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 88.28 s (25 us/read; 2.36 M reads/minute). === Summary === Total reads processed: 3,465,239 Reads with adapters: 228,074 (6.6%) Reads that were too short: 25,186 (0.7%) Reads written (passing filters): 202,888 (5.9%) Total basepairs processed: 1,043,036,939 bp Total written (filtered): 32,250,656 bp (3.1%) === Adapter 1 === Sequence: CCTAAT; Type: regular 5'; Length: 6; Trimmed: 228074 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 49 846.0 0 49 7 86 846.0 0 86 8 140 846.0 0 140 9 6987 846.0 0 6987 10 38 846.0 0 38 11 12 846.0 0 12 12 23 846.0 0 23 13 83 846.0 0 83 14 43 846.0 0 43 15 45 846.0 0 45 16 19 846.0 0 19 17 17 846.0 0 17 18 12 846.0 0 12 19 30 846.0 0 30 20 23 846.0 0 23 21 23 846.0 0 23 22 23 846.0 0 23 23 22 846.0 0 22 24 28 846.0 0 28 25 25 846.0 0 25 26 36 846.0 0 36 27 196 846.0 0 196 28 580 846.0 0 580 29 161 846.0 0 161 30 13 846.0 0 13 31 15 846.0 0 15 32 25 846.0 0 25 33 18 846.0 0 18 34 59 846.0 0 59 35 31 846.0 0 31 36 25 846.0 0 25 37 36 846.0 0 36 38 27 846.0 0 27 39 26 846.0 0 26 40 32 846.0 0 32 41 27 846.0 0 27 42 34 846.0 0 34 43 31 846.0 0 31 44 49 846.0 0 49 45 23 846.0 0 23 46 16 846.0 0 16 47 15 846.0 0 15 48 29 846.0 0 29 49 24 846.0 0 24 50 21 846.0 0 21 51 77 846.0 0 77 52 773 846.0 0 773 53 54 846.0 0 54 54 23 846.0 0 23 55 29 846.0 0 29 56 47 846.0 0 47 57 253 846.0 0 253 58 80 846.0 0 80 59 349 846.0 0 349 60 36 846.0 0 36 61 15 846.0 0 15 62 24 846.0 0 24 63 28 846.0 0 28 64 16 846.0 0 16 65 22 846.0 0 22 66 24 846.0 0 24 67 26 846.0 0 26 68 26 846.0 0 26 69 22 846.0 0 22 70 25 846.0 0 25 71 17 846.0 0 17 72 35 846.0 0 35 73 51 846.0 0 51 74 139 846.0 0 139 75 77 846.0 0 77 76 114 846.0 0 114 77 94 846.0 0 94 78 58 846.0 0 58 79 115 846.0 0 115 80 139 846.0 0 139 81 106 846.0 0 106 82 56 846.0 0 56 83 74 846.0 0 74 84 118 846.0 0 118 85 121 846.0 0 121 86 164 846.0 0 164 87 146 846.0 0 146 88 250 846.0 0 250 89 288 846.0 0 288 90 246 846.0 0 246 91 167 846.0 0 167 92 172 846.0 0 172 93 114 846.0 0 114 94 184 846.0 0 184 95 277 846.0 0 277 96 405 846.0 0 405 97 590 846.0 0 590 98 209 846.0 0 209 99 85 846.0 0 85 100 142 846.0 0 142 101 104 846.0 0 104 102 89 846.0 0 89 103 151 846.0 0 151 104 217 846.0 0 217 105 1524 846.0 0 1524 106 786 846.0 0 786 107 490 846.0 0 490 108 10463 846.0 0 10463 109 5472 846.0 0 5472 110 5503 846.0 0 5503 111 136 846.0 0 136 112 130 846.0 0 130 113 148 846.0 0 148 114 137 846.0 0 137 115 130 846.0 0 130 116 136 846.0 0 136 117 108 846.0 0 108 118 218 846.0 0 218 119 329 846.0 0 329 120 272 846.0 0 272 121 213 846.0 0 213 122 203 846.0 0 203 123 115 846.0 0 115 124 144 846.0 0 144 125 290 846.0 0 290 126 245 846.0 0 245 127 422 846.0 0 422 128 435 846.0 0 435 129 288 846.0 0 288 130 184 846.0 0 184 131 204 846.0 0 204 132 230 846.0 0 