This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g GGCGCA -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 173.63 s (50 us/read; 1.20 M reads/minute). === Summary === Total reads processed: 3,470,393 Reads with adapters: 648,457 (18.7%) Reads that were too short: 45,448 (1.3%) Reads written (passing filters): 603,009 (17.4%) Total basepairs processed: 1,044,588,293 bp Total written (filtered): 148,436,461 bp (14.2%) === Adapter 1 === Sequence: GGCGCA; Type: regular 5'; Length: 6; Trimmed: 648457 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 521 847.3 0 521 7 5271 847.3 0 5271 8 4069 847.3 0 4069 9 388 847.3 0 388 10 444 847.3 0 444 11 301 847.3 0 301 12 301 847.3 0 301 13 796 847.3 0 796 14 719 847.3 0 719 15 710 847.3 0 710 16 599 847.3 0 599 17 930 847.3 0 930 18 1267 847.3 0 1267 19 2067 847.3 0 2067 20 43713 847.3 0 43713 21 37487 847.3 0 37487 22 27681 847.3 0 27681 23 375 847.3 0 375 24 247 847.3 0 247 25 417 847.3 0 417 26 208 847.3 0 208 27 186 847.3 0 186 28 157 847.3 0 157 29 347 847.3 0 347 30 184 847.3 0 184 31 340 847.3 0 340 32 578 847.3 0 578 33 961 847.3 0 961 34 956 847.3 0 956 35 1757 847.3 0 1757 36 3076 847.3 0 3076 37 880 847.3 0 880 38 1103 847.3 0 1103 39 1876 847.3 0 1876 40 1215 847.3 0 1215 41 1050 847.3 0 1050 42 1901 847.3 0 1901 43 1547 847.3 0 1547 44 2089 847.3 0 2089 45 1910 847.3 0 1910 46 2890 847.3 0 2890 47 4400 847.3 0 4400 48 8728 847.3 0 8728 49 163878 847.3 0 163878 50 141551 847.3 0 141551 51 72291 847.3 0 72291 52 347 847.3 0 347 53 73 847.3 0 73 54 110 847.3 0 110 55 34 847.3 0 34 56 103 847.3 0 103 57 90 847.3 0 90 58 101 847.3 0 101 59 57 847.3 0 57 60 124 847.3 0 124 61 89 847.3 0 89 62 149 847.3 0 149 63 1237 847.3 0 1237 64 1119 847.3 0 1119 65 933 847.3 0 933 66 42 847.3 0 42 67 35 847.3 0 35 68 52 847.3 0 52 69 48 847.3 0 48 70 52 847.3 0 52 71 53 847.3 0 53 72 58 847.3 0 58 73 46 847.3 0 46 74 45 847.3 0 45 75 55 847.3 0 55 76 69 847.3 0 69 77 43 847.3 0 43 78 38 847.3 0 38 79 51 847.3 0 51 80 38 847.3 0 38 81 60 847.3 0 60 82 46 847.3 0 46 83 55 847.3 0 55 84 54 847.3 0 54 85 50 847.3 0 50 86 59 847.3 0 59 87 44 847.3 0 44 88 235 847.3 0 235 89 75 847.3 0 75 90 79 847.3 0 79 91 127 847.3 0 127 92 68 847.3 0 68 93 52 847.3 0 52 94 61 847.3 0 61 95 57 847.3 0 57 96 37 847.3 0 37 97 33 847.3 0 33 98 60 847.3 0 60 99 42 847.3 0 42 100 29 847.3 0 29 101 31 847.3 0 31 102 47 847.3 0 47 103 24 847.3 0 24 104 34 847.3 0 34 105 35 847.3 0 35 106 73 847.3 0 73 