This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g GACGGC -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 146.56 s (50 us/read; 1.21 M reads/minute). === Summary === Total reads processed: 2,949,860 Reads with adapters: 512,045 (17.4%) Reads that were too short: 99,149 (3.4%) Reads written (passing filters): 412,896 (14.0%) Total basepairs processed: 887,907,860 bp Total written (filtered): 78,442,250 bp (8.8%) === Adapter 1 === Sequence: GACGGC; Type: regular 5'; Length: 6; Trimmed: 512045 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 969 720.2 0 969 7 11761 720.2 0 11761 8 130 720.2 0 130 9 9561 720.2 0 9561 10 71 720.2 0 71 11 57 720.2 0 57 12 46 720.2 0 46 13 43 720.2 0 43 14 47 720.2 0 47 15 58 720.2 0 58 16 76 720.2 0 76 17 75 720.2 0 75 18 55 720.2 0 55 19 83 720.2 0 83 20 79 720.2 0 79 21 73 720.2 0 73 22 70 720.2 0 70 23 54 720.2 0 54 24 61 720.2 0 61 25 61 720.2 0 61 26 54 720.2 0 54 27 68 720.2 0 68 28 79 720.2 0 79 29 51 720.2 0 51 30 87 720.2 0 87 31 56 720.2 0 56 32 69 720.2 0 69 33 82 720.2 0 82 34 85 720.2 0 85 35 93 720.2 0 93 36 116 720.2 0 116 37 67 720.2 0 67 38 71 720.2 0 71 39 46 720.2 0 46 40 54 720.2 0 54 41 114 720.2 0 114 42 137 720.2 0 137 43 133 720.2 0 133 44 80 720.2 0 80 45 114 720.2 0 114 46 108 720.2 0 108 47 150 720.2 0 150 48 69 720.2 0 69 49 153 720.2 0 153 50 424 720.2 0 424 51 198 720.2 0 198 52 85 720.2 0 85 53 108 720.2 0 108 54 94 720.2 0 94 55 184 720.2 0 184 56 80 720.2 0 80 57 96 720.2 0 96 58 122 720.2 0 122 59 135 720.2 0 135 60 363 720.2 0 363 61 952 720.2 0 952 62 532 720.2 0 532 63 146 720.2 0 146 64 98 720.2 0 98 65 155 720.2 0 155 66 142 720.2 0 142 67 213 720.2 0 213 68 305 720.2 0 305 69 467 720.2 0 467 70 584 720.2 0 584 71 1219 720.2 0 1219 72 1995 720.2 0 1995 73 657 720.2 0 657 74 621 720.2 0 621 75 1005 720.2 0 1005 76 401 720.2 0 401 77 425 720.2 0 425 78 861 720.2 0 861 79 777 720.2 0 777 80 1025 720.2 0 1025 81 957 720.2 0 957 82 1305 720.2 0 1305 83 1635 720.2 0 1635 84 2152 720.2 0 2152 85 58206 720.2 0 58206 86 82957 720.2 0 82957 87 79964 720.2 0 79964 88 351 720.2 0 351 89 60 720.2 0 60 90 97 720.2 0 97 91 76 720.2 0 76 92 64 720.2 0 64 93 66 720.2 0 66 94 71 720.2 0 71 95 68 720.2 0 68 96 75 720.2 0 75 97 66 720.2 0 66 98 82 720.2 0 82 99 62 720.2 0 62 100 82 720.2 0 82 101 61 720.2 0 61 102 72 720.2 0 72 103 68 720.2 0 68 104 50 720.2 0 50 105 64 720.2 0 64 106 87 720.2 0 87 107 90 720.2 0 90 108 67 720.2 0 67 109 83 720.2 0 83 110 78 720.2 0 78 111 71 720.2 0 71 112 51 720.2 0 51 113 59 720.2 0 59 114 64 720.2 0 64 115 79 720.2 0 79 116 57 720.2 0 57 117 56 720.2 0 56 118 66 720.2 0 66 119 49 720.2 0 49 120 54 720.2 0 54 121 70 720.2 0 70 122 75 720.2 0 75 123 97 720.2 0 97 124 118 720.2 0 118 125 76 720.2 0 76 126 75 720.2 0 75 127 46 720.2 0 46 128 87 720.2 0 87 129 122 720.2 0 