This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g GTCCGG -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 63.58 s (26 us/read; 2.30 M reads/minute). === Summary === Total reads processed: 2,442,494 Reads with adapters: 479,659 (19.6%) Reads that were too short: 387,359 (15.9%) Reads written (passing filters): 92,300 (3.8%) Total basepairs processed: 735,190,694 bp Total written (filtered): 15,640,590 bp (2.1%) === Adapter 1 === Sequence: GTCCGG; Type: regular 5'; Length: 6; Trimmed: 479659 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1072 596.3 0 1072 7 8250 596.3 0 8250 8 349 596.3 0 349 9 10430 596.3 0 10430 10 210 596.3 0 210 11 2388 596.3 0 2388 12 29 596.3 0 29 13 25 596.3 0 25 14 35 596.3 0 35 15 20 596.3 0 20 16 28 596.3 0 28 17 26 596.3 0 26 18 37 596.3 0 37 19 30 596.3 0 30 20 18 596.3 0 18 21 27 596.3 0 27 22 22 596.3 0 22 23 23 596.3 0 23 24 24 596.3 0 24 25 21 596.3 0 21 26 12 596.3 0 12 27 15 596.3 0 15 28 26 596.3 0 26 29 31 596.3 0 31 30 15 596.3 0 15 31 158 596.3 0 158 32 57 596.3 0 57 33 29 596.3 0 29 34 56 596.3 0 56 35 70 596.3 0 70 36 34 596.3 0 34 37 21 596.3 0 21 38 36 596.3 0 36 39 34 596.3 0 34 40 23 596.3 0 23 41 43 596.3 0 43 42 38 596.3 0 38 43 29 596.3 0 29 44 21 596.3 0 21 45 27 596.3 0 27 46 15 596.3 0 15 47 28 596.3 0 28 48 33 596.3 0 33 49 25 596.3 0 25 50 27 596.3 0 27 51 21 596.3 0 21 52 25 596.3 0 25 53 20 596.3 0 20 54 29 596.3 0 29 55 19 596.3 0 19 56 34 596.3 0 34 57 52 596.3 0 52 58 41 596.3 0 41 59 55 596.3 0 55 60 41 596.3 0 41 61 38 596.3 0 38 62 18 596.3 0 18 63 32 596.3 0 32 64 27 596.3 0 27 65 126 596.3 0 126 66 55 596.3 0 55 67 109 596.3 0 109 68 20 596.3 0 20 69 36 596.3 0 36 70 35 596.3 0 35 71 93 596.3 0 93 72 42 596.3 0 42 73 27 596.3 0 27 74 40 596.3 0 40 75 134 596.3 0 134 76 174 596.3 0 174 77 233 596.3 0 233 78 43 596.3 0 43 79 34 596.3 0 34 80 15 596.3 0 15 81 29 596.3 0 29 82 27 596.3 0 27 83 33 596.3 0 33 84 17 596.3 0 17 85 28 596.3 0 28 86 23 596.3 0 23 87 30 596.3 0 30 88 38 596.3 0 38 89 59 596.3 0 59 90 44 596.3 0 44 91 67 596.3 0 67 92 63 596.3 0 63 93 87 596.3 0 87 94 31 596.3 0 31 95 46 596.3 0 46 96 40 596.3 0 40 97 31 596.3 0 31 98 40 596.3 0 40 99 40 596.3 0 40 100 96 596.3 0 96 101 31 596.3 0 31 102 34 596.3 0 34 103 54 596.3 0 54 104 36 596.3 0 36 105 41 596.3 0 41 106 56 596.3 0 56 107 58 596.3 0 58 108 53 596.3 0 53 109 49 596.3 0 49 110 59 596.3 0 59 111 96 596.3 0 96 112 183 596.3 0 183 113 1686 596.3 0 1686 114 2858 596.3 0 2858 115 1883 596.3 0 1883 116 103 596.3 0 103 117 40 596.3 0 40 118 46 596.3 0 46 119 29 596.3 0 29 120 32 596.3 0 32 121 60 596.3 0 60 122 75 596.3 0 75 123 90 596.3 0 90 124 73 596.3 0 73 125 58 596.3 0 58 126 44 596.3 0 44 127 72 596.3 0 72 128 561 596.3 0 561 129 126 596.3 0 126 