91 157 63 720.2 0 63 158 345 720.2 0 345 159 410 720.2 0 410 160 666 720.2 0 666 161 85 720.2 0 85 162 55 720.2 0 55 163 127 720.2 0 127 164 22 720.2 0 22 165 27 720.2 0 27 166 41 720.2 0 41 167 37 720.2 0 37 168 40 720.2 0 40 169 65 720.2 0 65 170 65 720.2 0 65 171 103 720.2 0 103 172 68 720.2 0 68 173 52 720.2 0 52 174 536 720.2 0 536 175 238 720.2 0 238 176 854 720.2 0 854 177 49 720.2 0 49 178 40 720.2 0 40 179 23 720.2 0 23 180 43 720.2 0 43 181 71 720.2 0 71 182 81 720.2 0 81 183 41 720.2 0 41 184 56 720.2 0 56 185 64 720.2 0 64 186 119 720.2 0 119 187 541 720.2 0 541 188 336 720.2 0 336 189 596 720.2 0 596 190 44 720.2 0 44 191 45 720.2 0 45 192 45 720.2 0 45 193 33 720.2 0 33 194 25 720.2 0 25 195 34 720.2 0 34 196 26 720.2 0 26 197 42 720.2 0 42 198 32 720.2 0 32 199 48 720.2 0 48 200 37 720.2 0 37 201 43 720.2 0 43 202 37 720.2 0 37 203 41 720.2 0 41 204 78 720.2 0 78 205 54 720.2 0 54 206 47 720.2 0 47 207 48 720.2 0 48 208 27 720.2 0 27 209 19 720.2 0 19 210 27 720.2 0 27 211 23 720.2 0 23 212 22 720.2 0 22 213 36 720.2 0 36 214 47 720.2 0 47 215 40 720.2 0 40 216 37 720.2 0 37 217 41 720.2 0 41 218 68 720.2 0 68 219 37 720.2 0 37 220 41 720.2 0 41 221 31 720.2 0 31 222 30 720.2 0 30 223 47 720.2 0 47 224 47 720.2 0 47 225 41 720.2 0 41 226 29 720.2 0 29 227 77 720.2 0 77 228 50 720.2 0 50 229 113 720.2 0 113 230 50 720.2 0 50 231 82 720.2 0 82 232 71 720.2 0 71 233 88 720.2 0 88 234 80 720.2 0 80 235 41 720.2 0 41 236 53 720.2 0 53 237 101 720.2 0 101 238 103 720.2 0 103 239 96 720.2 0 96 240 56 720.2 0 56 241 50 720.2 0 50 242 45 720.2 0 45 243 45 720.2 0 45 244 60 720.2 0 60 245 69 720.2 0 69 246 63 720.2 0 63 247 82 720.2 0 82 248 153 720.2 0 153 249 214 720.2 0 214 250 297 720.2 0 297 251 11225 720.2 0 11225 252 985 720.2 0 985 253 1101 720.2 0 1101 254 98 720.2 0 98 255 71 720.2 0 71 256 49 720.2 0 49 257 37 720.2 0 37 258 41 720.2 0 41 259 52 720.2 0 52 260 146 720.2 0 146 261 134 720.2 0 134 262 230 720.2 0 230 263 157 720.2 0 157 264 97 720.2 0 97 265 39 720.2 0 39 266 42 720.2 0 42 267 47 720.2 0 47 268 83 720.2 0 83 269 116 720.2 0 116 270 59 720.2 0 59 271 62 720.2 0 62 272 105 720.2 0 105 273 178 720.2 0 178 274 98 720.2 0 98 275 111 720.2 0 111 276 76 720.2 0 76 277 58 720.2 0 58 278 88 720.2 0 88 279 112 720.2 0 112 280 120 720.2 0 120 281 91 720.2 0 91 282 102 720.2 0 102 283 61 720.2 0 61 284 61 720.2 0 61 285 212 720.2 0 212 286 64 720.2 0 64 287 57 720.2 0 57 288 79 720.2 0 79 289 58 720.2 0 58 290 65 720.2 0 65 291 97 720.2 0 97 292 104 720.2 0 104 293 116 720.2 0 116 294 111 720.2 0 111 295 253 720.2 0 253 296 83 720.2 0 83 297 147 720.2 0 147 298 120 720.2 0 120 299 175 720.2 0 175 300 278 720.2 0 278 301 145 720.2 0 145 Finished in 1.21 s (61 us/read; 0.98 M reads/minute). === Summary === Total reads processed: 19,759 Reads with adapters: 439 (2.2%) Reads that were too short: 2 (0.0%) Reads written (passing filters): 437 (2.2%) Total basepairs processed: 3,737,682 bp Total written (filtered): 118,279 bp (3.2%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 439 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 1 0.0 3 0 0 0 0 1 19 4 0.0 3 0 3 0 1 20 426 0.0 4 416 10 21 1 0.0 4 1 99 1 0.0 4 0 0 0 0 1 125 1 0.0 4 0 0 0 0 1 127 2 0.0 4 0 0 0 0 2 155 3 0.0 4 0 0 0 0 3 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 0.02 s (46 us/read; 1.31 M reads/minute). === Summary === Total reads processed: 437 Reads with adapters: 70 (16.0%) Reads written (passing filters): 437 (100.0%) Total basepairs processed: 118,279 bp Total written (filtered): 117,037 bp (98.9%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 70 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.4% C: 0.0% G: 95.7% T: 2.9% 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 46 0.0 0 4 42 10 18 0.0 1 0 18 11 3 0.0 1 0 3 169 1 0.0 1 1 223 2 0.0 1 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.