This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CATTAG -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 92.64 s (27 us/read; 2.24 M reads/minute). === Summary === Total reads processed: 3,465,239 Reads with adapters: 646,841 (18.7%) Reads that were too short: 23,555 (0.7%) Reads written (passing filters): 623,286 (18.0%) Total basepairs processed: 1,043,036,939 bp Total written (filtered): 173,669,566 bp (16.7%) === Adapter 1 === Sequence: CATTAG; Type: regular 5'; Length: 6; Trimmed: 646841 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 7264 846.0 0 7264 7 523582 846.0 0 523582 8 1910 846.0 0 1910 9 58 846.0 0 58 10 31 846.0 0 31 11 44 846.0 0 44 12 30 846.0 0 30 13 25 846.0 0 25 14 45 846.0 0 45 15 43 846.0 0 43 16 49 846.0 0 49 17 72 846.0 0 72 18 62 846.0 0 62 19 65 846.0 0 65 20 57 846.0 0 57 21 89 846.0 0 89 22 133 846.0 0 133 23 112 846.0 0 112 24 82 846.0 0 82 25 92 846.0 0 92 26 141 846.0 0 141 27 204 846.0 0 204 28 220 846.0 0 220 29 208 846.0 0 208 30 262 846.0 0 262 31 310 846.0 0 310 32 4382 846.0 0 4382 33 234 846.0 0 234 34 177 846.0 0 177 35 69 846.0 0 69 36 41 846.0 0 41 37 62 846.0 0 62 38 41 846.0 0 41 39 43 846.0 0 43 40 41 846.0 0 41 41 77 846.0 0 77 42 75 846.0 0 75 43 92 846.0 0 92 44 446 846.0 0 446 45 636 846.0 0 636 46 108 846.0 0 108 47 50 846.0 0 50 48 41 846.0 0 41 49 41 846.0 0 41 50 51 846.0 0 51 51 42 846.0 0 42 52 60 846.0 0 60 53 46 846.0 0 46 54 51 846.0 0 51 55 72 846.0 0 72 56 64 846.0 0 64 57 57 846.0 0 57 58 418 846.0 0 418 59 143 846.0 0 143 60 82 846.0 0 82 61 46 846.0 0 46 62 53 846.0 0 53 63 48 846.0 0 48 64 38 846.0 0 38 65 33 846.0 0 33 66 68 846.0 0 68 67 87 846.0 0 87 68 117 846.0 0 117 69 174 846.0 0 174 70 225 846.0 0 225 71 296 846.0 0 296 72 8565 846.0 0 8565 73 4539 846.0 0 4539 74 5670 846.0 0 5670 75 321 846.0 0 321 76 343 846.0 0 343 77 200 846.0 0 200 78 71 846.0 0 71 79 88 846.0 0 88 80 112 846.0 0 112 81 96 846.0 0 96 82 111 846.0 0 111 83 133 846.0 0 133 84 110 846.0 0 110 85 110 846.0 0 110 86 110 846.0 0 110 87 73 846.0 0 73 88 715 846.0 0 715 89 1094 846.0 0 1094 90 735 846.0 0 735 91 664 846.0 0 664 92 715 846.0 0 715 93 100 846.0 0 100 94 169 846.0 0 169 95 325 846.0 0 325 96 294 846.0 0 294 97 270 846.0 0 270 98 102 846.0 0 102 99 90 846.0 0 90 100 162 846.0 0 162 101 95 846.0 0 95 102 58 846.0 0 58 103 48 846.0 0 48 104 57 846.0 0 57 105 60 846.0 0 60 106 46 846.0 0 46 107 84 846.0 0 84 108 226 846.0 0 226 109 