This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CCGGAA -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 102.29 s (32 us/read; 1.87 M reads/minute). === Summary === Total reads processed: 3,184,960 Reads with adapters: 803,114 (25.2%) Reads that were too short: 669,767 (21.0%) Reads written (passing filters): 133,347 (4.2%) Total basepairs processed: 958,672,960 bp Total written (filtered): 24,272,855 bp (2.5%) === Adapter 1 === Sequence: CCGGAA; Type: regular 5'; Length: 6; Trimmed: 803114 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 619 777.6 0 619 7 30346 777.6 0 30346 8 118 777.6 0 118 9 88 777.6 0 88 10 22 777.6 0 22 11 17 777.6 0 17 12 23 777.6 0 23 13 13 777.6 0 13 14 19 777.6 0 19 15 9 777.6 0 9 16 14 777.6 0 14 17 22 777.6 0 22 18 21 777.6 0 21 19 22 777.6 0 22 20 21 777.6 0 21 21 24 777.6 0 24 22 16 777.6 0 16 23 17 777.6 0 17 24 21 777.6 0 21 25 17 777.6 0 17 26 18 777.6 0 18 27 16 777.6 0 16 28 12 777.6 0 12 29 13 777.6 0 13 30 12 777.6 0 12 31 26 777.6 0 26 32 14 777.6 0 14 33 59 777.6 0 59 34 24 777.6 0 24 35 21 777.6 0 21 36 19 777.6 0 19 37 44 777.6 0 44 38 20 777.6 0 20 39 16 777.6 0 16 40 19 777.6 0 19 41 28 777.6 0 28 42 18 777.6 0 18 43 42 777.6 0 42 44 25 777.6 0 25 45 25 777.6 0 25 46 14 777.6 0 14 47 53 777.6 0 53 48 31 777.6 0 31 49 30 777.6 0 30 50 230 777.6 0 230 51 132 777.6 0 132 52 1421 777.6 0 1421 53 42 777.6 0 42 54 24 777.6 0 24 55 20 777.6 0 20 56 15 777.6 0 15 57 13 777.6 0 13 58 43 777.6 0 43 59 39 777.6 0 39 60 32 777.6 0 32 61 28 777.6 0 28 62 25 777.6 0 25 63 19 777.6 0 19 64 23 777.6 0 23 65 11 777.6 0 11 66 19 777.6 0 19 67 20 777.6 0 20 68 50 777.6 0 50 69 26 777.6 0 26 70 14 777.6 0 14 71 16 777.6 0 16 72 40 777.6 0 40 73 34 777.6 0 34 74 28 777.6 0 28 75 27 777.6 0 27 76 21 777.6 0 21 77 66 777.6 0 66 78 176 777.6 0 176 79 92 777.6 0 92 80 50 777.6 0 50 81 46 777.6 0 46 82 30 777.6 0 30 83 35 777.6 0 35 84 46 777.6 0 46 85 53 777.6 0 53 86 107 777.6 0 107 87 30 777.6 0 30 88 19 777.6 0 19 89 24 777.6 0 24 90 34 777.6 0 34 91 22 777.6 0 22 92 46 777.6 0 46 93 25 777.6 0 25 94 122 777.6 0 122 95 231 777.6 0 231 96 120 777.6 0 120 97 205 777.6 0 205 98 50 777.6 0 50 99 46 777.6 0 46 100 41 777.6 0 41 101 33 777.6 0 33 102 74 777.6 0 74 103 32 777.6 0 32 104 36 777.6 0 36 105 38 777.6 0 38 106 25 777.6 0 25 107 31 777.6 0 31 108 38 777.6 0 38 109 89 777.6 0 89 110 46 777.6 0 46 111 33 777.6 0 33 112 31 777.6 0 31 113 42 777.6 0 42 114 202 777.6 0 202 115 606 777.6 0 606 116 594 777.6 0 594 117 372 777.6 0 372 118 67 777.6 0 67 119 99 777.6 0 99 120 59 777.6 0 59 121 78 777.6 0 78 122 76 777.6 0 76 123 79 777.6 0 79 124 82 777.6 