This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AAGACA -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 174.46 s (48 us/read; 1.25 M reads/minute). === Summary === Total reads processed: 3,634,272 Reads with adapters: 196,858 (5.4%) Reads that were too short: 49,536 (1.4%) Reads written (passing filters): 147,322 (4.1%) Total basepairs processed: 1,093,915,872 bp Total written (filtered): 30,987,135 bp (2.8%) === Adapter 1 === Sequence: AAGACA; Type: regular 5'; Length: 6; Trimmed: 196858 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1267 887.3 0 1267 7 31235 887.3 0 31235 8 684 887.3 0 684 9 30787 887.3 0 30787 10 69 887.3 0 69 11 26 887.3 0 26 12 22 887.3 0 22 13 14 887.3 0 14 14 18 887.3 0 18 15 17 887.3 0 17 16 19 887.3 0 19 17 23 887.3 0 23 18 17 887.3 0 17 19 16 887.3 0 16 20 43 887.3 0 43 21 18 887.3 0 18 22 27 887.3 0 27 23 18 887.3 0 18 24 16 887.3 0 16 25 16 887.3 0 16 26 26 887.3 0 26 27 14 887.3 0 14 28 13 887.3 0 13 29 42 887.3 0 42 30 15 887.3 0 15 31 21 887.3 0 21 32 20 887.3 0 20 33 18 887.3 0 18 34 18 887.3 0 18 35 19 887.3 0 19 36 39 887.3 0 39 37 26 887.3 0 26 38 22 887.3 0 22 39 17 887.3 0 17 40 17 887.3 0 17 41 25 887.3 0 25 42 52 887.3 0 52 43 13 887.3 0 13 44 15 887.3 0 15 45 17 887.3 0 17 46 25 887.3 0 25 47 16 887.3 0 16 48 24 887.3 0 24 49 17 887.3 0 17 50 21 887.3 0 21 51 20 887.3 0 20 52 28 887.3 0 28 53 21 887.3 0 21 54 66 887.3 0 66 55 56 887.3 0 56 56 70 887.3 0 70 57 30 887.3 0 30 58 93 887.3 0 93 59 63 887.3 0 63 60 19 887.3 0 19 61 20 887.3 0 20 62 30 887.3 0 30 63 38 887.3 0 38 64 124 887.3 0 124 65 162 887.3 0 162 66 110 887.3 0 110 67 43 887.3 0 43 68 45 887.3 0 45 69 57 887.3 0 57 70 68 887.3 0 68 71 329 887.3 0 329 72 140 887.3 0 140 73 421 887.3 0 421 74 382 887.3 0 382 75 312 887.3 0 312 76 279 887.3 0 279 77 63 887.3 0 63 78 186 887.3 0 186 79 306 887.3 0 306 80 249 887.3 0 249 81 295 887.3 0 295 82 148 887.3 0 148 83 858 887.3 0 858 84 307 887.3 0 307 85 265 887.3 0 265 86 51 887.3 0 51 87 66 887.3 0 66 88 127 887.3 0 127 89 34 887.3 0 34 90 42 887.3 0 42 91 105 887.3 0 105 92 51 887.3 0 51 93 34 887.3 0 34 94 69 887.3 0 69 95 57 887.3 0 57 96 88 887.3 0 88 97 74 887.3 0 74 98 61 887.3 0 61 99 50 887.3 0 50 100 90 887.3 0 90 101 183 887.3 0 183 102 144 887.3 0 144 103 165 887.3 0 165 104 289 887.3 0 289 105 289 887.3 0 289 106 258 887.3 0 258 107 1454 887.3 0 1454 108 2533 887.3 0 2533 109 2311 887.3 0 2311 110 231 887.3 0 231 111 242 887.3 0 242 112 276 887.3 0 276 113 304 887.3 0 304 114 258 887.3 0 258 115 250 887.3 0 250 116 381 887.3 0 381 117 352 887.3 0 352 118 284 887.3 0 284 119 345 887.3 0 345 120 1399 887.3 0 1399 121 1054 887.3 0 1054 122 876 887.3 0 876 123 410 887.3 0 410 124 374 887.3 0 374 125 386 887.3 0 386 126 296 887.3 0 296 127 201 887.3 0 201 128 186 887.3 0 186 129 185 887.3 0 185 130 238 887.3 0 238 131 244 887.3 0 244 132 201 887.3 0 201 133 184 887.3 0 184 134 168 887.3 0 168 