107 42 847.3 0 42 108 45 847.3 0 45 109 33 847.3 0 33 110 60 847.3 0 60 111 60 847.3 0 60 112 64 847.3 0 64 113 55 847.3 0 55 114 51 847.3 0 51 115 50 847.3 0 50 116 55 847.3 0 55 117 177 847.3 0 177 118 326 847.3 0 326 119 814 847.3 0 814 120 71 847.3 0 71 121 52 847.3 0 52 122 51 847.3 0 51 123 49 847.3 0 49 124 85 847.3 0 85 125 118 847.3 0 118 126 67 847.3 0 67 127 63 847.3 0 63 128 49 847.3 0 49 129 75 847.3 0 75 130 47 847.3 0 47 131 37 847.3 0 37 132 44 847.3 0 44 133 55 847.3 0 55 134 73 847.3 0 73 135 72 847.3 0 72 136 50 847.3 0 50 137 54 847.3 0 54 138 63 847.3 0 63 139 57 847.3 0 57 140 77 847.3 0 77 141 66 847.3 0 66 142 120 847.3 0 120 143 104 847.3 0 104 144 128 847.3 0 128 145 132 847.3 0 132 146 99 847.3 0 99 147 63 847.3 0 63 148 37 847.3 0 37 149 87 847.3 0 87 150 95 847.3 0 95 151 96 847.3 0 96 152 94 847.3 0 94 153 93 847.3 0 93 154 59 847.3 0 59 155 78 847.3 0 78 156 69 847.3 0 69 157 93 847.3 0 93 158 111 847.3 0 111 159 124 847.3 0 124 160 74 847.3 0 74 161 66 847.3 0 66 162 45 847.3 0 45 163 39 847.3 0 39 164 51 847.3 0 51 165 60 847.3 0 60 166 51 847.3 0 51 167 87 847.3 0 87 168 79 847.3 0 79 169 103 847.3 0 103 170 84 847.3 0 84 171 100 847.3 0 100 172 87 847.3 0 87 173 113 847.3 0 113 174 82 847.3 0 82 175 116 847.3 0 116 176 184 847.3 0 184 177 248 847.3 0 248 178 281 847.3 0 281 179 379 847.3 0 379 180 694 847.3 0 694 181 241 847.3 0 241 182 370 847.3 0 370 183 951 847.3 0 951 184 517 847.3 0 517 185 159 847.3 0 159 186 257 847.3 0 257 187 218 847.3 0 218 188 779 847.3 0 779 189 379 847.3 0 379 190 503 847.3 0 503 191 418 847.3 0 418 192 506 847.3 0 506 193 3272 847.3 0 3272 194 5011 847.3 0 5011 195 28847 847.3 0 28847 196 820 847.3 0 820 197 324 847.3 0 324 198 67 847.3 0 67 199 53 847.3 0 53 200 105 847.3 0 105 201 80 847.3 0 80 202 71 847.3 0 71 203 68 847.3 0 68 204 64 847.3 0 64 205 83 847.3 0 83 206 82 847.3 0 82 207 73 847.3 0 73 208 130 847.3 0 130 209 97 847.3 0 97 210 72 847.3 0 72 211 72 847.3 0 72 212 86 847.3 0 86 213 419 847.3 0 419 214 1052 847.3 0 1052 215 703 847.3 0 703 216 366 847.3 0 366 217 186 847.3 0 186 218 263 847.3 0 263 219 912 847.3 0 912 220 750 847.3 0 750 221 550 847.3 0 550 222 215 847.3 0 215 223 121 847.3 0 121 224 78 847.3 0 78 225 146 847.3 0 146 226 156 847.3 0 156 227 111 847.3 0 111 228 100 847.3 0 100 229 66 847.3 0 66 230 92 847.3 0 92 231 171 847.3 0 171 232 154 847.3 0 154 233 117 847.3 0 117 234 165 847.3 0 165 235 163 847.3 0 163 236 179 847.3 0 179 