230 133 468 846.0 0 468 134 11474 846.0 0 11474 135 1100 846.0 0 1100 136 1330 846.0 0 1330 137 311 846.0 0 311 138 304 846.0 0 304 139 355 846.0 0 355 140 385 846.0 0 385 141 278 846.0 0 278 142 310 846.0 0 310 143 241 846.0 0 241 144 274 846.0 0 274 145 407 846.0 0 407 146 714 846.0 0 714 147 1299 846.0 0 1299 148 402 846.0 0 402 149 805 846.0 0 805 150 1020 846.0 0 1020 151 514 846.0 0 514 152 721 846.0 0 721 153 1025 846.0 0 1025 154 1194 846.0 0 1194 155 10276 846.0 0 10276 156 5664 846.0 0 5664 157 6729 846.0 0 6729 158 1048 846.0 0 1048 159 1610 846.0 0 1610 160 27417 846.0 0 27417 161 22165 846.0 0 22165 162 48436 846.0 0 48436 163 551 846.0 0 551 164 298 846.0 0 298 165 251 846.0 0 251 166 283 846.0 0 283 167 299 846.0 0 299 168 173 846.0 0 173 169 134 846.0 0 134 170 112 846.0 0 112 171 140 846.0 0 140 172 158 846.0 0 158 173 166 846.0 0 166 174 277 846.0 0 277 175 509 846.0 0 509 176 334 846.0 0 334 177 194 846.0 0 194 178 151 846.0 0 151 179 166 846.0 0 166 180 231 846.0 0 231 181 204 846.0 0 204 182 264 846.0 0 264 183 296 846.0 0 296 184 237 846.0 0 237 185 166 846.0 0 166 186 161 846.0 0 161 187 189 846.0 0 189 188 167 846.0 0 167 189 149 846.0 0 149 190 122 846.0 0 122 191 232 846.0 0 232 192 448 846.0 0 448 193 333 846.0 0 333 194 368 846.0 0 368 195 277 846.0 0 277 196 137 846.0 0 137 197 137 846.0 0 137 198 154 846.0 0 154 199 232 846.0 0 232 200 249 846.0 0 249 201 168 846.0 0 168 202 189 846.0 0 189 203 268 846.0 0 268 204 250 846.0 0 250 205 266 846.0 0 266 206 230 846.0 0 230 207 257 846.0 0 257 208 293 846.0 0 293 209 235 846.0 0 235 210 202 846.0 0 202 211 147 846.0 0 147 212 123 846.0 0 123 213 131 846.0 0 131 214 145 846.0 0 145 215 216 846.0 0 216 216 225 846.0 0 225 217 201 846.0 0 201 218 256 846.0 0 256 219 330 846.0 0 330 220 350 846.0 0 350 221 265 846.0 0 265 222 231 846.0 0 231 223 236 846.0 0 236 224 321 846.0 0 321 225 161 846.0 0 161 226 180 846.0 0 180 227 173 846.0 0 173 228 296 846.0 0 296 229 344 846.0 0 344 230 312 846.0 0 312 231 360 846.0 0 360 232 326 846.0 0 326 233 229 846.0 0 229 234 355 846.0 0 355 235 563 846.0 0 563 236 426 846.0 0 426 237 190 846.0 0 190 238 128 846.0 0 128 239 143 846.0 0 143 240 170 846.0 0 170 241 195 846.0 0 195 242 105 846.0 0 105 243 119 846.0 0 119 244 95 846.0 0 95 245 108 846.0 0 108 246 145 846.0 0 145 247 181 846.0 0 181 248 213 846.0 0 213 249 225 846.0 0 225 250 133 846.0 0 133 251 132 846.0 0 132 252 232 846.0 0 232 253 256 846.0 0 256 254 439 846.0 0 439 255 523 846.0 0 523 256 326 846.0 0 326 257 231 846.0 0 231 258 323 846.0 0 323 259 289 846.0 0 289 260 246 846.0 0 246 261 332 846.0 0 332 262 241 846.0 0 241 263 146 846.0 0 146 264 112 846.0 0 112 265 157 846.0 0 157 266 113 846.0 0 113 267 228 846.0 0 228 268 431 846.0 0 431 269 348 846.0 0 348 270 177 846.0 0 177 271 103 