This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g GAACTA -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 104.89 s (33 us/read; 1.82 M reads/minute). === Summary === Total reads processed: 3,184,960 Reads with adapters: 109,552 (3.4%) Reads that were too short: 35,319 (1.1%) Reads written (passing filters): 74,233 (2.3%) Total basepairs processed: 958,672,960 bp Total written (filtered): 17,369,556 bp (1.8%) === Adapter 1 === Sequence: GAACTA; Type: regular 5'; Length: 6; Trimmed: 109552 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1106 777.6 0 1106 7 39495 777.6 0 39495 8 102 777.6 0 102 9 2 777.6 0 2 10 3 777.6 0 3 11 6 777.6 0 6 12 7 777.6 0 7 13 144 777.6 0 144 14 74 777.6 0 74 15 79 777.6 0 79 16 20 777.6 0 20 17 3 777.6 0 3 18 4 777.6 0 4 19 1 777.6 0 1 20 2 777.6 0 2 21 2 777.6 0 2 22 4 777.6 0 4 24 5 777.6 0 5 25 1245 777.6 0 1245 26 107 777.6 0 107 27 1 777.6 0 1 28 1 777.6 0 1 30 2 777.6 0 2 31 8 777.6 0 8 32 1 777.6 0 1 33 1 777.6 0 1 34 2 777.6 0 2 35 2 777.6 0 2 36 3 777.6 0 3 38 3 777.6 0 3 39 6 777.6 0 6 40 2 777.6 0 2 41 1058 777.6 0 1058 42 1 777.6 0 1 43 6 777.6 0 6 44 8 777.6 0 8 45 118 777.6 0 118 46 30 777.6 0 30 47 4 777.6 0 4 48 1 777.6 0 1 49 1 777.6 0 1 50 2 777.6 0 2 51 2 777.6 0 2 52 2 777.6 0 2 53 2 777.6 0 2 54 6 777.6 0 6 55 5 777.6 0 5 56 3 777.6 0 3 57 4 777.6 0 4 58 1 777.6 0 1 59 5 777.6 0 5 60 4 777.6 0 4 61 13 777.6 0 13 62 16 777.6 0 16 63 9 777.6 0 9 64 48 777.6 0 48 65 5 777.6 0 5 66 4 777.6 0 4 67 4 777.6 0 4 68 9 777.6 0 9 69 5 777.6 0 5 70 5 777.6 0 5 71 6 777.6 0 6 72 2 777.6 0 2 73 2 777.6 0 2 74 2 777.6 0 2 75 9 777.6 0 9 76 10 777.6 0 10 77 3 777.6 0 3 78 2 777.6 0 2 79 7 777.6 0 7 80 20 777.6 0 20 81 52 777.6 0 52 82 303 777.6 0 303 83 92 777.6 0 92 84 348 777.6 0 348 85 110 777.6 0 110 86 115 777.6 0 115 87 19 777.6 0 19 88 442 777.6 0 442 89 687 777.6 0 687 90 78 777.6 0 78 91 23 777.6 0 23 92 135 777.6 0 135 93 106 777.6 0 106 94 82 777.6 0 82 95 84 777.6 0 84 96 79 777.6 0 79 97 43 777.6 0 43 98 158 777.6 0 158 99 323 777.6 0 323 100 73 777.6 0 73 101 69 777.6 0 69 102 471 777.6 0 471 103 92 777.6 0 92 104 178 777.6 0 178 105 588 777.6 0 588 106 284 777.6 0 284 107 42 777.6 0 42 108 92 777.6 0 92 109 155 777.6 0 155 110 210 777.6 0 210 111 260 777.6 0 260 112 223 777.6 0 223 113 128 777.6 0 128 114 145 777.6 0 145 115 81 777.6 0 81 116 60 777.6 0 60 117 46 777.6 0 46 118 230 777.6 0 230 119 114 777.6 0 114 120 306 777.6 0 306 121 265 777.6 0 265 122 234 777.6 0 234 123 218 777.6 0 218 124 224 777.6 0 224 125 133 777.6 0 133 126 102 777.6 0 102 127 103 777.6 0 103 128 91 777.6 0 91 129 163 777.6 0 163 130 216 777.6 0 216 131 154 777.6 0 154 