This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AAGTGT -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 161.62 s (47 us/read; 1.29 M reads/minute). === Summary === Total reads processed: 3,470,393 Reads with adapters: 93,722 (2.7%) Reads that were too short: 15,085 (0.4%) Reads written (passing filters): 78,637 (2.3%) Total basepairs processed: 1,044,588,293 bp Total written (filtered): 19,620,646 bp (1.9%) === Adapter 1 === Sequence: AAGTGT; Type: regular 5'; Length: 6; Trimmed: 93722 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 762 847.3 0 762 7 27063 847.3 0 27063 8 22786 847.3 0 22786 9 67 847.3 0 67 10 51 847.3 0 51 11 28 847.3 0 28 12 48 847.3 0 48 13 40 847.3 0 40 14 36 847.3 0 36 15 25 847.3 0 25 16 44 847.3 0 44 17 45 847.3 0 45 18 48 847.3 0 48 19 46 847.3 0 46 20 52 847.3 0 52 21 50 847.3 0 50 22 77 847.3 0 77 23 44 847.3 0 44 24 40 847.3 0 40 25 44 847.3 0 44 26 46 847.3 0 46 27 116 847.3 0 116 28 56 847.3 0 56 29 173 847.3 0 173 30 131 847.3 0 131 31 204 847.3 0 204 32 69 847.3 0 69 33 41 847.3 0 41 34 50 847.3 0 50 35 23 847.3 0 23 36 43 847.3 0 43 37 59 847.3 0 59 38 54 847.3 0 54 39 40 847.3 0 40 40 53 847.3 0 53 41 42 847.3 0 42 42 33 847.3 0 33 43 30 847.3 0 30 44 54 847.3 0 54 45 49 847.3 0 49 46 60 847.3 0 60 47 46 847.3 0 46 48 25 847.3 0 25 49 43 847.3 0 43 50 33 847.3 0 33 51 33 847.3 0 33 52 69 847.3 0 69 53 48 847.3 0 48 54 234 847.3 0 234 55 412 847.3 0 412 56 225 847.3 0 225 57 36 847.3 0 36 58 38 847.3 0 38 59 35 847.3 0 35 60 44 847.3 0 44 61 102 847.3 0 102 62 267 847.3 0 267 63 320 847.3 0 320 64 46 847.3 0 46 65 49 847.3 0 49 66 31 847.3 0 31 67 87 847.3 0 87 68 91 847.3 0 91 69 241 847.3 0 241 70 48 847.3 0 48 71 228 847.3 0 228 72 177 847.3 0 177 73 103 847.3 0 103 74 78 847.3 0 78 75 47 847.3 0 47 76 50 847.3 0 50 77 64 847.3 0 64 78 53 847.3 0 53 79 86 847.3 0 86 80 60 847.3 0 60 81 69 847.3 0 69 82 68 847.3 0 68 83 139 847.3 0 139 84 99 847.3 0 99 85 67 847.3 0 67 86 138 847.3 0 138 87 129 847.3 0 129 88 66 847.3 0 66 89 38 847.3 0 38 90 61 847.3 0 61 91 43 847.3 0 43 92 73 847.3 0 73 93 43 847.3 0 43 94 54 847.3 0 54 95 69 847.3 0 69 96 80 847.3 0 80 97 68 847.3 0 68 98 67 847.3 0 67 99 39 847.3 0 39 100 47 847.3 0 47 101 41 847.3 0 41 102 36 847.3 0 36 103 31 847.3 0 31 104 61 847.3 0 61 105 77 847.3 0 77 106 42 847.3 0 42 107 35 847.3 0 35 108 40 847.3 0 40 109 46 847.3 0 46 110 58 847.3 0 58 111 56 847.3 0 56 112 100 847.3 0 100 113 101 847.3 0 101 114 84 847.3 0 84 115 83 847.3 0 83 116 77 847.3 0 77 117 52 847.3 0 52 118 48 847.3 0 48 119 86 847.3 0 86 120 71 847.3 0 71 121 91 847.3 0 91 122 124 847.3 0 124 123 281 847.3 0 281 124 390 847.3 0 390 125 504 847.3 0 504 126 1203 847.3 0 1203 127 1280 847.3 0 1280 128 2295 847.3 0 2295 129 848 847.3 0 848 130 