231 846.0 0 231 110 206 846.0 0 206 111 112 846.0 0 112 112 170 846.0 0 170 113 317 846.0 0 317 114 353 846.0 0 353 115 168 846.0 0 168 116 155 846.0 0 155 117 134 846.0 0 134 118 99 846.0 0 99 119 223 846.0 0 223 120 129 846.0 0 129 121 243 846.0 0 243 122 329 846.0 0 329 123 216 846.0 0 216 124 112 846.0 0 112 125 146 846.0 0 146 126 248 846.0 0 248 127 366 846.0 0 366 128 644 846.0 0 644 129 1358 846.0 0 1358 130 1136 846.0 0 1136 131 279 846.0 0 279 132 270 846.0 0 270 133 430 846.0 0 430 134 965 846.0 0 965 135 674 846.0 0 674 136 559 846.0 0 559 137 600 846.0 0 600 138 530 846.0 0 530 139 642 846.0 0 642 140 860 846.0 0 860 141 1106 846.0 0 1106 142 1040 846.0 0 1040 143 4417 846.0 0 4417 144 6605 846.0 0 6605 145 14047 846.0 0 14047 146 292 846.0 0 292 147 175 846.0 0 175 148 260 846.0 0 260 149 203 846.0 0 203 150 198 846.0 0 198 151 133 846.0 0 133 152 154 846.0 0 154 153 102 846.0 0 102 154 180 846.0 0 180 155 393 846.0 0 393 156 408 846.0 0 408 157 553 846.0 0 553 158 405 846.0 0 405 159 141 846.0 0 141 160 136 846.0 0 136 161 169 846.0 0 169 162 210 846.0 0 210 163 383 846.0 0 383 164 386 846.0 0 386 165 897 846.0 0 897 166 190 846.0 0 190 167 233 846.0 0 233 168 209 846.0 0 209 169 153 846.0 0 153 170 130 846.0 0 130 171 134 846.0 0 134 172 152 846.0 0 152 173 103 846.0 0 103 174 174 846.0 0 174 175 226 846.0 0 226 176 206 846.0 0 206 177 192 846.0 0 192 178 104 846.0 0 104 179 118 846.0 0 118 180 160 846.0 0 160 181 184 846.0 0 184 182 197 846.0 0 197 183 209 846.0 0 209 184 186 846.0 0 186 185 156 846.0 0 156 186 195 846.0 0 195 187 230 846.0 0 230 188 164 846.0 0 164 189 164 846.0 0 164 190 153 846.0 0 153 191 183 846.0 0 183 192 204 846.0 0 204 193 133 846.0 0 133 194 293 846.0 0 293 195 245 846.0 0 245 196 301 846.0 0 301 197 282 846.0 0 282 198 101 846.0 0 101 199 133 846.0 0 133 200 140 846.0 0 140 201 174 846.0 0 174 202 380 846.0 0 380 203 363 846.0 0 363 204 259 846.0 0 259 205 209 846.0 0 209 206 173 846.0 0 173 207 197 846.0 0 197 208 299 846.0 0 299 209 405 846.0 0 405 210 342 846.0 0 342 211 242 846.0 0 242 212 269 846.0 0 269 213 260 846.0 0 260 214 240 846.0 0 240 215 516 846.0 0 516 216 585 846.0 0 585 217 542 846.0 0 542 218 188 846.0 0 188 219 130 846.0 0 130 220 139 846.0 0 139 221 268 846.0 0 268 222 277 846.0 0 277 223 345 846.0 0 345 224 178 846.0 0 178 225 165 846.0 0 165 226 267 846.0 0 267 227 257 846.0 0 257 228 164 846.0 0 164 229 256 846.0 0 256 230 273 