This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CACGTA -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 174.11 s (48 us/read; 1.25 M reads/minute). === Summary === Total reads processed: 3,634,272 Reads with adapters: 273,616 (7.5%) Reads that were too short: 152,560 (4.2%) Reads written (passing filters): 121,056 (3.3%) Total basepairs processed: 1,093,915,872 bp Total written (filtered): 29,479,558 bp (2.7%) === Adapter 1 === Sequence: CACGTA; Type: regular 5'; Length: 6; Trimmed: 273616 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1273 887.3 0 1273 7 1267 887.3 0 1267 8 38844 887.3 0 38844 9 32852 887.3 0 32852 10 207 887.3 0 207 11 342 887.3 0 342 12 83 887.3 0 83 13 226 887.3 0 226 14 126 887.3 0 126 15 70 887.3 0 70 16 67 887.3 0 67 17 96 887.3 0 96 18 68 887.3 0 68 19 41 887.3 0 41 20 72 887.3 0 72 21 94 887.3 0 94 22 45 887.3 0 45 23 35 887.3 0 35 24 70 887.3 0 70 25 61 887.3 0 61 26 64 887.3 0 64 27 55 887.3 0 55 28 60 887.3 0 60 29 60 887.3 0 60 30 54 887.3 0 54 31 78 887.3 0 78 32 55 887.3 0 55 33 40 887.3 0 40 34 49 887.3 0 49 35 48 887.3 0 48 36 43 887.3 0 43 37 57 887.3 0 57 38 96 887.3 0 96 39 57 887.3 0 57 40 69 887.3 0 69 41 64 887.3 0 64 42 96 887.3 0 96 43 112 887.3 0 112 44 90 887.3 0 90 45 68 887.3 0 68 46 141 887.3 0 141 47 126 887.3 0 126 48 113 887.3 0 113 49 75 887.3 0 75 50 74 887.3 0 74 51 60 887.3 0 60 52 82 887.3 0 82 53 76 887.3 0 76 54 76 887.3 0 76 55 59 887.3 0 59 56 93 887.3 0 93 57 73 887.3 0 73 58 114 887.3 0 114 59 70 887.3 0 70 60 84 887.3 0 84 61 93 887.3 0 93 62 77 887.3 0 77 63 48 887.3 0 48 64 59 887.3 0 59 65 52 887.3 0 52 66 78 887.3 0 78 67 69 887.3 0 69 68 137 887.3 0 137 69 110 887.3 0 110 70 85 887.3 0 85 71 59 887.3 0 59 72 99 887.3 0 99 73 141 887.3 0 141 74 122 887.3 0 122 75 148 887.3 0 148 76 63 887.3 0 63 77 94 887.3 0 94 78 119 887.3 0 119 79 67 887.3 0 67 80 52 887.3 0 52 81 62 887.3 0 62 82 69 887.3 0 69 83 83 887.3 0 83 84 97 887.3 0 97 85 81 887.3 0 81 86 67 887.3 0 67 87 90 887.3 0 90 88 62 887.3 0 62 89 68 887.3 0 68 90 71 887.3 0 71 91 61 887.3 0 61 92 69 887.3 0 69 93 115 887.3 0 115 94 84 887.3 0 84 95 107 887.3 0 107 96 76 887.3 0 76 97 200 887.3 0 200 98 205 887.3 0 205 99 127 887.3 0 127 100 74 887.3 0 74 101 69 887.3 0 69 102 69 887.3 0 69 103 79 887.3 0 79 104 66 887.3 0 66 105 80 887.3 0 80 106 106 887.3 0 106 107 107 887.3 0 107 108 102 887.3 0 102 109 80 887.3 0 80 110 80 887.3 0 80 111 73 887.3 0 73 112 112 887.3 0 112 113 104 887.3 0 104 114 81 887.3 0 81 115 138 887.3 0 138 116 149 887.3 0 149 117 159 887.3 0 159 118 136 887.3 0 136 119 182 887.3 0 182 120 285 887.3 0 285 121 170 887.3 0 170 122 216 887.3 0 216 123 193 887.3 0 193 124 371 887.3 0 371 125 8518 887.3 0 8518 126 2997 887.3 0 2997 127 1173 887.3 0 1173 128 149 887.3 0 149 129 124 887.3 0 124 130 143 887.3 0 143 131 116 887.3 0 116 132 82 887.3 0 82 133 91 887.3 0 91 134 185 887.3 0 185 135 267 887.3 0 267 136 267 887.3 0 267 137 146 