This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CCTAAT -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 90.18 s (26 us/read; 2.31 M reads/minute). === Summary === Total reads processed: 3,465,239 Reads with adapters: 197,959 (5.7%) Reads that were too short: 24,807 (0.7%) Reads written (passing filters): 173,152 (5.0%) Total basepairs processed: 1,043,036,939 bp Total written (filtered): 28,144,982 bp (2.7%) === Adapter 1 === Sequence: CCTAAT; Type: regular 5'; Length: 6; Trimmed: 197959 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 52 846.0 0 52 7 90 846.0 0 90 8 178 846.0 0 178 9 8477 846.0 0 8477 10 37 846.0 0 37 11 15 846.0 0 15 12 11 846.0 0 11 13 55 846.0 0 55 14 23 846.0 0 23 15 51 846.0 0 51 16 26 846.0 0 26 17 12 846.0 0 12 18 22 846.0 0 22 19 24 846.0 0 24 20 14 846.0 0 14 21 20 846.0 0 20 22 16 846.0 0 16 23 23 846.0 0 23 24 23 846.0 0 23 25 22 846.0 0 22 26 15 846.0 0 15 27 77 846.0 0 77 28 229 846.0 0 229 29 37 846.0 0 37 30 12 846.0 0 12 31 15 846.0 0 15 32 19 846.0 0 19 33 20 846.0 0 20 34 25 846.0 0 25 35 34 846.0 0 34 36 21 846.0 0 21 37 35 846.0 0 35 38 27 846.0 0 27 39 19 846.0 0 19 40 36 846.0 0 36 41 24 846.0 0 24 42 25 846.0 0 25 43 23 846.0 0 23 44 15 846.0 0 15 45 18 846.0 0 18 46 20 846.0 0 20 47 30 846.0 0 30 48 22 846.0 0 22 49 28 846.0 0 28 50 38 846.0 0 38 51 46 846.0 0 46 52 598 846.0 0 598 53 39 846.0 0 39 54 19 846.0 0 19 55 12 846.0 0 12 56 25 846.0 0 25 57 195 846.0 0 195 58 49 846.0 0 49 59 74 846.0 0 74 60 18 846.0 0 18 61 20 846.0 0 20 62 22 846.0 0 22 63 18 846.0 0 18 64 18 846.0 0 18 65 18 846.0 0 18 66 18 846.0 0 18 67 15 846.0 0 15 68 19 846.0 0 19 69 22 846.0 0 22 70 15 846.0 0 15 71 20 846.0 0 20 72 15 846.0 0 15 73 19 846.0 0 19 74 14 846.0 0 14 75 16 846.0 0 16 76 32 846.0 0 32 77 27 846.0 0 27 78 30 846.0 0 30 79 21 846.0 0 21 80 33 846.0 0 33 81 49 846.0 0 49 82 41 846.0 0 41 83 52 846.0 0 52 84 58 846.0 0 58 85 109 846.0 0 109 86 172 846.0 0 172 87 123 846.0 0 123 88 230 846.0 0 230 89 199 846.0 0 199 90 200 846.0 0 200 91 124 846.0 0 124 92 138 846.0 0 138 93 104 846.0 0 104 94 104 846.0 0 104 95 211 846.0 0 211 96 467 846.0 0 467 97 827 846.0 0 827 98 230 846.0 0 230 99 90 846.0 0 90 100 89 846.0 0 89 101 74 846.0 0 74 102 113 846.0 0 113 103 116 846.0 0 116 104 231 846.0 0 231 105 2243 846.0 0 2243 106 896 846.0 0 896 107 433 846.0 0 433 108 11270 846.0 0 11270 109 5565 846.0 0 5565 110 5974 846.0 0 5974 111 118 846.0 0 118 112 93 846.0 0 93 113 130 846.0 0 130 114 116 846.0 0 116 115 89 846.0 0 89 116 96 846.0 0 96 117 109 846.0 0 109 118 199 846.0 0 199 119 255 846.0 0 255 120 267 846.0 0 267 121 213 846.0 0 213 122 155 846.0 0 155 123 105 846.0 0 105 124 114 