846.0 0 273 231 411 846.0 0 411 232 263 846.0 0 263 233 284 846.0 0 284 234 258 846.0 0 258 235 257 846.0 0 257 236 436 846.0 0 436 237 193 846.0 0 193 238 206 846.0 0 206 239 328 846.0 0 328 240 156 846.0 0 156 241 175 846.0 0 175 242 179 846.0 0 179 243 260 846.0 0 260 244 315 846.0 0 315 245 301 846.0 0 301 246 171 846.0 0 171 247 134 846.0 0 134 248 137 846.0 0 137 249 113 846.0 0 113 250 110 846.0 0 110 251 134 846.0 0 134 252 171 846.0 0 171 253 167 846.0 0 167 254 247 846.0 0 247 255 250 846.0 0 250 256 355 846.0 0 355 257 218 846.0 0 218 258 162 846.0 0 162 259 231 846.0 0 231 260 235 846.0 0 235 261 317 846.0 0 317 262 259 846.0 0 259 263 252 846.0 0 252 264 174 846.0 0 174 265 214 846.0 0 214 266 150 846.0 0 150 267 165 846.0 0 165 268 185 846.0 0 185 269 184 846.0 0 184 270 239 846.0 0 239 271 244 846.0 0 244 272 187 846.0 0 187 273 129 846.0 0 129 274 193 846.0 0 193 275 206 846.0 0 206 276 154 846.0 0 154 277 198 846.0 0 198 278 201 846.0 0 201 279 182 846.0 0 182 280 213 846.0 0 213 281 275 846.0 0 275 282 231 846.0 0 231 283 208 846.0 0 208 284 166 846.0 0 166 285 162 846.0 0 162 286 273 846.0 0 273 287 251 846.0 0 251 288 266 846.0 0 266 289 192 846.0 0 192 290 153 846.0 0 153 291 197 846.0 0 197 292 256 846.0 0 256 293 222 846.0 0 222 294 206 846.0 0 206 295 276 846.0 0 276 296 310 846.0 0 310 297 281 846.0 0 281 298 194 846.0 0 194 299 133 846.0 0 133 300 153 846.0 0 153 301 59 846.0 0 59 Finished in 30.52 s (49 us/read; 1.23 M reads/minute). === Summary === Total reads processed: 623,286 Reads with adapters: 1,725 (0.3%) Reads that were too short: 167 (0.0%) Reads written (passing filters): 1,558 (0.2%) Total basepairs processed: 173,669,566 bp Total written (filtered): 418,786 bp (0.2%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 1725 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 0 0 1 19 21 0.0 3 0 21 20 1451 0.0 4 1425 24 1 1 21 10 0.0 4 3 4 0 0 3 22 1 0.0 4 0 0 0 0 1 24 1 0.0 4 1 25 1 0.0 4 0 1 26 7 0.0 4 7 27 1 0.0 4 1 28 2 0.0 4 1 0 0 0 1 29 1 0.0 4 0 0 0 0 1 30 3 0.0 4 1 0 0 0 2 31 6 0.0 4 5 0 0 0 1 39 6 0.0 4 0 0 0 0 6 46 1 0.0 4 0 0 0 0 1 47 1 0.0 4 0 0 0 0 1 48 1 0.0 4 0 0 0 0 1 50 1 0.0 4 0 0 0 0 1 52 1 0.0 4 1 53 1 0.0 4 1 58 1 0.0 4 0 0 0 0 1 60 1 0.0 4 0 0 0 0 1 62 1 0.0 4 0 0 0 0 1 70 1 0.0 4 0 0 0 0 1 72 1 0.0 4 0 0 0 0 1 74 1 0.0 4 0 0 0 0 1 76 1 0.0 4 0 0 0 0 1 79 1 0.0 4 0 0 0 0 1 89 2 0.0 4 0 0 0 0 2 91 2 0.0 4 0 0 0 0 2 92 4 0.0 4 0 0 0 0 4 