130 385 596.3 0 385 131 49 596.3 0 49 132 48 596.3 0 48 133 57 596.3 0 57 134 101 596.3 0 101 135 59 596.3 0 59 136 59 596.3 0 59 137 95 596.3 0 95 138 65 596.3 0 65 139 66 596.3 0 66 140 82 596.3 0 82 141 74 596.3 0 74 142 102 596.3 0 102 143 317 596.3 0 317 144 425 596.3 0 425 145 175 596.3 0 175 146 170 596.3 0 170 147 2183 596.3 0 2183 148 1988 596.3 0 1988 149 3091 596.3 0 3091 150 190 596.3 0 190 151 63 596.3 0 63 152 47 596.3 0 47 153 56 596.3 0 56 154 61 596.3 0 61 155 85 596.3 0 85 156 54 596.3 0 54 157 53 596.3 0 53 158 87 596.3 0 87 159 52 596.3 0 52 160 59 596.3 0 59 161 52 596.3 0 52 162 76 596.3 0 76 163 54 596.3 0 54 164 65 596.3 0 65 165 58 596.3 0 58 166 46 596.3 0 46 167 54 596.3 0 54 168 110 596.3 0 110 169 155 596.3 0 155 170 433 596.3 0 433 171 59 596.3 0 59 172 66 596.3 0 66 173 85 596.3 0 85 174 295 596.3 0 295 175 67 596.3 0 67 176 103 596.3 0 103 177 85 596.3 0 85 178 132 596.3 0 132 179 150 596.3 0 150 180 154 596.3 0 154 181 254 596.3 0 254 182 191 596.3 0 191 183 151 596.3 0 151 184 122 596.3 0 122 185 197 596.3 0 197 186 236 596.3 0 236 187 387 596.3 0 387 188 316 596.3 0 316 189 1191 596.3 0 1191 190 1661 596.3 0 1661 191 2296 596.3 0 2296 192 1159 596.3 0 1159 193 813 596.3 0 813 194 623 596.3 0 623 195 1022 596.3 0 1022 196 813 596.3 0 813 197 742 596.3 0 742 198 1008 596.3 0 1008 199 2488 596.3 0 2488 200 10620 596.3 0 10620 201 18223 596.3 0 18223 202 16510 596.3 0 16510 203 2142 596.3 0 2142 204 2126 596.3 0 2126 205 18112 596.3 0 18112 206 39119 596.3 0 39119 207 51113 596.3 0 51113 208 26505 596.3 0 26505 209 8539 596.3 0 8539 210 3151 596.3 0 3151 211 2589 596.3 0 2589 212 1848 596.3 0 1848 213 1398 596.3 0 1398 214 654 596.3 0 654 215 1329 596.3 0 1329 216 1890 596.3 0 1890 217 932 596.3 0 932 218 1638 596.3 0 1638 219 3127 596.3 0 3127 220 2575 596.3 0 2575 221 3473 596.3 0 3473 222 3303 596.3 0 3303 223 1682 596.3 0 1682 224 2282 596.3 0 2282 225 12886 596.3 0 12886 226 39612 596.3 0 39612 227 30667 596.3 0 30667 228 14232 596.3 0 14232 229 126 596.3 0 126 230 50 596.3 0 50 231 58 596.3 0 58 232 44 596.3 0 44 233 28 596.3 0 28 234 67 596.3 0 67 235 81 596.3 0 81 236 135 596.3 0 135 237 103 596.3 0 103 238 156 596.3 0 156 239 79 596.3 0 79 240 83 596.3 0 83 241 98 596.3 0 98 242 81 596.3 0 81 243 232 596.3 0 232 244 1030 596.3 0 1030 245 1355 596.3 0 1355 246 1327 596.3 0 1327 247 312 596.3 0 312 248 395 596.3 0 395 249 896 596.3 0 896 250 592 596.3 0 592 251 705 596.3 0 705 252 1580 596.3 0 1580 253 419 596.3 0 419 254 632 596.3 0 632 255 1599 596.3 0 1599 256 630 596.3 0 630 257 556 596.3 0 556 258 575 596.3 0 575 259 1205 596.3 0 1205 260 1328 596.3 0 1328 261 1640 596.3 0 1640 262 15679 596.3 0 15679 263 28042 596.3 0 28042 264 22290 596.3 0 22290 265 630 