This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AGACCG -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 103.68 s (32 us/read; 1.85 M reads/minute). === Summary === Total reads processed: 3,193,041 Reads with adapters: 144,797 (4.5%) Reads that were too short: 19,803 (0.6%) Reads written (passing filters): 124,994 (3.9%) Total basepairs processed: 961,105,341 bp Total written (filtered): 35,808,605 bp (3.7%) === Adapter 1 === Sequence: AGACCG; Type: regular 5'; Length: 6; Trimmed: 144797 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 3617 779.6 0 3617 7 114229 779.6 0 114229 8 133 779.6 0 133 9 25 779.6 0 25 10 8 779.6 0 8 11 6 779.6 0 6 12 2 779.6 0 2 13 5 779.6 0 5 14 6 779.6 0 6 15 2 779.6 0 2 16 7 779.6 0 7 17 5 779.6 0 5 18 1 779.6 0 1 19 2 779.6 0 2 21 6 779.6 0 6 22 4 779.6 0 4 23 8 779.6 0 8 24 4 779.6 0 4 25 7 779.6 0 7 26 5 779.6 0 5 27 1 779.6 0 1 28 3 779.6 0 3 29 4 779.6 0 4 30 10 779.6 0 10 31 1 779.6 0 1 32 6 779.6 0 6 33 4 779.6 0 4 34 7 779.6 0 7 35 6 779.6 0 6 36 5 779.6 0 5 37 6 779.6 0 6 38 2 779.6 0 2 39 2 779.6 0 2 40 1 779.6 0 1 41 6 779.6 0 6 42 6 779.6 0 6 43 8 779.6 0 8 44 11 779.6 0 11 45 6 779.6 0 6 46 6 779.6 0 6 47 6 779.6 0 6 48 3 779.6 0 3 49 4 779.6 0 4 50 12 779.6 0 12 51 5 779.6 0 5 52 8 779.6 0 8 53 6 779.6 0 6 54 4 779.6 0 4 55 5 779.6 0 5 56 14 779.6 0 14 57 63 779.6 0 63 58 57 779.6 0 57 59 3 779.6 0 3 60 4 779.6 0 4 61 9 779.6 0 9 62 2 779.6 0 2 63 27 779.6 0 27 64 5 779.6 0 5 65 2 779.6 0 2 66 6 779.6 0 6 67 2 779.6 0 2 68 3 779.6 0 3 69 7 779.6 0 7 70 5 779.6 0 5 71 8 779.6 0 8 72 11 779.6 0 11 73 21 779.6 0 21 74 94 779.6 0 94 75 288 779.6 0 288 76 185 779.6 0 185 77 2 779.6 0 2 78 4 779.6 0 4 79 29 779.6 0 29 80 32 779.6 0 32 81 106 779.6 0 106 82 260 779.6 0 260 83 324 779.6 0 324 84 91 779.6 0 91 85 10 779.6 0 10 86 6 779.6 0 6 87 9 779.6 0 9 88 7 779.6 0 7 89 5 779.6 0 5 90 4 779.6 0 4 91 16 779.6 0 16 92 11 779.6 0 11 93 13 779.6 0 13 94 5 779.6 0 5 95 8 779.6 0 8 96 2 779.6 0 2 97 15 779.6 0 15 98 15 779.6 0 15 99 10 779.6 0 10 100 5 779.6 0 5 101 9 779.6 0 9 102 9 779.6 0 9 103 12 779.6 0 12 104 16 779.6 0 16 105 7 779.6 0 7 106 4 779.6 0 4 107 10 779.6 0 10 108 12 779.6 0 12 109 6 779.6 0 6 110 15 779.6 0 15 111 7 779.6 0 7 112 9 779.6 0 9 113 7 779.6 0 7 114 4 779.6 0 4 115 5 779.6 0 5 116 6 779.6 0 6 117 17 779.6 0 17 118 16 779.6 0 16 119 18 779.6 0 18 120 19 779.6 0 19 121 13 779.6 0 13 122 20 779.6 0 20 123 42 779.6 0 42 124 14 779.6 0 14 125 120 779.6 0 120 126 15 779.6 0 15 127 10 779.6 0 10 128 17 779.6 0 17 129 15 