This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AGAAGA -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 183.63 s (51 us/read; 1.19 M reads/minute). === Summary === Total reads processed: 3,634,272 Reads with adapters: 1,000,140 (27.5%) Reads that were too short: 17,243 (0.5%) Reads written (passing filters): 982,897 (27.0%) Total basepairs processed: 1,093,915,872 bp Total written (filtered): 185,617,186 bp (17.0%) === Adapter 1 === Sequence: AGAAGA; Type: regular 5'; Length: 6; Trimmed: 1000140 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 2112 887.3 0 2112 7 103360 887.3 0 103360 8 81532 887.3 0 81532 9 206 887.3 0 206 10 149 887.3 0 149 11 172 887.3 0 172 12 129 887.3 0 129 13 71 887.3 0 71 14 72 887.3 0 72 15 98 887.3 0 98 16 69 887.3 0 69 17 84 887.3 0 84 18 91 887.3 0 91 19 73 887.3 0 73 20 82 887.3 0 82 21 79 887.3 0 79 22 71 887.3 0 71 23 82 887.3 0 82 24 119 887.3 0 119 25 169 887.3 0 169 26 242 887.3 0 242 27 345 887.3 0 345 28 113 887.3 0 113 29 114 887.3 0 114 30 116 887.3 0 116 31 85 887.3 0 85 32 87 887.3 0 87 33 71 887.3 0 71 34 102 887.3 0 102 35 119 887.3 0 119 36 109 887.3 0 109 37 152 887.3 0 152 38 76 887.3 0 76 39 68 887.3 0 68 40 80 887.3 0 80 41 70 887.3 0 70 42 91 887.3 0 91 43 137 887.3 0 137 44 95 887.3 0 95 45 99 887.3 0 99 46 101 887.3 0 101 47 79 887.3 0 79 48 101 887.3 0 101 49 105 887.3 0 105 50 110 887.3 0 110 51 105 887.3 0 105 52 121 887.3 0 121 53 131 887.3 0 131 54 137 887.3 0 137 55 110 887.3 0 110 56 124 887.3 0 124 57 194 887.3 0 194 58 201 887.3 0 201 59 112 887.3 0 112 60 186 887.3 0 186 61 177 887.3 0 177 62 191 887.3 0 191 63 162 887.3 0 162 64 154 887.3 0 154 65 121 887.3 0 121 66 130 887.3 0 130 67 149 887.3 0 149 68 205 887.3 0 205 69 246 887.3 0 246 70 140 887.3 0 140 71 134 887.3 0 134 72 518 887.3 0 518 73 257 887.3 0 257 74 1004 887.3 0 1004 75 335 887.3 0 335 76 1491 887.3 0 1491 77 467 887.3 0 467 78 352 887.3 0 352 79 1821 887.3 0 1821 80 861 887.3 0 861 81 2186 887.3 0 2186 82 1033 887.3 0 1033 83 1284 887.3 0 1284 84 406 887.3 0 406 85 544 887.3 0 544 86 457 887.3 0 457 87 144 887.3 0 144 88 139 887.3 0 139 89 215 887.3 0 215 90 129 887.3 0 129 91 133 887.3 0 133 92 326 887.3 0 326 93 257 887.3 0 257 94 416 887.3 0 416 95 401 887.3 0 401 96 263 887.3 0 263 97 218 887.3 0 218 98 320 887.3 0 320 99 279 887.3 0 279 100 249 887.3 0 249 101 465 887.3 0 465 102 392 887.3 0 392 103 361 887.3 0 361 104 461 887.3 0 461 105 1074 887.3 0 1074 106 362 887.3 0 362 107 445 887.3 0 445 108 698 887.3 0 698 109 467 887.3 0 467 110 547 887.3 0 547 111 806 887.3 0 806 112 803 887.3 0 803 113 1221 887.3 0 1221 114 1031 887.3 0 1031 115 1698 