This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CGCGAT -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 133.06 s (45 us/read; 1.33 M reads/minute). === Summary === Total reads processed: 2,949,860 Reads with adapters: 173,135 (5.9%) Reads that were too short: 8,837 (0.3%) Reads written (passing filters): 164,298 (5.6%) Total basepairs processed: 887,907,860 bp Total written (filtered): 46,275,130 bp (5.2%) === Adapter 1 === Sequence: CGCGAT; Type: regular 5'; Length: 6; Trimmed: 173135 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 3373 720.2 0 3373 7 78913 720.2 0 78913 8 718 720.2 0 718 9 63636 720.2 0 63636 10 54 720.2 0 54 11 30 720.2 0 30 12 9 720.2 0 9 13 30 720.2 0 30 14 31 720.2 0 31 15 31 720.2 0 31 16 31 720.2 0 31 17 40 720.2 0 40 18 26 720.2 0 26 19 18 720.2 0 18 20 22 720.2 0 22 21 21 720.2 0 21 22 32 720.2 0 32 23 26 720.2 0 26 24 15 720.2 0 15 25 25 720.2 0 25 26 28 720.2 0 28 27 26 720.2 0 26 28 24 720.2 0 24 29 26 720.2 0 26 30 28 720.2 0 28 31 26 720.2 0 26 32 19 720.2 0 19 33 26 720.2 0 26 34 17 720.2 0 17 35 25 720.2 0 25 36 23 720.2 0 23 37 19 720.2 0 19 38 25 720.2 0 25 39 28 720.2 0 28 40 28 720.2 0 28 41 26 720.2 0 26 42 100 720.2 0 100 43 166 720.2 0 166 44 82 720.2 0 82 45 24 720.2 0 24 46 22 720.2 0 22 47 32 720.2 0 32 48 27 720.2 0 27 49 17 720.2 0 17 50 30 720.2 0 30 51 23 720.2 0 23 52 34 720.2 0 34 53 21 720.2 0 21 54 36 720.2 0 36 55 26 720.2 0 26 56 31 720.2 0 31 57 22 720.2 0 22 58 35 720.2 0 35 59 20 720.2 0 20 60 24 720.2 0 24 61 27 720.2 0 27 62 31 720.2 0 31 63 23 720.2 0 23 64 19 720.2 0 19 65 25 720.2 0 25 66 40 720.2 0 40 67 30 720.2 0 30 68 23 720.2 0 23 69 29 720.2 0 29 70 30 720.2 0 30 71 25 720.2 0 25 72 20 720.2 0 20 73 23 720.2 0 23 74 34 720.2 0 34 75 69 720.2 0 69 76 39 720.2 0 39 77 38 720.2 0 38 78 19 720.2 0 19 79 32 720.2 0 32 80 66 720.2 0 66 81 30 720.2 0 30 82 17 720.2 0 17 83 23 720.2 0 23 84 24 720.2 0 24 85 33 720.2 0 33 86 29 720.2 0 29 87 33 720.2 0 33 88 51 720.2 0 51 89 58 720.2 0 58 90 80 720.2 0 80 91 82 720.2 0 82 92 887 720.2 0 887 93 1019 720.2 0 1019 94 2549 720.2 0 2549 95 35 720.2 0 35 96 35 720.2 0 35 97 29 720.2 0 29 98 28 720.2 0 28 99 28 720.2 0 28 100 24 720.2 0 24 101 39 720.2 0 39 102 25 720.2 0 25 103 17 720.2 0 17 104 42 720.2 0 42 105 35 720.2 0 35 106 36 720.2 0 36 107 32 720.2 0 32 108 36 720.2 0 36 109 36 720.2 0 36 110 54 720.2 0 54 111 28 720.2 0 28 112 78 720.2 0 78 113 177 720.2 0 177 114 37 720.2 0 37 115 22 720.2 0 22 116 41 720.2 0 41 117 47 720.2 0 47 118 25 720.2 0 25 119 59 720.2 0 59 120 46 720.2 0 46 121 61 720.2 0 61 122 62 