This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CGTGCG -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 99.94 s (31 us/read; 1.92 M reads/minute). === Summary === Total reads processed: 3,193,041 Reads with adapters: 214,459 (6.7%) Reads that were too short: 123,946 (3.9%) Reads written (passing filters): 90,513 (2.8%) Total basepairs processed: 961,105,341 bp Total written (filtered): 25,024,727 bp (2.6%) === Adapter 1 === Sequence: CGTGCG; Type: regular 5'; Length: 6; Trimmed: 214459 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 2129 779.6 0 2129 7 3828 779.6 0 3828 8 63294 779.6 0 63294 9 89 779.6 0 89 10 16 779.6 0 16 11 17 779.6 0 17 12 15 779.6 0 15 13 8 779.6 0 8 14 10 779.6 0 10 15 19 779.6 0 19 16 13 779.6 0 13 17 11 779.6 0 11 18 13 779.6 0 13 19 24 779.6 0 24 20 91 779.6 0 91 21 24 779.6 0 24 22 16 779.6 0 16 23 10 779.6 0 10 24 16 779.6 0 16 25 5 779.6 0 5 26 8 779.6 0 8 27 16 779.6 0 16 28 12 779.6 0 12 29 11 779.6 0 11 30 6 779.6 0 6 31 15 779.6 0 15 32 8 779.6 0 8 33 17 779.6 0 17 34 13 779.6 0 13 35 11 779.6 0 11 36 14 779.6 0 14 37 11 779.6 0 11 38 10 779.6 0 10 39 7 779.6 0 7 40 9 779.6 0 9 41 9 779.6 0 9 42 16 779.6 0 16 43 13 779.6 0 13 44 8 779.6 0 8 45 18 779.6 0 18 46 19 779.6 0 19 47 12 779.6 0 12 48 11 779.6 0 11 49 22 779.6 0 22 50 72 779.6 0 72 51 48 779.6 0 48 52 25 779.6 0 25 53 22 779.6 0 22 54 15 779.6 0 15 55 29 779.6 0 29 56 46 779.6 0 46 57 39 779.6 0 39 58 33 779.6 0 33 59 26 779.6 0 26 60 98 779.6 0 98 61 117 779.6 0 117 62 280 779.6 0 280 63 45 779.6 0 45 64 84 779.6 0 84 65 107 779.6 0 107 66 55 779.6 0 55 67 46 779.6 0 46 68 73 779.6 0 73 69 58 779.6 0 58 70 95 779.6 0 95 71 81 779.6 0 81 72 107 779.6 0 107 73 139 779.6 0 139 74 262 779.6 0 262 75 3981 779.6 0 3981 76 4704 779.6 0 4704 77 8274 779.6 0 8274 78 61 779.6 0 61 79 15 779.6 0 15 80 26 779.6 0 26 81 11 779.6 0 11 82 12 779.6 0 12 83 16 779.6 0 16 84 3 779.6 0 3 85 8 779.6 0 8 86 4 779.6 0 4 87 3 779.6 0 3 88 6 779.6 0 6 89 8 779.6 0 8 90 6 779.6 0 6 91 15 779.6 0 15 92 5 779.6 0 5 93 3 779.6 0 3 94 8 779.6 0 8 95 13 779.6 0 13 96 8 779.6 0 8 97 4 779.6 0 4 98 7 779.6 0 7 99 10 779.6 0 10 100 5 779.6 0 5 101 8 779.6 0 8 102 6 779.6 0 6 103 8 779.6 0 8 104 4 779.6 0 4 105 7 779.6 0 7 106 10 779.6 0 10 107 5 779.6 0 5 108 2 779.6 0 2 109 5 779.6 0 5 110 6 779.6 0 6 111 7 779.6 0 7 112 8 779.6 0 8 113 8 779.6 0 8 114 10 779.6 0 10 115 8 779.6 0 8 116 9 779.6 0 9 117 6 779.6 0 6 118 3 779.6 0 3 119 7 