449 847.3 0 449 131 168 847.3 0 168 132 112 847.3 0 112 133 78 847.3 0 78 134 117 847.3 0 117 135 109 847.3 0 109 136 90 847.3 0 90 137 57 847.3 0 57 138 85 847.3 0 85 139 80 847.3 0 80 140 66 847.3 0 66 141 69 847.3 0 69 142 93 847.3 0 93 143 57 847.3 0 57 144 223 847.3 0 223 145 261 847.3 0 261 146 90 847.3 0 90 147 70 847.3 0 70 148 89 847.3 0 89 149 69 847.3 0 69 150 52 847.3 0 52 151 78 847.3 0 78 152 49 847.3 0 49 153 32 847.3 0 32 154 66 847.3 0 66 155 51 847.3 0 51 156 67 847.3 0 67 157 100 847.3 0 100 158 113 847.3 0 113 159 71 847.3 0 71 160 60 847.3 0 60 161 59 847.3 0 59 162 57 847.3 0 57 163 69 847.3 0 69 164 62 847.3 0 62 165 132 847.3 0 132 166 321 847.3 0 321 167 209 847.3 0 209 168 413 847.3 0 413 169 62 847.3 0 62 170 45 847.3 0 45 171 64 847.3 0 64 172 59 847.3 0 59 173 61 847.3 0 61 174 79 847.3 0 79 175 77 847.3 0 77 176 93 847.3 0 93 177 51 847.3 0 51 178 68 847.3 0 68 179 67 847.3 0 67 180 62 847.3 0 62 181 78 847.3 0 78 182 79 847.3 0 79 183 99 847.3 0 99 184 93 847.3 0 93 185 149 847.3 0 149 186 113 847.3 0 113 187 92 847.3 0 92 188 63 847.3 0 63 189 75 847.3 0 75 190 95 847.3 0 95 191 92 847.3 0 92 192 113 847.3 0 113 193 142 847.3 0 142 194 190 847.3 0 190 195 1400 847.3 0 1400 196 1247 847.3 0 1247 197 1481 847.3 0 1481 198 578 847.3 0 578 199 872 847.3 0 872 200 163 847.3 0 163 201 73 847.3 0 73 202 61 847.3 0 61 203 54 847.3 0 54 204 65 847.3 0 65 205 56 847.3 0 56 206 73 847.3 0 73 207 69 847.3 0 69 208 77 847.3 0 77 209 67 847.3 0 67 210 112 847.3 0 112 211 172 847.3 0 172 212 128 847.3 0 128 213 126 847.3 0 126 214 115 847.3 0 115 215 84 847.3 0 84 216 68 847.3 0 68 217 71 847.3 0 71 218 237 847.3 0 237 219 279 847.3 0 279 220 419 847.3 0 419 221 274 847.3 0 274 222 111 847.3 0 111 223 100 847.3 0 100 224 67 847.3 0 67 225 86 847.3 0 86 226 89 847.3 0 89 227 87 847.3 0 87 228 87 847.3 0 87 229 79 847.3 0 79 230 70 847.3 0 70 231 108 847.3 0 108 232 108 847.3 0 108 233 83 847.3 0 83 234 67 847.3 0 67 235 101 847.3 0 101 236 99 847.3 0 99 237 99 847.3 0 99 238 262 847.3 0 262 239 282 847.3 0 282 240 325 847.3 0 325 241 177 847.3 0 177 242 172 847.3 0 172 243 122 847.3 0 122 244 112 847.3 0 112 245 337 847.3 0 337 246 167 847.3 0 167 247 240 847.3 0 240 248 112 847.3 0 112 249 142 847.3 0 142 250 117 847.3 0 117 251 94 847.3 0 94 252 86 847.3 0 86 253 96 847.3 0 96 254 367 847.3 0 367 255 312 847.3 0 312 256 339 847.3 0 339 257 103 847.3 0 103 258 87 847.3 0 87 259 82 847.3 0 82 260 107 847.3 0 107 261 87 847.3 0 87 262 302 847.3 0 302 263 283 847.3 0 283 264 169 847.3 0 169 265 107 847.3 0 107 266 140 847.3 0 140 267 764 847.3 0 764 268 816 847.3 0 816 269 576 847.3 0 576 270 196 847.3 0 196 271 71 847.3 0 71 272 114 847.3 0 114 273 265 847.3 0 265 274 325 847.3 0 325 275 183 847.3 0 183 276 