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 ... Finished in 171.80 s (50 us/read; 1.21 M reads/minute). === Summary === Total reads processed: 3,470,393 Reads with adapters: 645,852 (18.6%) Reads that were too short: 23,798 (0.7%) Reads written (passing filters): 622,054 (17.9%) Total basepairs processed: 1,044,588,293 bp Total written (filtered): 105,350,041 bp (10.1%) === Adapter 1 === Sequence: AGAAGA; Type: regular 5'; Length: 6; Trimmed: 645852 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 2612 847.3 0 2612 7 11637 847.3 0 11637 8 12986 847.3 0 12986 9 180 847.3 0 180 10 106 847.3 0 106 11 112 847.3 0 112 12 108 847.3 0 108 13 87 847.3 0 87 14 94 847.3 0 94 15 99 847.3 0 99 16 95 847.3 0 95 17 89 847.3 0 89 18 109 847.3 0 109 19 76 847.3 0 76 20 65 847.3 0 65 21 72 847.3 0 72 22 81 847.3 0 81 23 107 847.3 0 107 24 86 847.3 0 86 25 139 847.3 0 139 26 163 847.3 0 163 27 114 847.3 0 114 28 126 847.3 0 126 29 107 847.3 0 107 30 181 847.3 0 181 31 81 847.3 0 81 32 77 847.3 0 77 33 76 847.3 0 76 34 105 847.3 0 105 35 123 847.3 0 123 36 127 847.3 0 127 37 145 847.3 0 145 38 92 847.3 0 92 39 102 847.3 0 102 40 174 847.3 0 174 41 85 847.3 0 85 42 137 847.3 0 137 43 135 847.3 0 135 44 93 847.3 0 93 45 87 847.3 0 87 46 75 847.3 0 75 47 94 847.3 0 94 48 97 847.3 0 97 49 89 847.3 0 89 50 92 847.3 0 92 51 99 847.3 0 99 52 89 847.3 0 89 53 158 847.3 0 158 54 124 847.3 0 124 55 127 847.3 0 127 56 147 847.3 0 147 57 103 847.3 0 103 58 124 847.3 0 124 59 90 847.3 0 90 60 125 847.3 0 125 61 143 847.3 0 143 62 119 847.3 0 119 63 137 847.3 0 137 64 114 847.3 0 114 65 90 847.3 0 90 66 116 847.3 0 116 67 120 847.3 0 120 68 126 847.3 0 126 69 149 847.3 0 149 70 178 847.3 0 178 71 115 847.3 0 115 72 94 847.3 0 94 73 106 847.3 0 106 74 125 847.3 0 125 75 284 847.3 0 284 76 137 847.3 0 137 77 227 847.3 0 227 78 328 847.3 0 328 79 537 847.3 0 537 80 425 847.3 0 425 81 1496 847.3 0 1496 82 720 847.3 0 720 83 720 847.3 0 720 84 518 847.3 0 518 85 548 847.3 0 548 86 492 847.3 0 492 87 203 847.3 0 203 88 263 847.3 0 263 89 281 847.3 0 281 90 212 847.3 0 212 91 165 847.3 0 165 92 267 847.3 0 267 93 259 847.3 0 259 94 279 847.3 0 279 95 282 847.3 0 282 96 235 847.3 0 235 97 207 847.3 0 207 98 273 847.3 0 273 99 284 847.3 0 284 100 294 847.3 0 294 101 454 847.3 0 454 102 540 847.3 0 540 103 580 847.3 0 580 104 830 847.3 0 830 105 1295 847.3 0 1295 106 486 847.3 0 486 107 595 847.3 0 595 108 1051 847.3 0 1051 109 648 847.3 0 648 110 564 847.3 0 564 111 1055 847.3 0 1055 112 838 847.3 0 838 113 852 847.3 0 852 114 864 847.3 0 864 115 1188 847.3 0 