This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CGGCCA -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 102.88 s (32 us/read; 1.86 M reads/minute). === Summary === Total reads processed: 3,184,960 Reads with adapters: 146,180 (4.6%) Reads that were too short: 79,389 (2.5%) Reads written (passing filters): 66,791 (2.1%) Total basepairs processed: 958,672,960 bp Total written (filtered): 17,174,089 bp (1.8%) === Adapter 1 === Sequence: CGGCCA; Type: regular 5'; Length: 6; Trimmed: 146180 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1641 777.6 0 1641 7 41172 777.6 0 41172 8 118 777.6 0 118 9 4974 777.6 0 4974 10 24 777.6 0 24 11 19 777.6 0 19 12 15 777.6 0 15 13 11 777.6 0 11 14 11 777.6 0 11 15 12 777.6 0 12 16 14 777.6 0 14 17 14 777.6 0 14 18 12 777.6 0 12 19 11 777.6 0 11 20 19 777.6 0 19 21 9 777.6 0 9 22 26 777.6 0 26 23 22 777.6 0 22 24 10 777.6 0 10 25 21 777.6 0 21 26 30 777.6 0 30 27 14 777.6 0 14 28 15 777.6 0 15 29 11 777.6 0 11 30 18 777.6 0 18 31 22 777.6 0 22 32 7 777.6 0 7 33 11 777.6 0 11 34 17 777.6 0 17 35 15 777.6 0 15 36 4 777.6 0 4 37 17 777.6 0 17 38 18 777.6 0 18 39 15 777.6 0 15 40 12 777.6 0 12 41 72 777.6 0 72 42 51 777.6 0 51 43 31 777.6 0 31 44 12 777.6 0 12 45 16 777.6 0 16 46 19 777.6 0 19 47 11 777.6 0 11 48 13 777.6 0 13 49 11 777.6 0 11 50 22 777.6 0 22 51 32 777.6 0 32 52 14 777.6 0 14 53 10 777.6 0 10 54 21 777.6 0 21 55 22 777.6 0 22 56 9 777.6 0 9 57 11 777.6 0 11 58 12 777.6 0 12 59 19 777.6 0 19 60 17 777.6 0 17 61 10 777.6 0 10 62 9 777.6 0 9 63 15 777.6 0 15 64 113 777.6 0 113 65 270 777.6 0 270 66 162 777.6 0 162 67 11 777.6 0 11 68 23 777.6 0 23 69 13 777.6 0 13 70 25 777.6 0 25 71 16 777.6 0 16 72 20 777.6 0 20 73 129 777.6 0 129 74 99 777.6 0 99 75 250 777.6 0 250 76 72 777.6 0 72 77 14 777.6 0 14 78 50 777.6 0 50 79 14 777.6 0 14 80 10 777.6 0 10 81 20 777.6 0 20 82 15 777.6 0 15 83 16 777.6 0 16 84 9 777.6 0 9 85 153 777.6 0 153 86 94 777.6 0 94 87 70 777.6 0 70 88 1238 777.6 0 1238 89 699 777.6 0 699 90 17 777.6 0 17 91 12 777.6 0 12 92 29 777.6 0 29 93 10 777.6 0 10 94 21 777.6 0 21 95 15 777.6 0 15 96 11 777.6 0 11 97 7 777.6 0 7 98 6 777.6 0 6 99 8 777.6 0 8 100 6 777.6 0 6 101 10 777.6 0 10 102 10 777.6 0 10 103 15 777.6 0 15 104 6 777.6 0 6 105 7 777.6 0 7 106 13 777.6 0 13 107 10 777.6 0 10 108 8 777.6 0 8 109 9 777.6 0 9 110 7 777.6 0 7 111 10 777.6 0 10 112 10 777.6 0 10 113 13 777.6 0 13 114 13 777.6 0 13 115 11 777.6 0 11 116 12 777.6 0 12 117 12 777.6 0 12 118 22 777.6 0 22 119 11 777.6 0 11 120 16 