116 847.3 0 116 277 120 847.3 0 120 278 93 847.3 0 93 279 88 847.3 0 88 280 83 847.3 0 83 281 149 847.3 0 149 282 108 847.3 0 108 283 78 847.3 0 78 284 64 847.3 0 64 285 49 847.3 0 49 286 75 847.3 0 75 287 112 847.3 0 112 288 146 847.3 0 146 289 89 847.3 0 89 290 90 847.3 0 90 291 70 847.3 0 70 292 66 847.3 0 66 293 84 847.3 0 84 294 106 847.3 0 106 295 110 847.3 0 110 296 70 847.3 0 70 297 91 847.3 0 91 298 80 847.3 0 80 299 73 847.3 0 73 300 96 847.3 0 96 301 93 847.3 0 93 Finished in 5.84 s (74 us/read; 0.81 M reads/minute). === Summary === Total reads processed: 78,637 Reads with adapters: 23,845 (30.3%) Reads that were too short: 33 (0.0%) Reads written (passing filters): 23,812 (30.3%) Total basepairs processed: 19,620,646 bp Total written (filtered): 6,493,746 bp (33.1%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 23845 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 3 0.0 3 0 0 0 0 3 18 13 0.0 3 0 0 12 1 19 376 0.0 3 0 334 27 7 8 20 23213 0.0 4 22148 903 116 32 14 21 66 0.0 4 8 56 1 0 1 22 7 0.0 4 3 0 4 23 57 0.0 4 0 0 1 40 16 24 1 0.0 4 0 0 0 1 32 4 0.0 4 0 0 0 0 4 34 1 0.0 4 0 0 0 0 1 35 1 0.0 4 1 39 1 0.0 4 0 0 0 1 41 3 0.0 4 0 0 0 1 2 42 2 0.0 4 0 0 0 1 1 50 1 0.0 4 0 0 0 0 1 66 1 0.0 4 0 0 0 0 1 67 1 0.0 4 0 0 0 0 1 71 1 0.0 4 0 0 0 0 1 87 1 0.0 4 0 0 0 0 1 89 1 0.0 4 0 0 0 0 1 92 2 0.0 4 0 0 0 0 2 101 2 0.0 4 0 0 0 0 2 104 2 0.0 4 0 0 0 0 2 107 1 0.0 4 0 0 0 0 1 110 1 0.0 4 0 0 0 0 1 112 1 0.0 4 0 0 0 0 1 113 1 0.0 4 0 0 0 0 1 126 2 0.0 4 0 0 0 0 2 127 38 0.0 4 0 0 0 0 38 128 1 0.0 4 0 0 0 0 1 130 6 0.0 4 0 0 0 0 6 133 1 0.0 4 0 0 0 0 1 137 1 0.0 4 0 0 0 0 1 140 3 0.0 4 0 0 0 0 3 145 1 0.0 4 0 0 0 0 1 154 7 0.0 4 0 0 0 0 7 209 1 0.0 4 0 0 0 0 1 218 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 3 0.0 4 0 0 0 0 3 229 1 0.0 4 0 0 0 0 1 235 1 0.0 4 0 0 0 0 1 241 1 0.0 4 0 0 0 0 1 257 1 0.0 4 0 0 0 0 1 259 1 0.0 4 0 0 0 0 1 264 1 0.0 4 0 0 0 0 1 265 1 0.0 4 0 0 0 0 1 282 2 0.0 4 0 0 0 0 2 283 3 0.0 4 0 0 0 1 2 293 1 0.0 4 0 0 0 0 1 294 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 1.34 s (56 us/read; 1.07 M reads/minute). === Summary === Total reads processed: 23,812 Reads with adapters: 5,716 (24.0%) Reads written (passing filters): 23,812 (100.0%) Total basepairs processed: 6,493,746 bp Total written (filtered): 6,429,999 bp (99.0%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 5716 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.2% C: 3.9% G: 93.6% T: 1.3% 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 18 372.1 0 18 4 9 93.0 0 9 8 1 0.4 0 1 9 41 0.1 0 4 37 10 903 0.0 1 54 849 11 4691 0.0 1 78 4613 12 33 0.0 1 2 31 13 4 0.0 1 0 4 14 2 0.0 1 0 2 73 1 0.0 1 1 151 8 0.0 1 6 2 152 2 0.0 1 2 170 1 0.0 1 1 209 2 0.0 1 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.