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 70.43 s (26 us/read; 2.31 M reads/minute). === Summary === Total reads processed: 2,708,680 Reads with adapters: 43,024 (1.6%) Reads that were too short: 22,330 (0.8%) Reads written (passing filters): 20,694 (0.8%) Total basepairs processed: 815,312,680 bp Total written (filtered): 4,494,777 bp (0.6%) === Adapter 1 === Sequence: AGACCG; Type: regular 5'; Length: 6; Trimmed: 43024 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 218 661.3 0 218 7 8489 661.3 0 8489 8 27 661.3 0 27 9 10 661.3 0 10 10 7 661.3 0 7 11 13 661.3 0 13 12 19 661.3 0 19 13 13 661.3 0 13 14 13 661.3 0 13 15 11 661.3 0 11 16 13 661.3 0 13 17 11 661.3 0 11 18 17 661.3 0 17 19 9 661.3 0 9 20 12 661.3 0 12 21 15 661.3 0 15 22 14 661.3 0 14 23 8 661.3 0 8 24 11 661.3 0 11 25 13 661.3 0 13 26 9 661.3 0 9 27 10 661.3 0 10 28 15 661.3 0 15 29 15 661.3 0 15 30 6 661.3 0 6 31 15 661.3 0 15 32 45 661.3 0 45 33 12 661.3 0 12 34 19 661.3 0 19 35 26 661.3 0 26 36 9 661.3 0 9 37 19 661.3 0 19 38 10 661.3 0 10 39 17 661.3 0 17 40 13 661.3 0 13 41 17 661.3 0 17 42 13 661.3 0 13 43 10 661.3 0 10 44 21 661.3 0 21 45 18 661.3 0 18 46 17 661.3 0 17 47 10 661.3 0 10 48 9 661.3 0 9 49 9 661.3 0 9 50 9 661.3 0 9 51 14 661.3 0 14 52 22 661.3 0 22 53 15 661.3 0 15 54 21 661.3 0 21 55 28 661.3 0 28 56 23 661.3 0 23 57 11 661.3 0 11 58 6 661.3 0 6 59 15 661.3 0 15 60 14 661.3 0 14 61 15 661.3 0 15 62 14 661.3 0 14 63 36 661.3 0 36 64 13 661.3 0 13 65 18 661.3 0 18 66 15 661.3 0 15 67 23 661.3 0 23 68 26 661.3 0 26 69 258 661.3 0 258 70 37 661.3 0 37 71 64 661.3 0 64 72 41 661.3 0 41 73 41 661.3 0 41 74 247 661.3 0 247 75 32 661.3 0 32 76 142 661.3 0 142 77 17 661.3 0 17 78 17 661.3 0 17 79 22 661.3 0 22 80 29 661.3 0 29 81 67 661.3 0 67 82 189 661.3 0 189 83 158 661.3 0 158 84 510 661.3 0 510 85 26 661.3 0 26 86 20 661.3 0 20 87 19 661.3 0 19 88 28 661.3 0 28 89 25 661.3 0 25 90 21 661.3 0 21 91 14 661.3 0 14 92 46 661.3 0 46 93 57 661.3 0 57 94 27 661.3 0 27 95 19 661.3 0 19 96 26 661.3 0 26 97 28 661.3 0 28 98 28 661.3 0 28 99 22 661.3 0 22 100 28 661.3 0 28 101 41 661.3 0 41 102 24 661.3 0 24 103 26 661.3 0 26 104 21 661.3 0 21 105 9 661.3 0 9 106 26 661.3 0 26 107 14 661.3 0 14 108 14 661.3 0 14 109 28 661.3 0 28 110 26 661.3 0 26 111 20 661.3 0 20 112 30 661.3 0 30 113 22 661.3 0 22 114 25 661.3 0 25 115 25 661.3 0 25 116 26 661.3 0 26 117 35 661.3 0 35 118 50 661.3 0 50 119 45 661.3 0 45 120 37 661.3 0 37 121 44 661.3 0 44 122 55 661.3 0 55 123 89 661.3 0 89 124 33 661.3 0 33 125 43 661.3 0 43 126 52 661.3 0 52 127 88 661.3 0 88 128 71 661.3 0 71 129 40 661.3 0 40 130 37 661.3 0 37 131 43 661.3 0 43 132 67 661.3 0 67 133 59 661.3 0 59 134 44 661.3 0 44 135 49 661.3 0 49 136 34 661.3 0 34 137 60 661.3 0 60 138 51 661.3 0 51 139 93 661.3 0 93 140 52 661.3 0 52 141 30 661.3 0 30 142 48 661.3 0 48 143 50 661.3 0 50 144 65 661.3 0 65 145 49 661.3 0 49 146 43 661.3 0 43 147 46 661.3 0 46 148 46 661.3 0 46 149 57 661.3 0 57 150 51 661.3 0 51 151 53 661.3 0 53 152 69 661.3 0 69 153 64 661.3 0 64 154 74 661.3 0 74 155 71 661.3 0 71 156 56 661.3 0 56 157 68 661.3 0 68 158 41 661.3 0 41 159 59 661.3 0 59 160 51 661.3 0 51 161 50 661.3 0 50 162 72 661.3 0 72 163 92 661.3 0 92 164 93 661.3 0 93 165 82 661.3 0 82 166 111 661.3 0 111 167 490 661.3 0 490 168 228 661.3 0 228 169 631 661.3 0 631 170 93 661.3 0 93 171 585 661.3 0 585 172 243 661.3 0 243 173 198 661.3 0 198 174 93 661.3 0 93 175 71 661.3 0 71 176 61 661.3 0 61 177 55 661.3 0 55 178 72 661.3 0 72 179 81 661.3 0 81 