This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TTGAGT -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 96.80 s (30 us/read; 1.98 M reads/minute). === Summary === Total reads processed: 3,193,041 Reads with adapters: 218,041 (6.8%) Reads that were too short: 56,210 (1.8%) Reads written (passing filters): 161,831 (5.1%) Total basepairs processed: 961,105,341 bp Total written (filtered): 46,168,865 bp (4.8%) === Adapter 1 === Sequence: TTGAGT; Type: regular 5'; Length: 6; Trimmed: 218041 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 557 779.6 0 557 7 1141 779.6 0 1141 8 7033 779.6 0 7033 9 143547 779.6 0 143547 10 210 779.6 0 210 11 17 779.6 0 17 12 30 779.6 0 30 13 24 779.6 0 24 14 25 779.6 0 25 15 40 779.6 0 40 16 43 779.6 0 43 17 29 779.6 0 29 18 19 779.6 0 19 19 17 779.6 0 17 20 31 779.6 0 31 21 25 779.6 0 25 22 22 779.6 0 22 23 16 779.6 0 16 24 33 779.6 0 33 25 31 779.6 0 31 26 27 779.6 0 27 27 18 779.6 0 18 28 18 779.6 0 18 29 19 779.6 0 19 30 21 779.6 0 21 31 22 779.6 0 22 32 21 779.6 0 21 33 22 779.6 0 22 34 21 779.6 0 21 35 26 779.6 0 26 36 24 779.6 0 24 37 21 779.6 0 21 38 18 779.6 0 18 39 24 779.6 0 24 40 23 779.6 0 23 41 27 779.6 0 27 42 21 779.6 0 21 43 22 779.6 0 22 44 30 779.6 0 30 45 93 779.6 0 93 46 26 779.6 0 26 47 25 779.6 0 25 48 33 779.6 0 33 49 36 779.6 0 36 50 26 779.6 0 26 51 30 779.6 0 30 52 17 779.6 0 17 53 32 779.6 0 32 54 19 779.6 0 19 55 33 779.6 0 33 56 23 779.6 0 23 57 15 779.6 0 15 58 32 779.6 0 32 59 154 779.6 0 154 60 38 779.6 0 38 61 65 779.6 0 65 62 22 779.6 0 22 63 30 779.6 0 30 64 22 779.6 0 22 65 22 779.6 0 22 66 22 779.6 0 22 67 31 779.6 0 31 68 23 779.6 0 23 69 24 779.6 0 24 70 26 779.6 0 26 71 42 779.6 0 42 72 159 779.6 0 159 73 31 779.6 0 31 74 28 779.6 0 28 75 28 779.6 0 28 76 39 779.6 0 39 77 73 779.6 0 73 78 226 779.6 0 226 79 19 779.6 0 19 80 29 779.6 0 29 81 28 779.6 0 28 82 27 779.6 0 27 83 28 779.6 0 28 84 16 779.6 0 16 85 34 779.6 0 34 86 23 779.6 0 23 87 17 779.6 0 17 88 17 779.6 0 17 89 28 779.6 0 28 90 18 779.6 0 18 91 25 779.6 0 25 92 24 779.6 0 24 93 35 779.6 0 35 94 33 779.6 0 33 95 34 779.6 0 34 96 36 779.6 0 36 97 29 779.6 0 29 98 64 779.6 0 64 99 29 779.6 0 29 100 26 779.6 0 26 101 22 779.6 0 22 102 20 779.6 0 20 103 34 779.6 0 34 104 28 779.6 0 28 105 28 779.6 0 28 106 31 779.6 0 31 107 17 779.6 0 17 108 25 779.6 0 25 109 24 779.6 0 24 110 23 779.6 0 23 111 30 779.6 0 30 112 54 779.6 0 54 113 106 779.6 0 106 114 76 779.6 0 76 115 29 779.6 0 29 116 69 779.6 0 69 117 30 779.6 0 30 118 85 779.6 0 