This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AATCCT -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 97.29 s (31 us/read; 1.91 M reads/minute). === Summary === Total reads processed: 3,094,653 Reads with adapters: 1,177,272 (38.0%) Reads that were too short: 98,090 (3.2%) Reads written (passing filters): 1,079,182 (34.9%) Total basepairs processed: 931,490,553 bp Total written (filtered): 291,092,273 bp (31.3%) === Adapter 1 === Sequence: AATCCT; Type: regular 5'; Length: 6; Trimmed: 1177272 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 343 755.5 0 343 7 6144 755.5 0 6144 8 261 755.5 0 261 9 213 755.5 0 213 10 859 755.5 0 859 11 881 755.5 0 881 12 48030 755.5 0 48030 13 3888 755.5 0 3888 14 485 755.5 0 485 15 1109 755.5 0 1109 16 316 755.5 0 316 17 437 755.5 0 437 18 1475 755.5 0 1475 19 823 755.5 0 823 20 1091 755.5 0 1091 21 614 755.5 0 614 22 617 755.5 0 617 23 2002 755.5 0 2002 24 1923 755.5 0 1923 25 3460 755.5 0 3460 26 4778 755.5 0 4778 27 4588 755.5 0 4588 28 14288 755.5 0 14288 29 26659 755.5 0 26659 30 669654 755.5 0 669654 31 125750 755.5 0 125750 32 133480 755.5 0 133480 33 646 755.5 0 646 34 79 755.5 0 79 35 59 755.5 0 59 36 85 755.5 0 85 37 959 755.5 0 959 38 27 755.5 0 27 39 14 755.5 0 14 40 21 755.5 0 21 41 10 755.5 0 10 42 5 755.5 0 5 43 13 755.5 0 13 44 21 755.5 0 21 45 49 755.5 0 49 46 18 755.5 0 18 47 41 755.5 0 41 48 6 755.5 0 6 49 8 755.5 0 8 50 12 755.5 0 12 51 79 755.5 0 79 52 14 755.5 0 14 53 34 755.5 0 34 54 70 755.5 0 70 55 651 755.5 0 651 56 360 755.5 0 360 57 15 755.5 0 15 58 14 755.5 0 14 59 9 755.5 0 9 60 2 755.5 0 2 61 4 755.5 0 4 62 9 755.5 0 9 63 4 755.5 0 4 64 4 755.5 0 4 65 13 755.5 0 13 66 8 755.5 0 8 67 7 755.5 0 7 68 10 755.5 0 10 69 8 755.5 0 8 70 18 755.5 0 18 71 96 755.5 0 96 72 39 755.5 0 39 73 28 755.5 0 28 74 37 755.5 0 37 75 17 755.5 0 17 76 50 755.5 0 50 77 177 755.5 0 177 78 105 755.5 0 105 79 105 755.5 0 105 80 172 755.5 0 172 81 139 755.5 0 139 82 106 755.5 0 106 83 86 755.5 0 86 84 147 755.5 0 147 85 122 755.5 0 122 86 61 755.5 0 61 87 225 755.5 0 225 88 128 755.5 0 128 89 318 755.5 0 318 90 205 755.5 0 205 91 45 755.5 0 45 92 86 755.5 0 86 93 306 755.5 0 306 94 73 755.5 0 73 95 72 755.5 0 72 96 31 755.5 0 31 97 39 755.5 0 39 98 89 755.5 0 89 99 118 755.5 0 118 100 281 755.5 0 281 101 144 755.5 0 144 102 339 755.5 0 339 103 327 755.5 0 327 104 678 755.5 0 678 105 534 755.5 0 534 106 1545 755.5 0 1545 107 97 755.5 0 97 108 12 755.5 0 12 109 42 755.5 0 42 110 273 755.5 0 273 111 248 755.5 0 248 112 72 755.5 0 72 113 90 755.5 0 90 114 56 755.5 0 56 115 65 755.5 0 65 116 52 755.5 0 52 117 78 755.5 0 78 118 606 755.5 0 606 119 321 755.5 0 321 120 250 755.5 0 250 121 96 755.5 0 96 122 98 755.5 0 98 123 114 755.5 0 114 124 146 755.5 0 146 125 287 755.5 0 287 126 139 755.5 0 139 127 87 755.5 0 87 128 63 755.5 0 63 129 54 755.5 0 54 130 83 755.5 0 83 131 146 755.5 0 146 132 188 755.5 0 188 133 111 755.5 