887.3 0 1698 116 2131 887.3 0 2131 117 4518 887.3 0 4518 118 54314 887.3 0 54314 119 61737 887.3 0 61737 120 78738 887.3 0 78738 121 4014 887.3 0 4014 122 4314 887.3 0 4314 123 3710 887.3 0 3710 124 602 887.3 0 602 125 444 887.3 0 444 126 431 887.3 0 431 127 582 887.3 0 582 128 513 887.3 0 513 129 530 887.3 0 530 130 704 887.3 0 704 131 1117 887.3 0 1117 132 2353 887.3 0 2353 133 914 887.3 0 914 134 1112 887.3 0 1112 135 1731 887.3 0 1731 136 1210 887.3 0 1210 137 1694 887.3 0 1694 138 2519 887.3 0 2519 139 8701 887.3 0 8701 140 24455 887.3 0 24455 141 26830 887.3 0 26830 142 14256 887.3 0 14256 143 4707 887.3 0 4707 144 10755 887.3 0 10755 145 129932 887.3 0 129932 146 125580 887.3 0 125580 147 108611 887.3 0 108611 148 6663 887.3 0 6663 149 3637 887.3 0 3637 150 1021 887.3 0 1021 151 527 887.3 0 527 152 715 887.3 0 715 153 833 887.3 0 833 154 703 887.3 0 703 155 1052 887.3 0 1052 156 711 887.3 0 711 157 2328 887.3 0 2328 158 2115 887.3 0 2115 159 2178 887.3 0 2178 160 2965 887.3 0 2965 161 1647 887.3 0 1647 162 754 887.3 0 754 163 1187 887.3 0 1187 164 2943 887.3 0 2943 165 15635 887.3 0 15635 166 16394 887.3 0 16394 167 6248 887.3 0 6248 168 621 887.3 0 621 169 288 887.3 0 288 170 228 887.3 0 228 171 155 887.3 0 155 172 214 887.3 0 214 173 164 887.3 0 164 174 209 887.3 0 209 175 179 887.3 0 179 176 133 887.3 0 133 177 146 887.3 0 146 178 118 887.3 0 118 179 128 887.3 0 128 180 126 887.3 0 126 181 167 887.3 0 167 182 177 887.3 0 177 183 194 887.3 0 194 184 187 887.3 0 187 185 152 887.3 0 152 186 186 887.3 0 186 187 180 887.3 0 180 188 168 887.3 0 168 189 176 887.3 0 176 190 155 887.3 0 155 191 162 887.3 0 162 192 227 887.3 0 227 193 260 887.3 0 260 194 363 887.3 0 363 195 215 887.3 0 215 196 130 887.3 0 130 197 157 887.3 0 157 198 140 887.3 0 140 199 188 887.3 0 188 200 189 887.3 0 189 201 147 887.3 0 147 202 140 887.3 0 140 203 106 887.3 0 106 204 144 887.3 0 144 205 158 887.3 0 158 206 168 887.3 0 168 207 191 887.3 0 191 208 150 887.3 0 150 209 218 887.3 0 218 210 178 887.3 0 178 211 166 887.3 0 166 212 109 887.3 0 109 213 111 887.3 0 111 214 128 887.3 0 128 215 145 887.3 0 145 216 292 887.3 0 292 217 450 887.3 0 450 218 641 887.3 0 641 219 424 887.3 0 424 220 188 887.3 0 188 221 177 887.3 0 177 222 122 887.3 0 122 223 149 887.3 0 149 224 126 887.3 0 126 225 187 887.3 0 187 226 342 887.3 0 342 227 280 887.3 0 280 228 197 887.3 0 197 229 126 887.3 0 126 230 154 887.3 0 154 231 134 887.3 0 134 232 120 887.3 0 120 233 123 887.3 0 123 234 117 887.3 0 117 235 113 887.3 0 113 236 114 887.3 0 114 237 188 887.3 0 188 238 137 887.3 0 137 239 146 887.3 0 146 240 140 887.3 0 140 241 139 887.3 0 139 242 