This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CTCTGC -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 70.66 s (26 us/read; 2.30 M reads/minute). === Summary === Total reads processed: 2,708,680 Reads with adapters: 316,731 (11.7%) Reads that were too short: 7,519 (0.3%) Reads written (passing filters): 309,212 (11.4%) Total basepairs processed: 815,312,680 bp Total written (filtered): 57,669,019 bp (7.1%) === Adapter 1 === Sequence: CTCTGC; Type: regular 5'; Length: 6; Trimmed: 316731 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 78 661.3 0 78 7 112 661.3 0 112 8 240 661.3 0 240 9 6073 661.3 0 6073 10 25 661.3 0 25 11 23 661.3 0 23 12 23 661.3 0 23 13 25 661.3 0 25 14 23 661.3 0 23 15 41 661.3 0 41 16 35 661.3 0 35 17 23 661.3 0 23 18 11 661.3 0 11 19 23 661.3 0 23 20 27 661.3 0 27 21 46 661.3 0 46 22 30 661.3 0 30 23 30 661.3 0 30 24 34 661.3 0 34 25 52 661.3 0 52 26 21 661.3 0 21 27 22 661.3 0 22 28 33 661.3 0 33 29 17 661.3 0 17 30 27 661.3 0 27 31 38 661.3 0 38 32 26 661.3 0 26 33 41 661.3 0 41 34 50 661.3 0 50 35 35 661.3 0 35 36 40 661.3 0 40 37 47 661.3 0 47 38 44 661.3 0 44 39 51 661.3 0 51 40 42 661.3 0 42 41 31 661.3 0 31 42 32 661.3 0 32 43 30 661.3 0 30 44 29 661.3 0 29 45 35 661.3 0 35 46 41 661.3 0 41 47 30 661.3 0 30 48 29 661.3 0 29 49 39 661.3 0 39 50 27 661.3 0 27 51 40 661.3 0 40 52 33 661.3 0 33 53 29 661.3 0 29 54 38 661.3 0 38 55 67 661.3 0 67 56 72 661.3 0 72 57 57 661.3 0 57 58 82 661.3 0 82 59 634 661.3 0 634 60 160 661.3 0 160 61 12496 661.3 0 12496 62 101 661.3 0 101 63 34 661.3 0 34 64 38 661.3 0 38 65 59 661.3 0 59 66 54 661.3 0 54 67 45 661.3 0 45 68 35 661.3 0 35 69 29 661.3 0 29 70 40 661.3 0 40 71 33 661.3 0 33 72 49 661.3 0 49 73 38 661.3 0 38 74 34 661.3 0 34 75 39 661.3 0 39 76 47 661.3 0 47 77 331 661.3 0 331 78 79 661.3 0 79 79 58 661.3 0 58 80 38 661.3 0 38 81 36 661.3 0 36 82 40 661.3 0 40 83 52 661.3 0 52 84 91 661.3 0 91 85 61 661.3 0 61 86 79 661.3 0 79 87 279 661.3 0 279 88 49 661.3 0 49 89 30 661.3 0 30 90 39 661.3 0 39 91 37 661.3 0 37 92 129 661.3 0 129 93 162 661.3 0 162 94 287 661.3 0 287 95 82 661.3 0 82 96 197 661.3 0 197 97 620 661.3 0 620 98 151 661.3 0 151 99 365 661.3 0 365 100 227 661.3 0 227 101 289 661.3 0 289 102 530 661.3 0 530 103 137 661.3 0 137 104 160 661.3 0 160 105 88 661.3 0 88 106 169 661.3 0 169 107 330 661.3 0 330 108 707 661.3 0 707 109 672 661.3 0 672 110 1027 661.3 0 1027 111 1583 661.3 0 1583 112 2870 661.3 0 2870 113 9542 661.3 0 9542 114 117780 661.3 0 117780 115 17698 661.3 0 17698 116 83992 661.3 0 83992 117 446 661.3 0 446 118 91 661.3 0 91 119 49 661.3 0 49 