This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TTCGGA -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 92.14 s (30 us/read; 2.02 M reads/minute). === Summary === Total reads processed: 3,094,653 Reads with adapters: 305,715 (9.9%) Reads that were too short: 19,083 (0.6%) Reads written (passing filters): 286,632 (9.3%) Total basepairs processed: 931,490,553 bp Total written (filtered): 61,127,308 bp (6.6%) === Adapter 1 === Sequence: TTCGGA; Type: regular 5'; Length: 6; Trimmed: 305715 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1715 755.5 0 1715 7 367 755.5 0 367 8 898 755.5 0 898 9 17502 755.5 0 17502 10 3914 755.5 0 3914 11 15 755.5 0 15 12 27 755.5 0 27 13 7 755.5 0 7 14 12 755.5 0 12 15 8 755.5 0 8 16 11 755.5 0 11 17 13 755.5 0 13 18 11 755.5 0 11 19 8 755.5 0 8 20 5 755.5 0 5 21 14 755.5 0 14 22 16 755.5 0 16 23 17 755.5 0 17 24 14 755.5 0 14 25 12 755.5 0 12 26 22 755.5 0 22 27 12 755.5 0 12 28 8 755.5 0 8 29 7 755.5 0 7 30 9 755.5 0 9 31 17 755.5 0 17 32 25 755.5 0 25 33 7 755.5 0 7 34 11 755.5 0 11 35 12 755.5 0 12 36 13 755.5 0 13 37 26 755.5 0 26 38 13 755.5 0 13 39 28 755.5 0 28 40 28 755.5 0 28 41 61 755.5 0 61 42 23 755.5 0 23 43 17 755.5 0 17 44 10 755.5 0 10 45 10 755.5 0 10 46 12 755.5 0 12 47 13 755.5 0 13 48 18 755.5 0 18 49 17 755.5 0 17 50 13 755.5 0 13 51 43 755.5 0 43 52 50 755.5 0 50 53 28 755.5 0 28 54 15 755.5 0 15 55 6 755.5 0 6 56 11 755.5 0 11 57 35 755.5 0 35 58 23 755.5 0 23 59 12 755.5 0 12 60 63 755.5 0 63 61 17 755.5 0 17 62 16 755.5 0 16 63 32 755.5 0 32 64 14 755.5 0 14 65 28 755.5 0 28 66 37 755.5 0 37 67 29 755.5 0 29 68 72 755.5 0 72 69 35 755.5 0 35 70 39 755.5 0 39 71 26 755.5 0 26 72 69 755.5 0 69 73 45 755.5 0 45 74 90 755.5 0 90 75 108 755.5 0 108 76 137 755.5 0 137 77 268 755.5 0 268 78 544 755.5 0 544 79 1485 755.5 0 1485 80 328 755.5 0 328 81 397 755.5 0 397 82 893 755.5 0 893 83 492 755.5 0 492 84 466 755.5 0 466 85 809 755.5 0 809 86 1317 755.5 0 1317 87 1045 755.5 0 1045 88 1233 755.5 0 1233 89 1587 755.5 0 1587 90 1613 755.5 0 1613 91 1960 755.5 0 1960 92 15645 755.5 0 15645 93 34478 755.5 0 34478 94 188975 755.5 0 188975 95 1164 755.5 0 1164 96 39 755.5 0 39 97 11 755.5 0 11 98 6 755.5 0 6 99 16 755.5 0 16 100 6 755.5 0 6 101 6 755.5 0 6 102 11 755.5 0 11 103 9 755.5 0 9 104 8 755.5 0 8 105 4 755.5 0 4 106 5 755.5 0 5 107 12 755.5 0 12 108 11 755.5 0 11 109 64 755.5 0 64 110 8 755.5 0 8 111 10 755.5 0 10 112 39 755.5 0 39 113 9 755.5 0 9 114 21 755.5 0 21 115 15 755.5 0 15 116 25 755.5 0 25 117 17 755.5 0 17 118 5 755.5 0 5 119 6 755.5 0 6 120 4 755.5 0 4 121 2 755.5 