This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g GTATGT -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 131.18 s (44 us/read; 1.35 M reads/minute). === Summary === Total reads processed: 2,949,860 Reads with adapters: 174,944 (5.9%) Reads that were too short: 13,186 (0.4%) Reads written (passing filters): 161,758 (5.5%) Total basepairs processed: 887,907,860 bp Total written (filtered): 43,614,424 bp (4.9%) === Adapter 1 === Sequence: GTATGT; Type: regular 5'; Length: 6; Trimmed: 174944 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 2432 720.2 0 2432 7 988 720.2 0 988 8 57962 720.2 0 57962 9 71009 720.2 0 71009 10 96 720.2 0 96 11 34 720.2 0 34 12 37 720.2 0 37 13 34 720.2 0 34 14 19 720.2 0 19 15 30 720.2 0 30 16 27 720.2 0 27 17 32 720.2 0 32 18 31 720.2 0 31 19 43 720.2 0 43 20 35 720.2 0 35 21 39 720.2 0 39 22 34 720.2 0 34 23 30 720.2 0 30 24 38 720.2 0 38 25 35 720.2 0 35 26 42 720.2 0 42 27 35 720.2 0 35 28 41 720.2 0 41 29 50 720.2 0 50 30 37 720.2 0 37 31 26 720.2 0 26 32 13 720.2 0 13 33 35 720.2 0 35 34 40 720.2 0 40 35 36 720.2 0 36 36 47 720.2 0 47 37 44 720.2 0 44 38 30 720.2 0 30 39 36 720.2 0 36 40 35 720.2 0 35 41 21 720.2 0 21 42 41 720.2 0 41 43 40 720.2 0 40 44 26 720.2 0 26 45 43 720.2 0 43 46 42 720.2 0 42 47 28 720.2 0 28 48 26 720.2 0 26 49 36 720.2 0 36 50 29 720.2 0 29 51 39 720.2 0 39 52 33 720.2 0 33 53 50 720.2 0 50 54 38 720.2 0 38 55 41 720.2 0 41 56 42 720.2 0 42 57 56 720.2 0 56 58 42 720.2 0 42 59 24 720.2 0 24 60 29 720.2 0 29 61 35 720.2 0 35 62 41 720.2 0 41 63 41 720.2 0 41 64 48 720.2 0 48 65 53 720.2 0 53 66 44 720.2 0 44 67 65 720.2 0 65 68 44 720.2 0 44 69 133 720.2 0 133 70 94 720.2 0 94 71 105 720.2 0 105 72 53 720.2 0 53 73 44 720.2 0 44 74 37 720.2 0 37 75 60 720.2 0 60 76 62 720.2 0 62 77 87 720.2 0 87 78 110 720.2 0 110 79 88 720.2 0 88 80 553 720.2 0 553 81 466 720.2 0 466 82 1231 720.2 0 1231 83 59 720.2 0 59 84 45 720.2 0 45 85 49 720.2 0 49 86 44 720.2 0 44 87 51 720.2 0 51 88 39 720.2 0 39 89 61 720.2 0 61 90 45 720.2 0 45 91 61 720.2 0 61 92 43 720.2 0 43 93 86 720.2 0 86 94 77 720.2 0 77 95 99 720.2 0 99 96 1145 720.2 0 1145 97 1150 720.2 0 1150 98 1248 720.2 0 1248 99 66 720.2 0 66 100 83 720.2 0 83 101 56 720.2 0 56 102 45 720.2 0 45 103 43 720.2 0 43 104 43 720.2 0 43 105 48 720.2 0 48 106 41 720.2 0 41 107 36 720.2 0 36 108 45 720.2 0 45 109 38 720.2 0 38 110 58 720.2 0 58 111 52 720.2 0 52 112 47 720.2 0 47 113 53 720.2 0 53 114 73 720.2 0 73 115 65 720.2 0 65 116 38 720.2 0 38 117 45 720.2 0 45 118 48 720.2 0 48 119 43 720.2 0 43 120 41 720.2 0 41 121 47 720.2 0 47 122 50 720.2 0 50 123 42 720.2 0 42 124 41 720.2 0 41 125 54 720.2 0 54 126 69 720.2 0 69 127 97 720.2 0 97 128 94 720.2 0 94 129 90 720.2 0 90 130 410 720.2 0 410 131 907 720.2 0 907 