132 179 777.6 0 179 133 250 777.6 0 250 134 197 777.6 0 197 135 189 777.6 0 189 136 150 777.6 0 150 137 164 777.6 0 164 138 212 777.6 0 212 139 473 777.6 0 473 140 708 777.6 0 708 141 228 777.6 0 228 142 154 777.6 0 154 143 176 777.6 0 176 144 328 777.6 0 328 145 171 777.6 0 171 146 240 777.6 0 240 147 267 777.6 0 267 148 237 777.6 0 237 149 153 777.6 0 153 150 90 777.6 0 90 151 104 777.6 0 104 152 195 777.6 0 195 153 246 777.6 0 246 154 149 777.6 0 149 155 140 777.6 0 140 156 204 777.6 0 204 157 190 777.6 0 190 158 219 777.6 0 219 159 312 777.6 0 312 160 934 777.6 0 934 161 472 777.6 0 472 162 591 777.6 0 591 163 212 777.6 0 212 164 234 777.6 0 234 165 165 777.6 0 165 166 153 777.6 0 153 167 153 777.6 0 153 168 301 777.6 0 301 169 315 777.6 0 315 170 109 777.6 0 109 171 104 777.6 0 104 172 271 777.6 0 271 173 338 777.6 0 338 174 100 777.6 0 100 175 147 777.6 0 147 176 104 777.6 0 104 177 165 777.6 0 165 178 243 777.6 0 243 179 273 777.6 0 273 180 275 777.6 0 275 181 206 777.6 0 206 182 277 777.6 0 277 183 304 777.6 0 304 184 324 777.6 0 324 185 321 777.6 0 321 186 326 777.6 0 326 187 1941 777.6 0 1941 188 1154 777.6 0 1154 189 1786 777.6 0 1786 190 407 777.6 0 407 191 290 777.6 0 290 192 104 777.6 0 104 193 165 777.6 0 165 194 101 777.6 0 101 195 96 777.6 0 96 196 262 777.6 0 262 197 418 777.6 0 418 198 210 777.6 0 210 199 135 777.6 0 135 200 171 777.6 0 171 201 335 777.6 0 335 202 532 777.6 0 532 203 363 777.6 0 363 204 243 777.6 0 243 205 280 777.6 0 280 206 377 777.6 0 377 207 294 777.6 0 294 208 309 777.6 0 309 209 350 777.6 0 350 210 256 777.6 0 256 211 247 777.6 0 247 212 301 777.6 0 301 213 249 777.6 0 249 214 240 777.6 0 240 215 214 777.6 0 214 216 357 777.6 0 357 217 276 777.6 0 276 218 301 777.6 0 301 219 302 777.6 0 302 220 270 777.6 0 270 221 343 777.6 0 343 222 536 777.6 0 536 223 302 777.6 0 302 224 193 777.6 0 193 225 242 777.6 0 242 226 263 777.6 0 263 227 287 777.6 0 287 228 244 777.6 0 244 229 335 777.6 0 335 230 418 777.6 0 418 231 279 777.6 0 279 232 350 777.6 0 350 233 390 777.6 0 390 234 358 777.6 0 358 235 194 777.6 0 194 236 156 777.6 0 156 237 274 777.6 0 274 238 296 777.6 0 296 239 852 777.6 0 852 240 558 777.6 0 558 241 504 777.6 0 504 242 372 777.6 0 372 243 336 777.6 0 336 244 290 777.6 0 290 245 293 777.6 0 293 246 314 777.6 0 314 247 126 777.6 0 126 248 95 777.6 0 95 249 105 777.6 0 105 250 326 777.6 0 326 251 366 777.6 0 366 252 231 777.6 0 231 253 174 777.6 0 174 254 282 777.6 0 282 255 349 777.6 0 349 256 261 777.6 0 261 257 171 777.6 0 171 258 153 777.6 0 153 259 198 777.6 0 198 260 187 777.6 0 187 261 262 777.6 0 262 262 271 777.6 0 271 263 216 777.6 0 216 264 241 777.6 0 241 