846.0 0 103 272 149 846.0 0 149 273 97 846.0 0 97 274 155 846.0 0 155 275 295 846.0 0 295 276 180 846.0 0 180 277 122 846.0 0 122 278 254 846.0 0 254 279 554 846.0 0 554 280 523 846.0 0 523 281 824 846.0 0 824 282 1160 846.0 0 1160 283 546 846.0 0 546 284 175 846.0 0 175 285 103 846.0 0 103 286 206 846.0 0 206 287 259 846.0 0 259 288 243 846.0 0 243 289 601 846.0 0 601 290 166 846.0 0 166 291 115 846.0 0 115 292 150 846.0 0 150 293 232 846.0 0 232 294 336 846.0 0 336 295 415 846.0 0 415 296 215 846.0 0 215 297 147 846.0 0 147 298 69 846.0 0 69 299 75 846.0 0 75 300 110 846.0 0 110 301 83 846.0 0 83 Finished in 7.16 s (35 us/read; 1.70 M reads/minute). === Summary === Total reads processed: 202,888 Reads with adapters: 7,233 (3.6%) Reads that were too short: 37 (0.0%) Reads written (passing filters): 7,196 (3.5%) Total basepairs processed: 32,250,656 bp Total written (filtered): 1,954,339 bp (6.1%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 7233 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 0 0 2 19 32 0.0 3 0 27 4 1 20 7101 0.0 4 6740 313 36 10 2 21 25 0.0 4 3 21 0 0 1 22 3 0.0 4 0 0 1 0 2 23 6 0.0 4 1 0 0 3 2 29 1 0.0 4 0 0 0 1 32 1 0.0 4 1 33 1 0.0 4 1 34 1 0.0 4 0 0 0 0 1 35 1 0.0 4 0 0 0 0 1 38 4 0.0 4 1 0 0 1 2 39 1 0.0 4 0 0 0 0 1 42 1 0.0 4 0 0 0 0 1 47 1 0.0 4 0 0 0 0 1 54 2 0.0 4 0 0 0 0 2 55 2 0.0 4 0 0 0 0 2 57 1 0.0 4 0 0 0 0 1 62 1 0.0 4 0 0 0 0 1 63 6 0.0 4 0 0 0 0 6 64 2 0.0 4 0 0 0 0 2 74 3 0.0 4 0 0 0 1 2 77 1 0.0 4 0 0 0 0 1 78 2 0.0 4 0 0 0 0 2 80 3 0.0 4 0 0 0 0 3 81 3 0.0 4 0 0 0 0 3 82 1 0.0 4 0 0 0 0 1 83 2 0.0 4 0 0 0 0 2 90 1 0.0 4 0 0 0 0 1 95 1 0.0 4 0 0 0 0 1 97 1 0.0 4 0 0 0 0 1 103 1 0.0 4 0 0 0 0 1 104 1 0.0 4 0 0 0 0 1 105 2 0.0 4 0 0 0 0 2 106 2 0.0 4 0 0 0 0 2 107 1 0.0 4 0 0 0 0 1 115 1 0.0 4 0 0 0 0 1 119 1 0.0 4 0 0 0 0 1 122 2 0.0 4 0 0 1 0 1 125 1 0.0 4 0 0 0 0 1 127 1 0.0 4 0 0 0 0 1 135 1 0.0 4 0 0 0 0 1 140 1 0.0 4 0 0 0 0 1 166 1 0.0 4 0 0 0 0 1 187 1 0.0 4 0 0 0 0 1 206 1 0.0 4 0 0 0 0 1 281 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 0.25 s (35 us/read; 1.73 M reads/minute). === Summary === Total reads processed: 7,196 Reads with adapters: 426 (5.9%) Reads written (passing filters): 7,196 (100.0%) Total basepairs processed: 1,954,339 bp Total written (filtered): 1,943,644 bp (99.5%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 426 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 9.4% C: 5.4% G: 84.0% T: 1.2% 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 6 112.4 0 6 4 1 28.1 0 1 9 90 0.0 0 9 81 10 227 0.0 1 15 212 11 71 0.0 1 0 71 12 1 0.0 1 0 1 13 1 0.0 1 0 1 122 3 0.0 1 1 2 123 1 0.0 1 1 208 3 0.0 1 2 1 229 1 0.0 1 1 243 1 0.0 1 1 257 11 0.0 1 10 1 258 2 0.0 1 2 259 1 0.0 1 1 261 2 0.0 1 2 269 2 0.0 1 2 270 2 0.0 1 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.