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 70.15 s (23 us/read; 2.65 M reads/minute). === Summary === Total reads processed: 3,094,653 Reads with adapters: 321,024 (10.4%) Reads that were too short: 8,058 (0.3%) Reads written (passing filters): 312,966 (10.1%) Total basepairs processed: 931,490,553 bp Total written (filtered): 59,142,206 bp (6.3%) === Adapter 1 === Sequence: CTCTGC; Type: regular 5'; Length: 6; Trimmed: 321024 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 184 755.5 0 184 7 2961 755.5 0 2961 8 194 755.5 0 194 9 8597 755.5 0 8597 10 38 755.5 0 38 11 12 755.5 0 12 12 11 755.5 0 11 13 10 755.5 0 10 14 90 755.5 0 90 15 21 755.5 0 21 16 27 755.5 0 27 17 10 755.5 0 10 18 13 755.5 0 13 19 16 755.5 0 16 20 8 755.5 0 8 21 10 755.5 0 10 22 22 755.5 0 22 23 17 755.5 0 17 24 61 755.5 0 61 25 11 755.5 0 11 26 16 755.5 0 16 27 17 755.5 0 17 28 17 755.5 0 17 29 13 755.5 0 13 30 22 755.5 0 22 31 53 755.5 0 53 32 41 755.5 0 41 33 44 755.5 0 44 34 98 755.5 0 98 35 47 755.5 0 47 36 28 755.5 0 28 37 64 755.5 0 64 38 78 755.5 0 78 39 25 755.5 0 25 40 20 755.5 0 20 41 43 755.5 0 43 42 10 755.5 0 10 43 24 755.5 0 24 44 7 755.5 0 7 45 19 755.5 0 19 46 17 755.5 0 17 47 13 755.5 0 13 48 45 755.5 0 45 49 8 755.5 0 8 50 20 755.5 0 20 51 9 755.5 0 9 52 25 755.5 0 25 53 19 755.5 0 19 54 36 755.5 0 36 55 17 755.5 0 17 56 82 755.5 0 82 57 45 755.5 0 45 58 243 755.5 0 243 59 80 755.5 0 80 60 24 755.5 0 24 61 29 755.5 0 29 62 11 755.5 0 11 63 19 755.5 0 19 64 16 755.5 0 16 65 15 755.5 0 15 66 122 755.5 0 122 67 9 755.5 0 9 68 26 755.5 0 26 69 9 755.5 0 9 70 19 755.5 0 19 71 18 755.5 0 18 72 10 755.5 0 10 73 11 755.5 0 11 74 19 755.5 0 19 75 15 755.5 0 15 76 34 755.5 0 34 77 357 755.5 0 357 78 70 755.5 0 70 79 22 755.5 0 22 80 25 755.5 0 25 81 32 755.5 0 32 82 16 755.5 0 16 83 91 755.5 0 91 84 86 755.5 0 86 85 48 755.5 0 48 86 52 755.5 0 52 87 232 755.5 0 232 88 27 755.5 0 27 89 26 755.5 0 26 90 29 755.5 0 29 91 45 755.5 0 45 92 46 755.5 0 46 93 45 755.5 0 45 94 75 755.5 0 75 95 39 755.5 0 39 96 124 755.5 0 124 97 448 755.5 0 448 98 74 755.5 0 74 99 121 755.5 0 121 100 105 755.5 0 105 101 69 755.5 0 69 102 147 755.5 0 147 103 139 755.5 0 139 104 160 755.5 0 160 105 57 755.5 0 57 106 115 755.5 0 115 107 352 755.5 0 352 108 703 755.5 0 703 109 573 755.5 0 573 110 940 755.5 0 940 111 800 755.5 0 800 112 3478 755.5 0 3478 113 8135 755.5 0 8135 114 230101 755.5 0 230101 115 6069 755.5 0 6069 116 22685 755.5 0 22685 117 152 755.5 0 152 118 47 755.5 0 47 119 28 755.5 0 28 