This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AAGTGT -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 93.47 s (29 us/read; 2.05 M reads/minute). === Summary === Total reads processed: 3,193,041 Reads with adapters: 51,964 (1.6%) Reads that were too short: 11,612 (0.4%) Reads written (passing filters): 40,352 (1.3%) Total basepairs processed: 961,105,341 bp Total written (filtered): 9,884,305 bp (1.0%) === Adapter 1 === Sequence: AAGTGT; Type: regular 5'; Length: 6; Trimmed: 51964 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 195 779.6 0 195 7 3286 779.6 0 3286 8 20314 779.6 0 20314 9 26 779.6 0 26 10 3 779.6 0 3 11 13 779.6 0 13 12 8 779.6 0 8 13 8 779.6 0 8 14 10 779.6 0 10 15 3 779.6 0 3 16 4 779.6 0 4 17 9 779.6 0 9 18 10 779.6 0 10 19 9 779.6 0 9 20 65 779.6 0 65 21 14 779.6 0 14 22 17 779.6 0 17 23 9 779.6 0 9 24 3 779.6 0 3 25 5 779.6 0 5 26 11 779.6 0 11 27 31 779.6 0 31 28 11 779.6 0 11 29 1632 779.6 0 1632 30 28 779.6 0 28 31 185 779.6 0 185 32 43 779.6 0 43 33 11 779.6 0 11 34 10 779.6 0 10 35 8 779.6 0 8 36 9 779.6 0 9 37 10 779.6 0 10 38 9 779.6 0 9 39 6 779.6 0 6 40 9 779.6 0 9 41 7 779.6 0 7 42 3 779.6 0 3 43 5 779.6 0 5 44 8 779.6 0 8 45 10 779.6 0 10 46 8 779.6 0 8 47 7 779.6 0 7 48 6 779.6 0 6 49 6 779.6 0 6 50 6 779.6 0 6 51 8 779.6 0 8 52 9 779.6 0 9 53 6 779.6 0 6 54 24 779.6 0 24 55 29 779.6 0 29 56 22 779.6 0 22 57 3 779.6 0 3 58 4 779.6 0 4 59 6 779.6 0 6 60 9 779.6 0 9 61 37 779.6 0 37 62 125 779.6 0 125 63 159 779.6 0 159 64 9 779.6 0 9 65 5 779.6 0 5 66 11 779.6 0 11 67 43 779.6 0 43 68 76 779.6 0 76 69 40 779.6 0 40 70 11 779.6 0 11 71 131 779.6 0 131 72 22 779.6 0 22 73 13 779.6 0 13 74 30 779.6 0 30 75 15 779.6 0 15 76 84 779.6 0 84 77 137 779.6 0 137 78 69 779.6 0 69 79 30 779.6 0 30 80 56 779.6 0 56 81 36 779.6 0 36 82 53 779.6 0 53 83 71 779.6 0 71 84 100 779.6 0 100 85 29 779.6 0 29 86 71 779.6 0 71 87 36 779.6 0 36 88 23 779.6 0 23 89 35 779.6 0 35 90 34 779.6 0 34 91 14 779.6 0 14 92 30 779.6 0 30 93 93 779.6 0 93 94 103 779.6 0 103 95 59 779.6 0 59 96 23 779.6 0 23 97 16 779.6 0 16 98 63 779.6 0 63 99 102 779.6 0 102 100 405 779.6 0 405 101 17 779.6 0 17 102 10 779.6 0 10 103 15 779.6 0 15 104 13 779.6 0 13 105 9 779.6 0 9 106 10 779.6 0 10 107 16 779.6 0 16 108 6 779.6 0 6 109 13 779.6 0 13 110 50 779.6 0 50 111 67 779.6 0 67 112 57 779.6 0 57 113 38 779.6 0 38 114 36 779.6 0 36 115 34 779.6 0 34 116 34 779.6 0 34 117 40 779.6 0 40 118 96 779.6 0 96 119 41 779.6 0 41 120 27 779.6 0 27 121 30 779.6 0 30 122 40 779.6 0 40 123 61 779.6 0 61 