0 111 134 73 755.5 0 73 135 138 755.5 0 138 136 114 755.5 0 114 137 188 755.5 0 188 138 350 755.5 0 350 139 258 755.5 0 258 140 95 755.5 0 95 141 120 755.5 0 120 142 189 755.5 0 189 143 152 755.5 0 152 144 183 755.5 0 183 145 117 755.5 0 117 146 121 755.5 0 121 147 106 755.5 0 106 148 84 755.5 0 84 149 185 755.5 0 185 150 103 755.5 0 103 151 129 755.5 0 129 152 104 755.5 0 104 153 162 755.5 0 162 154 228 755.5 0 228 155 91 755.5 0 91 156 81 755.5 0 81 157 155 755.5 0 155 158 245 755.5 0 245 159 655 755.5 0 655 160 136 755.5 0 136 161 178 755.5 0 178 162 139 755.5 0 139 163 177 755.5 0 177 164 359 755.5 0 359 165 387 755.5 0 387 166 185 755.5 0 185 167 166 755.5 0 166 168 159 755.5 0 159 169 70 755.5 0 70 170 92 755.5 0 92 171 124 755.5 0 124 172 131 755.5 0 131 173 99 755.5 0 99 174 70 755.5 0 70 175 43 755.5 0 43 176 50 755.5 0 50 177 122 755.5 0 122 178 162 755.5 0 162 179 329 755.5 0 329 180 297 755.5 0 297 181 143 755.5 0 143 182 149 755.5 0 149 183 224 755.5 0 224 184 240 755.5 0 240 185 131 755.5 0 131 186 72 755.5 0 72 187 45 755.5 0 45 188 94 755.5 0 94 189 163 755.5 0 163 190 300 755.5 0 300 191 197 755.5 0 197 192 142 755.5 0 142 193 50 755.5 0 50 194 48 755.5 0 48 195 86 755.5 0 86 196 128 755.5 0 128 197 118 755.5 0 118 198 120 755.5 0 120 199 122 755.5 0 122 200 83 755.5 0 83 201 108 755.5 0 108 202 196 755.5 0 196 203 525 755.5 0 525 204 430 755.5 0 430 205 676 755.5 0 676 206 372 755.5 0 372 207 386 755.5 0 386 208 84 755.5 0 84 209 121 755.5 0 121 210 104 755.5 0 104 211 86 755.5 0 86 212 90 755.5 0 90 213 63 755.5 0 63 214 97 755.5 0 97 215 204 755.5 0 204 216 137 755.5 0 137 217 165 755.5 0 165 218 150 755.5 0 150 219 91 755.5 0 91 220 117 755.5 0 117 221 45 755.5 0 45 222 126 755.5 0 126 223 366 755.5 0 366 224 278 755.5 0 278 225 167 755.5 0 167 226 222 755.5 0 222 227 162 755.5 0 162 228 162 755.5 0 162 229 83 755.5 0 83 230 115 755.5 0 115 231 124 755.5 0 124 232 139 755.5 0 139 233 173 755.5 0 173 234 233 755.5 0 233 235 112 755.5 0 112 236 80 755.5 0 80 237 101 755.5 0 101 238 67 755.5 0 67 239 138 755.5 0 138 240 280 755.5 0 280 241 719 755.5 0 719 242 211 755.5 0 211 243 444 755.5 0 444 244 663 755.5 0 663 245 245 755.5 0 245 246 193 755.5 0 193 247 399 755.5 0 399 248 218 755.5 0 218 249 234 755.5 0 234 250 480 755.5 0 480 251 928 755.5 0 928 252 1552 755.5 0 1552 253 1835 755.5 0 1835 254 26922 755.5 0 26922 255 9523 755.5 0 9523 256 34741 755.5 0 34741 257 263 755.5 0 263 258 149 755.5 0 149 259 159 755.5 0 159 260 1342 755.5 0 1342 261 1234 755.5 0 1234 262 1918 755.5 0 1918 263 359 755.5 0 359 264 693 755.5 0 693 265 358 755.5 0 358 266 107 755.5 0 107 267 82 755.5 0 82 268 51 755.5 0 51 269 106 755.5 0 106 270 93 755.5 0 93 271 127 755.5 0 127 272 186 755.5 0 186 273 205 755.5 0 205 274 236 755.5 0 236 275 364 755.5 0 364 276 144 755.5 0 144 277 434 755.5 0 434 278 328 755.5 0 328 279 240 755.5 0 240 280 143 755.5 0 143 281 93 755.5 0 93 282 