779.6 0 15 130 14 779.6 0 14 131 13 779.6 0 13 132 29 779.6 0 29 133 20 779.6 0 20 134 16 779.6 0 16 135 19 779.6 0 19 136 22 779.6 0 22 137 29 779.6 0 29 138 23 779.6 0 23 139 33 779.6 0 33 140 64 779.6 0 64 141 34 779.6 0 34 142 20 779.6 0 20 143 27 779.6 0 27 144 34 779.6 0 34 145 22 779.6 0 22 146 32 779.6 0 32 147 25 779.6 0 25 148 23 779.6 0 23 149 16 779.6 0 16 150 19 779.6 0 19 151 10 779.6 0 10 152 21 779.6 0 21 153 36 779.6 0 36 154 42 779.6 0 42 155 36 779.6 0 36 156 30 779.6 0 30 157 30 779.6 0 30 158 29 779.6 0 29 159 32 779.6 0 32 160 27 779.6 0 27 161 21 779.6 0 21 162 17 779.6 0 17 163 37 779.6 0 37 164 45 779.6 0 45 165 47 779.6 0 47 166 50 779.6 0 50 167 375 779.6 0 375 168 201 779.6 0 201 169 400 779.6 0 400 170 29 779.6 0 29 171 84 779.6 0 84 172 150 779.6 0 150 173 152 779.6 0 152 174 86 779.6 0 86 175 12 779.6 0 12 176 20 779.6 0 20 177 19 779.6 0 19 178 26 779.6 0 26 179 36 779.6 0 36 180 29 779.6 0 29 181 36 779.6 0 36 182 46 779.6 0 46 183 36 779.6 0 36 184 56 779.6 0 56 185 26 779.6 0 26 186 30 779.6 0 30 187 21 779.6 0 21 188 50 779.6 0 50 189 132 779.6 0 132 190 108 779.6 0 108 191 43 779.6 0 43 192 39 779.6 0 39 193 21 779.6 0 21 194 28 779.6 0 28 195 30 779.6 0 30 196 59 779.6 0 59 197 45 779.6 0 45 198 38 779.6 0 38 199 37 779.6 0 37 200 176 779.6 0 176 201 759 779.6 0 759 202 1222 779.6 0 1222 203 113 779.6 0 113 204 44 779.6 0 44 205 37 779.6 0 37 206 29 779.6 0 29 207 35 779.6 0 35 208 40 779.6 0 40 209 29 779.6 0 29 210 31 779.6 0 31 211 48 779.6 0 48 212 39 779.6 0 39 213 28 779.6 0 28 214 33 779.6 0 33 215 70 779.6 0 70 216 140 779.6 0 140 217 55 779.6 0 55 218 44 779.6 0 44 219 33 779.6 0 33 220 40 779.6 0 40 221 34 779.6 0 34 222 70 779.6 0 70 223 67 779.6 0 67 224 101 779.6 0 101 225 103 779.6 0 103 226 149 779.6 0 149 227 440 779.6 0 440 228 1789 779.6 0 1789 229 2121 779.6 0 2121 230 2665 779.6 0 2665 231 63 779.6 0 63 232 34 779.6 0 34 233 45 779.6 0 45 234 36 779.6 0 36 235 33 779.6 0 33 236 25 779.6 0 25 237 28 779.6 0 28 238 35 779.6 0 35 239 36 779.6 0 36 240 40 779.6 0 40 241 34 779.6 0 34 242 61 779.6 0 61 243 71 779.6 0 71 244 70 779.6 0 70 245 100 779.6 0 100 246 40 779.6 0 40 247 56 779.6 0 56 248 29 779.6 0 29 249 49 779.6 0 49 250 93 779.6 0 93 251 120 779.6 0 120 252 45 779.6 0 45 253 76 779.6 0 76 254 106 779.6 0 106 255 190 779.6 0 190 256 169 779.6 0 169 257 259 779.6 0 259 258 249 779.6 0 249 259 91 779.6 0 91 260 79 779.6 0 79 261 794 779.6 0 794 262 808 779.6 0 808 263 333 779.6 0 333 264 105 779.6 0 105 265 81 779.6 0 81 266 59 