180 67 661.3 0 67 181 80 661.3 0 80 182 72 661.3 0 72 183 99 661.3 0 99 184 125 661.3 0 125 185 62 661.3 0 62 186 68 661.3 0 68 187 60 661.3 0 60 188 88 661.3 0 88 189 196 661.3 0 196 190 112 661.3 0 112 191 90 661.3 0 90 192 65 661.3 0 65 193 52 661.3 0 52 194 73 661.3 0 73 195 71 661.3 0 71 196 105 661.3 0 105 197 63 661.3 0 63 198 94 661.3 0 94 199 91 661.3 0 91 200 227 661.3 0 227 201 644 661.3 0 644 202 275 661.3 0 275 203 136 661.3 0 136 204 79 661.3 0 79 205 94 661.3 0 94 206 87 661.3 0 87 207 78 661.3 0 78 208 81 661.3 0 81 209 69 661.3 0 69 210 71 661.3 0 71 211 104 661.3 0 104 212 77 661.3 0 77 213 91 661.3 0 91 214 96 661.3 0 96 215 117 661.3 0 117 216 141 661.3 0 141 217 111 661.3 0 111 218 96 661.3 0 96 219 97 661.3 0 97 220 86 661.3 0 86 221 81 661.3 0 81 222 111 661.3 0 111 223 119 661.3 0 119 224 141 661.3 0 141 225 197 661.3 0 197 226 264 661.3 0 264 227 845 661.3 0 845 228 4199 661.3 0 4199 229 1509 661.3 0 1509 230 2930 661.3 0 2930 231 189 661.3 0 189 232 88 661.3 0 88 233 97 661.3 0 97 234 88 661.3 0 88 235 75 661.3 0 75 236 94 661.3 0 94 237 69 661.3 0 69 238 84 661.3 0 84 239 94 661.3 0 94 240 84 661.3 0 84 241 68 661.3 0 68 242 72 661.3 0 72 243 130 661.3 0 130 244 115 661.3 0 115 245 97 661.3 0 97 246 83 661.3 0 83 247 102 661.3 0 102 248 55 661.3 0 55 249 77 661.3 0 77 250 133 661.3 0 133 251 168 661.3 0 168 252 99 661.3 0 99 253 91 661.3 0 91 254 92 661.3 0 92 255 138 661.3 0 138 256 239 661.3 0 239 257 246 661.3 0 246 258 467 661.3 0 467 259 112 661.3 0 112 260 100 661.3 0 100 261 168 661.3 0 168 262 271 661.3 0 271 263 329 661.3 0 329 264 184 661.3 0 184 265 191 661.3 0 191 266 92 661.3 0 92 267 87 661.3 0 87 268 215 661.3 0 215 269 695 661.3 0 695 270 1002 661.3 0 1002 271 158 661.3 0 158 272 87 661.3 0 87 273 93 661.3 0 93 274 78 661.3 0 78 275 78 661.3 0 78 276 88 661.3 0 88 277 104 661.3 0 104 278 78 661.3 0 78 279 82 661.3 0 82 280 86 661.3 0 86 281 96 661.3 0 96 282 169 661.3 0 169 283 119 661.3 0 119 284 108 661.3 0 108 285 80 661.3 0 80 286 71 661.3 0 71 287 81 661.3 0 81 288 88 661.3 0 88 289 98 661.3 0 98 290 72 661.3 0 72 291 108 661.3 0 108 292 73 661.3 0 73 293 86 661.3 0 86 294 65 661.3 0 65 295 58 661.3 0 58 296 50 661.3 0 50 297 61 661.3 0 61 298 100 661.3 0 100 299 165 661.3 0 165 300 302 661.3 0 302 301 86 661.3 0 86 Finished in 0.84 s (41 us/read; 1.48 M reads/minute). === Summary === Total reads processed: 20,694 Reads with adapters: 8,647 (41.8%) Reads that were too short: 1 (0.0%) Reads written (passing filters): 8,646 (41.8%) Total basepairs processed: 4,494,777 bp Total written (filtered): 2,394,731 bp (53.3%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 8647 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 15 1 0.0 3 0 0 1 16 91 0.0 3 0 88 1 2 17 8505 0.0 3 8407 96 1 1 18 28 0.0 3 1 23 2 2 19 10 0.0 3 0 0 6 4 20 6 0.0 3 0 0 0 6 24 1 0.0 3 0 0 0 1 28 1 0.0 3 0 0 0 1 40 1 0.0 3 1 52 1 0.0 3 0 0 0 1 61 1 0.0 3 0 0 0 1 89 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 0.30 s (35 us/read; 1.73 M reads/minute). === Summary === Total reads processed: 8,646 Reads with adapters: 916 (10.6%) Reads written (passing filters): 8,646 (100.0%) Total basepairs processed: 2,394,731 bp Total written (filtered): 2,391,971 bp (99.9%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 916 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 13.1% C: 81.8% G: 3.3% T: 1.9% 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 3 907 135.1 0 907 4 6 33.8 0 6 5 3 8.4 0 3 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.