124 122 779.6 0 122 125 78 779.6 0 78 126 123 779.6 0 123 127 343 779.6 0 343 128 386 779.6 0 386 129 996 779.6 0 996 130 2208 779.6 0 2208 131 131 779.6 0 131 132 76 779.6 0 76 133 44 779.6 0 44 134 177 779.6 0 177 135 49 779.6 0 49 136 56 779.6 0 56 137 44 779.6 0 44 138 54 779.6 0 54 139 145 779.6 0 145 140 35 779.6 0 35 141 31 779.6 0 31 142 29 779.6 0 29 143 233 779.6 0 233 144 66 779.6 0 66 145 79 779.6 0 79 146 56 779.6 0 56 147 54 779.6 0 54 148 45 779.6 0 45 149 18 779.6 0 18 150 22 779.6 0 22 151 30 779.6 0 30 152 20 779.6 0 20 153 37 779.6 0 37 154 35 779.6 0 35 155 42 779.6 0 42 156 194 779.6 0 194 157 71 779.6 0 71 158 73 779.6 0 73 159 52 779.6 0 52 160 32 779.6 0 32 161 31 779.6 0 31 162 44 779.6 0 44 163 48 779.6 0 48 164 57 779.6 0 57 165 66 779.6 0 66 166 129 779.6 0 129 167 129 779.6 0 129 168 169 779.6 0 169 169 36 779.6 0 36 170 20 779.6 0 20 171 28 779.6 0 28 172 25 779.6 0 25 173 41 779.6 0 41 174 54 779.6 0 54 175 23 779.6 0 23 176 30 779.6 0 30 177 35 779.6 0 35 178 70 779.6 0 70 179 102 779.6 0 102 180 81 779.6 0 81 181 42 779.6 0 42 182 64 779.6 0 64 183 66 779.6 0 66 184 91 779.6 0 91 185 53 779.6 0 53 186 31 779.6 0 31 187 26 779.6 0 26 188 26 779.6 0 26 189 44 779.6 0 44 190 107 779.6 0 107 191 155 779.6 0 155 192 122 779.6 0 122 193 58 779.6 0 58 194 39 779.6 0 39 195 96 779.6 0 96 196 272 779.6 0 272 197 831 779.6 0 831 198 750 779.6 0 750 199 439 779.6 0 439 200 46 779.6 0 46 201 21 779.6 0 21 202 73 779.6 0 73 203 174 779.6 0 174 204 104 779.6 0 104 205 42 779.6 0 42 206 41 779.6 0 41 207 34 779.6 0 34 208 35 779.6 0 35 209 57 779.6 0 57 210 106 779.6 0 106 211 197 779.6 0 197 212 206 779.6 0 206 213 134 779.6 0 134 214 73 779.6 0 73 215 71 779.6 0 71 216 92 779.6 0 92 217 143 779.6 0 143 218 90 779.6 0 90 219 167 779.6 0 167 220 187 779.6 0 187 221 108 779.6 0 108 222 189 779.6 0 189 223 299 779.6 0 299 224 131 779.6 0 131 225 88 779.6 0 88 226 67 779.6 0 67 227 45 779.6 0 45 228 31 779.6 0 31 229 34 779.6 0 34 230 21 779.6 0 21 231 25 779.6 0 25 232 34 779.6 0 34 233 74 779.6 0 74 234 102 779.6 0 102 235 103 779.6 0 103 236 50 779.6 0 50 237 40 779.6 0 40 238 112 779.6 0 112 239 155 779.6 0 155 240 229 779.6 0 229 241 132 779.6 0 132 242 231 779.6 0 231 243 129 779.6 0 129 244 138 779.6 0 138 245 81 779.6 0 81 246 92 779.6 0 92 247 79 779.6 0 79 248 33 779.6 0 33 249 80 779.6 0 80 250 101 779.6 0 101 251 496 779.6 0 496 252 224 779.6 0 224 253 91 779.6 0 91 254 62 779.6 0 62 255 74 779.6 0 74 256 191 779.6 0 191 257 22 779.6 0 22 258 19 779.6 0 19 259 35 779.6 0 35 