99 887.3 0 99 243 149 887.3 0 149 244 149 887.3 0 149 245 123 887.3 0 123 246 182 887.3 0 182 247 191 887.3 0 191 248 152 887.3 0 152 249 125 887.3 0 125 250 111 887.3 0 111 251 123 887.3 0 123 252 120 887.3 0 120 253 121 887.3 0 121 254 120 887.3 0 120 255 122 887.3 0 122 256 124 887.3 0 124 257 126 887.3 0 126 258 117 887.3 0 117 259 121 887.3 0 121 260 178 887.3 0 178 261 153 887.3 0 153 262 198 887.3 0 198 263 169 887.3 0 169 264 218 887.3 0 218 265 224 887.3 0 224 266 148 887.3 0 148 267 152 887.3 0 152 268 146 887.3 0 146 269 101 887.3 0 101 270 124 887.3 0 124 271 115 887.3 0 115 272 125 887.3 0 125 273 118 887.3 0 118 274 115 887.3 0 115 275 136 887.3 0 136 276 132 887.3 0 132 277 156 887.3 0 156 278 169 887.3 0 169 279 147 887.3 0 147 280 118 887.3 0 118 281 156 887.3 0 156 282 123 887.3 0 123 283 129 887.3 0 129 284 129 887.3 0 129 285 120 887.3 0 120 286 117 887.3 0 117 287 131 887.3 0 131 288 159 887.3 0 159 289 151 887.3 0 151 290 137 887.3 0 137 291 154 887.3 0 154 292 163 887.3 0 163 293 145 887.3 0 145 294 149 887.3 0 149 295 110 887.3 0 110 296 159 887.3 0 159 297 191 887.3 0 191 298 190 887.3 0 190 299 202 887.3 0 202 300 311 887.3 0 311 301 1162 887.3 0 1162 Finished in 60.76 s (62 us/read; 0.97 M reads/minute). === Summary === Total reads processed: 982,897 Reads with adapters: 85,528 (8.7%) Reads that were too short: 284 (0.0%) Reads written (passing filters): 85,244 (8.7%) Total basepairs processed: 185,617,186 bp Total written (filtered): 23,093,126 bp (12.4%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 85528 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 10 0.0 3 0 0 0 3 7 18 41 0.0 3 0 0 30 11 19 897 0.0 3 0 785 60 38 14 20 82062 0.0 4 78463 2986 447 130 36 21 248 0.0 4 29 191 15 8 5 22 76 0.0 4 23 15 25 6 7 23 212 0.0 4 5 0 1 151 55 24 3 0.0 4 2 0 0 0 1 25 15 0.0 4 0 0 0 0 15 26 5 0.0 4 0 0 0 0 5 27 1 0.0 4 1 28 3 0.0 4 0 0 0 1 2 31 1 0.0 4 0 0 0 0 1 39 1 0.0 4 0 0 0 0 1 41 7 0.0 4 0 0 0 0 7 42 4 0.0 4 0 0 0 0 4 44 1 0.0 4 1 48 1 0.0 4 0 0 0 0 1 49 1 0.0 4 0 0 0 0 1 50 15 0.0 4 0 0 0 0 15 52 1 0.0 4 1 53 28 0.0 4 0 0 0 0 28 55 1 0.0 4 0 0 0 1 56 1 0.0 4 0 0 0 0 1 58 1 0.0 4 0 0 0 0 1 61 1 0.0 4 0 0 0 0 1 65 2 0.0 4 0 0 0 0 2 66 1 0.0 4 0 0 0 0 1 67 2 0.0 4 0 0 0 0 2 72 2 0.0 4 0 0 0 0 2 73 4 0.0 4 1 0 0 0 3 75 9 0.0 4 0 0 0 0 9 76 22 0.0 4 0 0 0 3 19 77 7 0.0 4 0 0 0 0 7 78 14 0.0 4 0 0 0 0 14 79 1 0.0 4 0 0 0 0 1 80 2 0.0 4 0 0 0 0 2 81 1 0.0 4 0 0 0 0 1 85 6 0.0 4 0 0 0 0 6 86 5 0.0 4 0 0 0 0 5 87 4 0.0 4 0 0 0 1 3 88 1 0.0 4 0 0 0 0 1 89 1 0.0 4 1 91 2 0.0 4 0 0 0 0 2 95 1 0.0 4 0 0 0 0 1 96 4 0.0 4 0 0 0 0 4 97 6 0.0 4 0 0 0 0 6 98 3 0.0 4 0 0 0 0 3 99 