This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g GGTCGA -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 73.99 s (25 us/read; 2.37 M reads/minute). === Summary === Total reads processed: 2,926,947 Reads with adapters: 49,338 (1.7%) Reads that were too short: 4,373 (0.1%) Reads written (passing filters): 44,965 (1.5%) Total basepairs processed: 881,011,047 bp Total written (filtered): 11,837,758 bp (1.3%) === Adapter 1 === Sequence: GGTCGA; Type: regular 5'; Length: 6; Trimmed: 49338 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 2068 714.6 0 2068 7 1570 714.6 0 1570 8 14729 714.6 0 14729 9 10238 714.6 0 10238 10 75 714.6 0 75 11 41 714.6 0 41 12 41 714.6 0 41 13 41 714.6 0 41 14 47 714.6 0 47 15 47 714.6 0 47 16 51 714.6 0 51 17 42 714.6 0 42 18 36 714.6 0 36 19 50 714.6 0 50 20 32 714.6 0 32 21 38 714.6 0 38 22 50 714.6 0 50 23 38 714.6 0 38 24 27 714.6 0 27 25 38 714.6 0 38 26 38 714.6 0 38 27 37 714.6 0 37 28 44 714.6 0 44 29 46 714.6 0 46 30 38 714.6 0 38 31 35 714.6 0 35 32 40 714.6 0 40 33 42 714.6 0 42 34 110 714.6 0 110 35 61 714.6 0 61 36 36 714.6 0 36 37 51 714.6 0 51 38 63 714.6 0 63 39 32 714.6 0 32 40 44 714.6 0 44 41 39 714.6 0 39 42 42 714.6 0 42 43 46 714.6 0 46 44 51 714.6 0 51 45 23 714.6 0 23 46 65 714.6 0 65 47 5098 714.6 0 5098 48 808 714.6 0 808 49 134 714.6 0 134 50 257 714.6 0 257 51 34 714.6 0 34 52 26 714.6 0 26 53 26 714.6 0 26 54 34 714.6 0 34 55 44 714.6 0 44 56 24 714.6 0 24 57 20 714.6 0 20 58 36 714.6 0 36 59 30 714.6 0 30 60 30 714.6 0 30 61 27 714.6 0 27 62 23 714.6 0 23 63 23 714.6 0 23 64 27 714.6 0 27 65 36 714.6 0 36 66 23 714.6 0 23 67 26 714.6 0 26 68 37 714.6 0 37 69 19 714.6 0 19 70 22 714.6 0 22 71 27 714.6 0 27 72 21 714.6 0 21 73 20 714.6 0 20 74 19 714.6 0 19 75 18 714.6 0 18 76 28 714.6 0 28 77 31 714.6 0 31 78 28 714.6 0 28 79 24 714.6 0 24 80 34 714.6 0 34 81 47 714.6 0 47 82 59 714.6 0 59 83 64 714.6 0 64 84 72 714.6 0 72 85 75 714.6 0 75 86 40 714.6 0 40 87 80 714.6 0 80 88 56 714.6 0 56 89 49 714.6 0 49 90 54 714.6 0 54 91 41 714.6 0 41 92 34 714.6 0 34 93 37 714.6 0 37 94 42 714.6 0 42 95 58 714.6 0 58 96 165 714.6 0 165 97 75 714.6 0 75 98 56 714.6 0 56 99 34 714.6 0 34 100 40 714.6 0 40 101 34 714.6 0 34 102 58 714.6 0 58 103 97 714.6 0 97 104 69 714.6 0 69 105 66 714.6 0 66 106 20 714.6 0 20 107 14 714.6 0 14 108 16 714.6 0 16 109 18 714.6 0 18 110 22 714.6 0 22 111 32 714.6 0 32 112 29 714.6 0 29 113 38 714.6 0 38 114 64 714.6 0 64 115 34 714.6 0 34 116 24 714.6 0 24 117 36 714.6 0 36 118 56 714.6 0 56 119 49 714.6 0 49 