120 37 755.5 0 37 121 18 755.5 0 18 122 29 755.5 0 29 123 33 755.5 0 33 124 34 755.5 0 34 125 15 755.5 0 15 126 43 755.5 0 43 127 22 755.5 0 22 128 47 755.5 0 47 129 194 755.5 0 194 130 60 755.5 0 60 131 62 755.5 0 62 132 29 755.5 0 29 133 14 755.5 0 14 134 22 755.5 0 22 135 40 755.5 0 40 136 121 755.5 0 121 137 84 755.5 0 84 138 64 755.5 0 64 139 39 755.5 0 39 140 119 755.5 0 119 141 336 755.5 0 336 142 833 755.5 0 833 143 473 755.5 0 473 144 55 755.5 0 55 145 113 755.5 0 113 146 276 755.5 0 276 147 4940 755.5 0 4940 148 837 755.5 0 837 149 1369 755.5 0 1369 150 130 755.5 0 130 151 132 755.5 0 132 152 248 755.5 0 248 153 4244 755.5 0 4244 154 382 755.5 0 382 155 3716 755.5 0 3716 156 233 755.5 0 233 157 76 755.5 0 76 158 170 755.5 0 170 159 34 755.5 0 34 160 31 755.5 0 31 161 40 755.5 0 40 162 62 755.5 0 62 163 43 755.5 0 43 164 53 755.5 0 53 165 46 755.5 0 46 166 67 755.5 0 67 167 72 755.5 0 72 168 384 755.5 0 384 169 123 755.5 0 123 170 77 755.5 0 77 171 30 755.5 0 30 172 18 755.5 0 18 173 19 755.5 0 19 174 19 755.5 0 19 175 24 755.5 0 24 176 114 755.5 0 114 177 11 755.5 0 11 178 21 755.5 0 21 179 18 755.5 0 18 180 17 755.5 0 17 181 76 755.5 0 76 182 66 755.5 0 66 183 57 755.5 0 57 184 76 755.5 0 76 185 88 755.5 0 88 186 103 755.5 0 103 187 30 755.5 0 30 188 26 755.5 0 26 189 10 755.5 0 10 190 79 755.5 0 79 191 98 755.5 0 98 192 28 755.5 0 28 193 33 755.5 0 33 194 15 755.5 0 15 195 12 755.5 0 12 196 11 755.5 0 11 197 12 755.5 0 12 198 26 755.5 0 26 199 25 755.5 0 25 200 15 755.5 0 15 201 19 755.5 0 19 202 270 755.5 0 270 203 33 755.5 0 33 204 87 755.5 0 87 205 52 755.5 0 52 206 26 755.5 0 26 207 19 755.5 0 19 208 15 755.5 0 15 209 20 755.5 0 20 210 29 755.5 0 29 211 19 755.5 0 19 212 33 755.5 0 33 213 42 755.5 0 42 214 34 755.5 0 34 215 47 755.5 0 47 216 117 755.5 0 117 217 102 755.5 0 102 218 75 755.5 0 75 219 29 755.5 0 29 220 12 755.5 0 12 221 24 755.5 0 24 222 16 755.5 0 16 223 12 755.5 0 12 224 39 755.5 0 39 225 61 755.5 0 61 226 106 755.5 0 106 227 60 755.5 0 60 228 106 755.5 0 106 229 40 755.5 0 40 230 23 755.5 0 23 231 14 755.5 0 14 232 24 755.5 0 24 233 24 755.5 0 24 234 30 755.5 0 30 235 41 755.5 0 41 236 51 755.5 0 51 237 18 755.5 0 18 238 26 755.5 0 26 239 11 755.5 0 11 240 4 755.5 0 4 241 6 755.5 0 6 242 15 755.5 0 15 243 12 755.5 0 12 244 36 755.5 0 36 245 50 755.5 0 50 246 35 755.5 0 35 247 22 755.5 0 22 248 16 755.5 0 16 249 22 755.5 0 22 250 29 755.5 0 29 251 104 755.5 0 104 252 30 755.5 0 30 253 53 755.5 0 53 254 80 755.5 0 80 255 122 755.5 0 122 