This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CACTCT -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 95.80 s (30 us/read; 2.00 M reads/minute). === Summary === Total reads processed: 3,193,041 Reads with adapters: 351,199 (11.0%) Reads that were too short: 27,953 (0.9%) Reads written (passing filters): 323,246 (10.1%) Total basepairs processed: 961,105,341 bp Total written (filtered): 49,780,497 bp (5.2%) === Adapter 1 === Sequence: CACTCT; Type: regular 5'; Length: 6; Trimmed: 351199 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 288 779.6 0 288 7 4086 779.6 0 4086 8 191 779.6 0 191 9 14622 779.6 0 14622 10 20 779.6 0 20 11 12 779.6 0 12 12 23 779.6 0 23 13 9 779.6 0 9 14 20 779.6 0 20 15 15 779.6 0 15 16 25 779.6 0 25 17 18 779.6 0 18 18 9 779.6 0 9 19 21 779.6 0 21 20 44 779.6 0 44 21 37 779.6 0 37 22 34 779.6 0 34 23 7 779.6 0 7 24 16 779.6 0 16 25 11 779.6 0 11 26 19 779.6 0 19 27 16 779.6 0 16 28 14 779.6 0 14 29 14 779.6 0 14 30 20 779.6 0 20 31 33 779.6 0 33 32 37 779.6 0 37 33 23 779.6 0 23 34 40 779.6 0 40 35 67 779.6 0 67 36 22 779.6 0 22 37 13 779.6 0 13 38 17 779.6 0 17 39 16 779.6 0 16 40 13 779.6 0 13 41 35 779.6 0 35 42 27 779.6 0 27 43 165 779.6 0 165 44 54 779.6 0 54 45 36 779.6 0 36 46 550 779.6 0 550 47 114 779.6 0 114 48 234 779.6 0 234 49 99 779.6 0 99 50 121 779.6 0 121 51 24 779.6 0 24 52 16 779.6 0 16 53 37 779.6 0 37 54 96 779.6 0 96 55 41 779.6 0 41 56 56 779.6 0 56 57 12 779.6 0 12 58 9 779.6 0 9 59 25 779.6 0 25 60 8 779.6 0 8 61 40 779.6 0 40 62 16 779.6 0 16 63 17 779.6 0 17 64 16 779.6 0 16 65 7 779.6 0 7 66 12 779.6 0 12 67 54 779.6 0 54 68 14 779.6 0 14 69 16 779.6 0 16 70 27 779.6 0 27 71 25 779.6 0 25 72 14 779.6 0 14 73 27 779.6 0 27 74 11 779.6 0 11 75 18 779.6 0 18 76 19 779.6 0 19 77 32 779.6 0 32 78 23 779.6 0 23 79 58 779.6 0 58 80 51 779.6 0 51 81 43 779.6 0 43 82 61 779.6 0 61 83 32 779.6 0 32 84 53 779.6 0 53 85 24 779.6 0 24 86 34 779.6 0 34 87 44 779.6 0 44 88 74 779.6 0 74 89 152 779.6 0 152 90 119 779.6 0 119 91 61 779.6 0 61 92 317 779.6 0 317 93 67 779.6 0 67 94 199 779.6 0 199 95 137 779.6 0 137 96 114 779.6 0 114 97 112 779.6 0 112 98 66 779.6 0 66 99 57 779.6 0 57 100 55 779.6 0 55 101 24 779.6 0 24 102 161 779.6 0 161 103 109 779.6 0 109 104 446 779.6 0 446 105 1048 779.6 0 1048 106 1651 779.6 0 1651 107 74 779.6 0 74 108 135 779.6 0 135 109 117 779.6 0 117 110 204 779.6 0 204 111 72 779.6 0 72 112 368 779.6 0 368 113 185 779.6 0 185 114 191 779.6 0 191 115 65 779.6 0 65 116 50 779.6 0 50 117 49 779.6 0 49 118 61 779.6 0 61 119 172 779.6 0 172 120 107 779.6 0 107 121 59 779.6 0 59 122 138 779.6 0 138 123 59 779.6 0 59 124 186 779.6 0 186 125 154 779.6 0 154 126 156 779.6 0 156 127 406 779.6 0 406 128 350 779.6 0 350 129 510 779.6 0 510 130 