85 119 29 779.6 0 29 120 29 779.6 0 29 121 31 779.6 0 31 122 21 779.6 0 21 123 19 779.6 0 19 124 21 779.6 0 21 125 21 779.6 0 21 126 22 779.6 0 22 127 29 779.6 0 29 128 35 779.6 0 35 129 46 779.6 0 46 130 42 779.6 0 42 131 90 779.6 0 90 132 43 779.6 0 43 133 64 779.6 0 64 134 125 779.6 0 125 135 33 779.6 0 33 136 37 779.6 0 37 137 34 779.6 0 34 138 85 779.6 0 85 139 43 779.6 0 43 140 67 779.6 0 67 141 29 779.6 0 29 142 136 779.6 0 136 143 123 779.6 0 123 144 172 779.6 0 172 145 1017 779.6 0 1017 146 86 779.6 0 86 147 28 779.6 0 28 148 26 779.6 0 26 149 17 779.6 0 17 150 28 779.6 0 28 151 38 779.6 0 38 152 33 779.6 0 33 153 22 779.6 0 22 154 33 779.6 0 33 155 30 779.6 0 30 156 52 779.6 0 52 157 29 779.6 0 29 158 45 779.6 0 45 159 49 779.6 0 49 160 35 779.6 0 35 161 26 779.6 0 26 162 24 779.6 0 24 163 13 779.6 0 13 164 28 779.6 0 28 165 20 779.6 0 20 166 25 779.6 0 25 167 17 779.6 0 17 168 30 779.6 0 30 169 28 779.6 0 28 170 26 779.6 0 26 171 36 779.6 0 36 172 38 779.6 0 38 173 26 779.6 0 26 174 25 779.6 0 25 175 18 779.6 0 18 176 42 779.6 0 42 177 30 779.6 0 30 178 26 779.6 0 26 179 24 779.6 0 24 180 23 779.6 0 23 181 25 779.6 0 25 182 37 779.6 0 37 183 34 779.6 0 34 184 24 779.6 0 24 185 25 779.6 0 25 186 26 779.6 0 26 187 32 779.6 0 32 188 33 779.6 0 33 189 39 779.6 0 39 190 32 779.6 0 32 191 124 779.6 0 124 192 525 779.6 0 525 193 78 779.6 0 78 194 113 779.6 0 113 195 38 779.6 0 38 196 63 779.6 0 63 197 254 779.6 0 254 198 341 779.6 0 341 199 199 779.6 0 199 200 27 779.6 0 27 201 33 779.6 0 33 202 22 779.6 0 22 203 20 779.6 0 20 204 49 779.6 0 49 205 44 779.6 0 44 206 63 779.6 0 63 207 35 779.6 0 35 208 27 779.6 0 27 209 14 779.6 0 14 210 37 779.6 0 37 211 38 779.6 0 38 212 37 779.6 0 37 213 45 779.6 0 45 214 54 779.6 0 54 215 70 779.6 0 70 216 28 779.6 0 28 217 27 779.6 0 27 218 34 779.6 0 34 219 26 779.6 0 26 220 38 779.6 0 38 221 54 779.6 0 54 222 42 779.6 0 42 223 194 779.6 0 194 224 209 779.6 0 209 225 454 779.6 0 454 226 37 779.6 0 37 227 33 779.6 0 33 228 28 779.6 0 28 229 33 779.6 0 33 230 35 779.6 0 35 231 102 779.6 0 102 232 293 779.6 0 293 233 161 779.6 0 161 234 18 779.6 0 18 235 14 779.6 0 14 236 29 779.6 0 29 237 43 779.6 0 43 238 64 779.6 0 64 239 137 779.6 0 137 240 41 779.6 0 41 241 44 779.6 0 44 242 20 779.6 0 20 243 18 779.6 0 18 244 16 779.6 0 16 245 34 779.6 0 34 246 47 779.6 0 47 247 35 779.6 0 35 248 33 779.6 0 33 249 40 779.6 0 40 250 11 779.6 0 11 251 14 779.6 0 14 252 23 779.6 0 23 253 29 779.6 0 29 254 40 779.6 0 40 255 50 779.6 0 50 256 57 779.6 0 