887.3 0 146 138 168 887.3 0 168 139 117 887.3 0 117 140 113 887.3 0 113 141 116 887.3 0 116 142 131 887.3 0 131 143 169 887.3 0 169 144 103 887.3 0 103 145 367 887.3 0 367 146 474 887.3 0 474 147 338 887.3 0 338 148 169 887.3 0 169 149 136 887.3 0 136 150 130 887.3 0 130 151 123 887.3 0 123 152 138 887.3 0 138 153 114 887.3 0 114 154 186 887.3 0 186 155 185 887.3 0 185 156 168 887.3 0 168 157 248 887.3 0 248 158 247 887.3 0 247 159 266 887.3 0 266 160 138 887.3 0 138 161 145 887.3 0 145 162 152 887.3 0 152 163 148 887.3 0 148 164 158 887.3 0 158 165 243 887.3 0 243 166 246 887.3 0 246 167 221 887.3 0 221 168 144 887.3 0 144 169 115 887.3 0 115 170 118 887.3 0 118 171 236 887.3 0 236 172 222 887.3 0 222 173 1075 887.3 0 1075 174 1750 887.3 0 1750 175 1450 887.3 0 1450 176 573 887.3 0 573 177 136 887.3 0 136 178 162 887.3 0 162 179 203 887.3 0 203 180 235 887.3 0 235 181 1071 887.3 0 1071 182 715 887.3 0 715 183 940 887.3 0 940 184 349 887.3 0 349 185 297 887.3 0 297 186 1378 887.3 0 1378 187 1178 887.3 0 1178 188 1241 887.3 0 1241 189 227 887.3 0 227 190 163 887.3 0 163 191 178 887.3 0 178 192 149 887.3 0 149 193 198 887.3 0 198 194 184 887.3 0 184 195 159 887.3 0 159 196 140 887.3 0 140 197 104 887.3 0 104 198 90 887.3 0 90 199 178 887.3 0 178 200 165 887.3 0 165 201 201 887.3 0 201 202 204 887.3 0 204 203 196 887.3 0 196 204 176 887.3 0 176 205 190 887.3 0 190 206 483 887.3 0 483 207 682 887.3 0 682 208 566 887.3 0 566 209 333 887.3 0 333 210 124 887.3 0 124 211 164 887.3 0 164 212 343 887.3 0 343 213 211 887.3 0 211 214 320 887.3 0 320 215 378 887.3 0 378 216 219 887.3 0 219 217 240 887.3 0 240 218 323 887.3 0 323 219 398 887.3 0 398 220 500 887.3 0 500 221 486 887.3 0 486 222 541 887.3 0 541 223 570 887.3 0 570 224 1064 887.3 0 1064 225 16881 887.3 0 16881 226 15058 887.3 0 15058 227 9868 887.3 0 9868 228 435 887.3 0 435 229 1798 887.3 0 1798 230 5372 887.3 0 5372 231 5464 887.3 0 5464 232 2428 887.3 0 2428 233 363 887.3 0 363 234 269 887.3 0 269 235 257 887.3 0 257 236 188 887.3 0 188 237 197 887.3 0 197 238 184 887.3 0 184 239 173 887.3 0 173 240 195 887.3 0 195 241 251 887.3 0 251 242 240 887.3 0 240 243 235 887.3 0 235 244 250 887.3 0 250 245 300 887.3 0 300 246 384 887.3 0 384 247 348 887.3 0 348 248 383 887.3 0 383 249 289 887.3 0 289 250 744 887.3 0 744 251 848 887.3 0 848 252 1124 887.3 0 1124 253 1519 887.3 0 1519 254 1671 887.3 0 1671 255 661 887.3 0 661 256 167 887.3 0 167 257 173 887.3 0 173 258 166 887.3 0 166 259 236 887.3 0 236 260 200 887.3 0 200 261 211 887.3 0 211 262 242 887.3 0 242 263 273 887.3 0 273 264 303 887.3 0 303 265 319 887.3 0 319 266 277 887.3 0 277 267 300 887.3 0 300 268 295 887.3 0 295 269 262 887.3 0 262 270 221 887.3 0 221 271 520 887.3 0 520 272 390 887.3 0 390 273 486 887.3 0 486 274 399 887.3 0 399 275 753 887.3 0 753 276 404 887.3 0 404 277 353 887.3 0 353 278 567 887.3 0 567 279 1262 887.3 0 1262 280 4616 887.3 0 4616 281 5548 887.3 0 5548 282 3296 