260 34 779.6 0 34 261 45 779.6 0 45 262 144 779.6 0 144 263 249 779.6 0 249 264 378 779.6 0 378 265 190 779.6 0 190 266 143 779.6 0 143 267 94 779.6 0 94 268 82 779.6 0 82 269 60 779.6 0 60 270 54 779.6 0 54 271 76 779.6 0 76 272 239 779.6 0 239 273 246 779.6 0 246 274 255 779.6 0 255 275 38 779.6 0 38 276 58 779.6 0 58 277 94 779.6 0 94 278 128 779.6 0 128 279 68 779.6 0 68 280 35 779.6 0 35 281 28 779.6 0 28 282 31 779.6 0 31 283 70 779.6 0 70 284 56 779.6 0 56 285 62 779.6 0 62 286 54 779.6 0 54 287 79 779.6 0 79 288 42 779.6 0 42 289 57 779.6 0 57 290 78 779.6 0 78 291 123 779.6 0 123 292 75 779.6 0 75 293 53 779.6 0 53 294 41 779.6 0 41 295 28 779.6 0 28 296 59 779.6 0 59 297 190 779.6 0 190 298 81 779.6 0 81 299 218 779.6 0 218 300 477 779.6 0 477 301 727 779.6 0 727 Finished in 1.89 s (47 us/read; 1.28 M reads/minute). === Summary === Total reads processed: 40,352 Reads with adapters: 21,066 (52.2%) Reads that were too short: 12 (0.0%) Reads written (passing filters): 21,054 (52.2%) Total basepairs processed: 9,884,305 bp Total written (filtered): 5,742,062 bp (58.1%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 21066 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 16 1 0.0 3 0 0 0 0 1 17 1 0.0 3 0 0 0 1 18 3 0.0 3 0 0 3 19 308 0.0 3 0 289 13 4 2 20 20598 0.0 4 19902 611 74 9 2 21 54 0.0 4 16 37 1 22 6 0.0 4 0 0 4 0 2 23 23 0.0 4 3 0 1 14 5 25 1 0.0 4 0 0 0 1 32 8 0.0 4 0 0 0 0 8 54 1 0.0 4 0 0 0 0 1 70 1 0.0 4 0 0 0 0 1 115 1 0.0 4 0 0 0 0 1 118 1 0.0 4 0 0 0 0 1 127 46 0.0 4 0 0 0 0 46 130 1 0.0 4 0 0 0 0 1 133 1 0.0 4 0 0 0 0 1 135 1 0.0 4 0 0 0 0 1 137 1 0.0 4 0 0 0 0 1 139 1 0.0 4 0 0 0 0 1 146 1 0.0 4 0 0 0 0 1 149 1 0.0 4 0 0 0 0 1 196 1 0.0 4 0 0 0 0 1 205 1 0.0 4 0 0 0 0 1 223 1 0.0 4 0 0 0 0 1 228 1 0.0 4 0 0 0 0 1 287 1 0.0 4 0 0 0 0 1 288 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 0.86 s (41 us/read; 1.47 M reads/minute). === Summary === Total reads processed: 21,054 Reads with adapters: 3,227 (15.3%) Reads written (passing filters): 21,054 (100.0%) Total basepairs processed: 5,742,062 bp Total written (filtered): 5,704,510 bp (99.3%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 3227 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 2.3% C: 1.7% G: 94.4% T: 1.6% 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 1 329.0 0 1 4 1 82.2 0 1 9 3 0.1 0 0 3 10 79 0.0 1 5 74 11 3125 0.0 1 9 3116 12 4 0.0 1 1 3 13 1 0.0 1 0 1 14 1 0.0 1 0 1 151 3 0.0 1 1 2 152 1 0.0 1 0 1 209 7 0.0 1 4 3 210 1 0.0 1 0 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.