777.6 0 16 121 16 777.6 0 16 122 12 777.6 0 12 123 9 777.6 0 9 124 54 777.6 0 54 125 21 777.6 0 21 126 34 777.6 0 34 127 30 777.6 0 30 128 11 777.6 0 11 129 21 777.6 0 21 130 14 777.6 0 14 131 13 777.6 0 13 132 21 777.6 0 21 133 14 777.6 0 14 134 22 777.6 0 22 135 12 777.6 0 12 136 22 777.6 0 22 137 38 777.6 0 38 138 71 777.6 0 71 139 50 777.6 0 50 140 66 777.6 0 66 141 54 777.6 0 54 142 72 777.6 0 72 143 123 777.6 0 123 144 53 777.6 0 53 145 41 777.6 0 41 146 94 777.6 0 94 147 59 777.6 0 59 148 79 777.6 0 79 149 74 777.6 0 74 150 92 777.6 0 92 151 487 777.6 0 487 152 594 777.6 0 594 153 859 777.6 0 859 154 220 777.6 0 220 155 125 777.6 0 125 156 1915 777.6 0 1915 157 1769 777.6 0 1769 158 3111 777.6 0 3111 159 177 777.6 0 177 160 64 777.6 0 64 161 40 777.6 0 40 162 47 777.6 0 47 163 118 777.6 0 118 164 292 777.6 0 292 165 76 777.6 0 76 166 247 777.6 0 247 167 50 777.6 0 50 168 52 777.6 0 52 169 57 777.6 0 57 170 265 777.6 0 265 171 290 777.6 0 290 172 156 777.6 0 156 173 73 777.6 0 73 174 37 777.6 0 37 175 90 777.6 0 90 176 294 777.6 0 294 177 249 777.6 0 249 178 436 777.6 0 436 179 83 777.6 0 83 180 32 777.6 0 32 181 40 777.6 0 40 182 43 777.6 0 43 183 27 777.6 0 27 184 34 777.6 0 34 185 30 777.6 0 30 186 17 777.6 0 17 187 24 777.6 0 24 188 16 777.6 0 16 189 22 777.6 0 22 190 15 777.6 0 15 191 7 777.6 0 7 192 12 777.6 0 12 193 16 777.6 0 16 194 11 777.6 0 11 195 12 777.6 0 12 196 10 777.6 0 10 197 6 777.6 0 6 198 10 777.6 0 10 199 8 777.6 0 8 200 7 777.6 0 7 201 15 777.6 0 15 202 24 777.6 0 24 203 6 777.6 0 6 204 16 777.6 0 16 205 92 777.6 0 92 206 27 777.6 0 27 207 18 777.6 0 18 208 6 777.6 0 6 209 14 777.6 0 14 210 11 777.6 0 11 211 6 777.6 0 6 212 16 777.6 0 16 213 22 777.6 0 22 214 36 777.6 0 36 215 33 777.6 0 33 216 34 777.6 0 34 217 46 777.6 0 46 218 42 777.6 0 42 219 39 777.6 0 39 220 17 777.6 0 17 221 7 777.6 0 7 222 9 777.6 0 9 223 25 777.6 0 25 224 72 777.6 0 72 225 34 777.6 0 34 226 41 777.6 0 41 227 33 777.6 0 33 228 35 777.6 0 35 229 97 777.6 0 97 230 56 777.6 0 56 231 36 777.6 0 36 232 40 777.6 0 40 233 220 777.6 0 220 234 203 777.6 0 203 235 475 777.6 0 475 236 44 777.6 0 44 237 43 777.6 0 43 238 64 777.6 0 64 239 70 777.6 0 70 240 41 777.6 0 41 241 71 777.6 0 71 242 73 777.6 0 73 243 147 777.6 0 147 244 251 777.6 0 251 245 334 777.6 0 334 246 727 777.6 0 727 247 80 777.6 0 80 248 137 777.6 0 137 249 192 777.6 0 192 250 123 777.6 0 123 251 137 777.6 0 137 252 249 777.6 0 249 253 709 777.6 0 709 254 486 777.6 0 486 255 769 777.6 0 769 256 657 777.6 0 657 257 474 