135 166 887.3 0 166 136 170 887.3 0 170 137 245 887.3 0 245 138 228 887.3 0 228 139 255 887.3 0 255 140 197 887.3 0 197 141 299 887.3 0 299 142 259 887.3 0 259 143 293 887.3 0 293 144 186 887.3 0 186 145 269 887.3 0 269 146 268 887.3 0 268 147 362 887.3 0 362 148 280 887.3 0 280 149 282 887.3 0 282 150 219 887.3 0 219 151 240 887.3 0 240 152 233 887.3 0 233 153 169 887.3 0 169 154 127 887.3 0 127 155 181 887.3 0 181 156 173 887.3 0 173 157 227 887.3 0 227 158 152 887.3 0 152 159 197 887.3 0 197 160 211 887.3 0 211 161 200 887.3 0 200 162 206 887.3 0 206 163 221 887.3 0 221 164 303 887.3 0 303 165 311 887.3 0 311 166 2142 887.3 0 2142 167 2971 887.3 0 2971 168 2218 887.3 0 2218 169 308 887.3 0 308 170 1448 887.3 0 1448 171 1605 887.3 0 1605 172 992 887.3 0 992 173 284 887.3 0 284 174 260 887.3 0 260 175 210 887.3 0 210 176 254 887.3 0 254 177 311 887.3 0 311 178 496 887.3 0 496 179 403 887.3 0 403 180 941 887.3 0 941 181 7951 887.3 0 7951 182 8068 887.3 0 8068 183 12593 887.3 0 12593 184 2295 887.3 0 2295 185 2057 887.3 0 2057 186 826 887.3 0 826 187 176 887.3 0 176 188 179 887.3 0 179 189 142 887.3 0 142 190 122 887.3 0 122 191 226 887.3 0 226 192 159 887.3 0 159 193 145 887.3 0 145 194 129 887.3 0 129 195 135 887.3 0 135 196 177 887.3 0 177 197 150 887.3 0 150 198 262 887.3 0 262 199 351 887.3 0 351 200 389 887.3 0 389 201 261 887.3 0 261 202 193 887.3 0 193 203 279 887.3 0 279 204 459 887.3 0 459 205 600 887.3 0 600 206 476 887.3 0 476 207 342 887.3 0 342 208 173 887.3 0 173 209 157 887.3 0 157 210 212 887.3 0 212 211 271 887.3 0 271 212 401 887.3 0 401 213 3154 887.3 0 3154 214 3976 887.3 0 3976 215 4581 887.3 0 4581 216 481 887.3 0 481 217 188 887.3 0 188 218 198 887.3 0 198 219 256 887.3 0 256 220 265 887.3 0 265 221 167 887.3 0 167 222 139 887.3 0 139 223 170 887.3 0 170 224 201 887.3 0 201 225 473 887.3 0 473 226 619 887.3 0 619 227 593 887.3 0 593 228 1041 887.3 0 1041 229 794 887.3 0 794 230 540 887.3 0 540 231 136 887.3 0 136 232 137 887.3 0 137 233 133 887.3 0 133 234 144 887.3 0 144 235 119 887.3 0 119 236 126 887.3 0 126 237 201 887.3 0 201 238 166 887.3 0 166 239 219 887.3 0 219 240 284 887.3 0 284 241 269 887.3 0 269 242 581 887.3 0 581 243 352 887.3 0 352 244 307 887.3 0 307 245 272 887.3 0 272 246 380 887.3 0 380 247 356 887.3 0 356 248 263 887.3 0 263 249 222 887.3 0 222 250 151 887.3 0 151 251 174 887.3 0 174 252 176 887.3 0 176 253 152 887.3 0 152 254 258 887.3 0 258 255 346 887.3 0 346 256 244 887.3 0 244 257 257 887.3 0 257 258 167 887.3 0 167 259 176 887.3 0 176 260 310 887.3 0 310 261 341 887.3 0 341 262 507 887.3 0 507 263 391 887.3 0 391 264 416 887.3 0 416 265 338 887.3 0 338 266 534 887.3 0 534 267 6314 887.3 0 6314 268 2920 887.3 0 2920 269 1636 887.3 0 1636 270 307 887.3 0 307 271 141 887.3 0 141 272 125 887.3 0 125 273 203 887.3 0 203 274 175 887.3 0 175 275 207 887.3 0 207 276 284 887.3 0 284 277 223 887.3 0 223 278 209 887.3 0 209 279 