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 172.26 s (47 us/read; 1.27 M reads/minute). === Summary === Total reads processed: 3,634,272 Reads with adapters: 234,303 (6.4%) Reads that were too short: 16,703 (0.5%) Reads written (passing filters): 217,600 (6.0%) Total basepairs processed: 1,093,915,872 bp Total written (filtered): 60,303,311 bp (5.5%) === Adapter 1 === Sequence: AAGTGT; Type: regular 5'; Length: 6; Trimmed: 234303 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1206 887.3 0 1206 7 91507 887.3 0 91507 8 98817 887.3 0 98817 9 117 887.3 0 117 10 37 887.3 0 37 11 39 887.3 0 39 12 56 887.3 0 56 13 36 887.3 0 36 14 40 887.3 0 40 15 40 887.3 0 40 16 77 887.3 0 77 17 40 887.3 0 40 18 72 887.3 0 72 19 46 887.3 0 46 20 35 887.3 0 35 21 61 887.3 0 61 22 52 887.3 0 52 23 32 887.3 0 32 24 30 887.3 0 30 25 31 887.3 0 31 26 39 887.3 0 39 27 52 887.3 0 52 28 39 887.3 0 39 29 51 887.3 0 51 30 38 887.3 0 38 31 37 887.3 0 37 32 25 887.3 0 25 33 34 887.3 0 34 34 48 887.3 0 48 35 33 887.3 0 33 36 52 887.3 0 52 37 61 887.3 0 61 38 39 887.3 0 39 39 48 887.3 0 48 40 60 887.3 0 60 41 43 887.3 0 43 42 39 887.3 0 39 43 32 887.3 0 32 44 45 887.3 0 45 45 43 887.3 0 43 46 70 887.3 0 70 47 52 887.3 0 52 48 50 887.3 0 50 49 49 887.3 0 49 50 29 887.3 0 29 51 34 887.3 0 34 52 64 887.3 0 64 53 49 887.3 0 49 54 170 887.3 0 170 55 354 887.3 0 354 56 191 887.3 0 191 57 33 887.3 0 33 58 38 887.3 0 38 59 50 887.3 0 50 60 73 887.3 0 73 61 387 887.3 0 387 62 481 887.3 0 481 63 434 887.3 0 434 64 58 887.3 0 58 65 38 887.3 0 38 66 50 887.3 0 50 67 201 887.3 0 201 68 140 887.3 0 140 69 256 887.3 0 256 70 39 887.3 0 39 71 71 887.3 0 71 72 69 887.3 0 69 73 46 887.3 0 46 74 61 887.3 0 61 75 68 887.3 0 68 76 40 887.3 0 40 77 42 887.3 0 42 78 77 887.3 0 77 79 61 887.3 0 61 80 69 887.3 0 69 81 59 887.3 0 59 82 57 887.3 0 57 83 57 887.3 0 57 84 51 887.3 0 51 85 49 887.3 0 49 86 78 887.3 0 78 87 89 887.3 0 89 88 72 887.3 0 72 89 69 887.3 0 69 90 62 887.3 0 62 91 45 887.3 0 45 92 55 887.3 0 55 93 54 887.3 0 54 94 71 887.3 0 71 95 59 887.3 0 59 96 75 887.3 0 75 97 69 887.3 0 69 98 77 887.3 0 77 99 75 887.3 0 75 100 89 887.3 0 89 101 65 887.3 0 65 102 47 887.3 0 47 103 56 887.3 0 56 104 34 887.3 0 34 105 42 887.3 0 42 106 55 887.3 0 55 107 44 887.3 0 44 108 38 887.3 0 38 109 43 887.3 0 43 110 41 887.3 0 41 111 56 887.3 0 56 112 49 887.3 0 49 113 56 887.3 0 56 114 68 887.3 0 68 115 90 887.3 0 90 116 49 887.3 0 49 117 20 887.3 0 20 118 48 887.3 0 48 119 49 887.3 0 49 120 48 887.3 0 48 121 55 887.3 0 55 122 60 887.3 0 60 123 143 887.3 0 143 124 139 887.3 0 139 125 115 887.3 0 115 126 124 887.3 0 124 127 141 887.3 0 141 128 176 887.3 0 176 129 564 887.3 0 564 130 225 887.3 0 225 131 258 