148 779.6 0 148 131 224 779.6 0 224 132 101 779.6 0 101 133 206 779.6 0 206 134 729 779.6 0 729 135 338 779.6 0 338 136 285 779.6 0 285 137 126 779.6 0 126 138 161 779.6 0 161 139 345 779.6 0 345 140 374 779.6 0 374 141 373 779.6 0 373 142 370 779.6 0 370 143 646 779.6 0 646 144 1592 779.6 0 1592 145 1435 779.6 0 1435 146 22608 779.6 0 22608 147 11154 779.6 0 11154 148 29553 779.6 0 29553 149 499 779.6 0 499 150 252 779.6 0 252 151 891 779.6 0 891 152 1001 779.6 0 1001 153 2142 779.6 0 2142 154 485 779.6 0 485 155 567 779.6 0 567 156 873 779.6 0 873 157 1242 779.6 0 1242 158 1380 779.6 0 1380 159 3167 779.6 0 3167 160 4369 779.6 0 4369 161 74504 779.6 0 74504 162 53112 779.6 0 53112 163 69975 779.6 0 69975 164 543 779.6 0 543 165 361 779.6 0 361 166 243 779.6 0 243 167 260 779.6 0 260 168 145 779.6 0 145 169 81 779.6 0 81 170 67 779.6 0 67 171 71 779.6 0 71 172 97 779.6 0 97 173 188 779.6 0 188 174 171 779.6 0 171 175 117 779.6 0 117 176 114 779.6 0 114 177 146 779.6 0 146 178 91 779.6 0 91 179 184 779.6 0 184 180 166 779.6 0 166 181 302 779.6 0 302 182 555 779.6 0 555 183 582 779.6 0 582 184 281 779.6 0 281 185 138 779.6 0 138 186 104 779.6 0 104 187 221 779.6 0 221 188 77 779.6 0 77 189 140 779.6 0 140 190 165 779.6 0 165 191 162 779.6 0 162 192 217 779.6 0 217 193 86 779.6 0 86 194 71 779.6 0 71 195 51 779.6 0 51 196 81 779.6 0 81 197 131 779.6 0 131 198 121 779.6 0 121 199 58 779.6 0 58 200 85 779.6 0 85 201 90 779.6 0 90 202 255 779.6 0 255 203 215 779.6 0 215 204 158 779.6 0 158 205 98 779.6 0 98 206 136 779.6 0 136 207 86 779.6 0 86 208 153 779.6 0 153 209 159 779.6 0 159 210 130 779.6 0 130 211 103 779.6 0 103 212 122 779.6 0 122 213 140 779.6 0 140 214 182 779.6 0 182 215 175 779.6 0 175 216 196 779.6 0 196 217 255 779.6 0 255 218 332 779.6 0 332 219 264 779.6 0 264 220 102 779.6 0 102 221 113 779.6 0 113 222 257 779.6 0 257 223 272 779.6 0 272 224 171 779.6 0 171 225 164 779.6 0 164 226 275 779.6 0 275 227 166 779.6 0 166 228 200 779.6 0 200 229 127 779.6 0 127 230 86 779.6 0 86 231 80 779.6 0 80 232 89 779.6 0 89 233 134 779.6 0 134 234 155 779.6 0 155 235 97 779.6 0 97 236 86 779.6 0 86 237 98 779.6 0 98 238 192 779.6 0 192 239 233 779.6 0 233 240 1399 779.6 0 1399 241 1743 779.6 0 1743 242 3955 779.6 0 3955 243 894 779.6 0 894 244 430 779.6 0 430 245 202 779.6 0 202 246 136 779.6 0 136 247 94 779.6 0 94 248 118 779.6 0 118 249 102 779.6 0 102 250 163 779.6 0 163 251 194 779.6 0 194 252 280 779.6 0 280 253 254 779.6 0 254 254 338 779.6 0 338 255 254 779.6 0 254 256 279 779.6 0 279 257 192 779.6 0 192 258 95 779.6 0 95 259 51 779.6 0 51 260 59 779.6 0 59 261 51 779.6 0 51 262 78 779.6 0 78 263 96 779.6 0 96 264 207 779.6 0 207 265 256 779.6 0 256 266 282 779.6 0 282 267 526 779.6 0 526 268 571 779.6 0 571 269 