777.6 0 474 258 1917 777.6 0 1917 259 2129 777.6 0 2129 260 44510 777.6 0 44510 261 891 777.6 0 891 262 268 777.6 0 268 263 528 777.6 0 528 264 4165 777.6 0 4165 265 2143 777.6 0 2143 266 35 777.6 0 35 267 37 777.6 0 37 268 33 777.6 0 33 269 15 777.6 0 15 270 11 777.6 0 11 271 7 777.6 0 7 272 33 777.6 0 33 273 22 777.6 0 22 274 57 777.6 0 57 275 27 777.6 0 27 276 19 777.6 0 19 277 163 777.6 0 163 278 49 777.6 0 49 279 201 777.6 0 201 280 84 777.6 0 84 281 83 777.6 0 83 282 100 777.6 0 100 283 88 777.6 0 88 284 138 777.6 0 138 285 236 777.6 0 236 286 98 777.6 0 98 287 840 777.6 0 840 288 526 777.6 0 526 289 355 777.6 0 355 290 72 777.6 0 72 291 127 777.6 0 127 292 1275 777.6 0 1275 293 1853 777.6 0 1853 294 1272 777.6 0 1272 295 312 777.6 0 312 296 354 777.6 0 354 297 595 777.6 0 595 298 1973 777.6 0 1973 299 1334 777.6 0 1334 300 2561 777.6 0 2561 301 87 777.6 0 87 Finished in 3.41 s (51 us/read; 1.18 M reads/minute). === Summary === Total reads processed: 66,791 Reads with adapters: 42,677 (63.9%) Reads that were too short: 14 (0.0%) Reads written (passing filters): 42,663 (63.9%) Total basepairs processed: 17,174,089 bp Total written (filtered): 11,687,836 bp (68.1%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 42677 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 13 0.0 3 0 0 11 2 19 226 0.0 3 0 206 6 8 6 20 41880 0.0 4 40981 798 71 23 7 21 80 0.0 4 7 70 2 1 22 16 0.0 4 0 12 2 1 1 23 421 0.0 4 392 11 0 18 24 7 0.0 4 0 1 0 1 5 39 1 0.0 4 0 0 0 0 1 64 3 0.0 4 0 0 0 0 3 65 1 0.0 4 0 0 0 0 1 70 14 0.0 4 0 0 0 0 14 127 5 0.0 4 0 0 0 0 5 129 1 0.0 4 0 0 0 1 135 3 0.0 4 0 0 0 0 3 142 1 0.0 4 0 0 0 0 1 144 1 0.0 4 0 0 0 0 1 148 1 0.0 4 0 0 0 0 1 219 1 0.0 4 0 0 0 0 1 228 1 0.0 4 0 0 0 0 1 282 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 1.80 s (42 us/read; 1.42 M reads/minute). === Summary === Total reads processed: 42,663 Reads with adapters: 923 (2.2%) Reads written (passing filters): 42,663 (100.0%) Total basepairs processed: 11,687,836 bp Total written (filtered): 11,641,288 bp (99.6%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 923 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 3.9% C: 5.9% G: 71.8% T: 18.4% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 20 666.6 0 20 4 6 166.7 0 6 5 1 41.7 0 1 6 1 10.4 0 1 9 13 0.2 0 1 12 10 8 0.0 1 0 8 11 550 0.0 1 1 549 12 139 0.0 1 2 137 13 4 0.0 1 0 4 14 1 0.0 1 0 1 15 4 0.0 1 0 4 152 14 0.0 1 8 6 153 2 0.0 1 2 161 1 0.0 1 1 210 3 0.0 1 2 1 225 151 0.0 1 143 8 226 3 0.0 1 3 261 1 0.0 1 1 273 1 0.0 1 1