This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TCGACG -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 95.97 s (30 us/read; 2.00 M reads/minute). === Summary === Total reads processed: 3,193,041 Reads with adapters: 221,358 (6.9%) Reads that were too short: 4,523 (0.1%) Reads written (passing filters): 216,835 (6.8%) Total basepairs processed: 961,105,341 bp Total written (filtered): 62,538,010 bp (6.5%) === Adapter 1 === Sequence: TCGACG; Type: regular 5'; Length: 6; Trimmed: 221358 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1939 779.6 0 1939 7 4584 779.6 0 4584 8 197027 779.6 0 197027 9 3842 779.6 0 3842 10 45 779.6 0 45 11 185 779.6 0 185 12 23 779.6 0 23 13 18 779.6 0 18 14 11 779.6 0 11 15 15 779.6 0 15 16 14 779.6 0 14 17 11 779.6 0 11 18 24 779.6 0 24 19 17 779.6 0 17 20 6 779.6 0 6 21 12 779.6 0 12 22 11 779.6 0 11 23 9 779.6 0 9 24 10 779.6 0 10 25 15 779.6 0 15 26 13 779.6 0 13 27 14 779.6 0 14 28 16 779.6 0 16 29 8 779.6 0 8 30 17 779.6 0 17 31 13 779.6 0 13 32 13 779.6 0 13 33 13 779.6 0 13 34 10 779.6 0 10 35 11 779.6 0 11 36 15 779.6 0 15 37 8 779.6 0 8 38 15 779.6 0 15 39 12 779.6 0 12 40 18 779.6 0 18 41 15 779.6 0 15 42 37 779.6 0 37 43 10 779.6 0 10 44 9 779.6 0 9 45 12 779.6 0 12 46 16 779.6 0 16 47 23 779.6 0 23 48 13 779.6 0 13 49 278 779.6 0 278 50 18 779.6 0 18 51 3 779.6 0 3 52 8 779.6 0 8 53 13 779.6 0 13 54 12 779.6 0 12 55 14 779.6 0 14 56 10 779.6 0 10 57 10 779.6 0 10 58 34 779.6 0 34 59 27 779.6 0 27 60 42 779.6 0 42 61 29 779.6 0 29 62 21 779.6 0 21 63 6 779.6 0 6 64 28 779.6 0 28 65 4 779.6 0 4 66 110 779.6 0 110 67 20 779.6 0 20 68 42 779.6 0 42 69 8 779.6 0 8 70 9 779.6 0 9 71 6 779.6 0 6 72 32 779.6 0 32 73 8 779.6 0 8 74 7 779.6 0 7 75 6 779.6 0 6 76 8 779.6 0 8 77 8 779.6 0 8 78 8 779.6 0 8 79 13 779.6 0 13 80 7 779.6 0 7 81 6 779.6 0 6 82 39 779.6 0 39 83 26 779.6 0 26 84 18 779.6 0 18 85 38 779.6 0 38 86 18 779.6 0 18 87 18 779.6 0 18 88 4 779.6 0 4 89 14 779.6 0 14 90 14 779.6 0 14 91 64 779.6 0 64 92 29 779.6 0 29 93 31 779.6 0 31 94 28 779.6 0 28 95 20 779.6 0 20 96 10 779.6 0 10 97 75 779.6 0 75 98 122 779.6 0 122 99 13 779.6 0 13 100 12 779.6 0 12 101 13 779.6 0 13 102 10 779.6 0 10 103 15 779.6 0 15 104 126 779.6 0 126 105 10 779.6 0 10 106 13 779.6 0 13 107 47 779.6 0 47 108 37 779.6 0 37 109 18 779.6 0 18 110 21 779.6 0 21 111 140 779.6 0 140 112 71 779.6 0 71 113 187 779.6 0 187 114 49 779.6 0 49 115 84 779.6 0 84 116 119 779.6 0 119 117 1315 779.6 0 1315 118 1026 779.6 0 1026 119 1370 779.6 0 1370 120 40 779.6 0 40 121 14 779.6 0 14 122 17 779.6 0 17 123 14 