887.3 0 258 132 126 887.3 0 126 133 52 887.3 0 52 134 151 887.3 0 151 135 179 887.3 0 179 136 140 887.3 0 140 137 45 887.3 0 45 138 55 887.3 0 55 139 68 887.3 0 68 140 65 887.3 0 65 141 48 887.3 0 48 142 86 887.3 0 86 143 53 887.3 0 53 144 105 887.3 0 105 145 446 887.3 0 446 146 92 887.3 0 92 147 62 887.3 0 62 148 88 887.3 0 88 149 70 887.3 0 70 150 51 887.3 0 51 151 68 887.3 0 68 152 90 887.3 0 90 153 51 887.3 0 51 154 61 887.3 0 61 155 58 887.3 0 58 156 139 887.3 0 139 157 150 887.3 0 150 158 95 887.3 0 95 159 85 887.3 0 85 160 48 887.3 0 48 161 44 887.3 0 44 162 60 887.3 0 60 163 71 887.3 0 71 164 46 887.3 0 46 165 70 887.3 0 70 166 166 887.3 0 166 167 88 887.3 0 88 168 163 887.3 0 163 169 56 887.3 0 56 170 45 887.3 0 45 171 67 887.3 0 67 172 65 887.3 0 65 173 62 887.3 0 62 174 75 887.3 0 75 175 62 887.3 0 62 176 77 887.3 0 77 177 74 887.3 0 74 178 53 887.3 0 53 179 69 887.3 0 69 180 55 887.3 0 55 181 49 887.3 0 49 182 69 887.3 0 69 183 83 887.3 0 83 184 105 887.3 0 105 185 102 887.3 0 102 186 84 887.3 0 84 187 87 887.3 0 87 188 64 887.3 0 64 189 72 887.3 0 72 190 69 887.3 0 69 191 91 887.3 0 91 192 114 887.3 0 114 193 116 887.3 0 116 194 187 887.3 0 187 195 244 887.3 0 244 196 1183 887.3 0 1183 197 2319 887.3 0 2319 198 3300 887.3 0 3300 199 3143 887.3 0 3143 200 184 887.3 0 184 201 107 887.3 0 107 202 83 887.3 0 83 203 75 887.3 0 75 204 103 887.3 0 103 205 71 887.3 0 71 206 68 887.3 0 68 207 48 887.3 0 48 208 102 887.3 0 102 209 70 887.3 0 70 210 96 887.3 0 96 211 155 887.3 0 155 212 81 887.3 0 81 213 98 887.3 0 98 214 91 887.3 0 91 215 91 887.3 0 91 216 85 887.3 0 85 217 66 887.3 0 66 218 112 887.3 0 112 219 203 887.3 0 203 220 223 887.3 0 223 221 214 887.3 0 214 222 223 887.3 0 223 223 160 887.3 0 160 224 302 887.3 0 302 225 97 887.3 0 97 226 124 887.3 0 124 227 162 887.3 0 162 228 64 887.3 0 64 229 56 887.3 0 56 230 59 887.3 0 59 231 72 887.3 0 72 232 90 887.3 0 90 233 83 887.3 0 83 234 80 887.3 0 80 235 71 887.3 0 71 236 83 887.3 0 83 237 74 887.3 0 74 238 283 887.3 0 283 239 235 887.3 0 235 240 223 887.3 0 223 241 190 887.3 0 190 242 220 887.3 0 220 243 100 887.3 0 100 244 130 887.3 0 130 245 1122 887.3 0 1122 246 844 887.3 0 844 247 979 887.3 0 979 248 156 887.3 0 156 249 131 887.3 0 131 250 109 887.3 0 109 251 81 887.3 0 81 252 88 887.3 0 88 253 63 887.3 0 63 254 247 887.3 0 247 255 227 887.3 0 227 256 160 887.3 0 160 257 69 887.3 0 69 258 83 887.3 0 83 259 96 887.3 0 96 260 84 887.3 0 84 261 106 887.3 0 106 262 533 887.3 0 533 263 1841 887.3 0 1841 264 615 887.3 0 615 265 74 887.3 0 74 266 76 887.3 0 76 267 203 887.3 0 203 268 367 887.3 0 367 269 309 887.3 0 309 270 136 887.3 0 136 271 62 887.3 0 62 272 136 887.3 0 136 273 233 887.3 0 233 274 