138 755.5 0 138 283 137 755.5 0 137 284 106 755.5 0 106 285 158 755.5 0 158 286 77 755.5 0 77 287 45 755.5 0 45 288 38 755.5 0 38 289 61 755.5 0 61 290 98 755.5 0 98 291 171 755.5 0 171 292 119 755.5 0 119 293 105 755.5 0 105 294 68 755.5 0 68 295 45 755.5 0 45 296 73 755.5 0 73 297 160 755.5 0 160 298 123 755.5 0 123 299 56 755.5 0 56 300 139 755.5 0 139 301 185 755.5 0 185 Finished in 59.19 s (55 us/read; 1.09 M reads/minute). === Summary === Total reads processed: 1,079,182 Reads with adapters: 6,417 (0.6%) Reads that were too short: 32 (0.0%) Reads written (passing filters): 6,385 (0.6%) Total basepairs processed: 291,092,273 bp Total written (filtered): 1,702,500 bp (0.6%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 6417 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 2 0.0 3 0 0 2 19 41 0.0 3 0 40 1 20 5911 0.0 4 5801 89 11 5 5 21 8 0.0 4 3 5 22 2 0.0 4 0 0 2 23 5 0.0 4 0 0 0 4 1 32 1 0.0 4 0 0 0 0 1 38 1 0.0 4 0 0 0 0 1 40 2 0.0 4 1 0 0 0 1 48 1 0.0 4 0 0 0 0 1 50 1 0.0 4 0 0 0 0 1 54 1 0.0 4 0 0 0 0 1 57 1 0.0 4 0 0 0 0 1 80 2 0.0 4 0 0 0 0 2 81 1 0.0 4 0 0 0 0 1 91 1 0.0 4 0 0 0 0 1 101 1 0.0 4 0 0 0 0 1 117 1 0.0 4 0 0 0 0 1 122 1 0.0 4 0 0 0 0 1 123 2 0.0 4 0 0 0 0 2 124 277 0.0 4 0 0 0 0 277 125 2 0.0 4 0 0 0 0 2 131 2 0.0 4 0 0 0 0 2 132 107 0.0 4 0 0 0 0 107 142 1 0.0 4 0 0 0 0 1 148 5 0.0 4 0 0 0 0 5 149 4 0.0 4 0 0 0 0 4 150 4 0.0 4 0 0 0 0 4 156 1 0.0 4 0 0 0 0 1 166 2 0.0 4 0 0 0 0 2 167 2 0.0 4 0 0 0 0 2 175 1 0.0 4 0 0 0 0 1 180 1 0.0 4 0 0 0 0 1 181 1 0.0 4 0 0 0 0 1 195 1 0.0 4 0 0 0 0 1 196 1 0.0 4 0 0 0 0 1 214 1 0.0 4 0 0 0 0 1 215 1 0.0 4 0 0 0 0 1 219 1 0.0 4 0 0 0 0 1 225 1 0.0 4 0 0 0 0 1 226 1 0.0 4 0 0 0 0 1 228 1 0.0 4 0 0 0 0 1 230 1 0.0 4 0 0 0 0 1 246 1 0.0 4 0 0 0 0 1 263 1 0.0 4 0 0 0 0 1 265 2 0.0 4 0 0 0 0 2 279 1 0.0 4 0 0 0 0 1 285 2 0.0 4 0 0 0 0 2 286 1 0.0 4 0 0 0 0 1 288 2 0.0 4 0 0 0 0 2 289 2 0.0 4 0 0 0 0 2 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 0.24 s (38 us/read; 1.60 M reads/minute). === Summary === Total reads processed: 6,385 Reads with adapters: 2,142 (33.5%) Reads written (passing filters): 6,385 (100.0%) Total basepairs processed: 1,702,500 bp Total written (filtered): 1,169,530 bp (68.7%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 2142 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 90.2% C: 4.5% G: 5.1% T: 0.1% none/other: 0.0% WARNING: The adapter is preceded by "A" extremely often. The provided adapter sequence may be incomplete. To fix the problem, add "A" to the beginning of the adapter sequence. Overview of removed sequences length count expect max.err error counts 3 4 99.8 0 4 11 108 0.0 1 0 108 12 11 0.0 1 0 11 15 1 0.0 1 0 1 20 2 0.0 1 0 2 146 1 0.0 1 1 225 62 0.0 1 57 5 226 4 0.0 1 4 242 1 0.0 1 1 244 1 0.0 1 1 263 1 0.0 1 1 264 3 0.0 1 3 265 1857 0.0 1 1760 97 266 65 0.0 1 64 1 267 1 0.0 1 1 269 20 0.0 1 20 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.