779.6 0 14 124 12 779.6 0 12 125 21 779.6 0 21 126 11 779.6 0 11 127 16 779.6 0 16 128 44 779.6 0 44 129 13 779.6 0 13 130 12 779.6 0 12 131 19 779.6 0 19 132 12 779.6 0 12 133 28 779.6 0 28 134 56 779.6 0 56 135 18 779.6 0 18 136 12 779.6 0 12 137 14 779.6 0 14 138 18 779.6 0 18 139 19 779.6 0 19 140 17 779.6 0 17 141 13 779.6 0 13 142 14 779.6 0 14 143 23 779.6 0 23 144 26 779.6 0 26 145 28 779.6 0 28 146 35 779.6 0 35 147 32 779.6 0 32 148 26 779.6 0 26 149 30 779.6 0 30 150 33 779.6 0 33 151 171 779.6 0 171 152 228 779.6 0 228 153 305 779.6 0 305 154 47 779.6 0 47 155 17 779.6 0 17 156 92 779.6 0 92 157 21 779.6 0 21 158 17 779.6 0 17 159 15 779.6 0 15 160 17 779.6 0 17 161 18 779.6 0 18 162 36 779.6 0 36 163 37 779.6 0 37 164 28 779.6 0 28 165 21 779.6 0 21 166 23 779.6 0 23 167 14 779.6 0 14 168 17 779.6 0 17 169 13 779.6 0 13 170 25 779.6 0 25 171 39 779.6 0 39 172 10 779.6 0 10 173 14 779.6 0 14 174 10 779.6 0 10 175 10 779.6 0 10 176 11 779.6 0 11 177 25 779.6 0 25 178 7 779.6 0 7 179 19 779.6 0 19 180 115 779.6 0 115 181 50 779.6 0 50 182 68 779.6 0 68 183 23 779.6 0 23 184 44 779.6 0 44 185 17 779.6 0 17 186 14 779.6 0 14 187 15 779.6 0 15 188 13 779.6 0 13 189 17 779.6 0 17 190 22 779.6 0 22 191 11 779.6 0 11 192 24 779.6 0 24 193 13 779.6 0 13 194 4 779.6 0 4 195 35 779.6 0 35 196 21 779.6 0 21 197 9 779.6 0 9 198 8 779.6 0 8 199 9 779.6 0 9 200 18 779.6 0 18 201 23 779.6 0 23 202 9 779.6 0 9 203 7 779.6 0 7 204 11 779.6 0 11 205 9 779.6 0 9 206 13 779.6 0 13 207 16 779.6 0 16 208 31 779.6 0 31 209 10 779.6 0 10 210 31 779.6 0 31 211 50 779.6 0 50 212 21 779.6 0 21 213 23 779.6 0 23 214 29 779.6 0 29 215 21 779.6 0 21 216 36 779.6 0 36 217 51 779.6 0 51 218 62 779.6 0 62 219 168 779.6 0 168 220 107 779.6 0 107 221 53 779.6 0 53 222 22 779.6 0 22 223 12 779.6 0 12 224 15 779.6 0 15 225 38 779.6 0 38 226 56 779.6 0 56 227 33 779.6 0 33 228 35 779.6 0 35 229 40 779.6 0 40 230 34 779.6 0 34 231 76 779.6 0 76 232 229 779.6 0 229 233 307 779.6 0 307 234 43 779.6 0 43 235 26 779.6 0 26 236 60 779.6 0 60 237 58 779.6 0 58 238 50 779.6 0 50 239 40 779.6 0 40 240 25 779.6 0 25 241 20 779.6 0 20 242 19 779.6 0 19 243 21 779.6 0 21 244 20 779.6 0 20 245 30 779.6 0 30 246 61 779.6 0 61 247 56 779.6 0 56 248 67 779.6 0 67 249 61 779.6 0 61 250 108 779.6 0 108 251 46 779.6 0 46 252 45 779.6 0 45 253 66 779.6 0 66 254 79 779.6 0 79 255 145 779.6 0 145 256 268 779.6 0 268 257 31 779.6 0 31 258 25 779.6 0 25 259 24 779.6 0 24 260 14 779.6 0 14 261 19 779.6 0 19 262 15 779.6 0 15 263 18 779.6 0 18 264 25 779.6 0 25 265 25 779.6 0 25 