This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AGAGAC -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 67.98 s (26 us/read; 2.27 M reads/minute). === Summary === Total reads processed: 2,574,510 Reads with adapters: 262,844 (10.2%) Reads that were too short: 17,347 (0.7%) Reads written (passing filters): 245,497 (9.5%) Total basepairs processed: 774,927,510 bp Total written (filtered): 53,882,363 bp (7.0%) === Adapter 1 === Sequence: AGAGAC; Type: regular 5'; Length: 6; Trimmed: 262844 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 212 628.5 0 212 7 5869 628.5 0 5869 8 3043 628.5 0 3043 9 13 628.5 0 13 10 55 628.5 0 55 11 75 628.5 0 75 12 13 628.5 0 13 13 30 628.5 0 30 14 9 628.5 0 9 15 11 628.5 0 11 16 6 628.5 0 6 17 8 628.5 0 8 18 20 628.5 0 20 19 20 628.5 0 20 20 15 628.5 0 15 21 42 628.5 0 42 22 19 628.5 0 19 23 24 628.5 0 24 24 9 628.5 0 9 25 8 628.5 0 8 26 10 628.5 0 10 27 22 628.5 0 22 28 62 628.5 0 62 29 23 628.5 0 23 30 18 628.5 0 18 31 22 628.5 0 22 32 16 628.5 0 16 33 23 628.5 0 23 34 11 628.5 0 11 35 31 628.5 0 31 36 20 628.5 0 20 37 5 628.5 0 5 38 12 628.5 0 12 39 20 628.5 0 20 40 25 628.5 0 25 41 18 628.5 0 18 42 61 628.5 0 61 43 37 628.5 0 37 44 43 628.5 0 43 45 45 628.5 0 45 46 47 628.5 0 47 47 45 628.5 0 45 48 28 628.5 0 28 49 63 628.5 0 63 50 19 628.5 0 19 51 56 628.5 0 56 52 338 628.5 0 338 53 102 628.5 0 102 54 122 628.5 0 122 55 110 628.5 0 110 56 30 628.5 0 30 57 17 628.5 0 17 58 19 628.5 0 19 59 116 628.5 0 116 60 76 628.5 0 76 61 195 628.5 0 195 62 579 628.5 0 579 63 158 628.5 0 158 64 355 628.5 0 355 65 501 628.5 0 501 66 756 628.5 0 756 67 1960 628.5 0 1960 68 241 628.5 0 241 69 224 628.5 0 224 70 102 628.5 0 102 71 142 628.5 0 142 72 424 628.5 0 424 73 442 628.5 0 442 74 860 628.5 0 860 75 1243 628.5 0 1243 76 1298 628.5 0 1298 77 3480 628.5 0 3480 78 5456 628.5 0 5456 79 82937 628.5 0 82937 80 30664 628.5 0 30664 81 82513 628.5 0 82513 82 688 628.5 0 688 83 397 628.5 0 397 84 43 628.5 0 43 85 32 628.5 0 32 86 22 628.5 0 22 87 34 628.5 0 34 88 24 628.5 0 24 89 15 628.5 0 15 90 8 628.5 0 8 91 11 628.5 0 11 92 15 628.5 0 15 93 32 628.5 0 32 94 14 628.5 0 14 95 7 628.5 0 7 96 12 628.5 0 12 97 11 628.5 0 11 98 12 628.5 0 12 99 8 628.5 0 8 100 20 628.5 0 20 101 16 628.5 0 16 102 21 628.5 0 21 103 35 628.5 0 35 104 14 628.5 0 14 105 24 628.5 0 24 106 12 628.5 0 12 107 16 628.5 0 16 108 13 628.5 0 13 109 23 628.5 0 23 110 22 628.5 0 22 111 28 628.5 0 28 112 28 628.5 0 28 113 30 628.5 0 30 114 36 628.5 0 36 115 63 628.5 0 63 116 601 628.5 0 601 117 614 628.5 0 614 118 856 628.5 0 856 119 37 628.5 0 37 120 73 628.5 0 73 121 83 628.5 0 83 122 86 628.5 0 86 123 213 628.5 0 213 124 165 628.5 0 165 125 189 628.5 0 189 126 185 628.5 0 185 127 64 628.5 0 64 128 78 628.5 0 78 129 95 628.5 0 95 130 324 