This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CGCGAT -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 89.20 s (26 us/read; 2.33 M reads/minute). === Summary === Total reads processed: 3,465,239 Reads with adapters: 149,362 (4.3%) Reads that were too short: 9,215 (0.3%) Reads written (passing filters): 140,147 (4.0%) Total basepairs processed: 1,043,036,939 bp Total written (filtered): 38,958,483 bp (3.7%) === Adapter 1 === Sequence: CGCGAT; Type: regular 5'; Length: 6; Trimmed: 149362 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1260 846.0 0 1260 7 53723 846.0 0 53723 8 807 846.0 0 807 9 68357 846.0 0 68357 10 126 846.0 0 126 11 53 846.0 0 53 12 25 846.0 0 25 13 37 846.0 0 37 14 51 846.0 0 51 15 30 846.0 0 30 16 48 846.0 0 48 17 105 846.0 0 105 18 35 846.0 0 35 19 39 846.0 0 39 20 39 846.0 0 39 21 43 846.0 0 43 22 43 846.0 0 43 23 35 846.0 0 35 24 36 846.0 0 36 25 28 846.0 0 28 26 39 846.0 0 39 27 26 846.0 0 26 28 36 846.0 0 36 29 35 846.0 0 35 30 48 846.0 0 48 31 38 846.0 0 38 32 33 846.0 0 33 33 32 846.0 0 32 34 31 846.0 0 31 35 46 846.0 0 46 36 30 846.0 0 30 37 34 846.0 0 34 38 40 846.0 0 40 39 31 846.0 0 31 40 41 846.0 0 41 41 43 846.0 0 43 42 73 846.0 0 73 43 36 846.0 0 36 44 103 846.0 0 103 45 27 846.0 0 27 46 32 846.0 0 32 47 32 846.0 0 32 48 36 846.0 0 36 49 41 846.0 0 41 50 73 846.0 0 73 51 49 846.0 0 49 52 42 846.0 0 42 53 38 846.0 0 38 54 44 846.0 0 44 55 80 846.0 0 80 56 40 846.0 0 40 57 34 846.0 0 34 58 42 846.0 0 42 59 25 846.0 0 25 60 20 846.0 0 20 61 33 846.0 0 33 62 36 846.0 0 36 63 30 846.0 0 30 64 28 846.0 0 28 65 54 846.0 0 54 66 38 846.0 0 38 67 35 846.0 0 35 68 34 846.0 0 34 69 33 846.0 0 33 70 28 846.0 0 28 71 36 846.0 0 36 72 28 846.0 0 28 73 86 846.0 0 86 74 62 846.0 0 62 75 59 846.0 0 59 76 43 846.0 0 43 77 43 846.0 0 43 78 21 846.0 0 21 79 48 846.0 0 48 80 44 846.0 0 44 81 59 846.0 0 59 82 31 846.0 0 31 83 30 846.0 0 30 84 34 846.0 0 34 85 40 846.0 0 40 86 130 846.0 0 130 87 68 846.0 0 68 88 68 846.0 0 68 89 36 846.0 0 36 90 39 846.0 0 39 91 47 846.0 0 47 92 305 846.0 0 305 93 260 846.0 0 260 94 258 846.0 0 258 95 79 846.0 0 79 96 66 846.0 0 66 97 59 846.0 0 59 98 33 846.0 0 33 99 33 846.0 0 33 100 37 846.0 0 37 101 36 846.0 0 36 102 13 846.0 0 13 103 14 846.0 0 14 104 24 846.0 0 24 105 29 846.0 0 29 106 20 846.0 0 20 107 39 846.0 0 39 108 27 846.0 0 27 109 27 846.0 0 27 110 38 846.0 0 38 111 38 846.0 0 38 112 45 846.0 0 45 113 42 846.0 0 42 114 37 846.0 0 37 115 26 846.0 0 26 116 35 846.0 0 35 117 41 846.0 0 41 118 44 846.0 0 44 119 76 846.0 0 76 120 80 846.0 0 80 121 50 846.0 0 50 122 32 846.0 0 32 123 104 846.0 0 104 124 216 846.0 0 216 125 460 846.0 0 460 126 56 846.0 0 56 127 