846.0 0 114 125 230 846.0 0 230 126 222 846.0 0 222 127 404 846.0 0 404 128 440 846.0 0 440 129 233 846.0 0 233 130 159 846.0 0 159 131 170 846.0 0 170 132 179 846.0 0 179 133 427 846.0 0 427 134 12254 846.0 0 12254 135 1076 846.0 0 1076 136 1258 846.0 0 1258 137 301 846.0 0 301 138 261 846.0 0 261 139 317 846.0 0 317 140 330 846.0 0 330 141 272 846.0 0 272 142 240 846.0 0 240 143 210 846.0 0 210 144 232 846.0 0 232 145 291 846.0 0 291 146 592 846.0 0 592 147 987 846.0 0 987 148 300 846.0 0 300 149 594 846.0 0 594 150 879 846.0 0 879 151 525 846.0 0 525 152 619 846.0 0 619 153 836 846.0 0 836 154 1182 846.0 0 1182 155 8655 846.0 0 8655 156 4785 846.0 0 4785 157 5835 846.0 0 5835 158 801 846.0 0 801 159 1154 846.0 0 1154 160 19993 846.0 0 19993 161 16389 846.0 0 16389 162 36269 846.0 0 36269 163 353 846.0 0 353 164 330 846.0 0 330 165 276 846.0 0 276 166 305 846.0 0 305 167 296 846.0 0 296 168 164 846.0 0 164 169 152 846.0 0 152 170 145 846.0 0 145 171 138 846.0 0 138 172 165 846.0 0 165 173 188 846.0 0 188 174 308 846.0 0 308 175 596 846.0 0 596 176 355 846.0 0 355 177 245 846.0 0 245 178 135 846.0 0 135 179 185 846.0 0 185 180 202 846.0 0 202 181 188 846.0 0 188 182 329 846.0 0 329 183 306 846.0 0 306 184 222 846.0 0 222 185 161 846.0 0 161 186 119 846.0 0 119 187 177 846.0 0 177 188 175 846.0 0 175 189 110 846.0 0 110 190 108 846.0 0 108 191 284 846.0 0 284 192 531 846.0 0 531 193 399 846.0 0 399 194 353 846.0 0 353 195 211 846.0 0 211 196 62 846.0 0 62 197 112 846.0 0 112 198 116 846.0 0 116 199 250 846.0 0 250 200 233 846.0 0 233 201 134 846.0 0 134 202 194 846.0 0 194 203 317 846.0 0 317 204 326 846.0 0 326 205 287 846.0 0 287 206 222 846.0 0 222 207 227 846.0 0 227 208 313 846.0 0 313 209 234 846.0 0 234 210 165 846.0 0 165 211 126 846.0 0 126 212 100 846.0 0 100 213 102 846.0 0 102 214 156 846.0 0 156 215 242 846.0 0 242 216 217 846.0 0 217 217 208 846.0 0 208 218 285 846.0 0 285 219 338 846.0 0 338 220 317 846.0 0 317 221 313 846.0 0 313 222 209 846.0 0 209 223 234 846.0 0 234 224 310 846.0 0 310 225 126 846.0 0 126 226 166 846.0 0 166 227 167 846.0 0 167 228 277 846.0 0 277 229 352 846.0 0 352 230 314 846.0 0 314 231 378 846.0 0 378 232 396 846.0 0 396 233 240 846.0 0 240 234 559 846.0 0 559 235 759 846.0 0 759 236 502 846.0 0 502 237 191 846.0 0 191 238 135 846.0 0 135 239 114 846.0 0 114 240 123 846.0 0 123 241 171 846.0 0 171 242 144 846.0 0 144 243 140 846.0 0 140 244 100 846.0 0 100 245 93 846.0 0 93 246 107 846.0 0 107 247 163 846.0 0 163 248 208 846.0 0 208 249 248 846.0 0 248 250 111 846.0 0 111 251 152 846.0 0 152 252 284 846.0 0 284 253 270 846.0 0 270 254 422 846.0 0 422 255 428 846.0 0 428 256 262 846.0 0 262 257 178 