120 40 714.6 0 40 121 33 714.6 0 33 122 26 714.6 0 26 123 28 714.6 0 28 124 32 714.6 0 32 125 24 714.6 0 24 126 30 714.6 0 30 127 49 714.6 0 49 128 51 714.6 0 51 129 37 714.6 0 37 130 21 714.6 0 21 131 31 714.6 0 31 132 49 714.6 0 49 133 59 714.6 0 59 134 34 714.6 0 34 135 31 714.6 0 31 136 47 714.6 0 47 137 40 714.6 0 40 138 40 714.6 0 40 139 37 714.6 0 37 140 60 714.6 0 60 141 43 714.6 0 43 142 44 714.6 0 44 143 51 714.6 0 51 144 63 714.6 0 63 145 77 714.6 0 77 146 562 714.6 0 562 147 1937 714.6 0 1937 148 113 714.6 0 113 149 41 714.6 0 41 150 39 714.6 0 39 151 25 714.6 0 25 152 17 714.6 0 17 153 23 714.6 0 23 154 25 714.6 0 25 155 20 714.6 0 20 156 24 714.6 0 24 157 22 714.6 0 22 158 36 714.6 0 36 159 33 714.6 0 33 160 32 714.6 0 32 161 24 714.6 0 24 162 22 714.6 0 22 163 24 714.6 0 24 164 21 714.6 0 21 165 26 714.6 0 26 166 19 714.6 0 19 167 22 714.6 0 22 168 43 714.6 0 43 169 23 714.6 0 23 170 39 714.6 0 39 171 20 714.6 0 20 172 23 714.6 0 23 173 30 714.6 0 30 174 15 714.6 0 15 175 23 714.6 0 23 176 32 714.6 0 32 177 40 714.6 0 40 178 42 714.6 0 42 179 35 714.6 0 35 180 33 714.6 0 33 181 51 714.6 0 51 182 35 714.6 0 35 183 34 714.6 0 34 184 29 714.6 0 29 185 33 714.6 0 33 186 37 714.6 0 37 187 32 714.6 0 32 188 25 714.6 0 25 189 27 714.6 0 27 190 30 714.6 0 30 191 31 714.6 0 31 192 41 714.6 0 41 193 68 714.6 0 68 194 40 714.6 0 40 195 137 714.6 0 137 196 156 714.6 0 156 197 98 714.6 0 98 198 53 714.6 0 53 199 30 714.6 0 30 200 30 714.6 0 30 201 16 714.6 0 16 202 18 714.6 0 18 203 15 714.6 0 15 204 21 714.6 0 21 205 24 714.6 0 24 206 41 714.6 0 41 207 34 714.6 0 34 208 32 714.6 0 32 209 20 714.6 0 20 210 27 714.6 0 27 211 29 714.6 0 29 212 29 714.6 0 29 213 59 714.6 0 59 214 100 714.6 0 100 215 55 714.6 0 55 216 49 714.6 0 49 217 39 714.6 0 39 218 54 714.6 0 54 219 60 714.6 0 60 220 24 714.6 0 24 221 31 714.6 0 31 222 38 714.6 0 38 223 24 714.6 0 24 224 32 714.6 0 32 225 48 714.6 0 48 226 37 714.6 0 37 227 46 714.6 0 46 228 28 714.6 0 28 229 42 714.6 0 42 230 31 714.6 0 31 231 48 714.6 0 48 232 19 714.6 0 19 233 22 714.6 0 22 234 30 714.6 0 30 235 52 714.6 0 52 236 72 714.6 0 72 237 46 714.6 0 46 238 61 714.6 0 61 239 64 714.6 0 64 240 42 714.6 0 42 241 25 714.6 0 25 242 20 714.6 0 20 243 49 714.6 0 49 244 80 714.6 0 80 245 117 714.6 0 117 246 95 714.6 0 95 247 174 714.6 0 174 248 45 714.6 0 45 249 10 714.6 0 10 250 20 714.6 0 20 251 8 714.6 0 8 252 26 714.6 0 26 253 30 714.6 0 30 254 49 714.6 0 49 255 49 714.6 0 49 256 75 714.6 0 75 257 67 714.6 0 67 258 39 714.6 0 39 259 44 714.6 0 44 260 91 