0 2 122 7 755.5 0 7 123 7 755.5 0 7 124 6 755.5 0 6 125 10 755.5 0 10 126 10 755.5 0 10 127 4 755.5 0 4 128 5 755.5 0 5 129 9 755.5 0 9 130 9 755.5 0 9 131 7 755.5 0 7 132 8 755.5 0 8 133 20 755.5 0 20 134 7 755.5 0 7 135 9 755.5 0 9 136 6 755.5 0 6 137 19 755.5 0 19 138 15 755.5 0 15 139 17 755.5 0 17 140 17 755.5 0 17 141 66 755.5 0 66 142 9 755.5 0 9 143 10 755.5 0 10 144 26 755.5 0 26 145 17 755.5 0 17 146 4 755.5 0 4 147 11 755.5 0 11 148 8 755.5 0 8 149 7 755.5 0 7 150 8 755.5 0 8 151 16 755.5 0 16 152 5 755.5 0 5 153 3 755.5 0 3 154 11 755.5 0 11 155 3 755.5 0 3 156 18 755.5 0 18 157 9 755.5 0 9 158 14 755.5 0 14 159 11 755.5 0 11 160 6 755.5 0 6 161 6 755.5 0 6 162 5 755.5 0 5 163 5 755.5 0 5 164 4 755.5 0 4 165 10 755.5 0 10 166 6 755.5 0 6 167 7 755.5 0 7 168 9 755.5 0 9 169 15 755.5 0 15 170 5 755.5 0 5 171 13 755.5 0 13 172 7 755.5 0 7 173 7 755.5 0 7 174 12 755.5 0 12 175 9 755.5 0 9 176 23 755.5 0 23 177 231 755.5 0 231 178 289 755.5 0 289 179 23 755.5 0 23 180 139 755.5 0 139 181 12 755.5 0 12 182 14 755.5 0 14 183 14 755.5 0 14 184 13 755.5 0 13 185 21 755.5 0 21 186 38 755.5 0 38 187 59 755.5 0 59 188 117 755.5 0 117 189 42 755.5 0 42 190 57 755.5 0 57 191 82 755.5 0 82 192 60 755.5 0 60 193 43 755.5 0 43 194 82 755.5 0 82 195 65 755.5 0 65 196 106 755.5 0 106 197 89 755.5 0 89 198 116 755.5 0 116 199 161 755.5 0 161 200 285 755.5 0 285 201 2711 755.5 0 2711 202 6656 755.5 0 6656 203 6467 755.5 0 6467 204 72 755.5 0 72 205 187 755.5 0 187 206 148 755.5 0 148 207 171 755.5 0 171 208 256 755.5 0 256 209 131 755.5 0 131 210 31 755.5 0 31 211 33 755.5 0 33 212 37 755.5 0 37 213 45 755.5 0 45 214 54 755.5 0 54 215 19 755.5 0 19 216 30 755.5 0 30 217 43 755.5 0 43 218 182 755.5 0 182 219 16 755.5 0 16 220 10 755.5 0 10 221 11 755.5 0 11 222 28 755.5 0 28 223 85 755.5 0 85 224 22 755.5 0 22 225 134 755.5 0 134 226 91 755.5 0 91 227 344 755.5 0 344 228 198 755.5 0 198 229 496 755.5 0 496 230 13 755.5 0 13 231 11 755.5 0 11 232 11 755.5 0 11 233 3 755.5 0 3 234 5 755.5 0 5 235 13 755.5 0 13 236 25 755.5 0 25 237 21 755.5 0 21 238 53 755.5 0 53 239 4 755.5 0 4 240 4 755.5 0 4 241 4 755.5 0 4 242 4 755.5 0 4 243 4 755.5 0 4 244 8 755.5 0 8 245 14 755.5 0 14 246 20 755.5 0 20 247 13 755.5 0 13 248 7 755.5 0 7 249 5 755.5 0 5 250 5 755.5 0 5 251 5 755.5 0 5 252 9 755.5 0 9 253 10 755.5 0 10 254 16 755.5 0 16 255 36 755.5 0 36 256 23 755.5 0 23 257 11 755.5 0 11 258 101 755.5 0 101 259 217 755.5 0 217 260 164 755.5 0 164 261 82 755.5 0 82 262 265 755.5 0 265 263 34 755.5 0 34 264 5 755.5 0 5 265 26 755.5 0 26 266 69 755.5 0 69 267 15 755.5 