120 43 661.3 0 43 121 58 661.3 0 58 122 30 661.3 0 30 123 31 661.3 0 31 124 52 661.3 0 52 125 47 661.3 0 47 126 61 661.3 0 61 127 79 661.3 0 79 128 112 661.3 0 112 129 142 661.3 0 142 130 132 661.3 0 132 131 87 661.3 0 87 132 86 661.3 0 86 133 66 661.3 0 66 134 82 661.3 0 82 135 133 661.3 0 133 136 194 661.3 0 194 137 115 661.3 0 115 138 68 661.3 0 68 139 72 661.3 0 72 140 143 661.3 0 143 141 509 661.3 0 509 142 1050 661.3 0 1050 143 399 661.3 0 399 144 237 661.3 0 237 145 358 661.3 0 358 146 1302 661.3 0 1302 147 16555 661.3 0 16555 148 2584 661.3 0 2584 149 4333 661.3 0 4333 150 152 661.3 0 152 151 199 661.3 0 199 152 534 661.3 0 534 153 6236 661.3 0 6236 154 2314 661.3 0 2314 155 2891 661.3 0 2891 156 322 661.3 0 322 157 172 661.3 0 172 158 146 661.3 0 146 159 30 661.3 0 30 160 53 661.3 0 53 161 44 661.3 0 44 162 81 661.3 0 81 163 55 661.3 0 55 164 59 661.3 0 59 165 49 661.3 0 49 166 63 661.3 0 63 167 63 661.3 0 63 168 122 661.3 0 122 169 456 661.3 0 456 170 228 661.3 0 228 171 217 661.3 0 217 172 35 661.3 0 35 173 36 661.3 0 36 174 23 661.3 0 23 175 41 661.3 0 41 176 70 661.3 0 70 177 35 661.3 0 35 178 58 661.3 0 58 179 48 661.3 0 48 180 44 661.3 0 44 181 131 661.3 0 131 182 95 661.3 0 95 183 136 661.3 0 136 184 85 661.3 0 85 185 96 661.3 0 96 186 84 661.3 0 84 187 58 661.3 0 58 188 45 661.3 0 45 189 48 661.3 0 48 190 38 661.3 0 38 191 29 661.3 0 29 192 57 661.3 0 57 193 46 661.3 0 46 194 38 661.3 0 38 195 37 661.3 0 37 196 24 661.3 0 24 197 28 661.3 0 28 198 39 661.3 0 39 199 49 661.3 0 49 200 52 661.3 0 52 201 68 661.3 0 68 202 291 661.3 0 291 203 211 661.3 0 211 204 232 661.3 0 232 205 37 661.3 0 37 206 41 661.3 0 41 207 23 661.3 0 23 208 38 661.3 0 38 209 36 661.3 0 36 210 40 661.3 0 40 211 29 661.3 0 29 212 34 661.3 0 34 213 39 661.3 0 39 214 33 661.3 0 33 215 50 661.3 0 50 216 105 661.3 0 105 217 93 661.3 0 93 218 82 661.3 0 82 219 23 661.3 0 23 220 35 661.3 0 35 221 47 661.3 0 47 222 43 661.3 0 43 223 44 661.3 0 44 224 28 661.3 0 28 225 47 661.3 0 47 226 286 661.3 0 286 227 142 661.3 0 142 228 111 661.3 0 111 229 32 661.3 0 32 230 41 661.3 0 41 231 44 661.3 0 44 232 29 661.3 0 29 233 41 661.3 0 41 234 73 661.3 0 73 235 60 661.3 0 60 236 75 661.3 0 75 237 68 661.3 0 68 238 48 661.3 0 48 239 28 661.3 0 28 240 39 661.3 0 39 241 24 661.3 0 24 242 27 661.3 0 27 243 30 661.3 0 30 244 44 661.3 0 44 245 55 661.3 0 55 246 51 661.3 0 51 247 36 661.3 0 36 248 26 661.3 0 26 249 33 661.3 0 33 250 40 661.3 0 40 251 36 661.3 0 36 252 20 661.3 0 20 253 68 661.3 0 68 254 98 661.3 0 98 255 47 661.3 0 47 256 49 661.3 0 49 257 36 661.3 0 36 258 41 661.3 0 41 259 30 661.3 0 