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 59.96 s (27 us/read; 2.24 M reads/minute). === Summary === Total reads processed: 2,238,925 Reads with adapters: 487,247 (21.8%) Reads that were too short: 67,727 (3.0%) Reads written (passing filters): 419,520 (18.7%) Total basepairs processed: 673,916,425 bp Total written (filtered): 94,446,747 bp (14.0%) === Adapter 1 === Sequence: GACGGC; Type: regular 5'; Length: 6; Trimmed: 487247 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 5295 546.6 0 5295 7 68121 546.6 0 68121 8 553 546.6 0 553 9 59281 546.6 0 59281 10 113 546.6 0 113 11 52 546.6 0 52 12 55 546.6 0 55 13 45 546.6 0 45 14 34 546.6 0 34 15 70 546.6 0 70 16 68 546.6 0 68 17 69 546.6 0 69 18 42 546.6 0 42 19 59 546.6 0 59 20 79 546.6 0 79 21 72 546.6 0 72 22 70 546.6 0 70 23 53 546.6 0 53 24 77 546.6 0 77 25 53 546.6 0 53 26 52 546.6 0 52 27 59 546.6 0 59 28 61 546.6 0 61 29 84 546.6 0 84 30 53 546.6 0 53 31 54 546.6 0 54 32 75 546.6 0 75 33 70 546.6 0 70 34 71 546.6 0 71 35 89 546.6 0 89 36 76 546.6 0 76 37 60 546.6 0 60 38 73 546.6 0 73 39 55 546.6 0 55 40 72 546.6 0 72 41 137 546.6 0 137 42 109 546.6 0 109 43 98 546.6 0 98 44 64 546.6 0 64 45 99 546.6 0 99 46 74 546.6 0 74 47 97 546.6 0 97 48 62 546.6 0 62 49 86 546.6 0 86 50 230 546.6 0 230 51 180 546.6 0 180 52 79 546.6 0 79 53 181 546.6 0 181 54 64 546.6 0 64 55 96 546.6 0 96 56 64 546.6 0 64 57 67 546.6 0 67 58 82 546.6 0 82 59 160 546.6 0 160 60 412 546.6 0 412 61 486 546.6 0 486 62 1055 546.6 0 1055 63 112 546.6 0 112 64 82 546.6 0 82 65 112 546.6 0 112 66 77 546.6 0 77 67 164 546.6 0 164 68 170 546.6 0 170 69 243 546.6 0 243 70 336 546.6 0 336 71 931 546.6 0 931 72 1375 546.6 0 1375 73 681 546.6 0 681 74 462 546.6 0 462 75 995 546.6 0 995 76 402 546.6 0 402 77 364 546.6 0 364 78 658 546.6 0 658 79 647 546.6 0 647 80 818 546.6 0 818 81 903 546.6 0 903 82 1082 546.6 0 1082 83 1484 546.6 0 1484 84 1719 546.6 0 1719 85 39938 546.6 0 39938 86 49867 546.6 0 49867 87 100431 546.6 0 100431 88 369 546.6 0 369 89 60 546.6 0 60 90 78 546.6 0 78 91 70 546.6 0 70 92 51 546.6 0 51 93 57 546.6 0 57 94 64 546.6 0 64 95 63 546.6 0 63 96 68 546.6 0 68 97 48 546.6 0 48 98 59 546.6 0 59 99 52 546.6 0 52 100 48 546.6 0 48 101 50 546.6 0 50 102 54 546.6 0 54 103 45 546.6 0 45 104 53 546.6 0 53 105 65 546.6 0 65 106 68 546.6 0 68 107 73 546.6 0 73 108 73 546.6 0 73 109 74 546.6 0 74 110 61 546.6 0 61 111 63 546.6 0 63 112 51 546.6 0 51 113 44 546.6 0 44 114 49 546.6 0 49 115 44 546.6 0 44 116 46 546.6 0 46 117 50 546.6 0 50 118 48 546.6 0 48 119 31 546.6 0 31 120 49 546.6 0 49 121 55 546.6 0 55 122 66 546.6 0 66 123 49 546.6 0 49 124 57 546.6 0 57 125 77 546.6 0 77 126 61 546.6 0 61 127 41 546.6 0 41 128 56 546.6 0 56 129 75 546.6 0 75 130 84 546.6 0 84 131 217 546.6 0 217 132 327 546.6 0 327 133 68 546.6 0 68 134 55 546.6 0 55 135 80 546.6 