1188 116 1589 847.3 0 1589 117 2256 847.3 0 2256 118 50705 847.3 0 50705 119 45470 847.3 0 45470 120 25128 847.3 0 25128 121 5313 847.3 0 5313 122 5075 847.3 0 5075 123 3308 847.3 0 3308 124 546 847.3 0 546 125 574 847.3 0 574 126 1051 847.3 0 1051 127 995 847.3 0 995 128 750 847.3 0 750 129 879 847.3 0 879 130 1116 847.3 0 1116 131 1473 847.3 0 1473 132 2386 847.3 0 2386 133 1401 847.3 0 1401 134 1573 847.3 0 1573 135 1806 847.3 0 1806 136 1503 847.3 0 1503 137 1821 847.3 0 1821 138 2641 847.3 0 2641 139 16449 847.3 0 16449 140 27209 847.3 0 27209 141 19752 847.3 0 19752 142 7351 847.3 0 7351 143 3723 847.3 0 3723 144 5473 847.3 0 5473 145 79719 847.3 0 79719 146 71073 847.3 0 71073 147 84334 847.3 0 84334 148 27060 847.3 0 27060 149 13398 847.3 0 13398 150 1882 847.3 0 1882 151 1894 847.3 0 1894 152 1445 847.3 0 1445 153 1480 847.3 0 1480 154 1288 847.3 0 1288 155 946 847.3 0 946 156 418 847.3 0 418 157 646 847.3 0 646 158 598 847.3 0 598 159 1070 847.3 0 1070 160 606 847.3 0 606 161 332 847.3 0 332 162 395 847.3 0 395 163 502 847.3 0 502 164 882 847.3 0 882 165 12779 847.3 0 12779 166 9615 847.3 0 9615 167 6216 847.3 0 6216 168 274 847.3 0 274 169 423 847.3 0 423 170 198 847.3 0 198 171 188 847.3 0 188 172 223 847.3 0 223 173 211 847.3 0 211 174 265 847.3 0 265 175 249 847.3 0 249 176 203 847.3 0 203 177 178 847.3 0 178 178 166 847.3 0 166 179 160 847.3 0 160 180 171 847.3 0 171 181 181 847.3 0 181 182 195 847.3 0 195 183 237 847.3 0 237 184 161 847.3 0 161 185 185 847.3 0 185 186 174 847.3 0 174 187 159 847.3 0 159 188 194 847.3 0 194 189 225 847.3 0 225 190 227 847.3 0 227 191 209 847.3 0 209 192 245 847.3 0 245 193 241 847.3 0 241 194 305 847.3 0 305 195 186 847.3 0 186 196 204 847.3 0 204 197 236 847.3 0 236 198 206 847.3 0 206 199 329 847.3 0 329 200 338 847.3 0 338 201 403 847.3 0 403 202 193 847.3 0 193 203 164 847.3 0 164 204 206 847.3 0 206 205 186 847.3 0 186 206 213 847.3 0 213 207 306 847.3 0 306 208 206 847.3 0 206 209 257 847.3 0 257 210 212 847.3 0 212 211 182 847.3 0 182 212 198 847.3 0 198 213 178 847.3 0 178 214 187 847.3 0 187 215 172 847.3 0 172 216 597 847.3 0 597 217 746 847.3 0 746 218 1202 847.3 0 1202 219 1217 847.3 0 1217 220 245 847.3 0 245 221 208 847.3 0 208 222 170 847.3 0 170 223 174 847.3 0 174 224 159 847.3 0 159 225 159 847.3 0 159 226 177 847.3 0 177 227 179 847.3 0 179 228 195 847.3 0 195 229 146 847.3 0 146 230 147 847.3 0 147 231 157 847.3 0 157 232 152 847.3 0 152 233 140 847.3 0 140 234 157 847.3 0 157 235 150 847.3 0 150 236 120 847.3 0 120 237 177 847.3 0 177 238 154 847.3 0 154 239 200 847.3 