628.5 0 324 131 503 628.5 0 503 132 671 628.5 0 671 133 72 628.5 0 72 134 49 628.5 0 49 135 54 628.5 0 54 136 58 628.5 0 58 137 104 628.5 0 104 138 78 628.5 0 78 139 106 628.5 0 106 140 109 628.5 0 109 141 151 628.5 0 151 142 234 628.5 0 234 143 85 628.5 0 85 144 94 628.5 0 94 145 174 628.5 0 174 146 192 628.5 0 192 147 246 628.5 0 246 148 186 628.5 0 186 149 194 628.5 0 194 150 1981 628.5 0 1981 151 2934 628.5 0 2934 152 2476 628.5 0 2476 153 102 628.5 0 102 154 37 628.5 0 37 155 43 628.5 0 43 156 34 628.5 0 34 157 52 628.5 0 52 158 83 628.5 0 83 159 43 628.5 0 43 160 42 628.5 0 42 161 46 628.5 0 46 162 40 628.5 0 40 163 44 628.5 0 44 164 32 628.5 0 32 165 60 628.5 0 60 166 76 628.5 0 76 167 153 628.5 0 153 168 127 628.5 0 127 169 147 628.5 0 147 170 93 628.5 0 93 171 98 628.5 0 98 172 228 628.5 0 228 173 241 628.5 0 241 174 188 628.5 0 188 175 32 628.5 0 32 176 36 628.5 0 36 177 37 628.5 0 37 178 31 628.5 0 31 179 45 628.5 0 45 180 46 628.5 0 46 181 45 628.5 0 45 182 49 628.5 0 49 183 53 628.5 0 53 184 72 628.5 0 72 185 55 628.5 0 55 186 75 628.5 0 75 187 62 628.5 0 62 188 86 628.5 0 86 189 39 628.5 0 39 190 41 628.5 0 41 191 40 628.5 0 40 192 47 628.5 0 47 193 73 628.5 0 73 194 97 628.5 0 97 195 63 628.5 0 63 196 52 628.5 0 52 197 61 628.5 0 61 198 68 628.5 0 68 199 83 628.5 0 83 200 88 628.5 0 88 201 69 628.5 0 69 202 42 628.5 0 42 203 40 628.5 0 40 204 39 628.5 0 39 205 67 628.5 0 67 206 81 628.5 0 81 207 46 628.5 0 46 208 73 628.5 0 73 209 66 628.5 0 66 210 88 628.5 0 88 211 71 628.5 0 71 212 114 628.5 0 114 213 94 628.5 0 94 214 101 628.5 0 101 215 69 628.5 0 69 216 67 628.5 0 67 217 382 628.5 0 382 218 225 628.5 0 225 219 502 628.5 0 502 220 114 628.5 0 114 221 124 628.5 0 124 222 143 628.5 0 143 223 132 628.5 0 132 224 156 628.5 0 156 225 276 628.5 0 276 226 2014 628.5 0 2014 227 1065 628.5 0 1065 228 1734 628.5 0 1734 229 184 628.5 0 184 230 99 628.5 0 99 231 63 628.5 0 63 232 46 628.5 0 46 233 64 628.5 0 64 234 61 628.5 0 61 235 46 628.5 0 46 236 29 628.5 0 29 237 59 628.5 0 59 238 77 628.5 0 77 239 76 628.5 0 76 240 78 628.5 0 78 241 82 628.5 0 82 242 76 628.5 0 76 243 69 628.5 0 69 244 67 628.5 0 67 245 82 628.5 0 82 246 165 628.5 0 165 247 166 628.5 0 166 248 204 628.5 0 204 249 120 628.5 0 120 250 88 628.5 0 88 251 108 628.5 0 108 252 133 628.5 0 133 253 147 628.5 0 147 254 97 628.5 0 97 255 111 628.5 0 111 256 122 628.5 0 122 257 103 628.5 0 103 258 78 628.5 0 78 259 121 628.5 0 121 260 103 628.5 0 103 261 136 628.5 0 136 262 100 628.5 0 100 263 87 628.5 0 87 264 133 628.5 0 133 265 168 628.5 0 168 266 202 628.5 0 202 267 130 628.5 0 130 268 147 628.5 0 147 269 103 628.5 0 103 270 66 628.5 0 66 271 73 628.5 0 73 272 105 628.5 0 105 273 97 628.5 0 97 274 206 628.5 0 206 275 183 628.5 0 183 276 148 628.5 0 148 277 209 628.5 