64 846.0 0 64 128 40 846.0 0 40 129 53 846.0 0 53 130 133 846.0 0 133 131 92 846.0 0 92 132 47 846.0 0 47 133 42 846.0 0 42 134 51 846.0 0 51 135 35 846.0 0 35 136 40 846.0 0 40 137 30 846.0 0 30 138 46 846.0 0 46 139 46 846.0 0 46 140 46 846.0 0 46 141 32 846.0 0 32 142 39 846.0 0 39 143 38 846.0 0 38 144 43 846.0 0 43 145 42 846.0 0 42 146 57 846.0 0 57 147 232 846.0 0 232 148 32 846.0 0 32 149 43 846.0 0 43 150 28 846.0 0 28 151 49 846.0 0 49 152 45 846.0 0 45 153 43 846.0 0 43 154 48 846.0 0 48 155 54 846.0 0 54 156 41 846.0 0 41 157 44 846.0 0 44 158 96 846.0 0 96 159 35 846.0 0 35 160 56 846.0 0 56 161 58 846.0 0 58 162 41 846.0 0 41 163 34 846.0 0 34 164 60 846.0 0 60 165 46 846.0 0 46 166 50 846.0 0 50 167 84 846.0 0 84 168 71 846.0 0 71 169 45 846.0 0 45 170 49 846.0 0 49 171 56 846.0 0 56 172 48 846.0 0 48 173 426 846.0 0 426 174 127 846.0 0 127 175 117 846.0 0 117 176 106 846.0 0 106 177 92 846.0 0 92 178 263 846.0 0 263 179 166 846.0 0 166 180 261 846.0 0 261 181 140 846.0 0 140 182 93 846.0 0 93 183 92 846.0 0 92 184 59 846.0 0 59 185 77 846.0 0 77 186 93 846.0 0 93 187 54 846.0 0 54 188 60 846.0 0 60 189 48 846.0 0 48 190 46 846.0 0 46 191 49 846.0 0 49 192 142 846.0 0 142 193 178 846.0 0 178 194 569 846.0 0 569 195 93 846.0 0 93 196 57 846.0 0 57 197 49 846.0 0 49 198 501 846.0 0 501 199 1937 846.0 0 1937 200 1006 846.0 0 1006 201 192 846.0 0 192 202 97 846.0 0 97 203 58 846.0 0 58 204 95 846.0 0 95 205 103 846.0 0 103 206 414 846.0 0 414 207 80 846.0 0 80 208 72 846.0 0 72 209 51 846.0 0 51 210 53 846.0 0 53 211 39 846.0 0 39 212 39 846.0 0 39 213 44 846.0 0 44 214 69 846.0 0 69 215 102 846.0 0 102 216 74 846.0 0 74 217 72 846.0 0 72 218 74 846.0 0 74 219 382 846.0 0 382 220 207 846.0 0 207 221 129 846.0 0 129 222 130 846.0 0 130 223 94 846.0 0 94 224 98 846.0 0 98 225 49 846.0 0 49 226 57 846.0 0 57 227 67 846.0 0 67 228 82 846.0 0 82 229 59 846.0 0 59 230 76 846.0 0 76 231 57 846.0 0 57 232 30 846.0 0 30 233 38 846.0 0 38 234 52 846.0 0 52 235 46 846.0 0 46 236 89 846.0 0 89 237 56 846.0 0 56 238 167 846.0 0 167 239 349 846.0 0 349 240 1165 846.0 0 1165 241 550 846.0 0 550 242 213 846.0 0 213 243 53 846.0 0 53 244 44 846.0 0 44 245 50 846.0 0 50 246 106 846.0 0 106 247 104 846.0 0 104 248 124 846.0 0 124 249 89 846.0 0 89 250 46 846.0 0 46 251 29 846.0 0 29 252 36 846.0 0 36 253 42 846.0 0 42 254 47 846.0 0 47 255 58 846.0 0 58 256 81 846.0 0 81 257 114 846.0 0 114 258 107 846.0 0 107 259 35 846.0 0 35 260 28 846.0 0 28 261 35 846.0 0 35 262 48 846.0 0 48 263 34 846.0 0 34 264 33 846.0 0 33 265 46 846.0 0 46 266 48 846.0 0 48 267 82 846.0 0 82 268 85 846.0 0 85 269 57 846.0 0 57 270 39 846.0 0 39 271 38 846.0 0 