779.6 0 7 120 7 779.6 0 7 121 10 779.6 0 10 122 9 779.6 0 9 123 11 779.6 0 11 124 8 779.6 0 8 125 37 779.6 0 37 126 13 779.6 0 13 127 65 779.6 0 65 128 17 779.6 0 17 129 10 779.6 0 10 130 6 779.6 0 6 131 4 779.6 0 4 132 14 779.6 0 14 133 1 779.6 0 1 134 17 779.6 0 17 135 22 779.6 0 22 136 16 779.6 0 16 137 26 779.6 0 26 138 19 779.6 0 19 139 6 779.6 0 6 140 14 779.6 0 14 141 7 779.6 0 7 142 6 779.6 0 6 143 12 779.6 0 12 144 24 779.6 0 24 145 44 779.6 0 44 146 146 779.6 0 146 147 8 779.6 0 8 148 6 779.6 0 6 149 3 779.6 0 3 150 7 779.6 0 7 151 5 779.6 0 5 152 2 779.6 0 2 153 4 779.6 0 4 154 5 779.6 0 5 155 7 779.6 0 7 156 9 779.6 0 9 157 5 779.6 0 5 158 10 779.6 0 10 159 4 779.6 0 4 160 5 779.6 0 5 161 7 779.6 0 7 162 12 779.6 0 12 163 7 779.6 0 7 164 8 779.6 0 8 165 10 779.6 0 10 166 6 779.6 0 6 167 13 779.6 0 13 168 24 779.6 0 24 169 7 779.6 0 7 170 5 779.6 0 5 171 4 779.6 0 4 172 16 779.6 0 16 173 8 779.6 0 8 174 2 779.6 0 2 175 4 779.6 0 4 176 8 779.6 0 8 177 11 779.6 0 11 178 7 779.6 0 7 179 6 779.6 0 6 180 7 779.6 0 7 181 10 779.6 0 10 182 4 779.6 0 4 183 10 779.6 0 10 184 5 779.6 0 5 185 10 779.6 0 10 186 5 779.6 0 5 187 7 779.6 0 7 188 15 779.6 0 15 189 36 779.6 0 36 190 8 779.6 0 8 191 15 779.6 0 15 192 23 779.6 0 23 193 45 779.6 0 45 194 24 779.6 0 24 195 15 779.6 0 15 196 12 779.6 0 12 197 56 779.6 0 56 198 36 779.6 0 36 199 32 779.6 0 32 200 11 779.6 0 11 201 22 779.6 0 22 202 14 779.6 0 14 203 17 779.6 0 17 204 52 779.6 0 52 205 40 779.6 0 40 206 24 779.6 0 24 207 16 779.6 0 16 208 14 779.6 0 14 209 15 779.6 0 15 210 22 779.6 0 22 211 61 779.6 0 61 212 18 779.6 0 18 213 32 779.6 0 32 214 24 779.6 0 24 215 20 779.6 0 20 216 28 779.6 0 28 217 35 779.6 0 35 218 49 779.6 0 49 219 78 779.6 0 78 220 49 779.6 0 49 221 73 779.6 0 73 222 67 779.6 0 67 223 429 779.6 0 429 224 503 779.6 0 503 225 854 779.6 0 854 226 79 779.6 0 79 227 61 779.6 0 61 228 74 779.6 0 74 229 111 779.6 0 111 230 72 779.6 0 72 231 104 779.6 0 104 232 118 779.6 0 118 233 212 779.6 0 212 234 408 779.6 0 408 235 744 779.6 0 744 236 745 779.6 0 745 237 721 779.6 0 721 238 6254 779.6 0 6254 239 5080 779.6 0 5080 240 14173 779.6 0 14173 241 477 779.6 0 477 242 1252 779.6 0 1252 243 407 779.6 0 407 244 401 779.6 0 401 245 505 779.6 0 505 246 592 779.6 0 592 247 1041 779.6 0 1041 248 9430 779.6 0 9430 249 34537 779.6 0 34537 250 30877 779.6 0 30877 251 4962 779.6 0 4962 252 33 779.6 0 33 253 24 779.6 0 24 254 21 779.6 0 21 255 4 779.6 0 4 256 7 