887.3 0 3296 283 743 887.3 0 743 284 609 887.3 0 609 285 849 887.3 0 849 286 362 887.3 0 362 287 312 887.3 0 312 288 281 887.3 0 281 289 462 887.3 0 462 290 552 887.3 0 552 291 393 887.3 0 393 292 304 887.3 0 304 293 254 887.3 0 254 294 530 887.3 0 530 295 908 887.3 0 908 296 1212 887.3 0 1212 297 1646 887.3 0 1646 298 2234 887.3 0 2234 299 3138 887.3 0 3138 300 5660 887.3 0 5660 301 32784 887.3 0 32784 Finished in 8.95 s (74 us/read; 0.81 M reads/minute). === Summary === Total reads processed: 121,056 Reads with adapters: 34,372 (28.4%) Reads that were too short: 54 (0.0%) Reads written (passing filters): 34,318 (28.3%) Total basepairs processed: 29,479,558 bp Total written (filtered): 9,290,906 bp (31.5%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 34372 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 3 0.0 3 0 0 0 1 2 18 34 0.0 3 0 0 25 3 6 19 345 0.0 3 0 307 20 15 3 20 33288 0.0 4 31751 1251 215 49 22 21 113 0.0 4 12 93 6 2 22 39 0.0 4 21 1 12 0 5 23 63 0.0 4 3 0 1 47 12 24 6 0.0 4 2 0 0 1 3 26 1 0.0 4 0 0 0 0 1 30 2 0.0 4 0 0 0 0 2 31 1 0.0 4 1 32 1 0.0 4 0 0 0 0 1 34 1 0.0 4 0 0 0 0 1 35 3 0.0 4 0 0 0 0 3 41 1 0.0 4 1 43 1 0.0 4 1 45 1 0.0 4 0 0 0 0 1 49 5 0.0 4 0 0 0 0 5 53 1 0.0 4 0 0 0 0 1 60 1 0.0 4 0 0 0 0 1 63 1 0.0 4 0 0 0 0 1 64 1 0.0 4 0 0 0 1 69 1 0.0 4 0 0 0 0 1 76 1 0.0 4 0 0 0 0 1 85 1 0.0 4 0 0 0 0 1 87 1 0.0 4 0 0 0 0 1 92 1 0.0 4 0 0 0 0 1 97 1 0.0 4 0 0 0 0 1 102 1 0.0 4 0 0 0 0 1 108 1 0.0 4 0 0 0 1 116 2 0.0 4 0 0 0 0 2 125 1 0.0 4 0 0 0 0 1 126 4 0.0 4 0 0 0 0 4 127 402 0.0 4 0 0 0 0 402 130 6 0.0 4 0 0 0 0 6 131 1 0.0 4 0 0 0 0 1 145 1 0.0 4 0 0 0 0 1 146 1 0.0 4 0 0 0 0 1 158 1 0.0 4 0 0 0 0 1 168 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 1 209 1 0.0 4 0 0 0 0 1 213 1 0.0 4 0 0 0 0 1 214 1 0.0 4 0 0 0 0 1 215 1 0.0 4 0 0 0 0 1 228 11 0.0 4 0 0 0 1 10 229 1 0.0 4 0 0 0 0 1 230 1 0.0 4 0 0 0 0 1 231 1 0.0 4 0 0 0 0 1 232 1 0.0 4 0 0 0 0 1 233 2 0.0 4 0 0 0 0 2 234 1 0.0 4 0 0 0 0 1 235 1 0.0 4 0 0 0 0 1 236 1 0.0 4 0 0 0 0 1 239 1 0.0 4 0 0 0 0 1 240 1 0.0 4 0 0 0 0 1 241 1 0.0 4 0 0 0 0 1 264 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 2.19 s (64 us/read; 0.94 M reads/minute). === Summary === Total reads processed: 34,318 Reads with adapters: 8,053 (23.5%) Reads written (passing filters): 34,318 (100.0%) Total basepairs processed: 9,290,906 bp Total written (filtered): 9,209,548 bp (99.1%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 8053 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.2% C: 5.0% G: 92.0% 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 38 536.2 0 38 4 9 134.1 0 9 5 6 33.5 0 6 6 4 8.4 0 4 8 2 0.5 0 2 9 3041 0.1 0 155 2886 10 3650 0.0 1 193 3457 11 1245 0.0 1 38 1207 12 28 0.0 1 1 27 13 13 0.0 1 0 13 15 1 0.0 1 0 1 18 1 0.0 1 0 1 72 1 0.0 1 1 150 4 0.0 1 2 2 189 1 0.0 1 0 1 208 3 0.0 1 2 1 209 1 0.0 1 1 257 1 0.0 1 1 269 1 0.0 1 1 272 3 0.0 1 3 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.