30 260 43 661.3 0 43 261 40 661.3 0 40 262 59 661.3 0 59 263 48 661.3 0 48 264 39 661.3 0 39 265 41 661.3 0 41 266 44 661.3 0 44 267 60 661.3 0 60 268 26 661.3 0 26 269 48 661.3 0 48 270 76 661.3 0 76 271 69 661.3 0 69 272 65 661.3 0 65 273 238 661.3 0 238 274 145 661.3 0 145 275 292 661.3 0 292 276 74 661.3 0 74 277 58 661.3 0 58 278 63 661.3 0 63 279 76 661.3 0 76 280 84 661.3 0 84 281 206 661.3 0 206 282 226 661.3 0 226 283 212 661.3 0 212 284 101 661.3 0 101 285 92 661.3 0 92 286 75 661.3 0 75 287 87 661.3 0 87 288 48 661.3 0 48 289 50 661.3 0 50 290 176 661.3 0 176 291 383 661.3 0 383 292 200 661.3 0 200 293 112 661.3 0 112 294 55 661.3 0 55 295 31 661.3 0 31 296 41 661.3 0 41 297 37 661.3 0 37 298 28 661.3 0 28 299 38 661.3 0 38 300 28 661.3 0 28 301 16 661.3 0 16 Finished in 11.23 s (36 us/read; 1.65 M reads/minute). === Summary === Total reads processed: 309,212 Reads with adapters: 6,358 (2.1%) Reads that were too short: 9 (0.0%) Reads written (passing filters): 6,349 (2.1%) Total basepairs processed: 57,669,019 bp Total written (filtered): 1,726,880 bp (3.0%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 6358 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 4 0.0 3 0 0 0 0 4 18 7 0.0 3 0 0 6 0 1 19 78 0.0 3 0 77 1 20 6235 0.0 4 6163 56 4 2 10 21 15 0.0 4 2 11 0 0 2 22 2 0.0 4 0 0 2 23 2 0.0 4 0 0 0 2 24 2 0.0 4 0 0 1 0 1 103 1 0.0 4 0 0 0 0 1 111 1 0.0 4 0 0 0 0 1 118 1 0.0 4 0 0 0 0 1 120 1 0.0 4 0 0 0 0 1 134 1 0.0 4 0 0 0 1 147 1 0.0 4 0 0 0 0 1 149 1 0.0 4 0 0 0 0 1 180 1 0.0 4 0 0 0 0 1 182 1 0.0 4 0 0 0 0 1 191 1 0.0 4 0 0 0 0 1 195 1 0.0 4 0 0 0 0 1 199 1 0.0 4 0 0 0 0 1 221 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 0.22 s (35 us/read; 1.73 M reads/minute). === Summary === Total reads processed: 6,349 Reads with adapters: 1,669 (26.3%) Reads written (passing filters): 6,349 (100.0%) Total basepairs processed: 1,726,880 bp Total written (filtered): 1,313,140 bp (76.0%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 1669 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 0.2% C: 0.4% G: 7.1% T: 92.3% none/other: 0.1% WARNING: The adapter is preceded by "T" extremely often. The provided adapter sequence may be incomplete. To fix the problem, add "T" to the beginning of the adapter sequence. Overview of removed sequences length count expect max.err error counts 9 9 0.0 0 2 7 10 99 0.0 1 3 96 11 16 0.0 1 0 16 169 1 0.0 1 1 238 5 0.0 1 5 256 1 0.0 1 1 259 1 0.0 1 1 263 1 0.0 1 1 266 4 0.0 1 4 267 1340 0.0 1 1264 76 268 151 0.0 1 145 6 269 26 0.0 1 24 2 270 15 0.0 1 15 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.