This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TGGAAC -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 161.82 s (47 us/read; 1.29 M reads/minute). === Summary === Total reads processed: 3,470,393 Reads with adapters: 83,833 (2.4%) Reads that were too short: 46,721 (1.3%) Reads written (passing filters): 37,112 (1.1%) Total basepairs processed: 1,044,588,293 bp Total written (filtered): 9,512,608 bp (0.9%) === Adapter 1 === Sequence: TGGAAC; Type: regular 5'; Length: 6; Trimmed: 83833 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 215 847.3 0 215 7 363 847.3 0 363 8 11351 847.3 0 11351 9 12334 847.3 0 12334 10 67 847.3 0 67 11 42 847.3 0 42 12 55 847.3 0 55 13 92 847.3 0 92 14 40 847.3 0 40 15 40 847.3 0 40 16 46 847.3 0 46 17 56 847.3 0 56 18 31 847.3 0 31 19 43 847.3 0 43 20 51 847.3 0 51 21 51 847.3 0 51 22 37 847.3 0 37 23 42 847.3 0 42 24 60 847.3 0 60 25 56 847.3 0 56 26 31 847.3 0 31 27 36 847.3 0 36 28 55 847.3 0 55 29 49 847.3 0 49 30 41 847.3 0 41 31 49 847.3 0 49 32 49 847.3 0 49 33 37 847.3 0 37 34 46 847.3 0 46 35 47 847.3 0 47 36 56 847.3 0 56 37 88 847.3 0 88 38 48 847.3 0 48 39 35 847.3 0 35 40 233 847.3 0 233 41 60 847.3 0 60 42 65 847.3 0 65 43 41 847.3 0 41 44 56 847.3 0 56 45 58 847.3 0 58 46 55 847.3 0 55 47 40 847.3 0 40 48 39 847.3 0 39 49 37 847.3 0 37 50 52 847.3 0 52 51 64 847.3 0 64 52 53 847.3 0 53 53 62 847.3 0 62 54 64 847.3 0 64 55 59 847.3 0 59 56 45 847.3 0 45 57 43 847.3 0 43 58 46 847.3 0 46 59 35 847.3 0 35 60 45 847.3 0 45 61 55 847.3 0 55 62 56 847.3 0 56 63 55 847.3 0 55 64 46 847.3 0 46 65 78 847.3 0 78 66 70 847.3 0 70 67 46 847.3 0 46 68 79 847.3 0 79 69 52 847.3 0 52 70 42 847.3 0 42 71 41 847.3 0 41 72 59 847.3 0 59 73 47 847.3 0 47 74 66 847.3 0 66 75 65 847.3 0 65 76 49 847.3 0 49 77 51 847.3 0 51 78 54 847.3 0 54 79 61 847.3 0 61 80 50 847.3 0 50 81 73 847.3 0 73 82 62 847.3 0 62 83 50 847.3 0 50 84 38 847.3 0 38 85 54 847.3 0 54 86 44 847.3 0 44 87 43 847.3 0 43 88 36 847.3 0 36 89 41 847.3 0 41 90 69 847.3 0 69 91 47 847.3 0 47 92 78 847.3 0 78 93 68 847.3 0 68 94 85 847.3 0 85 95 69 847.3 0 69 96 60 847.3 0 60 97 60 847.3 0 60 98 68 847.3 0 68 99 73 847.3 0 73 100 85 847.3 0 85 101 92 847.3 0 92 102 57 847.3 0 57 103 53 847.3 0 53 104 75 847.3 0 75 105 69 847.3 0 69 106 46 847.3 0 46 107 52 847.3 0 52 108 38 847.3 0 38 109 62 847.3 0 62 110 72 847.3 0 72 111 46 847.3 0 46 112 34 847.3 0 34 113 43 847.3 0 43 114 58 847.3 0 58 115 56 847.3 0 56 116 55 847.3 0 55 117 169 847.3 0 169 118 72 847.3 0 72 119 58 847.3 0 58 120 60 847.3 0 60 121 62 847.3 0 62 122 54 847.3 0 54 123 41 847.3 0 41 124 53 847.3 0 53 125 65 847.3 0 65 126 47 847.3 0 47 127 72 847.3 0 72 128 48 847.3 0 48 129 43 847.3 0 43 130 60 847.3 0 60 131 71 847.3 0 71 132 58 847.3 0 58 133 61 847.3 0 61 134 60 847.3 0 60 135 227 847.3 0 227 136 74 847.3 0 74 137 222 847.3 0 222 138 405 847.3 0 405 139 342 847.3 0 342 140 556 847.3 0 556 141 69 847.3 0 69 142 42 847.3 0 42 143 66 847.3 0 66 144 63 847.3 0 63 145 66 847.3 0 66 146 58 847.3 0 58 147 40 847.3 0 40 148 68 847.3 0 68 149 48 847.3 0 48 150 58 847.3 0 58 151 54 847.3 0 54 152 66 847.3 0 66 153 59 847.3 0 59 154 72 847.3 0 72 155 45 847.3 0 45 156 63 847.3 0 63 157 63 847.3 0 63 158 51 847.3 0 51 159 63 847.3 0 63 160 60 847.3 0 60 161 64 847.3 0 64 162 56 847.3 0 56 163 52 847.3 0 52 164 77 847.3 0 77 165 52 847.3 0 52 166 53 847.3 0 53 167 52 847.3 0 52 168 67 847.3 0 67 169 53 847.3 0 53 170 52 847.3 0 52 171 90 847.3 0 90 172 60 847.3 0 60 173 86 847.3 0 86 174 39 847.3 0 39 175 53 847.3 0 53 176 46 847.3 0 46 177 70 847.3 0 70 178 98 847.3 0 98 179 100 847.3 0 100 180 68 847.3 0 68 181 57 847.3 0 57 182 55 847.3 0 55 183 61 847.3 0 61 184 71 