0 82 125 71 777.6 0 71 126 89 777.6 0 89 127 83 777.6 0 83 128 102 777.6 0 102 129 78 777.6 0 78 130 98 777.6 0 98 131 144 777.6 0 144 132 160 777.6 0 160 133 295 777.6 0 295 134 680 777.6 0 680 135 1968 777.6 0 1968 136 25478 777.6 0 25478 137 7907 777.6 0 7907 138 12772 777.6 0 12772 139 783 777.6 0 783 140 186 777.6 0 186 141 95 777.6 0 95 142 56 777.6 0 56 143 45 777.6 0 45 144 61 777.6 0 61 145 64 777.6 0 64 146 86 777.6 0 86 147 144 777.6 0 144 148 75 777.6 0 75 149 63 777.6 0 63 150 104 777.6 0 104 151 72 777.6 0 72 152 45 777.6 0 45 153 78 777.6 0 78 154 85 777.6 0 85 155 127 777.6 0 127 156 121 777.6 0 121 157 126 777.6 0 126 158 143 777.6 0 143 159 385 777.6 0 385 160 1740 777.6 0 1740 161 1725 777.6 0 1725 162 4479 777.6 0 4479 163 946 777.6 0 946 164 54 777.6 0 54 165 72 777.6 0 72 166 75 777.6 0 75 167 93 777.6 0 93 168 58 777.6 0 58 169 70 777.6 0 70 170 121 777.6 0 121 171 35 777.6 0 35 172 55 777.6 0 55 173 72 777.6 0 72 174 159 777.6 0 159 175 223 777.6 0 223 176 148 777.6 0 148 177 111 777.6 0 111 178 163 777.6 0 163 179 58 777.6 0 58 180 120 777.6 0 120 181 209 777.6 0 209 182 195 777.6 0 195 183 408 777.6 0 408 184 215 777.6 0 215 185 269 777.6 0 269 186 371 777.6 0 371 187 549 777.6 0 549 188 572 777.6 0 572 189 754 777.6 0 754 190 722 777.6 0 722 191 1255 777.6 0 1255 192 1561 777.6 0 1561 193 2812 777.6 0 2812 194 4065 777.6 0 4065 195 1404 777.6 0 1404 196 1265 777.6 0 1265 197 2158 777.6 0 2158 198 1582 777.6 0 1582 199 1885 777.6 0 1885 200 2584 777.6 0 2584 201 6008 777.6 0 6008 202 14094 777.6 0 14094 203 16083 777.6 0 16083 204 34340 777.6 0 34340 205 25378 777.6 0 25378 206 21545 777.6 0 21545 207 56137 777.6 0 56137 208 78037 777.6 0 78037 209 98849 777.6 0 98849 210 10463 777.6 0 10463 211 6855 777.6 0 6855 212 7489 777.6 0 7489 213 5162 777.6 0 5162 214 5352 777.6 0 5352 215 1453 777.6 0 1453 216 1969 777.6 0 1969 217 1837 777.6 0 1837 218 832 777.6 0 832 219 1751 777.6 0 1751 220 1573 777.6 0 1573 221 1701 777.6 0 1701 222 6731 777.6 0 6731 223 4285 777.6 0 4285 224 8975 777.6 0 8975 225 2289 777.6 0 2289 226 3059 777.6 0 3059 227 58196 777.6 0 58196 228 57997 777.6 0 57997 229 55496 777.6 0 55496 230 4081 777.6 0 4081 231 71 777.6 0 71 232 25 777.6 0 25 233 26 777.6 0 26 234 84 777.6 0 84 235 36 777.6 0 36 236 44 777.6 0 44 237 479 777.6 0 479 238 342 777.6 0 342 239 243 777.6 0 243 240 9 777.6 0 9 241 8 777.6 0 8 242 3 777.6 0 3 243 16 777.6 0 16 244 29 777.6 0 29 245 76 777.6 0 76 246 118 777.6 0 118 247 97 777.6 0 97 248 133 777.6 0 133 249 35 777.6 0 35 250 11 777.6 0 11 251 14 777.6 0 14 252 13 777.6 0 13 253 20 777.6 0 20 254 65 777.6 0 65 255 125 