0 15 268 8 755.5 0 8 269 35 755.5 0 35 270 160 755.5 0 160 271 61 755.5 0 61 272 70 755.5 0 70 273 17 755.5 0 17 274 28 755.5 0 28 275 4 755.5 0 4 276 5 755.5 0 5 277 37 755.5 0 37 278 39 755.5 0 39 279 149 755.5 0 149 280 49 755.5 0 49 281 30 755.5 0 30 282 26 755.5 0 26 283 12 755.5 0 12 284 144 755.5 0 144 285 221 755.5 0 221 286 203 755.5 0 203 287 127 755.5 0 127 288 4 755.5 0 4 289 4 755.5 0 4 290 5 755.5 0 5 291 13 755.5 0 13 292 5 755.5 0 5 293 31 755.5 0 31 294 34 755.5 0 34 295 109 755.5 0 109 296 22 755.5 0 22 297 16 755.5 0 16 298 12 755.5 0 12 299 58 755.5 0 58 300 5 755.5 0 5 301 8 755.5 0 8 Finished in 13.60 s (47 us/read; 1.26 M reads/minute). === Summary === Total reads processed: 286,632 Reads with adapters: 18,109 (6.3%) Reads that were too short: 43 (0.0%) Reads written (passing filters): 18,066 (6.3%) Total basepairs processed: 61,127,308 bp Total written (filtered): 4,905,758 bp (8.0%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 18109 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 21 0.0 3 0 0 14 5 2 19 403 0.0 3 0 390 10 1 2 20 17493 0.0 4 16922 476 64 21 10 21 45 0.0 4 9 31 4 0 1 22 7 0.0 4 1 0 5 0 1 23 19 0.0 4 1 1 0 14 3 25 1 0.0 4 0 0 1 32 1 0.0 4 0 0 0 0 1 66 2 0.0 4 0 0 0 0 2 67 21 0.0 4 0 0 0 0 21 68 49 0.0 4 0 0 0 1 48 94 2 0.0 4 0 0 0 0 2 97 1 0.0 4 0 0 0 0 1 122 1 0.0 4 0 0 0 0 1 123 1 0.0 4 0 0 0 0 1 124 1 0.0 4 0 0 0 0 1 127 1 0.0 4 0 0 0 0 1 128 1 0.0 4 0 0 0 0 1 137 3 0.0 4 0 0 0 0 3 139 1 0.0 4 0 0 0 0 1 140 1 0.0 4 0 0 0 0 1 148 5 0.0 4 0 0 0 0 5 149 2 0.0 4 0 0 0 0 2 150 1 0.0 4 0 0 0 0 1 151 3 0.0 4 0 0 0 0 3 165 2 0.0 4 0 0 0 0 2 169 1 0.0 4 0 0 0 0 1 170 1 0.0 4 0 0 0 0 1 171 2 0.0 4 0 0 0 0 2 172 4 0.0 4 0 0 0 0 4 173 5 0.0 4 0 0 0 0 5 175 1 0.0 4 0 0 0 0 1 197 1 0.0 4 0 0 0 0 1 198 1 0.0 4 0 0 0 0 1 204 1 0.0 4 0 0 0 0 1 205 2 0.0 4 0 0 0 0 2 207 1 0.0 4 0 0 0 0 1 211 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 0.72 s (40 us/read; 1.51 M reads/minute). === Summary === Total reads processed: 18,066 Reads with adapters: 1,491 (8.3%) Reads written (passing filters): 18,066 (100.0%) Total basepairs processed: 4,905,758 bp Total written (filtered): 4,888,975 bp (99.7%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 1491 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 4.2% C: 1.9% G: 91.9% T: 1.9% 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 4 1 70.6 0 1 8 1 0.3 0 1 9 244 0.1 0 15 229 10 319 0.0 1 10 309 11 915 0.0 1 3 912 12 2 0.0 1 0 2 13 3 0.0 1 0 3 58 1 0.0 1 0 1 208 2 0.0 1 1 1 257 1 0.0 1 1 263 2 0.0 1 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.