9 0.0 4 0 0 0 3 6 100 18 0.0 4 0 0 0 0 18 102 1 0.0 4 0 0 0 0 1 103 1 0.0 4 0 0 1 105 1 0.0 4 0 0 0 0 1 106 2 0.0 4 0 0 0 0 2 109 4 0.0 4 0 0 0 0 4 110 1 0.0 4 1 111 1 0.0 4 0 0 0 0 1 113 2 0.0 4 0 0 0 0 2 114 1 0.0 4 0 0 0 0 1 115 1 0.0 4 0 0 0 0 1 117 1 0.0 4 0 0 0 0 1 121 1 0.0 4 0 0 0 0 1 122 1 0.0 4 0 0 0 0 1 123 2 0.0 4 0 0 0 0 2 124 21 0.0 4 0 0 0 0 21 125 14 0.0 4 0 0 0 1 13 126 15 0.0 4 0 0 0 1 14 127 1513 0.0 4 0 0 0 0 1513 128 2 0.0 4 0 0 0 0 2 129 58 0.0 4 0 0 0 0 58 130 3 0.0 4 0 0 0 0 3 134 1 0.0 4 0 0 0 0 1 136 2 0.0 4 0 0 0 0 2 137 3 0.0 4 0 0 0 0 3 143 3 0.0 4 0 0 0 0 3 144 1 0.0 4 0 0 0 0 1 145 2 0.0 4 0 0 0 0 2 146 2 0.0 4 0 0 0 0 2 147 2 0.0 4 0 0 0 0 2 148 1 0.0 4 0 0 0 0 1 152 2 0.0 4 0 0 0 0 2 153 4 0.0 4 0 0 0 1 3 155 25 0.0 4 0 0 0 0 25 156 4 0.0 4 0 0 0 0 4 157 4 0.0 4 0 0 0 0 4 158 2 0.0 4 1 0 0 0 1 159 1 0.0 4 0 0 0 0 1 160 1 0.0 4 0 0 0 0 1 161 1 0.0 4 0 0 0 0 1 162 1 0.0 4 0 0 0 0 1 164 1 0.0 4 0 0 0 0 1 168 1 0.0 4 0 0 0 0 1 171 1 0.0 4 0 0 0 0 1 172 2 0.0 4 0 0 0 0 2 173 1 0.0 4 0 0 0 0 1 177 3 0.0 4 0 1 0 0 2 182 1 0.0 4 0 0 0 0 1 186 1 0.0 4 0 0 0 0 1 188 1 0.0 4 0 0 0 0 1 191 1 0.0 4 0 0 0 0 1 193 1 0.0 4 0 0 0 0 1 194 1 0.0 4 0 0 0 0 1 196 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 2 0.0 4 0 0 0 0 2 209 1 0.0 4 0 0 0 0 1 215 1 0.0 4 0 0 0 0 1 216 1 0.0 4 0 0 0 0 1 219 2 0.0 4 0 0 0 0 2 220 2 0.0 4 0 0 0 0 2 226 1 0.0 4 0 0 0 0 1 228 10 0.0 4 0 0 0 1 9 229 3 0.0 4 0 0 0 0 3 234 1 0.0 4 0 0 0 0 1 241 1 0.0 4 0 0 0 0 1 250 1 0.0 4 0 0 0 0 1 257 1 0.0 4 0 0 0 0 1 260 1 0.0 4 0 0 0 0 1 264 2 0.0 4 0 0 0 0 2 265 3 0.0 4 0 0 0 0 3 272 1 0.0 4 0 0 0 0 1 274 1 0.0 4 0 0 0 0 1 282 1 0.0 4 0 0 0 0 1 290 1 0.0 4 0 0 0 0 1 292 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 5.07 s (59 us/read; 1.01 M reads/minute). === Summary === Total reads processed: 85,244 Reads with adapters: 14,271 (16.7%) Reads written (passing filters): 85,244 (100.0%) Total basepairs processed: 23,093,126 bp Total written (filtered): 22,929,745 bp (99.3%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 14271 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.9% C: 6.0% G: 90.1% T: 2.0% 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 3 142 1331.9 0 142 4 24 333.0 0 24 5 3 83.2 0 3 6 4 20.8 0 4 8 2 1.3 0 2 9 86 0.3 0 5 81 10 2541 0.1 1 144 2397 11 11283 0.0 1 231 11052 12 99 0.0 1 2 97 13 10 0.0 1 0 10 14 10 0.0 1 0 10 15 3 0.0 1 0 3 21 2 0.0 1 2 56 1 0.0 1 0 1 111 1 0.0 1 1 124 1 0.0 1 1 151 30 0.0 1 18 12 170 1 0.0 1 1 171 1 0.0 1 1 190 1 0.0 1 0 1 203 1 0.0 1 1 206 1 0.0 1 1 209 12 0.0 1 10 2 224 11 0.0 1 10 1 229 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.