777.6 0 125 256 592 777.6 0 592 257 963 777.6 0 963 258 1211 777.6 0 1211 259 1823 777.6 0 1823 260 4452 777.6 0 4452 261 25825 777.6 0 25825 262 4995 777.6 0 4995 263 1886 777.6 0 1886 264 165 777.6 0 165 265 75 777.6 0 75 266 112 777.6 0 112 267 170 777.6 0 170 268 127 777.6 0 127 269 69 777.6 0 69 270 61 777.6 0 61 271 130 777.6 0 130 272 1886 777.6 0 1886 273 1046 777.6 0 1046 274 2178 777.6 0 2178 275 88 777.6 0 88 276 53 777.6 0 53 277 289 777.6 0 289 278 1105 777.6 0 1105 279 1911 777.6 0 1911 280 221 777.6 0 221 281 206 777.6 0 206 282 151 777.6 0 151 283 44 777.6 0 44 284 67 777.6 0 67 285 154 777.6 0 154 286 548 777.6 0 548 287 726 777.6 0 726 288 407 777.6 0 407 289 110 777.6 0 110 290 63 777.6 0 63 291 45 777.6 0 45 292 183 777.6 0 183 293 530 777.6 0 530 294 475 777.6 0 475 295 18157 777.6 0 18157 296 933 777.6 0 933 297 342 777.6 0 342 298 233 777.6 0 233 299 342 777.6 0 342 300 370 777.6 0 370 301 117 777.6 0 117 Finished in 5.97 s (45 us/read; 1.34 M reads/minute). === Summary === Total reads processed: 133,347 Reads with adapters: 30,778 (23.1%) Reads that were too short: 20 (0.0%) Reads written (passing filters): 30,758 (23.1%) Total basepairs processed: 24,272,855 bp Total written (filtered): 8,427,879 bp (34.7%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 30778 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 11 0.0 3 0 0 6 3 2 19 205 0.0 3 0 193 7 5 20 30289 0.0 4 29580 632 58 13 6 21 71 0.0 4 12 58 1 22 18 0.0 4 1 3 1 0 13 23 161 0.0 4 138 2 0 20 1 24 2 0.0 4 1 0 0 0 1 32 2 0.0 4 0 0 0 1 1 33 1 0.0 4 1 60 1 0.0 4 0 0 0 0 1 64 1 0.0 4 0 0 0 0 1 80 1 0.0 4 0 0 0 0 1 85 1 0.0 4 0 0 0 0 1 91 1 0.0 4 0 0 0 0 1 93 1 0.0 4 0 0 0 0 1 94 1 0.0 4 0 0 0 0 1 102 4 0.0 4 0 0 0 1 3 103 1 0.0 4 0 0 0 0 1 112 1 0.0 4 0 0 0 0 1 129 1 0.0 4 0 0 0 0 1 131 1 0.0 4 0 0 0 0 1 143 1 0.0 4 0 0 0 0 1 150 1 0.0 4 0 0 0 0 1 253 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 1.30 s (42 us/read; 1.42 M reads/minute). === Summary === Total reads processed: 30,758 Reads with adapters: 634 (2.1%) Reads written (passing filters): 30,758 (100.0%) Total basepairs processed: 8,427,879 bp Total written (filtered): 8,417,927 bp (99.9%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 634 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 6.2% C: 2.8% G: 89.0% T: 2.1% 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 10 480.6 0 10 4 2 120.1 0 2 5 1 30.0 0 1 9 5 0.1 0 1 4 10 4 0.0 1 0 4 11 530 0.0 1 1 529 12 62 0.0 1 2 60 13 1 0.0 1 0 1 14 1 0.0 1 1 15 1 0.0 1 0 1 140 1 0.0 1 1 150 1 0.0 1 1 152 4 0.0 1 3 1 210 11 0.0 1 6 5 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.