57 257 53 779.6 0 53 258 51 779.6 0 51 259 32 779.6 0 32 260 36 779.6 0 36 261 73 779.6 0 73 262 26 779.6 0 26 263 36 779.6 0 36 264 50 779.6 0 50 265 78 779.6 0 78 266 155 779.6 0 155 267 160 779.6 0 160 268 36 779.6 0 36 269 27 779.6 0 27 270 28 779.6 0 28 271 29 779.6 0 29 272 39 779.6 0 39 273 56 779.6 0 56 274 74 779.6 0 74 275 60 779.6 0 60 276 48 779.6 0 48 277 40 779.6 0 40 278 42 779.6 0 42 279 45 779.6 0 45 280 101 779.6 0 101 281 141 779.6 0 141 282 168 779.6 0 168 283 168 779.6 0 168 284 239 779.6 0 239 285 405 779.6 0 405 286 377 779.6 0 377 287 225 779.6 0 225 288 312 779.6 0 312 289 410 779.6 0 410 290 386 779.6 0 386 291 507 779.6 0 507 292 528 779.6 0 528 293 708 779.6 0 708 294 457 779.6 0 457 295 637 779.6 0 637 296 653 779.6 0 653 297 1573 779.6 0 1573 298 4442 779.6 0 4442 299 10154 779.6 0 10154 300 14581 779.6 0 14581 301 14524 779.6 0 14524 Finished in 7.55 s (47 us/read; 1.29 M reads/minute). === Summary === Total reads processed: 161,831 Reads with adapters: 152,128 (94.0%) Reads that were too short: 4 (0.0%) Reads written (passing filters): 152,124 (94.0%) Total basepairs processed: 46,168,865 bp Total written (filtered): 41,388,993 bp (89.6%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 152128 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 1 18 83 0.0 3 0 0 80 2 1 19 2184 0.0 3 0 2124 45 8 7 20 149347 0.0 4 147168 2088 75 13 3 21 401 0.0 4 70 327 4 22 27 0.0 4 2 0 22 1 2 23 65 0.0 4 2 0 1 60 2 24 8 0.0 4 1 0 0 3 4 25 1 0.0 4 1 26 1 0.0 4 0 0 0 1 31 2 0.0 4 2 32 1 0.0 4 1 42 1 0.0 4 0 0 0 0 1 94 1 0.0 4 0 0 0 0 1 127 1 0.0 4 0 0 0 1 151 1 0.0 4 0 0 0 0 1 186 2 0.0 4 1 1 187 1 0.0 4 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 5.96 s (39 us/read; 1.53 M reads/minute). === Summary === Total reads processed: 152,124 Reads with adapters: 2,188 (1.4%) Reads written (passing filters): 152,124 (100.0%) Total basepairs processed: 41,388,993 bp Total written (filtered): 41,346,079 bp (99.9%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 2188 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 5.2% C: 2.1% G: 91.0% T: 1.7% 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 24 2376.9 0 24 4 17 594.2 0 17 5 2 148.6 0 2 6 8 37.1 0 8 9 110 0.6 0 0 110 10 1194 0.1 1 33 1161 11 741 0.0 1 1 740 12 1 0.0 1 0 1 13 1 0.0 1 0 1 150 3 0.0 1 0 3 177 1 0.0 1 0 1 191 1 0.0 1 0 1 208 18 0.0 1 4 14 210 2 0.0 1 0 2 211 2 0.0 1 0 2 256 1 0.0 1 1 257 58 0.0 1 56 2 258 1 0.0 1 1 262 3 0.0 1 3 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.