720.2 0 62 123 1157 720.2 0 1157 124 2368 720.2 0 2368 125 816 720.2 0 816 126 274 720.2 0 274 127 41 720.2 0 41 128 49 720.2 0 49 129 209 720.2 0 209 130 197 720.2 0 197 131 512 720.2 0 512 132 283 720.2 0 283 133 40 720.2 0 40 134 25 720.2 0 25 135 17 720.2 0 17 136 26 720.2 0 26 137 29 720.2 0 29 138 21 720.2 0 21 139 33 720.2 0 33 140 25 720.2 0 25 141 27 720.2 0 27 142 27 720.2 0 27 143 40 720.2 0 40 144 26 720.2 0 26 145 45 720.2 0 45 146 59 720.2 0 59 147 34 720.2 0 34 148 42 720.2 0 42 149 23 720.2 0 23 150 15 720.2 0 15 151 29 720.2 0 29 152 27 720.2 0 27 153 36 720.2 0 36 154 26 720.2 0 26 155 25 720.2 0 25 156 21 720.2 0 21 157 29 720.2 0 29 158 47 720.2 0 47 159 31 720.2 0 31 160 34 720.2 0 34 161 30 720.2 0 30 162 44 720.2 0 44 163 31 720.2 0 31 164 36 720.2 0 36 165 34 720.2 0 34 166 30 720.2 0 30 167 77 720.2 0 77 168 44 720.2 0 44 169 66 720.2 0 66 170 29 720.2 0 29 171 31 720.2 0 31 172 26 720.2 0 26 173 38 720.2 0 38 174 44 720.2 0 44 175 42 720.2 0 42 176 53 720.2 0 53 177 40 720.2 0 40 178 69 720.2 0 69 179 100 720.2 0 100 180 86 720.2 0 86 181 56 720.2 0 56 182 35 720.2 0 35 183 27 720.2 0 27 184 54 720.2 0 54 185 45 720.2 0 45 186 163 720.2 0 163 187 23 720.2 0 23 188 67 720.2 0 67 189 26 720.2 0 26 190 27 720.2 0 27 191 35 720.2 0 35 192 38 720.2 0 38 193 38 720.2 0 38 194 50 720.2 0 50 195 58 720.2 0 58 196 47 720.2 0 47 197 36 720.2 0 36 198 136 720.2 0 136 199 233 720.2 0 233 200 247 720.2 0 247 201 124 720.2 0 124 202 88 720.2 0 88 203 39 720.2 0 39 204 37 720.2 0 37 205 60 720.2 0 60 206 50 720.2 0 50 207 70 720.2 0 70 208 60 720.2 0 60 209 46 720.2 0 46 210 26 720.2 0 26 211 38 720.2 0 38 212 28 720.2 0 28 213 26 720.2 0 26 214 33 720.2 0 33 215 49 720.2 0 49 216 30 720.2 0 30 217 36 720.2 0 36 218 47 720.2 0 47 219 76 720.2 0 76 220 90 720.2 0 90 221 115 720.2 0 115 222 169 720.2 0 169 223 123 720.2 0 123 224 497 720.2 0 497 225 59 720.2 0 59 226 44 720.2 0 44 227 45 720.2 0 45 228 45 720.2 0 45 229 57 720.2 0 57 230 45 720.2 0 45 231 38 720.2 0 38 232 32 720.2 0 32 233 45 720.2 0 45 234 39 720.2 0 39 235 40 720.2 0 40 236 44 720.2 0 44 237 52 720.2 0 52 238 162 720.2 0 162 239 137 720.2 0 137 240 823 720.2 0 823 241 672 720.2 0 672 242 1495 720.2 0 1495 243 44 720.2 0 44 244 42 720.2 0 42 245 31 720.2 0 31 246 41 720.2 0 41 247 62 720.2 0 62 248 44 720.2 0 44 249 43 720.2 0 43 250 71 720.2 0 71 251 83 720.2 0 83 252 100 720.2 0 100 253 63 720.2 0 63 254 34 720.2 0 34 255 28 720.2 0 28 256 42 720.2 0 42 257 37 720.2 0 37 258 48 720.2 0 48 259 22 720.2 0 22 260 45 720.2 0 45 261 38 720.2 0 38 262 37 720.2 0 37 263 