714.6 0 91 261 19 714.6 0 19 262 25 714.6 0 25 263 31 714.6 0 31 264 26 714.6 0 26 265 34 714.6 0 34 266 42 714.6 0 42 267 46 714.6 0 46 268 41 714.6 0 41 269 22 714.6 0 22 270 23 714.6 0 23 271 18 714.6 0 18 272 19 714.6 0 19 273 24 714.6 0 24 274 27 714.6 0 27 275 27 714.6 0 27 276 14 714.6 0 14 277 16 714.6 0 16 278 23 714.6 0 23 279 82 714.6 0 82 280 55 714.6 0 55 281 57 714.6 0 57 282 42 714.6 0 42 283 27 714.6 0 27 284 55 714.6 0 55 285 97 714.6 0 97 286 75 714.6 0 75 287 100 714.6 0 100 288 70 714.6 0 70 289 33 714.6 0 33 290 28 714.6 0 28 291 39 714.6 0 39 292 46 714.6 0 46 293 77 714.6 0 77 294 37 714.6 0 37 295 33 714.6 0 33 296 36 714.6 0 36 297 35 714.6 0 35 298 136 714.6 0 136 299 23 714.6 0 23 300 27 714.6 0 27 301 30 714.6 0 30 Finished in 2.38 s (53 us/read; 1.13 M reads/minute). === Summary === Total reads processed: 44,965 Reads with adapters: 12,081 (26.9%) Reads that were too short: 13 (0.0%) Reads written (passing filters): 12,068 (26.8%) Total basepairs processed: 11,837,758 bp Total written (filtered): 3,279,901 bp (27.7%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 12081 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 9 0.0 3 0 0 7 1 1 19 140 0.0 3 0 130 5 2 3 20 10644 0.0 4 9915 621 76 25 7 21 39 0.0 4 5 29 4 1 22 1185 0.0 4 1115 54 13 2 1 23 13 0.0 4 1 3 0 9 24 1 0.0 4 0 0 0 0 1 28 1 0.0 4 0 0 0 0 1 49 1 0.0 4 0 0 0 0 1 50 1 0.0 4 0 0 0 0 1 58 1 0.0 4 0 0 0 0 1 72 1 0.0 4 0 0 0 0 1 86 1 0.0 4 0 0 0 0 1 91 1 0.0 4 0 0 0 0 1 94 1 0.0 4 0 0 0 0 1 109 3 0.0 4 0 0 0 2 1 111 1 0.0 4 0 0 0 0 1 112 1 0.0 4 0 0 0 0 1 127 24 0.0 4 0 0 0 0 24 128 1 0.0 4 0 0 0 0 1 139 1 0.0 4 0 0 0 0 1 187 1 0.0 4 0 0 0 0 1 203 1 0.0 4 0 0 0 0 1 217 1 0.0 4 0 0 0 0 1 228 2 0.0 4 0 0 0 0 2 243 1 0.0 4 0 0 0 0 1 255 1 0.0 4 0 0 0 0 1 270 2 0.0 4 0 0 0 0 2 282 1 0.0 4 0 0 0 0 1 292 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 0.42 s (35 us/read; 1.72 M reads/minute). === Summary === Total reads processed: 12,068 Reads with adapters: 826 (6.8%) Reads written (passing filters): 12,068 (100.0%) Total basepairs processed: 3,279,901 bp Total written (filtered): 3,263,701 bp (99.5%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 826 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 9.6% C: 4.1% G: 84.3% T: 2.1% none/other: 0.0% 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 9 99 0.0 0 9 90 10 286 0.0 1 14 272 11 409 0.0 1 0 409 14 1 0.0 1 0 1 208 1 0.0 1 0 1 256 1 0.0 1 1 257 24 0.0 1 24 258 3 0.0 1 3 260 1 0.0 1 1 270 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.