0 209 278 144 628.5 0 144 279 267 628.5 0 267 280 302 628.5 0 302 281 264 628.5 0 264 282 144 628.5 0 144 283 88 628.5 0 88 284 90 628.5 0 90 285 88 628.5 0 88 286 153 628.5 0 153 287 132 628.5 0 132 288 151 628.5 0 151 289 195 628.5 0 195 290 146 628.5 0 146 291 214 628.5 0 214 292 248 628.5 0 248 293 143 628.5 0 143 294 93 628.5 0 93 295 91 628.5 0 91 296 100 628.5 0 100 297 117 628.5 0 117 298 194 628.5 0 194 299 202 628.5 0 202 300 258 628.5 0 258 301 181 628.5 0 181 Finished in 10.37 s (42 us/read; 1.42 M reads/minute). === Summary === Total reads processed: 245,497 Reads with adapters: 5,496 (2.2%) Reads that were too short: 33 (0.0%) Reads written (passing filters): 5,463 (2.2%) Total basepairs processed: 53,882,363 bp Total written (filtered): 1,486,860 bp (2.8%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 5496 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 1 0.0 3 0 0 0 1 18 1 0.0 3 0 0 1 19 59 0.0 3 0 48 5 3 3 20 3023 0.0 4 2752 217 40 7 7 21 44 0.0 4 7 30 0 3 4 22 2272 0.0 4 2039 180 32 18 3 23 24 0.0 4 0 3 1 16 4 25 20 0.0 4 0 0 0 10 10 26 1 0.0 4 1 28 1 0.0 4 0 0 0 0 1 36 1 0.0 4 0 0 0 1 43 2 0.0 4 0 0 0 0 2 49 1 0.0 4 0 0 0 0 1 52 1 0.0 4 0 0 0 0 1 54 1 0.0 4 0 0 0 0 1 56 1 0.0 4 0 0 0 0 1 64 1 0.0 4 0 0 0 0 1 65 1 0.0 4 0 0 0 0 1 69 1 0.0 4 0 0 0 0 1 71 1 0.0 4 0 0 0 0 1 75 1 0.0 4 0 0 0 0 1 77 1 0.0 4 0 0 0 0 1 81 1 0.0 4 0 0 0 0 1 85 1 0.0 4 1 91 2 0.0 4 0 0 0 0 2 92 1 0.0 4 0 0 0 0 1 94 1 0.0 4 0 0 0 0 1 95 2 0.0 4 0 0 0 0 2 96 1 0.0 4 0 0 0 0 1 108 2 0.0 4 0 0 0 1 1 110 1 0.0 4 1 111 1 0.0 4 0 0 0 0 1 117 2 0.0 4 0 0 0 0 2 118 1 0.0 4 0 0 0 0 1 122 1 0.0 4 0 0 0 0 1 125 1 0.0 4 0 0 0 0 1 126 2 0.0 4 0 0 0 0 2 129 2 0.0 4 0 0 0 0 2 140 1 0.0 4 0 0 0 0 1 143 1 0.0 4 0 0 0 0 1 147 1 0.0 4 0 0 0 0 1 156 1 0.0 4 0 0 0 0 1 159 1 0.0 4 0 0 0 1 185 1 0.0 4 0 0 0 0 1 188 1 0.0 4 0 0 0 0 1 208 1 0.0 4 0 0 0 0 1 215 1 0.0 4 0 0 0 0 1 228 3 0.0 4 0 0 0 0 3 235 1 0.0 4 0 0 0 0 1 283 1 0.0 4 0 0 0 0 1 286 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 0.20 s (37 us/read; 1.64 M reads/minute). === Summary === Total reads processed: 5,463 Reads with adapters: 1,194 (21.9%) Reads written (passing filters): 5,463 (100.0%) Total basepairs processed: 1,486,860 bp Total written (filtered): 1,461,800 bp (98.3%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 1194 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 5.9% C: 8.8% G: 83.1% T: 2.2% 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 3 85.4 0 3 4 5 21.3 0 5 8 1 0.1 0 1 9 193 0.0 0 23 170 10 393 0.0 1 37 356 11 540 0.0 1 20 520 12 2 0.0 1 0 2 13 3 0.0 1 0 3 14 2 0.0 1 0 2 170 2 0.0 1 2 256 6 0.0 1 6 258 1 0.0 1 1 259 25 0.0 1 22 3 260 5 0.0 1 4 1 261 2 0.0 1 1 1 262 1 0.0 1 1 263 9 0.0 1 9 265 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.