92 720.2 0 92 264 26 720.2 0 26 265 40 720.2 0 40 266 38 720.2 0 38 267 37 720.2 0 37 268 36 720.2 0 36 269 41 720.2 0 41 270 28 720.2 0 28 271 32 720.2 0 32 272 36 720.2 0 36 273 45 720.2 0 45 274 35 720.2 0 35 275 35 720.2 0 35 276 35 720.2 0 35 277 38 720.2 0 38 278 33 720.2 0 33 279 51 720.2 0 51 280 33 720.2 0 33 281 22 720.2 0 22 282 37 720.2 0 37 283 57 720.2 0 57 284 110 720.2 0 110 285 90 720.2 0 90 286 36 720.2 0 36 287 70 720.2 0 70 288 87 720.2 0 87 289 133 720.2 0 133 290 124 720.2 0 124 291 90 720.2 0 90 292 61 720.2 0 61 293 49 720.2 0 49 294 51 720.2 0 51 295 40 720.2 0 40 296 34 720.2 0 34 297 47 720.2 0 47 298 34 720.2 0 34 299 85 720.2 0 85 300 122 720.2 0 122 301 85 720.2 0 85 Finished in 12.55 s (76 us/read; 0.79 M reads/minute). === Summary === Total reads processed: 164,298 Reads with adapters: 87,398 (53.2%) Reads that were too short: 34 (0.0%) Reads written (passing filters): 87,364 (53.2%) Total basepairs processed: 46,275,130 bp Total written (filtered): 23,246,297 bp (50.2%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 87398 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 31 0.0 3 0 0 30 1 19 780 0.0 3 0 758 17 5 20 79993 0.0 4 78651 1288 47 4 3 21 130 0.0 4 16 110 4 22 11 0.0 4 0 1 7 0 3 23 47 0.0 4 1 0 1 38 7 24 1 0.0 4 0 0 0 0 1 45 2 0.0 4 1 0 0 0 1 86 6 0.0 4 0 0 0 0 6 95 1 0.0 4 0 0 0 0 1 106 1 0.0 4 0 0 0 0 1 124 2 0.0 4 0 0 0 0 2 125 14 0.0 4 0 0 0 0 14 126 55 0.0 4 0 0 0 0 55 127 6248 0.0 4 0 0 0 0 6248 128 12 0.0 4 0 0 0 0 12 129 4 0.0 4 0 0 0 0 4 130 26 0.0 4 0 0 0 0 26 140 1 0.0 4 0 0 0 0 1 153 1 0.0 4 0 0 0 0 1 158 1 0.0 4 0 0 0 0 1 166 1 0.0 4 0 0 0 0 1 170 1 0.0 4 0 0 0 0 1 194 2 0.0 4 0 0 0 0 2 203 1 0.0 4 0 0 0 0 1 209 1 0.0 4 0 0 0 0 1 227 1 0.0 4 0 0 0 0 1 228 17 0.0 4 0 0 0 1 16 229 4 0.0 4 0 0 0 0 4 234 1 0.0 4 0 0 0 0 1 282 1 0.0 4 0 0 0 0 1 286 1 0.0 4 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 4.51 s (52 us/read; 1.16 M reads/minute). === Summary === Total reads processed: 87,364 Reads with adapters: 1,022 (1.2%) Reads written (passing filters): 87,364 (100.0%) Total basepairs processed: 23,246,297 bp Total written (filtered): 23,233,987 bp (99.9%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 1022 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 16.6% C: 5.2% G: 75.6% T: 2.5% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 185 1365.1 0 185 4 12 341.3 0 12 5 2 85.3 0 2 6 2 21.3 0 2 9 6 0.3 0 1 5 10 12 0.1 1 1 11 11 552 0.0 1 4 548 12 231 0.0 1 3 228 13 2 0.0 1 0 2 15 3 0.0 1 1 2 114 1 0.0 1 1 140 1 0.0 1 1 152 4 0.0 1 0 4 171 4 0.0 1 3 1 210 5 0.0 1 4 1