93 1 0.0 4 0 0 0 0 1 96 1 0.0 4 0 0 0 0 1 98 2 0.0 4 0 0 0 0 2 106 1 0.0 4 0 0 0 0 1 111 1 0.0 4 0 0 0 0 1 114 1 0.0 4 0 0 0 0 1 119 1 0.0 4 0 0 0 0 1 121 1 0.0 4 0 0 0 0 1 126 1 0.0 4 0 0 0 0 1 127 13 0.0 4 0 0 0 0 13 129 2 0.0 4 0 0 0 0 2 132 1 0.0 4 0 0 0 0 1 144 1 0.0 4 0 0 0 0 1 146 5 0.0 4 0 0 0 0 5 147 1 0.0 4 0 0 0 0 1 152 1 0.0 4 0 1 153 5 0.0 4 0 0 0 0 5 154 1 0.0 4 0 0 0 0 1 155 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 1 165 1 0.0 4 0 0 0 0 1 167 1 0.0 4 0 0 0 0 1 170 1 0.0 4 0 0 0 0 1 172 1 0.0 4 0 0 0 0 1 174 1 0.0 4 0 0 0 0 1 176 1 0.0 4 0 0 0 0 1 177 1 0.0 4 0 0 0 0 1 180 2 0.0 4 0 0 0 0 2 184 1 0.0 4 0 0 0 0 1 188 1 0.0 4 0 0 0 0 1 190 1 0.0 4 0 0 0 0 1 191 1 0.0 4 0 0 0 0 1 195 1 0.0 4 0 0 0 0 1 196 2 0.0 4 0 0 0 0 2 199 1 0.0 4 0 0 0 0 1 202 1 0.0 4 0 0 0 0 1 205 1 0.0 4 0 0 0 0 1 207 1 0.0 4 0 0 0 0 1 208 4 0.0 4 0 0 0 0 4 210 1 0.0 4 0 0 0 0 1 212 1 0.0 4 0 0 0 0 1 214 1 0.0 4 0 0 0 0 1 219 1 0.0 4 0 0 0 0 1 222 2 0.0 4 0 0 0 0 2 223 1 0.0 4 0 0 0 0 1 224 1 0.0 4 0 0 0 0 1 226 2 0.0 4 0 0 0 0 2 233 3 0.0 4 0 0 0 0 3 234 1 0.0 4 0 0 0 1 235 3 0.0 4 0 0 0 0 3 236 6 0.0 4 0 0 0 0 6 238 2 0.0 4 0 0 0 0 2 241 3 0.0 4 0 0 0 0 3 245 2 0.0 4 0 0 0 0 2 251 2 0.0 4 0 0 0 0 2 253 2 0.0 4 0 0 0 0 2 256 1 0.0 4 0 0 0 0 1 257 10 0.0 4 0 0 0 0 10 258 2 0.0 4 0 0 0 0 2 259 2 0.0 4 0 0 0 0 2 260 2 0.0 4 0 0 0 0 2 270 1 0.0 4 0 0 0 0 1 272 1 0.0 4 0 0 0 0 1 281 2 0.0 4 0 0 0 0 2 282 55 0.0 4 0 0 0 0 55 283 4 0.0 4 0 0 0 0 4 284 2 0.0 4 0 0 0 0 2 285 1 0.0 4 0 0 0 0 1 286 2 0.0 4 0 0 0 0 2 290 1 0.0 4 0 0 0 0 1 291 1 0.0 4 0 0 0 0 1 292 1 0.0 4 0 0 0 0 1 293 1 0.0 4 0 0 0 0 1 294 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 0.05 s (32 us/read; 1.87 M reads/minute). === Summary === Total reads processed: 1,558 Reads with adapters: 728 (46.7%) Reads written (passing filters): 1,558 (100.0%) Total basepairs processed: 418,786 bp Total written (filtered): 246,778 bp (58.9%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 728 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 11.7% C: 16.1% G: 70.9% T: 1.4% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 1 24.3 0 1 6 1 0.4 0 1 9 1 0.0 0 0 1 10 9 0.0 1 1 8 11 81 0.0 1 0 81 12 1 0.0 1 0 1 229 1 0.0 1 1 253 2 0.0 1 2 254 1 0.0 1 1 258 2 0.0 1 2 259 4 0.0 1 4 262 4 0.0 1 4 263 1 0.0 1 1 264 1 0.0 1 1 265 1 0.0 1 1 266 2 0.0 1 2 267 1 0.0 1 1 269 2 0.0 1 2 270 583 0.0 1 568 15 271 20 0.0 1 19 1 272 8 0.0 1 7 1 273 1 0.0 1 1