846.0 0 178 258 221 846.0 0 221 259 242 846.0 0 242 260 183 846.0 0 183 261 506 846.0 0 506 262 412 846.0 0 412 263 284 846.0 0 284 264 128 846.0 0 128 265 191 846.0 0 191 266 128 846.0 0 128 267 217 846.0 0 217 268 416 846.0 0 416 269 275 846.0 0 275 270 144 846.0 0 144 271 80 846.0 0 80 272 124 846.0 0 124 273 111 846.0 0 111 274 98 846.0 0 98 275 189 846.0 0 189 276 168 846.0 0 168 277 235 846.0 0 235 278 448 846.0 0 448 279 541 846.0 0 541 280 650 846.0 0 650 281 748 846.0 0 748 282 553 846.0 0 553 283 390 846.0 0 390 284 169 846.0 0 169 285 126 846.0 0 126 286 139 846.0 0 139 287 180 846.0 0 180 288 252 846.0 0 252 289 397 846.0 0 397 290 143 846.0 0 143 291 121 846.0 0 121 292 168 846.0 0 168 293 207 846.0 0 207 294 440 846.0 0 440 295 507 846.0 0 507 296 235 846.0 0 235 297 120 846.0 0 120 298 46 846.0 0 46 299 55 846.0 0 55 300 54 846.0 0 54 301 44 846.0 0 44 Finished in 6.23 s (36 us/read; 1.67 M reads/minute). === Summary === Total reads processed: 173,152 Reads with adapters: 8,749 (5.1%) Reads that were too short: 22 (0.0%) Reads written (passing filters): 8,727 (5.0%) Total basepairs processed: 28,144,982 bp Total written (filtered): 2,372,276 bp (8.4%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 8749 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 0 1 18 1 0.0 3 0 0 1 19 27 0.0 3 0 25 1 1 20 8658 0.0 4 8547 108 3 21 19 0.0 4 1 16 1 0 1 22 2 0.0 4 0 0 2 23 2 0.0 4 1 0 0 1 27 1 0.0 4 1 28 1 0.0 4 0 0 0 0 1 30 1 0.0 4 0 0 0 0 1 33 1 0.0 4 1 38 1 0.0 4 0 0 0 0 1 42 1 0.0 4 0 0 0 0 1 46 1 0.0 4 0 0 0 0 1 51 1 0.0 4 1 54 2 0.0 4 0 0 0 0 2 55 3 0.0 4 0 0 0 0 3 61 1 0.0 4 0 0 0 0 1 63 5 0.0 4 0 0 0 1 4 64 2 0.0 4 0 0 0 0 2 68 1 0.0 4 0 0 0 0 1 80 1 0.0 4 0 0 0 0 1 81 1 0.0 4 0 0 0 0 1 82 2 0.0 4 0 0 0 0 2 84 1 0.0 4 0 0 0 0 1 85 1 0.0 4 0 0 0 0 1 96 1 0.0 4 0 0 0 0 1 102 1 0.0 4 0 0 0 0 1 104 1 0.0 4 0 0 0 0 1 105 1 0.0 4 0 0 0 0 1 113 1 0.0 4 0 0 0 1 124 1 0.0 4 0 0 0 0 1 138 1 0.0 4 0 0 0 0 1 140 1 0.0 4 0 0 0 0 1 281 3 0.0 4 0 0 0 0 3 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 0.30 s (34 us/read; 1.75 M reads/minute). === Summary === Total reads processed: 8,727 Reads with adapters: 273 (3.1%) Reads written (passing filters): 8,727 (100.0%) Total basepairs processed: 2,372,276 bp Total written (filtered): 2,366,586 bp (99.8%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 273 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 3.3% C: 5.5% G: 90.5% T: 0.7% 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 9 136.4 0 9 4 1 34.1 0 1 9 23 0.0 0 2 21 10 194 0.0 1 7 187 11 30 0.0 1 0 30 122 6 0.0 1 6 123 1 0.0 1 0 1 257 7 0.0 1 7 258 1 0.0 1 1 270 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.