847.3 0 71 185 61 847.3 0 61 186 127 847.3 0 127 187 106 847.3 0 106 188 86 847.3 0 86 189 72 847.3 0 72 190 50 847.3 0 50 191 43 847.3 0 43 192 51 847.3 0 51 193 58 847.3 0 58 194 53 847.3 0 53 195 70 847.3 0 70 196 60 847.3 0 60 197 67 847.3 0 67 198 68 847.3 0 68 199 80 847.3 0 80 200 76 847.3 0 76 201 74 847.3 0 74 202 61 847.3 0 61 203 75 847.3 0 75 204 65 847.3 0 65 205 47 847.3 0 47 206 66 847.3 0 66 207 61 847.3 0 61 208 93 847.3 0 93 209 64 847.3 0 64 210 83 847.3 0 83 211 70 847.3 0 70 212 64 847.3 0 64 213 66 847.3 0 66 214 95 847.3 0 95 215 97 847.3 0 97 216 86 847.3 0 86 217 83 847.3 0 83 218 77 847.3 0 77 219 66 847.3 0 66 220 55 847.3 0 55 221 65 847.3 0 65 222 49 847.3 0 49 223 56 847.3 0 56 224 64 847.3 0 64 225 58 847.3 0 58 226 63 847.3 0 63 227 72 847.3 0 72 228 80 847.3 0 80 229 54 847.3 0 54 230 64 847.3 0 64 231 63 847.3 0 63 232 50 847.3 0 50 233 68 847.3 0 68 234 67 847.3 0 67 235 73 847.3 0 73 236 75 847.3 0 75 237 75 847.3 0 75 238 204 847.3 0 204 239 152 847.3 0 152 240 82 847.3 0 82 241 66 847.3 0 66 242 81 847.3 0 81 243 69 847.3 0 69 244 78 847.3 0 78 245 59 847.3 0 59 246 58 847.3 0 58 247 63 847.3 0 63 248 84 847.3 0 84 249 55 847.3 0 55 250 63 847.3 0 63 251 82 847.3 0 82 252 58 847.3 0 58 253 56 847.3 0 56 254 45 847.3 0 45 255 49 847.3 0 49 256 77 847.3 0 77 257 120 847.3 0 120 258 127 847.3 0 127 259 115 847.3 0 115 260 160 847.3 0 160 261 89 847.3 0 89 262 127 847.3 0 127 263 168 847.3 0 168 264 90 847.3 0 90 265 117 847.3 0 117 266 123 847.3 0 123 267 128 847.3 0 128 268 129 847.3 0 129 269 127 847.3 0 127 270 157 847.3 0 157 271 219 847.3 0 219 272 388 847.3 0 388 273 6396 847.3 0 6396 274 5012 847.3 0 5012 275 2473 847.3 0 2473 276 244 847.3 0 244 277 136 847.3 0 136 278 104 847.3 0 104 279 158 847.3 0 158 280 155 847.3 0 155 281 107 847.3 0 107 282 100 847.3 0 100 283 278 847.3 0 278 284 316 847.3 0 316 285 389 847.3 0 389 286 588 847.3 0 588 287 572 847.3 0 572 288 333 847.3 0 333 289 110 847.3 0 110 290 176 847.3 0 176 291 152 847.3 0 152 292 295 847.3 0 295 293 1303 847.3 0 1303 294 1508 847.3 0 1508 295 1655 847.3 0 1655 296 307 847.3 0 307 297 583 847.3 0 583 298 1833 847.3 0 1833 299 3999 847.3 0 3999 300 5283 847.3 0 5283 301 5821 847.3 0 5821 Finished in 2.80 s (75 us/read; 0.80 M reads/minute). === Summary === Total reads processed: 37,112 Reads with adapters: 12,847 (34.6%) Reads that were too short: 7 (0.0%) Reads written (passing filters): 12,840 (34.6%) Total basepairs processed: 9,512,608 bp Total written (filtered): 3,490,926 bp (36.7%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 12847 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 18 10 0.0 3 0 0 9 1 19 210 0.0 3 0 205 4 0 1 20 12545 0.0 4 12353 187 4 0 1 21 33 0.0 4 13 20 22 9 0.0 4 6 1 2 23 9 0.0 4 1 0 1 6 1 24 1 0.0 4 0 0 0 1 40 1 0.0 4 0 0 0 0 1 72 1 0.0 4 0 0 0 0 1 86 1 0.0 4 1 127 20 0.0 4 0 0 0 0 20 149 1 0.0 4 0 0 0 0 1 164 1 0.0 4 1 222 1 0.0 4 0 0 0 0 1 228 1 0.0 4 0 0 0 0 1 235 1 0.0 4 0 0 0 0 1 248 1 0.0 4 0 0 0 0 1 250 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 (58 us/read; 1.04 M reads/minute). === Summary === Total reads processed: 12,840 Reads with adapters: 1,651 (12.9%) Reads written (passing filters): 12,840 (100.0%) Total basepairs processed: 3,490,926 bp Total written (filtered): 3,474,343 bp (99.5%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 1651 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 4.1% C: 2.2% G: 92.4% T: 1.3% 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 2 200.6 0 2 4 2 50.2 0 2 5 3 12.5 0 3 9 809 0.0 0 18 791 10 624 0.0 1 19 605 11 153 0.0 1 2 151 13 2 0.0 1 0 2 22 52 0.0 1 45 7 23 3 0.0 1 3 111 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.