38 272 39 846.0 0 39 273 25 846.0 0 25 274 59 846.0 0 59 275 72 846.0 0 72 276 42 846.0 0 42 277 34 846.0 0 34 278 49 846.0 0 49 279 65 846.0 0 65 280 90 846.0 0 90 281 64 846.0 0 64 282 33 846.0 0 33 283 41 846.0 0 41 284 34 846.0 0 34 285 43 846.0 0 43 286 210 846.0 0 210 287 99 846.0 0 99 288 119 846.0 0 119 289 55 846.0 0 55 290 77 846.0 0 77 291 67 846.0 0 67 292 76 846.0 0 76 293 81 846.0 0 81 294 54 846.0 0 54 295 36 846.0 0 36 296 23 846.0 0 23 297 26 846.0 0 26 298 14 846.0 0 14 299 27 846.0 0 27 300 33 846.0 0 33 301 12 846.0 0 12 Finished in 7.09 s (51 us/read; 1.19 M reads/minute). === Summary === Total reads processed: 140,147 Reads with adapters: 54,645 (39.0%) Reads that were too short: 39 (0.0%) Reads written (passing filters): 54,606 (39.0%) Total basepairs processed: 38,958,483 bp Total written (filtered): 14,850,038 bp (38.1%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 54645 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 2 0.0 3 0 0 0 2 18 27 0.0 3 0 0 22 5 19 556 0.0 3 0 532 11 6 7 20 52834 0.0 4 51825 914 62 29 4 21 103 0.0 4 17 83 2 0 1 22 9 0.0 4 0 0 5 2 2 23 38 0.0 4 0 0 0 34 4 24 2 0.0 4 0 0 0 0 2 25 1 0.0 4 1 36 1 0.0 4 0 0 0 0 1 42 2 0.0 4 0 0 0 0 2 52 1 0.0 4 0 0 0 0 1 71 1 0.0 4 0 0 0 0 1 91 1 0.0 4 0 0 0 0 1 112 1 0.0 4 0 0 0 0 1 125 4 0.0 4 0 0 0 0 4 126 17 0.0 4 0 0 0 0 17 127 1012 0.0 4 0 0 0 0 1012 130 1 0.0 4 0 0 0 0 1 153 1 0.0 4 0 0 0 0 1 191 1 0.0 4 0 0 0 0 1 193 1 0.0 4 0 0 0 0 1 194 11 0.0 4 0 0 0 0 11 214 1 0.0 4 0 0 0 0 1 215 1 0.0 4 0 0 0 0 1 225 1 0.0 4 0 0 0 0 1 226 1 0.0 4 0 0 0 0 1 227 1 0.0 4 0 0 0 0 1 228 5 0.0 4 0 0 0 0 5 230 1 0.0 4 0 0 0 1 239 1 0.0 4 0 0 0 0 1 271 1 0.0 4 0 0 0 0 1 276 1 0.0 4 0 0 0 0 1 282 1 0.0 4 0 0 0 0 1 283 1 0.0 4 0 0 0 0 1 287 1 0.0 4 0 0 0 0 1 290 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 1.91 s (35 us/read; 1.72 M reads/minute). === Summary === Total reads processed: 54,606 Reads with adapters: 4,003 (7.3%) Reads written (passing filters): 54,606 (100.0%) Total basepairs processed: 14,850,038 bp Total written (filtered): 14,736,551 bp (99.2%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 4003 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 6.7% C: 4.4% G: 85.5% T: 3.3% 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 3 38 853.2 0 38 4 1 213.3 0 1 9 2 0.2 0 0 2 10 1 0.1 1 0 1 11 3596 0.0 1 27 3569 12 83 0.0 1 0 83 15 2 0.0 1 0 2 16 1 0.0 1 0 1 152 3 0.0 1 3 153 1 0.0 1 1 160 1 0.0 1 0 1 179 1 0.0 1 0 1 210 10 0.0 1 10 211 1 0.0 1 1 259 1 0.0 1 1 261 129 0.0 1 118 11 262 3 0.0 1 3 263 3 0.0 1 3 265 28 0.0 1 26 2 270 1 0.0 1 1 271 93 0.0 1 91 2 272 4 0.0 1 3 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.