779.6 0 7 258 11 779.6 0 11 259 26 779.6 0 26 260 215 779.6 0 215 261 8 779.6 0 8 262 52 779.6 0 52 263 9 779.6 0 9 264 30 779.6 0 30 265 8 779.6 0 8 266 17 779.6 0 17 267 9 779.6 0 9 268 17 779.6 0 17 269 35 779.6 0 35 270 7 779.6 0 7 271 17 779.6 0 17 272 24 779.6 0 24 273 14 779.6 0 14 274 13 779.6 0 13 275 16 779.6 0 16 276 21 779.6 0 21 277 24 779.6 0 24 278 34 779.6 0 34 279 90 779.6 0 90 280 193 779.6 0 193 281 253 779.6 0 253 282 1696 779.6 0 1696 283 723 779.6 0 723 284 1912 779.6 0 1912 285 82 779.6 0 82 286 18 779.6 0 18 287 25 779.6 0 25 288 17 779.6 0 17 289 11 779.6 0 11 290 16 779.6 0 16 291 21 779.6 0 21 292 13 779.6 0 13 293 20 779.6 0 20 294 104 779.6 0 104 295 365 779.6 0 365 296 584 779.6 0 584 297 552 779.6 0 552 298 26 779.6 0 26 299 65 779.6 0 65 300 301 779.6 0 301 301 192 779.6 0 192 Finished in 4.47 s (49 us/read; 1.21 M reads/minute). === Summary === Total reads processed: 90,513 Reads with adapters: 68,991 (76.2%) Reads that were too short: 7 (0.0%) Reads written (passing filters): 68,984 (76.2%) Total basepairs processed: 25,024,727 bp Total written (filtered): 18,838,364 bp (75.3%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 68991 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 17 6 0.0 3 0 0 0 5 1 18 36 0.0 3 0 0 36 19 1016 0.0 3 0 994 19 1 2 20 66880 0.0 4 65910 932 35 2 1 21 191 0.0 4 35 154 2 22 803 0.0 4 775 11 16 1 23 34 0.0 4 3 2 1 26 2 24 8 0.0 4 5 0 0 0 3 59 8 0.0 4 0 0 0 0 8 85 2 0.0 4 0 0 0 0 2 111 1 0.0 4 0 0 0 0 1 116 1 0.0 4 0 0 0 0 1 140 1 0.0 4 0 0 0 0 1 177 4 0.0 4 0 0 0 0 4 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 2.76 s (40 us/read; 1.50 M reads/minute). === Summary === Total reads processed: 68,984 Reads with adapters: 3,432 (5.0%) Reads written (passing filters): 68,984 (100.0%) Total basepairs processed: 18,838,364 bp Total written (filtered): 18,712,301 bp (99.3%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 3432 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 10.5% C: 0.8% G: 88.0% T: 0.7% none/other: 0.1% 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 9 1077.9 0 9 4 9 269.5 0 9 5 1 67.4 0 1 6 1 16.8 0 1 9 1 0.3 0 0 1 10 110 0.1 1 1 109 11 2939 0.0 1 3 2936 12 2 0.0 1 0 2 14 1 0.0 1 0 1 151 1 0.0 1 0 1 171 1 0.0 1 0 1 190 1 0.0 1 0 1 224 5 0.0 1 5 225 1 0.0 1 1 231 2 0.0 1 2 258 6 0.0 1 6 259 310 0.0 1 292 18 260 27 0.0 1 26 1 261 2 0.0 1 2 268 1 0.0 1 1 273 2 0.0 1 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.