122 130 158 720.2 0 158 131 440 720.2 0 440 132 189 720.2 0 189 133 88 720.2 0 88 134 102 720.2 0 102 135 95 720.2 0 95 136 100 720.2 0 100 137 85 720.2 0 85 138 92 720.2 0 92 139 107 720.2 0 107 140 92 720.2 0 92 141 107 720.2 0 107 142 106 720.2 0 106 143 130 720.2 0 130 144 156 720.2 0 156 145 152 720.2 0 152 146 117 720.2 0 117 147 91 720.2 0 91 148 141 720.2 0 141 149 431 720.2 0 431 150 390 720.2 0 390 151 817 720.2 0 817 152 1142 720.2 0 1142 153 4780 720.2 0 4780 154 2445 720.2 0 2445 155 1410 720.2 0 1410 156 210 720.2 0 210 157 107 720.2 0 107 158 118 720.2 0 118 159 168 720.2 0 168 160 225 720.2 0 225 161 347 720.2 0 347 162 706 720.2 0 706 163 233 720.2 0 233 164 327 720.2 0 327 165 493 720.2 0 493 166 239 720.2 0 239 167 210 720.2 0 210 168 481 720.2 0 481 169 392 720.2 0 392 170 509 720.2 0 509 171 602 720.2 0 602 172 774 720.2 0 774 173 1329 720.2 0 1329 174 1544 720.2 0 1544 175 28478 720.2 0 28478 176 59551 720.2 0 59551 177 29203 720.2 0 29203 178 171 720.2 0 171 179 80 720.2 0 80 180 87 720.2 0 87 181 101 720.2 0 101 182 71 720.2 0 71 183 137 720.2 0 137 184 87 720.2 0 87 185 71 720.2 0 71 186 137 720.2 0 137 187 58 720.2 0 58 188 60 720.2 0 60 189 57 720.2 0 57 190 77 720.2 0 77 191 89 720.2 0 89 192 57 720.2 0 57 193 57 720.2 0 57 194 58 720.2 0 58 195 91 720.2 0 91 196 169 720.2 0 169 197 76 720.2 0 76 198 69 720.2 0 69 199 67 720.2 0 67 200 95 720.2 0 95 201 142 720.2 0 142 202 76 720.2 0 76 203 66 720.2 0 66 204 89 720.2 0 89 205 122 720.2 0 122 206 166 720.2 0 166 207 158 720.2 0 158 208 231 720.2 0 231 209 551 720.2 0 551 210 514 720.2 0 514 211 748 720.2 0 748 212 916 720.2 0 916 213 13233 720.2 0 13233 214 20711 720.2 0 20711 215 47525 720.2 0 47525 216 230 720.2 0 230 217 80 720.2 0 80 218 130 720.2 0 130 219 102 720.2 0 102 220 94 720.2 0 94 221 89 720.2 0 89 222 151 720.2 0 151 223 47 720.2 0 47 224 59 720.2 0 59 225 48 720.2 0 48 226 62 720.2 0 62 227 85 720.2 0 85 228 102 720.2 0 102 229 127 720.2 0 127 230 112 720.2 0 112 231 401 720.2 0 401 232 486 720.2 0 486 233 498 720.2 0 498 234 87 720.2 0 87 235 64 720.2 0 64 236 49 720.2 0 49 237 57 720.2 0 57 238 59 720.2 0 59 239 62 720.2 0 62 240 74 720.2 0 74 241 76 720.2 0 76 242 58 720.2 0 58 243 55 720.2 0 55 244 83 720.2 0 83 245 79 720.2 0 79 246 61 720.2 0 61 247 67 720.2 0 67 248 90 720.2 0 90 249 110 720.2 0 110 250 104 720.2 0 104 251 104 720.2 0 104 252 71 720.2 0 71 253 255 720.2 0 255 254 494 720.2 0 494 255 382 720.2 0 382 256 202 720.2 0 202 257 384 720.2 0 384 258 212 720.2 0 212 259 171 720.2 0 171 260 45 720.2 0 45 261 72 720.2 0 72 262 53 720.2 0 53 263 53 720.2 0 53 264 53 720.2 0 53 265 67 720.2 0 67 266 48 720.2 0 48 267 67 720.2 0 67 268 61 720.2 0 61 269 60 720.2 0 60 270 59 720.2 0 59 271 80 720.2 0 80 272 81 720.2 0 81 273 61 720.2 0 61 274 76 720.2 0 76 275 65 720.2 0 