0 80 136 67 546.6 0 67 137 57 546.6 0 57 138 62 546.6 0 62 139 78 546.6 0 78 140 76 546.6 0 76 141 65 546.6 0 65 142 72 546.6 0 72 143 110 546.6 0 110 144 54 546.6 0 54 145 77 546.6 0 77 146 100 546.6 0 100 147 88 546.6 0 88 148 98 546.6 0 98 149 198 546.6 0 198 150 262 546.6 0 262 151 397 546.6 0 397 152 300 546.6 0 300 153 1658 546.6 0 1658 154 1493 546.6 0 1493 155 1400 546.6 0 1400 156 171 546.6 0 171 157 122 546.6 0 122 158 74 546.6 0 74 159 89 546.6 0 89 160 94 546.6 0 94 161 174 546.6 0 174 162 303 546.6 0 303 163 103 546.6 0 103 164 137 546.6 0 137 165 209 546.6 0 209 166 102 546.6 0 102 167 150 546.6 0 150 168 366 546.6 0 366 169 203 546.6 0 203 170 267 546.6 0 267 171 359 546.6 0 359 172 431 546.6 0 431 173 750 546.6 0 750 174 882 546.6 0 882 175 8811 546.6 0 8811 176 28256 546.6 0 28256 177 22197 546.6 0 22197 178 131 546.6 0 131 179 52 546.6 0 52 180 66 546.6 0 66 181 70 546.6 0 70 182 64 546.6 0 64 183 78 546.6 0 78 184 91 546.6 0 91 185 52 546.6 0 52 186 89 546.6 0 89 187 88 546.6 0 88 188 50 546.6 0 50 189 118 546.6 0 118 190 54 546.6 0 54 191 72 546.6 0 72 192 34 546.6 0 34 193 44 546.6 0 44 194 54 546.6 0 54 195 46 546.6 0 46 196 94 546.6 0 94 197 63 546.6 0 63 198 67 546.6 0 67 199 48 546.6 0 48 200 69 546.6 0 69 201 118 546.6 0 118 202 45 546.6 0 45 203 52 546.6 0 52 204 137 546.6 0 137 205 60 546.6 0 60 206 91 546.6 0 91 207 108 546.6 0 108 208 147 546.6 0 147 209 236 546.6 0 236 210 353 546.6 0 353 211 555 546.6 0 555 212 1653 546.6 0 1653 213 33264 546.6 0 33264 214 1308 546.6 0 1308 215 16487 546.6 0 16487 216 159 546.6 0 159 217 180 546.6 0 180 218 4414 546.6 0 4414 219 71 546.6 0 71 220 48 546.6 0 48 221 61 546.6 0 61 222 179 546.6 0 179 223 42 546.6 0 42 224 31 546.6 0 31 225 40 546.6 0 40 226 35 546.6 0 35 227 45 546.6 0 45 228 88 546.6 0 88 229 80 546.6 0 80 230 83 546.6 0 83 231 120 546.6 0 120 232 278 546.6 0 278 233 174 546.6 0 174 234 118 546.6 0 118 235 64 546.6 0 64 236 51 546.6 0 51 237 56 546.6 0 56 238 56 546.6 0 56 239 44 546.6 0 44 240 73 546.6 0 73 241 36 546.6 0 36 242 45 546.6 0 45 243 57 546.6 0 57 244 40 546.6 0 40 245 40 546.6 0 40 246 68 546.6 0 68 247 80 546.6 0 80 248 81 546.6 0 81 249 91 546.6 0 91 250 61 546.6 0 61 251 76 546.6 0 76 252 79 546.6 0 79 253 276 546.6 0 276 254 197 546.6 0 197 255 386 546.6 0 386 256 117 546.6 0 117 257 95 546.6 0 95 258 153 546.6 0 153 259 91 546.6 0 91 260 45 546.6 0 45 261 55 546.6 0 55 262 42 546.6 0 42 263 38 546.6 0 38 264 50 546.6 0 50 265 52 546.6 0 52 266 49 546.6 0 49 267 52 546.6 0 52 268 49 546.6 0 49 269 40 546.6 0 40 270 48 546.6 0 48 271 65 546.6 0 65 272 50 546.6 0 50 273 49 546.6 0 49 274 62 546.6 0 62 275 44 546.6 0 44 276 42 546.6 0 42 277 216 546.6 0 216 278 243 546.6 0 243 279 392 546.6 0 392 280 77 546.6 0 77 281 59 546.6 0 59 282 44 546.6 0 44 283 53 546.6 0 53 284 56 546.6 0 56 285 322 546.6 0 