779.6 0 59 267 49 779.6 0 49 268 197 779.6 0 197 269 1248 779.6 0 1248 270 2367 779.6 0 2367 271 152 779.6 0 152 272 42 779.6 0 42 273 117 779.6 0 117 274 31 779.6 0 31 275 30 779.6 0 30 276 22 779.6 0 22 277 125 779.6 0 125 278 51 779.6 0 51 279 23 779.6 0 23 280 33 779.6 0 33 281 32 779.6 0 32 282 118 779.6 0 118 283 78 779.6 0 78 284 50 779.6 0 50 285 29 779.6 0 29 286 32 779.6 0 32 287 28 779.6 0 28 288 31 779.6 0 31 289 35 779.6 0 35 290 23 779.6 0 23 291 55 779.6 0 55 292 49 779.6 0 49 293 67 779.6 0 67 294 19 779.6 0 19 295 16 779.6 0 16 296 16 779.6 0 16 297 27 779.6 0 27 298 41 779.6 0 41 299 110 779.6 0 110 300 191 779.6 0 191 301 78 779.6 0 78 Finished in 5.83 s (47 us/read; 1.29 M reads/minute). === Summary === Total reads processed: 124,994 Reads with adapters: 116,588 (93.3%) Reads that were too short: 1 (0.0%) Reads written (passing filters): 116,587 (93.3%) Total basepairs processed: 35,808,605 bp Total written (filtered): 32,295,594 bp (90.2%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 116588 times. No. of allowed errors: 0-4 bp: 0; 5-9 bp: 1; 10-14 bp: 2; 15-17 bp: 3 Overview of removed sequences length count expect max.err error counts 14 1 0.0 2 0 0 0 1 15 26 0.0 3 0 0 26 16 1082 0.0 3 0 1052 28 2 17 115039 0.0 3 112981 2000 53 5 18 252 0.0 3 29 217 5 1 19 69 0.0 3 1 1 57 10 20 103 0.0 3 42 1 0 60 21 1 0.0 3 0 1 26 1 0.0 3 0 0 0 1 31 3 0.0 3 0 0 0 3 101 2 0.0 3 0 0 0 2 125 1 0.0 3 0 0 0 1 128 1 0.0 3 0 0 0 1 164 1 0.0 3 0 0 0 1 182 2 0.0 3 0 0 0 2 184 1 0.0 3 0 0 0 1 194 1 0.0 3 0 0 0 1 195 1 0.0 3 0 0 0 1 220 1 0.0 3 0 0 0 1 This is cutadapt 1.11 with Python 2.7.12 Command line parameters: -a taatctatgggnncatcagg - Trimming 1 adapter with at most 10.0% errors in single-end mode ... Finished in 5.56 s (48 us/read; 1.26 M reads/minute). === Summary === Total reads processed: 116,587 Reads with adapters: 29,570 (25.4%) Reads written (passing filters): 116,587 (100.0%) Total basepairs processed: 32,295,594 bp Total written (filtered): 32,206,816 bp (99.7%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 29570 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 2.7% C: 94.7% G: 1.7% T: 0.9% none/other: 0.0% WARNING: The adapter is preceded by "C" extremely often. The provided adapter sequence may be incomplete. To fix the problem, add "C" to the beginning of the adapter sequence. Overview of removed sequences length count expect max.err error counts 3 29509 1821.7 0 29509 4 57 455.4 0 57 5 3 113.9 0 3 8 1 1.8 0 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.