256 54 755.5 0 54 257 39 755.5 0 39 258 21 755.5 0 21 259 8 755.5 0 8 260 6 755.5 0 6 261 10 755.5 0 10 262 11 755.5 0 11 263 7 755.5 0 7 264 22 755.5 0 22 265 29 755.5 0 29 266 35 755.5 0 35 267 49 755.5 0 49 268 53 755.5 0 53 269 37 755.5 0 37 270 37 755.5 0 37 271 66 755.5 0 66 272 44 755.5 0 44 273 27 755.5 0 27 274 18 755.5 0 18 275 118 755.5 0 118 276 45 755.5 0 45 277 33 755.5 0 33 278 36 755.5 0 36 279 128 755.5 0 128 280 105 755.5 0 105 281 288 755.5 0 288 282 313 755.5 0 313 283 1432 755.5 0 1432 284 15 755.5 0 15 285 13 755.5 0 13 286 11 755.5 0 11 287 38 755.5 0 38 288 20 755.5 0 20 289 763 755.5 0 763 290 582 755.5 0 582 291 381 755.5 0 381 292 171 755.5 0 171 293 173 755.5 0 173 294 112 755.5 0 112 295 82 755.5 0 82 296 134 755.5 0 134 297 21 755.5 0 21 298 14 755.5 0 14 299 19 755.5 0 19 300 7 755.5 0 7 301 8 755.5 0 8 Finished in 10.28 s (33 us/read; 1.83 M reads/minute). === Summary === Total reads processed: 312,966 Reads with adapters: 8,946 (2.9%) Reads that were too short: 12 (0.0%) Reads written (passing filters): 8,934 (2.9%) Total basepairs processed: 59,142,206 bp Total written (filtered): 2,429,957 bp (4.1%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 8946 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 4 0.0 3 0 0 3 0 1 19 134 0.0 3 0 126 3 3 2 20 8747 0.0 4 8519 182 29 11 6 21 28 0.0 4 6 16 1 5 22 4 0.0 4 0 0 2 0 2 23 13 0.0 4 0 1 0 9 3 26 1 0.0 4 0 0 0 0 1 50 1 0.0 4 0 0 0 0 1 54 1 0.0 4 0 0 0 0 1 80 1 0.0 4 0 0 0 0 1 88 1 0.0 4 0 0 0 0 1 107 2 0.0 4 0 0 0 1 1 131 2 0.0 4 0 0 0 0 2 139 1 0.0 4 0 0 0 0 1 153 1 0.0 4 0 0 0 0 1 181 2 0.0 4 0 0 0 0 2 234 1 0.0 4 0 0 0 0 1 258 1 0.0 4 0 0 0 0 1 261 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 0.26 s (29 us/read; 2.06 M reads/minute). === Summary === Total reads processed: 8,934 Reads with adapters: 7,056 (79.0%) Reads written (passing filters): 8,934 (100.0%) Total basepairs processed: 2,429,957 bp Total written (filtered): 563,778 bp (23.2%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 7056 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 0.1% C: 0.2% G: 1.0% T: 98.8% none/other: 0.0% 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 10 44 0.0 1 1 43 11 26 0.0 1 0 26 13 1 0.0 1 0 1 211 1 0.0 1 1 238 1 0.0 1 1 259 2 0.0 1 2 260 1 0.0 1 1 262 2 0.0 1 2 263 1 0.0 1 1 264 1 0.0 1 1 265 1 0.0 1 1 266 29 0.0 1 28 1 267 6571 0.0 1 6188 383 268 219 0.0 1 206 13 269 88 0.0 1 86 2 270 66 0.0 1 64 2 271 2 0.0 1 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.