182 887.3 0 182 275 141 887.3 0 141 276 86 887.3 0 86 277 64 887.3 0 64 278 60 887.3 0 60 279 78 887.3 0 78 280 61 887.3 0 61 281 86 887.3 0 86 282 85 887.3 0 85 283 78 887.3 0 78 284 65 887.3 0 65 285 36 887.3 0 36 286 66 887.3 0 66 287 81 887.3 0 81 288 91 887.3 0 91 289 97 887.3 0 97 290 89 887.3 0 89 291 66 887.3 0 66 292 58 887.3 0 58 293 65 887.3 0 65 294 79 887.3 0 79 295 77 887.3 0 77 296 67 887.3 0 67 297 73 887.3 0 73 298 51 887.3 0 51 299 64 887.3 0 64 300 56 887.3 0 56 301 55 887.3 0 55 Finished in 16.96 s (78 us/read; 0.77 M reads/minute). === Summary === Total reads processed: 217,600 Reads with adapters: 103,887 (47.7%) Reads that were too short: 37 (0.0%) Reads written (passing filters): 103,850 (47.7%) Total basepairs processed: 60,303,311 bp Total written (filtered): 28,227,063 bp (46.8%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 103887 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 34 0.0 3 0 0 34 19 879 0.0 3 0 856 18 2 3 20 101360 0.0 4 99637 1657 62 3 1 21 242 0.0 4 29 209 4 22 39 0.0 4 16 1 21 0 1 23 86 0.0 4 1 0 3 72 10 24 2 0.0 4 0 0 0 0 2 25 2 0.0 4 2 29 1 0.0 4 0 1 30 1 0.0 4 1 32 1 0.0 4 0 0 0 0 1 33 1 0.0 4 1 39 1 0.0 4 0 1 53 1 0.0 4 0 0 0 0 1 58 1 0.0 4 0 0 0 0 1 64 1 0.0 4 0 0 0 0 1 101 3 0.0 4 0 0 0 0 3 103 1 0.0 4 0 0 0 0 1 124 1 0.0 4 0 0 0 0 1 125 2 0.0 4 0 0 0 0 2 126 11 0.0 4 0 0 0 0 11 127 1176 0.0 4 0 0 0 0 1176 128 4 0.0 4 0 0 0 0 4 137 1 0.0 4 0 0 0 0 1 140 1 0.0 4 0 0 0 1 152 2 0.0 4 0 0 0 0 2 153 4 0.0 4 0 0 0 0 4 202 1 0.0 4 0 0 0 0 1 203 1 0.0 4 0 0 0 0 1 218 1 0.0 4 0 0 0 0 1 221 1 0.0 4 1 225 2 0.0 4 0 0 0 0 2 227 1 0.0 4 0 0 0 0 1 228 3 0.0 4 0 0 0 0 3 229 3 0.0 4 0 0 0 0 3 232 1 0.0 4 1 237 2 0.0 4 0 0 0 0 2 238 1 0.0 4 1 267 1 0.0 4 0 0 0 0 1 275 1 0.0 4 0 0 0 0 1 282 4 0.0 4 0 0 0 0 4 285 1 0.0 4 0 0 0 0 1 289 1 0.0 4 0 0 0 0 1 292 1 0.0 4 0 0 0 1 293 2 0.0 4 0 0 0 0 2 294 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 5.90 s (57 us/read; 1.06 M reads/minute). === Summary === Total reads processed: 103,850 Reads with adapters: 6,680 (6.4%) Reads written (passing filters): 103,850 (100.0%) Total basepairs processed: 28,227,063 bp Total written (filtered): 28,149,014 bp (99.7%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 6680 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 2.0% C: 3.1% G: 93.0% T: 2.0% 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 3 113 1622.7 0 113 4 19 405.7 0 19 5 5 101.4 0 5 6 12 25.4 0 12 8 2 1.6 0 2 9 71 0.4 0 2 69 10 733 0.1 1 25 708 11 5670 0.0 1 33 5637 12 18 0.0 1 1 17 13 1 0.0 1 0 1 14 2 0.0 1 0 2 33 1 0.0 1 1 44 1 0.0 1 1 151 4 0.0 1 0 4 209 2 0.0 1 1 1 224 24 0.0 1 23 1 225 2 0.0 1 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.