132 463 720.2 0 463 133 493 720.2 0 493 134 287 720.2 0 287 135 97 720.2 0 97 136 68 720.2 0 68 137 109 720.2 0 109 138 320 720.2 0 320 139 110 720.2 0 110 140 41 720.2 0 41 141 40 720.2 0 40 142 36 720.2 0 36 143 58 720.2 0 58 144 56 720.2 0 56 145 60 720.2 0 60 146 60 720.2 0 60 147 80 720.2 0 80 148 1053 720.2 0 1053 149 2104 720.2 0 2104 150 745 720.2 0 745 151 35 720.2 0 35 152 58 720.2 0 58 153 48 720.2 0 48 154 55 720.2 0 55 155 41 720.2 0 41 156 32 720.2 0 32 157 37 720.2 0 37 158 50 720.2 0 50 159 64 720.2 0 64 160 39 720.2 0 39 161 56 720.2 0 56 162 39 720.2 0 39 163 43 720.2 0 43 164 56 720.2 0 56 165 34 720.2 0 34 166 49 720.2 0 49 167 46 720.2 0 46 168 31 720.2 0 31 169 35 720.2 0 35 170 52 720.2 0 52 171 42 720.2 0 42 172 40 720.2 0 40 173 68 720.2 0 68 174 64 720.2 0 64 175 55 720.2 0 55 176 47 720.2 0 47 177 67 720.2 0 67 178 52 720.2 0 52 179 46 720.2 0 46 180 62 720.2 0 62 181 49 720.2 0 49 182 52 720.2 0 52 183 83 720.2 0 83 184 85 720.2 0 85 185 112 720.2 0 112 186 143 720.2 0 143 187 971 720.2 0 971 188 4254 720.2 0 4254 189 1784 720.2 0 1784 190 961 720.2 0 961 191 59 720.2 0 59 192 52 720.2 0 52 193 50 720.2 0 50 194 45 720.2 0 45 195 52 720.2 0 52 196 44 720.2 0 44 197 41 720.2 0 41 198 33 720.2 0 33 199 29 720.2 0 29 200 35 720.2 0 35 201 39 720.2 0 39 202 32 720.2 0 32 203 62 720.2 0 62 204 32 720.2 0 32 205 52 720.2 0 52 206 59 720.2 0 59 207 63 720.2 0 63 208 55 720.2 0 55 209 245 720.2 0 245 210 559 720.2 0 559 211 414 720.2 0 414 212 112 720.2 0 112 213 39 720.2 0 39 214 53 720.2 0 53 215 47 720.2 0 47 216 31 720.2 0 31 217 46 720.2 0 46 218 48 720.2 0 48 219 54 720.2 0 54 220 46 720.2 0 46 221 48 720.2 0 48 222 47 720.2 0 47 223 77 720.2 0 77 224 55 720.2 0 55 225 82 720.2 0 82 226 296 720.2 0 296 227 549 720.2 0 549 228 246 720.2 0 246 229 132 720.2 0 132 230 110 720.2 0 110 231 111 720.2 0 111 232 88 720.2 0 88 233 81 720.2 0 81 234 124 720.2 0 124 235 121 720.2 0 121 236 105 720.2 0 105 237 65 720.2 0 65 238 74 720.2 0 74 239 75 720.2 0 75 240 136 720.2 0 136 241 225 720.2 0 225 242 244 720.2 0 244 243 264 720.2 0 264 244 143 720.2 0 143 245 120 720.2 0 120 246 372 720.2 0 372 247 116 720.2 0 116 248 74 720.2 0 74 249 159 720.2 0 159 250 158 720.2 0 158 251 209 720.2 0 209 252 125 720.2 0 125 253 434 720.2 0 434 254 682 720.2 0 682 255 666 720.2 0 666 256 193 720.2 0 193 257 148 720.2 0 148 258 61 720.2 0 61 259 60 720.2 0 60 260 169 720.2 0 169 261 160 720.2 0 160 262 190 720.2 0 190 263 50 720.2 0 50 264 70 720.2 0 70 265 122 720.2 0 122 266 200 720.2 0 200 267 164 720.2 0 164 268 91 720.2 0 91 269 114 720.2 0 114 270 451 720.2 0 451 271 323 720.2 0 323 272 232 720.2 0 232 273 181 720.2 0 181 274 171 720.2 0 171 275 119 720.2 0 119 276 27 720.2 0 27 277 40 720.2 0 40 278 43 720.2 0 43 279 42 720.2 