237 267 847.3 0 267 238 272 847.3 0 272 239 1124 847.3 0 1124 240 1648 847.3 0 1648 241 679 847.3 0 679 242 224 847.3 0 224 243 55 847.3 0 55 244 88 847.3 0 88 245 82 847.3 0 82 246 140 847.3 0 140 247 117 847.3 0 117 248 126 847.3 0 126 249 199 847.3 0 199 250 1119 847.3 0 1119 251 1245 847.3 0 1245 252 973 847.3 0 973 253 563 847.3 0 563 254 89 847.3 0 89 255 92 847.3 0 92 256 160 847.3 0 160 257 210 847.3 0 210 258 213 847.3 0 213 259 799 847.3 0 799 260 652 847.3 0 652 261 258 847.3 0 258 262 177 847.3 0 177 263 1347 847.3 0 1347 264 1065 847.3 0 1065 265 806 847.3 0 806 266 537 847.3 0 537 267 295 847.3 0 295 268 363 847.3 0 363 269 253 847.3 0 253 270 169 847.3 0 169 271 93 847.3 0 93 272 93 847.3 0 93 273 91 847.3 0 91 274 122 847.3 0 122 275 208 847.3 0 208 276 130 847.3 0 130 277 128 847.3 0 128 278 146 847.3 0 146 279 118 847.3 0 118 280 119 847.3 0 119 281 178 847.3 0 178 282 224 847.3 0 224 283 284 847.3 0 284 284 261 847.3 0 261 285 229 847.3 0 229 286 325 847.3 0 325 287 511 847.3 0 511 288 6725 847.3 0 6725 289 5357 847.3 0 5357 290 2701 847.3 0 2701 291 349 847.3 0 349 292 139 847.3 0 139 293 195 847.3 0 195 294 260 847.3 0 260 295 289 847.3 0 289 296 236 847.3 0 236 297 320 847.3 0 320 298 314 847.3 0 314 299 300 847.3 0 300 300 245 847.3 0 245 301 219 847.3 0 219 Finished in 42.15 s (70 us/read; 0.86 M reads/minute). === Summary === Total reads processed: 603,009 Reads with adapters: 8,710 (1.4%) Reads that were too short: 327 (0.1%) Reads written (passing filters): 8,383 (1.4%) Total basepairs processed: 148,436,461 bp Total written (filtered): 1,819,796 bp (1.2%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 8710 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 1 0.0 3 0 0 1 19 69 0.0 3 0 61 5 2 1 20 3849 0.0 4 3631 181 26 8 3 21 8 0.0 4 2 6 22 29 0.0 4 18 7 3 0 1 23 7 0.0 4 1 1 0 3 2 49 3 0.0 4 0 0 0 0 3 50 6 0.0 4 0 0 0 0 6 52 1 0.0 4 0 0 0 0 1 54 1 0.0 4 0 0 1 63 1 0.0 4 0 0 0 0 1 72 1 0.0 4 0 0 0 0 1 74 1 0.0 4 1 75 2 0.0 4 0 1 0 0 1 76 1 0.0 4 0 0 0 0 1 78 2 0.0 4 1 0 0 0 1 82 1 0.0 4 0 0 0 0 1 83 3 0.0 4 0 0 0 0 3 84 4 0.0 4 0 0 0 0 4 85 3601 0.0 4 0 0 0 0 3601 87 2 0.0 4 0 0 0 1 1 88 8 0.0 4 0 0 0 0 8 97 1 0.0 4 0 0 0 0 1 98 3 0.0 4 0 0 0 1 2 101 1 0.0 4 0 0 0 0 1 111 4 0.0 4 0 0 0 0 4 112 1 0.0 4 0 0 0 0 1 113 3 0.0 4 0 0 0 0 3 114 743 0.0 4 0 0 0 0 743 115 6 0.0 4 0 0 0 0 6 117 4 0.0 4 1 0 0 0 3 123 1 0.0 4 0 0 0 0 1 125 1 0.0 4 0 0 0 0 1 126 2 0.0 4 0 0 0 0 2 127 4 0.0 4 0 0 0 0 4 