322 286 129 546.6 0 129 287 297 546.6 0 297 288 79 546.6 0 79 289 109 546.6 0 109 290 115 546.6 0 115 291 79 546.6 0 79 292 67 546.6 0 67 293 129 546.6 0 129 294 152 546.6 0 152 295 103 546.6 0 103 296 115 546.6 0 115 297 262 546.6 0 262 298 269 546.6 0 269 299 155 546.6 0 155 300 126 546.6 0 126 301 92 546.6 0 92 Finished in 17.63 s (42 us/read; 1.43 M reads/minute). === Summary === Total reads processed: 419,520 Reads with adapters: 72,631 (17.3%) Reads that were too short: 91 (0.0%) Reads written (passing filters): 72,540 (17.3%) Total basepairs processed: 94,446,747 bp Total written (filtered): 19,865,678 bp (21.0%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 72631 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 5 0.0 3 0 0 5 19 242 0.0 3 0 231 8 0 3 20 71929 0.0 4 70731 1153 42 3 21 161 0.0 4 13 146 2 22 16 0.0 4 7 0 9 23 59 0.0 4 0 0 1 54 4 24 1 0.0 4 0 0 0 0 1 25 1 0.0 4 1 27 1 0.0 4 1 49 32 0.0 4 0 0 0 0 32 51 1 0.0 4 0 0 0 0 1 52 1 0.0 4 0 0 0 0 1 57 1 0.0 4 0 0 0 0 1 76 2 0.0 4 0 0 0 0 2 77 3 0.0 4 0 0 0 0 3 78 1 0.0 4 0 0 0 0 1 84 1 0.0 4 0 0 0 0 1 90 1 0.0 4 0 0 0 0 1 91 7 0.0 4 1 0 0 0 6 92 1 0.0 4 0 0 0 0 1 96 1 0.0 4 0 0 0 0 1 102 2 0.0 4 0 0 0 0 2 112 1 0.0 4 0 0 0 0 1 115 1 0.0 4 0 0 0 0 1 126 1 0.0 4 0 0 0 0 1 127 80 0.0 4 0 0 0 0 80 129 2 0.0 4 0 0 0 0 2 130 1 0.0 4 0 0 0 0 1 134 1 0.0 4 0 0 0 0 1 137 2 0.0 4 0 0 0 0 2 138 1 0.0 4 0 0 0 0 1 149 1 0.0 4 0 0 0 0 1 150 20 0.0 4 0 0 0 0 20 151 5 0.0 4 0 0 0 1 4 152 4 0.0 4 0 0 0 0 4 168 1 0.0 4 0 0 0 1 184 3 0.0 4 0 0 0 0 3 185 4 0.0 4 0 0 0 0 4 186 2 0.0 4 0 0 0 0 2 187 3 0.0 4 0 0 1 0 2 189 1 0.0 4 0 0 0 0 1 190 1 0.0 4 0 0 0 0 1 194 1 0.0 4 0 0 0 0 1 206 2 0.0 4 0 0 0 0 2 208 2 0.0 4 0 0 0 0 2 214 2 0.0 4 0 0 0 0 2 215 5 0.0 4 0 0 0 0 5 216 1 0.0 4 0 0 0 1 222 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 0 1 227 1 0.0 4 0 0 0 0 1 234 1 0.0 4 0 0 0 0 1 235 1 0.0 4 0 0 0 0 1 265 1 0.0 4 0 0 0 0 1 266 1 0.0 4 0 0 0 0 1 279 1 0.0 4 0 0 0 0 1 281 1 0.0 4 0 0 0 0 1 283 1 0.0 4 0 0 0 0 1 288 1 0.0 4 0 0 0 0 1 291 2 0.0 4 0 0 0 1 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 2.50 s (34 us/read; 1.74 M reads/minute). === Summary === Total reads processed: 72,540 Reads with adapters: 1,396 (1.9%) Reads written (passing filters): 72,540 (100.0%) Total basepairs processed: 19,865,678 bp Total written (filtered): 19,848,354 bp (99.9%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 1396 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 8.6% C: 6.1% G: 83.3% 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 3 140 1133.4 0 140 4 11 283.4 0 11 5 5 70.8 0 5 9 4 0.3 0 0 4 10 34 0.1 1 0 34 11 883 0.0 1 8 875 12 65 0.0 1 11 54 13 217 0.0 1 112 105 14 14 0.0 1 9 5 15 5 0.0 1 1 4 16 1 0.0 1 0 1 91 1 0.0 1 0 1 152 11 0.0 1 0 11 210 2 0.0 1 2 225 3 0.0 1 3 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.