0 42 280 40 720.2 0 40 281 54 720.2 0 54 282 36 720.2 0 36 283 67 720.2 0 67 284 61 720.2 0 61 285 68 720.2 0 68 286 40 720.2 0 40 287 42 720.2 0 42 288 38 720.2 0 38 289 40 720.2 0 40 290 28 720.2 0 28 291 48 720.2 0 48 292 48 720.2 0 48 293 59 720.2 0 59 294 44 720.2 0 44 295 57 720.2 0 57 296 44 720.2 0 44 297 38 720.2 0 38 298 49 720.2 0 49 299 47 720.2 0 47 300 43 720.2 0 43 301 112 720.2 0 112 Finished in 11.75 s (73 us/read; 0.83 M reads/minute). === Summary === Total reads processed: 161,758 Reads with adapters: 73,828 (45.6%) Reads that were too short: 46 (0.0%) Reads written (passing filters): 73,782 (45.6%) Total basepairs processed: 43,614,424 bp Total written (filtered): 20,000,793 bp (45.9%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 73828 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 1 2 18 35 0.0 3 0 0 32 3 19 964 0.0 3 0 941 17 1 5 20 71885 0.0 4 70566 1271 40 4 4 21 159 0.0 4 22 127 9 1 22 16 0.0 4 3 0 10 1 2 23 40 0.0 4 1 0 0 36 3 24 2 0.0 4 1 0 0 1 28 1 0.0 4 0 0 0 0 1 32 2 0.0 4 1 0 0 0 1 35 1 0.0 4 1 40 1 0.0 4 0 0 0 0 1 41 2 0.0 4 0 0 0 0 2 42 2 0.0 4 0 0 0 0 2 54 3 0.0 4 0 0 0 0 3 55 1 0.0 4 0 0 0 0 1 56 9 0.0 4 0 0 0 0 9 58 11 0.0 4 0 0 0 0 11 82 1 0.0 4 0 1 87 4 0.0 4 0 0 0 1 3 88 3 0.0 4 0 0 0 0 3 89 1 0.0 4 0 0 0 0 1 103 2 0.0 4 0 0 0 0 2 107 1 0.0 4 0 0 0 0 1 111 1 0.0 4 0 0 0 0 1 123 1 0.0 4 1 125 3 0.0 4 0 0 0 0 3 126 6 0.0 4 0 0 0 0 6 127 633 0.0 4 0 0 0 0 633 129 1 0.0 4 0 0 0 0 1 130 16 0.0 4 0 0 0 0 16 140 1 0.0 4 1 153 2 0.0 4 0 0 0 0 2 195 1 0.0 4 0 0 0 0 1 218 1 0.0 4 0 0 0 0 1 228 3 0.0 4 0 0 0 0 3 229 1 0.0 4 0 0 0 0 1 232 2 0.0 4 0 0 0 0 2 234 2 0.0 4 0 0 0 0 2 257 1 0.0 4 0 0 0 0 1 264 1 0.0 4 0 0 0 0 1 265 1 0.0 4 0 0 0 0 1 275 1 0.0 4 0 1 285 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 4.13 s (56 us/read; 1.07 M reads/minute). === Summary === Total reads processed: 73,782 Reads with adapters: 8,029 (10.9%) Reads written (passing filters): 73,782 (100.0%) Total basepairs processed: 20,000,793 bp Total written (filtered): 19,887,073 bp (99.4%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 8029 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 0.8% C: 2.6% G: 93.5% T: 3.1% 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 17 1152.8 0 17 4 15 288.2 0 15 5 4 72.1 0 4 6 1 18.0 0 1 7 1 4.5 0 1 8 4 1.1 0 4 9 3219 0.3 0 71 3148 10 3868 0.1 1 118 3750 11 705 0.0 1 7 698 12 3 0.0 1 0 3 13 3 0.0 1 0 3 19 1 0.0 1 1 22 1 0.0 1 1 27 1 0.0 1 1 58 10 0.0 1 8 2 59 3 0.0 1 2 1 60 1 0.0 1 1 91 1 0.0 1 1 105 1 0.0 1 1 130 1 0.0 1 1 150 6 0.0 1 0 6 152 1 0.0 1 0 1 169 2 0.0 1 2 171 1 0.0 1 1 177 1 0.0 1 0 1 208 7 0.0 1 3 4 209 1 0.0 1 1 210 1 0.0 1 0 1 223 143 0.0 1 128 15 224 4 0.0 1 4 225 1 0.0 1 1 229 1 0.0 1 0 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.