266 19 779.6 0 19 267 15 779.6 0 15 268 37 779.6 0 37 269 42 779.6 0 42 270 37 779.6 0 37 271 19 779.6 0 19 272 19 779.6 0 19 273 13 779.6 0 13 274 21 779.6 0 21 275 13 779.6 0 13 276 24 779.6 0 24 277 26 779.6 0 26 278 22 779.6 0 22 279 21 779.6 0 21 280 47 779.6 0 47 281 52 779.6 0 52 282 185 779.6 0 185 283 113 779.6 0 113 284 62 779.6 0 62 285 17 779.6 0 17 286 21 779.6 0 21 287 16 779.6 0 16 288 30 779.6 0 30 289 26 779.6 0 26 290 60 779.6 0 60 291 46 779.6 0 46 292 16 779.6 0 16 293 28 779.6 0 28 294 29 779.6 0 29 295 47 779.6 0 47 296 29 779.6 0 29 297 27 779.6 0 27 298 17 779.6 0 17 299 14 779.6 0 14 300 41 779.6 0 41 301 7 779.6 0 7 Finished in 12.79 s (59 us/read; 1.02 M reads/minute). === Summary === Total reads processed: 216,835 Reads with adapters: 3,991 (1.8%) Reads that were too short: 58 (0.0%) Reads written (passing filters): 3,933 (1.8%) Total basepairs processed: 62,538,010 bp Total written (filtered): 1,060,133 bp (1.7%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 3991 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 1 0.0 3 0 0 0 0 1 18 3 0.0 3 0 0 2 1 19 49 0.0 3 0 47 2 20 3781 0.0 4 3645 114 15 5 2 21 9 0.0 4 3 6 22 3 0.0 4 0 0 1 1 1 23 9 0.0 4 1 1 1 5 1 28 1 0.0 4 0 0 0 0 1 49 1 0.0 4 0 0 0 0 1 53 1 0.0 4 0 1 73 1 0.0 4 1 92 1 0.0 4 0 0 0 0 1 114 1 0.0 4 0 0 0 0 1 126 4 0.0 4 0 0 0 0 4 127 3 0.0 4 0 0 0 0 3 130 1 0.0 4 0 0 0 0 1 133 1 0.0 4 0 0 0 0 1 136 1 0.0 4 0 0 0 0 1 150 1 0.0 4 0 0 0 0 1 152 1 0.0 4 0 0 0 0 1 153 66 0.0 4 0 0 0 0 66 155 1 0.0 4 0 0 0 0 1 183 2 0.0 4 0 0 0 0 2 207 1 0.0 4 0 0 0 0 1 208 3 0.0 4 0 0 0 0 3 224 2 0.0 4 0 0 0 0 2 225 3 0.0 4 0 0 0 0 3 228 2 0.0 4 0 0 0 0 2 233 3 0.0 4 0 0 0 0 3 234 1 0.0 4 0 0 0 0 1 235 1 0.0 4 0 0 0 0 1 237 1 0.0 4 0 0 0 0 1 256 4 0.0 4 0 0 0 1 3 257 5 0.0 4 0 0 0 0 5 258 5 0.0 4 0 0 0 0 5 282 2 0.0 4 0 0 0 0 2 286 1 0.0 4 0 0 0 0 1 287 10 0.0 4 0 0 0 1 9 289 2 0.0 4 0 0 0 0 2 292 1 0.0 4 0 0 0 0 1 293 2 0.0 4 0 0 0 0 2 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 0.15 s (38 us/read; 1.57 M reads/minute). === Summary === Total reads processed: 3,933 Reads with adapters: 168 (4.3%) Reads written (passing filters): 3,933 (100.0%) Total basepairs processed: 1,060,133 bp Total written (filtered): 1,057,796 bp (99.8%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 168 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 7.1% C: 1.8% G: 88.1% T: 3.0% 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 10 105 0.0 1 4 101 11 58 0.0 1 0 58 12 1 0.0 1 0 1 13 1 0.0 1 0 1 208 3 0.0 1 3 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.