461 779.6 0 461 270 401 779.6 0 401 271 289 779.6 0 289 272 192 779.6 0 192 273 132 779.6 0 132 274 114 779.6 0 114 275 157 779.6 0 157 276 196 779.6 0 196 277 1586 779.6 0 1586 278 951 779.6 0 951 279 866 779.6 0 866 280 188 779.6 0 188 281 136 779.6 0 136 282 130 779.6 0 130 283 194 779.6 0 194 284 88 779.6 0 88 285 204 779.6 0 204 286 103 779.6 0 103 287 176 779.6 0 176 288 120 779.6 0 120 289 122 779.6 0 122 290 106 779.6 0 106 291 160 779.6 0 160 292 168 779.6 0 168 293 173 779.6 0 173 294 118 779.6 0 118 295 90 779.6 0 90 296 108 779.6 0 108 297 165 779.6 0 165 298 102 779.6 0 102 299 193 779.6 0 193 300 74 779.6 0 74 301 135 779.6 0 135 Finished in 12.40 s (38 us/read; 1.56 M reads/minute). === Summary === Total reads processed: 323,246 Reads with adapters: 4,284 (1.3%) Reads that were too short: 20 (0.0%) Reads written (passing filters): 4,264 (1.3%) Total basepairs processed: 49,780,497 bp Total written (filtered): 1,148,601 bp (2.3%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 4284 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 2 0.0 3 0 0 0 2 18 1 0.0 3 0 0 1 19 48 0.0 3 0 47 1 20 3976 0.0 4 3930 43 2 1 21 17 0.0 4 7 10 22 4 0.0 4 0 1 3 23 35 0.0 4 34 0 1 24 1 0.0 4 0 0 0 0 1 28 7 0.0 4 0 0 0 0 7 31 1 0.0 4 0 0 0 0 1 34 1 0.0 4 0 0 0 0 1 35 3 0.0 4 0 0 0 0 3 36 1 0.0 4 0 0 0 1 38 1 0.0 4 0 0 0 0 1 43 1 0.0 4 0 0 0 0 1 47 1 0.0 4 0 0 0 0 1 49 1 0.0 4 0 0 0 0 1 56 2 0.0 4 0 0 0 0 2 71 1 0.0 4 0 0 0 0 1 79 2 0.0 4 1 0 0 0 1 87 1 0.0 4 0 0 0 0 1 91 1 0.0 4 1 107 1 0.0 4 0 0 0 0 1 110 1 0.0 4 0 0 0 0 1 111 1 0.0 4 0 0 0 0 1 120 1 0.0 4 0 0 0 0 1 126 3 0.0 4 0 0 0 0 3 127 157 0.0 4 0 0 0 0 157 133 1 0.0 4 0 0 0 0 1 134 3 0.0 4 0 0 0 0 3 135 1 0.0 4 0 0 0 0 1 140 1 0.0 4 0 0 0 0 1 158 1 0.0 4 0 0 0 0 1 160 1 0.0 4 0 0 0 0 1 173 1 0.0 4 0 0 0 0 1 185 1 0.0 4 0 0 0 0 1 190 1 0.0 4 0 0 0 0 1 283 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 0.16 s (38 us/read; 1.60 M reads/minute). === Summary === Total reads processed: 4,264 Reads with adapters: 2,250 (52.8%) Reads written (passing filters): 4,264 (100.0%) Total basepairs processed: 1,148,601 bp Total written (filtered): 546,163 bp (47.6%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 2250 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 0.1% C: 0.6% G: 0.5% T: 98.8% none/other: 0.0% WARNING: The adapter is preceded by "T" extremely often. The provided adapter sequence may be incomplete. To fix the problem, add "T" to the beginning of the adapter sequence. Overview of removed sequences length count expect max.err error counts 3 1 66.6 0 1 11 7 0.0 1 0 7 12 5 0.0 1 0 5 262 2 0.0 1 2 267 7 0.0 1 6 1 268 10 0.0 1 9 1 269 1653 0.0 1 1585 68 270 548 0.0 1 528 20 271 16 0.0 1 15 1 272 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.