269 887.3 0 269 280 762 887.3 0 762 281 727 887.3 0 727 282 357 887.3 0 357 283 224 887.3 0 224 284 125 887.3 0 125 285 126 887.3 0 126 286 177 887.3 0 177 287 165 887.3 0 165 288 148 887.3 0 148 289 148 887.3 0 148 290 141 887.3 0 141 291 174 887.3 0 174 292 150 887.3 0 150 293 183 887.3 0 183 294 171 887.3 0 171 295 179 887.3 0 179 296 149 887.3 0 149 297 131 887.3 0 131 298 193 887.3 0 193 299 352 887.3 0 352 300 323 887.3 0 323 301 414 887.3 0 414 Finished in 10.14 s (69 us/read; 0.87 M reads/minute). === Summary === Total reads processed: 147,322 Reads with adapters: 32,498 (22.1%) Reads that were too short: 49 (0.0%) Reads written (passing filters): 32,449 (22.0%) Total basepairs processed: 30,987,135 bp Total written (filtered): 8,822,584 bp (28.5%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 32498 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 20 0.0 3 0 0 16 2 2 19 289 0.0 3 0 254 23 8 4 20 31337 0.0 4 29919 1199 160 49 10 21 97 0.0 4 16 77 1 2 1 22 9 0.0 4 1 0 7 1 23 58 0.0 4 1 0 0 42 15 24 3 0.0 4 0 0 0 1 2 25 4 0.0 4 3 0 0 0 1 37 1 0.0 4 0 0 0 0 1 40 1 0.0 4 1 44 2 0.0 4 0 0 0 0 2 46 1 0.0 4 0 0 0 0 1 51 3 0.0 4 0 0 0 1 2 55 1 0.0 4 0 0 0 0 1 57 1 0.0 4 0 0 0 0 1 59 1 0.0 4 0 0 0 0 1 60 2 0.0 4 0 0 0 0 2 61 1 0.0 4 0 0 0 0 1 64 1 0.0 4 0 0 0 0 1 67 1 0.0 4 0 0 0 0 1 70 10 0.0 4 0 0 0 0 10 71 2 0.0 4 0 0 0 0 2 76 1 0.0 4 0 0 0 0 1 80 1 0.0 4 0 0 0 0 1 103 1 0.0 4 0 0 0 0 1 109 2 0.0 4 0 0 0 0 2 114 1 0.0 4 0 0 0 1 115 1 0.0 4 0 0 0 0 1 118 1 0.0 4 0 0 0 0 1 119 3 0.0 4 0 0 0 1 2 121 1 0.0 4 0 0 0 0 1 122 2 0.0 4 0 0 0 0 2 125 2 0.0 4 0 0 0 0 2 126 5 0.0 4 0 0 0 0 5 127 603 0.0 4 0 0 0 0 603 128 1 0.0 4 0 0 0 0 1 131 1 0.0 4 0 0 0 0 1 132 1 0.0 4 0 0 0 0 1 133 1 0.0 4 0 0 0 0 1 140 1 0.0 4 0 0 0 0 1 144 2 0.0 4 0 0 0 0 2 145 1 0.0 4 0 0 0 0 1 152 1 0.0 4 0 0 0 0 1 155 1 0.0 4 0 0 0 0 1 169 1 0.0 4 0 0 0 0 1 190 1 0.0 4 0 0 0 0 1 207 1 0.0 4 0 0 0 0 1 219 1 0.0 4 0 0 0 0 1 220 1 0.0 4 0 0 0 0 1 222 1 0.0 4 0 0 0 0 1 228 4 0.0 4 0 0 0 0 4 233 1 0.0 4 0 0 0 0 1 234 2 0.0 4 0 0 0 0 2 255 1 0.0 4 0 0 0 0 1 264 1 0.0 4 0 0 0 0 1 271 1 0.0 4 0 0 0 0 1 283 1 0.0 4 0 0 0 0 1 290 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 1.85 s (57 us/read; 1.05 M reads/minute). === Summary === Total reads processed: 32,449 Reads with adapters: 1,237 (3.8%) Reads written (passing filters): 32,449 (100.0%) Total basepairs processed: 8,822,584 bp Total written (filtered): 8,808,054 bp (99.8%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 1237 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 6.5% C: 10.6% G: 81.2% T: 1.7% 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 3 112 507.0 0 112 4 20 126.8 0 20 6 1 7.9 0 1 9 5 0.1 0 1 4 10 42 0.0 1 2 40 11 797 0.0 1 15 782 12 230 0.0 1 3 227 13 16 0.0 1 0 16 15 1 0.0 1 0 1 16 2 0.0 1 0 2 35 1 0.0 1 1 152 5 0.0 1 3 2 210 3 0.0 1 2 1 211 1 0.0 1 0 1 225 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.