65 276 94 720.2 0 94 277 824 720.2 0 824 278 1196 720.2 0 1196 279 1252 720.2 0 1252 280 59 720.2 0 59 281 74 720.2 0 74 282 74 720.2 0 74 283 67 720.2 0 67 284 59 720.2 0 59 285 220 720.2 0 220 286 280 720.2 0 280 287 233 720.2 0 233 288 160 720.2 0 160 289 166 720.2 0 166 290 164 720.2 0 164 291 69 720.2 0 69 292 89 720.2 0 89 293 118 720.2 0 118 294 159 720.2 0 159 295 155 720.2 0 155 296 148 720.2 0 148 297 204 720.2 0 204 298 232 720.2 0 232 299 269 720.2 0 269 300 154 720.2 0 154 301 110 720.2 0 110 Finished in 25.69 s (62 us/read; 0.96 M reads/minute). === Summary === Total reads processed: 412,896 Reads with adapters: 12,093 (2.9%) Reads that were too short: 125 (0.0%) Reads written (passing filters): 11,968 (2.9%) Total basepairs processed: 78,442,250 bp Total written (filtered): 3,259,027 bp (4.2%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 12093 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 1 0.0 3 0 0 1 19 55 0.0 3 0 52 1 2 20 11689 0.0 4 11479 207 2 0 1 21 21 0.0 4 0 21 22 1 0.0 4 0 0 1 23 10 0.0 4 1 0 0 9 26 1 0.0 4 0 0 0 0 1 41 1 0.0 4 0 0 0 0 1 42 1 0.0 4 1 49 122 0.0 4 0 0 0 0 122 67 3 0.0 4 0 0 0 0 3 75 1 0.0 4 0 0 0 0 1 76 3 0.0 4 1 0 0 0 2 77 2 0.0 4 0 0 0 0 2 87 1 0.0 4 0 0 0 0 1 89 1 0.0 4 0 0 0 0 1 90 2 0.0 4 0 0 0 0 2 91 11 0.0 4 0 0 0 0 11 112 1 0.0 4 0 0 0 0 1 113 1 0.0 4 1 117 1 0.0 4 0 1 124 1 0.0 4 0 0 0 0 1 127 16 0.0 4 0 0 0 0 16 128 38 0.0 4 0 0 0 0 38 129 10 0.0 4 0 0 0 0 10 134 1 0.0 4 0 0 0 0 1 135 1 0.0 4 0 0 0 0 1 136 2 0.0 4 0 0 0 0 2 137 1 0.0 4 0 0 0 0 1 140 1 0.0 4 0 0 0 0 1 142 2 0.0 4 0 0 0 0 2 146 1 0.0 4 0 0 0 0 1 150 32 0.0 4 0 0 0 2 30 151 18 0.0 4 0 0 0 2 16 152 5 0.0 4 0 0 0 0 5 158 1 0.0 4 0 0 0 0 1 161 1 0.0 4 0 0 0 0 1 162 1 0.0 4 1 180 1 0.0 4 0 0 0 0 1 182 3 0.0 4 0 0 0 0 3 184 1 0.0 4 0 0 0 0 1 186 5 0.0 4 0 0 0 0 5 187 8 0.0 4 0 0 0 0 8 195 1 0.0 4 0 0 0 0 1 197 1 0.0 4 0 0 0 0 1 216 2 0.0 4 0 0 0 0 2 222 1 0.0 4 0 0 0 0 1 224 1 0.0 4 0 0 0 0 1 225 1 0.0 4 0 0 0 1 228 4 0.0 4 0 0 0 0 4 229 1 0.0 4 0 0 0 0 1 235 1 0.0 4 0 0 0 0 1 285 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 0.71 s (59 us/read; 1.01 M reads/minute). === Summary === Total reads processed: 11,968 Reads with adapters: 433 (3.6%) Reads written (passing filters): 11,968 (100.0%) Total basepairs processed: 3,259,027 bp Total written (filtered): 3,253,655 bp (99.8%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 433 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 6.0% C: 2.1% G: 90.8% T: 1.2% 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 23 187.0 0 23 4 2 46.8 0 2 5 1 11.7 0 1 7 1 0.7 0 1 9 1 0.0 0 0 1 10 5 0.0 1 0 5 11 345 0.0 1 2 343 12 8 0.0 1 0 8 13 38 0.0 1 21 17 14 2 0.0 1 2 20 1 0.0 1 1 21 1 0.0 1 1 88 1 0.0 1 0 1 152 2 0.0 1 0 2 153 1 0.0 1 0 1 225 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.