596.3 0 630 266 239 596.3 0 239 267 58 596.3 0 58 268 49 596.3 0 49 269 151 596.3 0 151 270 321 596.3 0 321 271 501 596.3 0 501 272 159 596.3 0 159 273 30 596.3 0 30 274 73 596.3 0 73 275 132 596.3 0 132 276 122 596.3 0 122 277 102 596.3 0 102 278 100 596.3 0 100 279 73 596.3 0 73 280 62 596.3 0 62 281 55 596.3 0 55 282 132 596.3 0 132 283 282 596.3 0 282 284 284 596.3 0 284 285 133 596.3 0 133 286 106 596.3 0 106 287 113 596.3 0 113 288 82 596.3 0 82 289 97 596.3 0 97 290 66 596.3 0 66 291 83 596.3 0 83 292 675 596.3 0 675 293 1319 596.3 0 1319 294 1340 596.3 0 1340 295 833 596.3 0 833 296 291 596.3 0 291 297 324 596.3 0 324 298 283 596.3 0 283 299 152 596.3 0 152 300 104 596.3 0 104 301 161 596.3 0 161 Finished in 3.62 s (39 us/read; 1.53 M reads/minute). === Summary === Total reads processed: 92,300 Reads with adapters: 9,044 (9.8%) Reads that were too short: 48 (0.1%) Reads written (passing filters): 8,996 (9.7%) Total basepairs processed: 15,640,590 bp Total written (filtered): 2,465,167 bp (15.8%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 9044 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 6 0.0 3 0 0 4 2 19 136 0.0 3 0 117 15 3 1 20 8800 0.0 4 8228 466 78 19 9 21 22 0.0 4 5 16 0 0 1 22 4 0.0 4 2 1 0 0 1 23 19 0.0 4 0 1 0 11 7 24 3 0.0 4 0 0 0 0 3 25 3 0.0 4 1 0 0 1 1 35 1 0.0 4 0 0 0 0 1 36 3 0.0 4 0 0 0 0 3 37 1 0.0 4 1 39 1 0.0 4 0 0 0 0 1 46 1 0.0 4 0 0 0 0 1 59 1 0.0 4 0 0 0 0 1 64 2 0.0 4 0 0 0 0 2 66 4 0.0 4 0 0 0 0 4 68 2 0.0 4 0 0 0 0 2 77 1 0.0 4 0 0 0 0 1 88 1 0.0 4 0 0 0 0 1 91 1 0.0 4 0 0 0 0 1 92 3 0.0 4 0 0 0 0 3 96 1 0.0 4 0 0 0 0 1 101 1 0.0 4 0 0 0 0 1 103 1 0.0 4 0 0 0 0 1 104 2 0.0 4 0 0 0 0 2 105 1 0.0 4 0 0 0 0 1 106 2 0.0 4 0 0 0 0 2 108 1 0.0 4 0 0 0 0 1 111 1 0.0 4 0 0 0 0 1 114 1 0.0 4 0 0 0 0 1 121 1 0.0 4 0 0 0 0 1 123 1 0.0 4 0 0 0 0 1 127 1 0.0 4 0 0 0 0 1 169 1 0.0 4 0 0 0 0 1 183 1 0.0 4 0 0 0 0 1 215 1 0.0 4 0 0 0 0 1 227 1 0.0 4 0 0 0 0 1 228 6 0.0 4 0 0 0 0 6 233 1 0.0 4 0 0 0 0 1 234 1 0.0 4 0 0 0 0 1 235 1 0.0 4 0 0 0 0 1 282 1 0.0 4 0 0 0 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 0.32 s (36 us/read; 1.69 M reads/minute). === Summary === Total reads processed: 8,996 Reads with adapters: 965 (10.7%) Reads written (passing filters): 8,996 (100.0%) Total basepairs processed: 2,465,167 bp Total written (filtered): 2,453,651 bp (99.5%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 965 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 2.7% C: 8.7% G: 85.1% T: 3.5% 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 22 140.6 0 22 4 5 35.1 0 5 9 10 0.0 0 0 10 10 9 0.0 1 0 9 11 780 0.0 1 26 754 12 124 0.0 1 12 112 13 7 0.0 1 0 7 14 2 0.0 1 0 2 152 4 0.0 1 4 225 1 0.0 1 1 230 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.