133 1 0.0 4 0 0 0 0 1 140 9 0.0 4 1 0 0 0 8 147 1 0.0 4 0 0 0 0 1 151 1 0.0 4 0 0 0 0 1 152 1 0.0 4 0 0 0 0 1 161 2 0.0 4 0 0 0 0 2 164 1 0.0 4 0 0 0 0 1 165 2 0.0 4 0 0 0 1 1 166 1 0.0 4 0 0 0 0 1 168 1 0.0 4 0 0 0 0 1 172 5 0.0 4 0 0 0 0 5 173 7 0.0 4 0 0 0 1 6 174 8 0.0 4 0 0 0 0 8 175 3 0.0 4 0 0 0 0 3 176 1 0.0 4 0 0 0 0 1 177 2 0.0 4 0 0 0 0 2 178 1 0.0 4 0 0 0 0 1 179 1 0.0 4 0 0 0 0 1 181 1 0.0 4 0 0 0 0 1 185 2 0.0 4 0 0 0 0 2 186 29 0.0 4 0 0 0 2 27 187 9 0.0 4 0 0 0 1 8 188 2 0.0 4 0 0 0 0 2 190 2 0.0 4 0 0 0 0 2 191 4 0.0 4 0 0 0 0 4 192 3 0.0 4 0 0 0 0 3 194 1 0.0 4 0 0 0 0 1 195 2 0.0 4 0 0 0 0 2 196 1 0.0 4 0 0 0 0 1 197 2 0.0 4 0 0 0 0 2 200 2 0.0 4 0 0 0 0 2 201 1 0.0 4 0 0 0 0 1 203 1 0.0 4 0 0 0 0 1 204 1 0.0 4 0 0 0 0 1 207 1 0.0 4 0 0 0 0 1 209 1 0.0 4 0 0 0 0 1 212 2 0.0 4 0 0 0 0 2 214 1 0.0 4 0 0 0 0 1 215 7 0.0 4 0 0 0 0 7 216 5 0.0 4 0 0 0 0 5 217 3 0.0 4 0 0 0 0 3 218 11 0.0 4 0 0 0 1 10 219 3 0.0 4 0 0 0 0 3 220 2 0.0 4 0 0 0 0 2 221 12 0.0 4 0 0 0 0 12 222 26 0.0 4 0 0 0 0 26 223 33 0.0 4 0 0 0 0 33 224 3 0.0 4 0 0 0 0 3 226 4 0.0 4 0 0 0 0 4 230 1 0.0 4 0 0 0 0 1 232 2 0.0 4 0 0 0 0 2 233 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 1 238 1 0.0 4 0 0 0 0 1 239 2 0.0 4 0 0 0 1 1 240 10 0.0 4 0 0 0 0 10 242 1 0.0 4 0 0 0 0 1 243 4 0.0 4 0 0 0 0 4 244 1 0.0 4 0 0 0 0 1 245 4 0.0 4 0 0 0 0 4 246 14 0.0 4 0 0 0 0 14 247 1 0.0 4 0 0 0 0 1 248 2 0.0 4 0 0 0 0 2 249 4 0.0 4 0 0 0 0 4 250 5 0.0 4 0 0 0 0 5 251 13 0.0 4 0 0 0 0 13 252 24 0.0 4 0 0 0 0 24 253 2 0.0 4 0 0 0 0 2 255 1 0.0 4 0 0 0 0 1 257 1 0.0 4 0 0 0 0 1 269 2 0.0 4 0 0 0 0 2 270 3 0.0 4 0 0 0 1 2 273 1 0.0 4 0 0 0 0 1 275 2 0.0 4 0 0 0 0 2 279 1 0.0 4 0 0 0 0 1 280 1 0.0 4 0 0 0 0 1 281 1 0.0 4 0 0 0 0 1 291 1 0.0 4 0 0 0 0 1 292 1 0.0 4 0 0 0 0 1 294 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 0.43 s (51 us/read; 1.17 M reads/minute). === Summary === Total reads processed: 8,383 Reads with adapters: 720 (8.6%) Reads written (passing filters): 8,383 (100.0%) Total basepairs processed: 1,819,796 bp Total written (filtered): 1,811,428 bp (99.5%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 720 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 7.5% C: 6.2% G: 83.9% T: 2.4% 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 20 131.0 0 20 4 28 32.7 0 28 5 1 8.2 0 1 9 5 0.0 0 0 5 10 59 0.0 1 5 54 11 597 0.0 1 25 572 12 5 0.0 1 0 5 151 2 0.0 1 2 209 3 0.0 1 3 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.