265 285 777.6 0 285 266 323 777.6 0 323 267 176 777.6 0 176 268 188 777.6 0 188 269 211 777.6 0 211 270 327 777.6 0 327 271 271 777.6 0 271 272 306 777.6 0 306 273 260 777.6 0 260 274 316 777.6 0 316 275 483 777.6 0 483 276 473 777.6 0 473 277 989 777.6 0 989 278 437 777.6 0 437 279 428 777.6 0 428 280 321 777.6 0 321 281 238 777.6 0 238 282 443 777.6 0 443 283 525 777.6 0 525 284 340 777.6 0 340 285 362 777.6 0 362 286 297 777.6 0 297 287 348 777.6 0 348 288 268 777.6 0 268 289 724 777.6 0 724 290 288 777.6 0 288 291 317 777.6 0 317 292 455 777.6 0 455 293 308 777.6 0 308 294 345 777.6 0 345 295 598 777.6 0 598 296 394 777.6 0 394 297 224 777.6 0 224 298 409 777.6 0 409 299 429 777.6 0 429 300 803 777.6 0 803 301 2656 777.6 0 2656 Finished in 3.32 s (45 us/read; 1.34 M reads/minute). === Summary === Total reads processed: 74,233 Reads with adapters: 40,487 (54.5%) Reads that were too short: 5 (0.0%) Reads written (passing filters): 40,482 (54.5%) Total basepairs processed: 17,369,556 bp Total written (filtered): 11,212,643 bp (64.6%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 40487 times. No. of allowed errors: 0-4 bp: 0; 5-9 bp: 1; 10-14 bp: 2; 15-17 bp: 3 Overview of removed sequences length count expect max.err error counts 14 1 0.0 2 0 0 0 1 15 9 0.0 3 0 0 9 16 367 0.0 3 0 358 9 17 39937 0.0 3 39230 680 25 2 18 106 0.0 3 10 89 3 4 19 21 0.0 3 0 0 17 4 20 28 0.0 3 0 0 0 28 21 1 0.0 3 1 25 1 0.0 3 0 0 0 1 34 1 0.0 3 0 0 0 1 39 1 0.0 3 0 0 0 1 46 1 0.0 3 0 0 0 1 56 1 0.0 3 0 0 0 1 59 1 0.0 3 0 0 0 1 70 1 0.0 3 0 0 0 1 89 1 0.0 3 0 0 0 1 95 1 0.0 3 0 0 0 1 106 1 0.0 3 0 0 0 1 126 1 0.0 3 0 0 0 1 141 1 0.0 3 0 0 0 1 148 1 0.0 3 0 0 0 1 177 2 0.0 3 0 0 0 2 188 1 0.0 3 0 0 0 1 205 1 0.0 3 0 0 0 1 This is cutadapt 1.11 with Python 2.7.12 Command line parameters: -a taatctatgggnncatcagg - Trimming 1 adapter with at most 10.0% errors in single-end mode ... Finished in 1.87 s (46 us/read; 1.30 M reads/minute). === Summary === Total reads processed: 40,482 Reads with adapters: 3,816 (9.4%) Reads written (passing filters): 40,482 (100.0%) Total basepairs processed: 11,212,643 bp Total written (filtered): 11,201,190 bp (99.9%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 3816 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 3.2% C: 89.5% G: 6.1% T: 1.1% none/other: 0.0% WARNING: The adapter is preceded by "C" extremely often. The provided adapter sequence may be incomplete. To fix the problem, add "C" to the beginning of the adapter sequence. Overview of removed sequences length count expect max.err error counts 3 3811 632.5 0 3811 4 5 158.1 0 5 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.