0 200 240 186 847.3 0 186 241 178 847.3 0 178 242 146 847.3 0 146 243 153 847.3 0 153 244 153 847.3 0 153 245 143 847.3 0 143 246 195 847.3 0 195 247 172 847.3 0 172 248 166 847.3 0 166 249 149 847.3 0 149 250 160 847.3 0 160 251 127 847.3 0 127 252 141 847.3 0 141 253 152 847.3 0 152 254 127 847.3 0 127 255 136 847.3 0 136 256 151 847.3 0 151 257 164 847.3 0 164 258 148 847.3 0 148 259 161 847.3 0 161 260 179 847.3 0 179 261 190 847.3 0 190 262 253 847.3 0 253 263 199 847.3 0 199 264 165 847.3 0 165 265 177 847.3 0 177 266 209 847.3 0 209 267 192 847.3 0 192 268 144 847.3 0 144 269 133 847.3 0 133 270 132 847.3 0 132 271 161 847.3 0 161 272 135 847.3 0 135 273 151 847.3 0 151 274 143 847.3 0 143 275 159 847.3 0 159 276 137 847.3 0 137 277 139 847.3 0 139 278 155 847.3 0 155 279 159 847.3 0 159 280 121 847.3 0 121 281 154 847.3 0 154 282 168 847.3 0 168 283 133 847.3 0 133 284 151 847.3 0 151 285 159 847.3 0 159 286 152 847.3 0 152 287 186 847.3 0 186 288 207 847.3 0 207 289 166 847.3 0 166 290 210 847.3 0 210 291 185 847.3 0 185 292 169 847.3 0 169 293 191 847.3 0 191 294 185 847.3 0 185 295 206 847.3 0 206 296 206 847.3 0 206 297 265 847.3 0 265 298 233 847.3 0 233 299 287 847.3 0 287 300 371 847.3 0 371 301 3285 847.3 0 3285 Finished in 33.31 s (54 us/read; 1.12 M reads/minute). === Summary === Total reads processed: 622,054 Reads with adapters: 16,522 (2.7%) Reads that were too short: 641 (0.1%) Reads written (passing filters): 15,881 (2.6%) Total basepairs processed: 105,350,041 bp Total written (filtered): 3,691,767 bp (3.5%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 16522 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 2 0.0 2 0 0 0 2 15 5 0.0 3 0 0 5 16 73 0.0 3 0 70 2 1 17 11261 0.0 3 11041 212 7 1 18 42 0.0 3 14 26 2 19 13 0.0 3 3 0 7 3 20 20 0.0 3 1 0 0 19 22 1 0.0 3 0 0 0 1 23 31 0.0 3 0 0 0 31 24 1 0.0 3 0 0 0 1 25 2 0.0 3 0 0 0 2 26 1811 0.0 3 0 0 10 1801 27 4 0.0 3 0 0 0 4 28 4 0.0 3 0 1 0 3 29 203 0.0 3 0 0 7 196 32 2 0.0 3 0 0 0 2 40 1 0.0 3 0 0 0 1 42 2 0.0 3 0 0 0 2 43 1 0.0 3 0 0 0 1 44 1 0.0 3 0 0 0 1 45 4 0.0 3 0 0 0 4 46 1 0.0 3 0 0 0 1 47 7 0.0 3 0 0 0 7 48 3 0.0 3 0 0 0 3 49 2 0.0 3 0 0 0 2 50 43 0.0 3 0 0 1 42 51 5 0.0 3 0 0 0 5 52 17 0.0 3 0 0 0 17 53 85 0.0 3 0 0 1 84 54 6 0.0 3 0 0 0 6 55 3 0.0 3 0 0 0 3 58 1 0.0 3 0 0 0 1 59 1 0.0 3 0 0 0 1 62 1 0.0 3 0 0 0 1 63 1 0.0 3 0 0 0 1 68 1 0.0 3 0 0 0 1 70 3 0.0 3 0 0 0 3 71 3 0.0 3 0 0 0 3 72 1382 0.0 3 0 0 12 1370 73 108 0.0 3 0 0 0 108 74 633 0.0 3 0 0 2 631 75 1 0.0 3 0 0 0 1 76 7 0.0 3 0 0 0 7 77 81 0.0 3 0 0 2 79 78 1 0.0 3 0 0 0 1 79 1 0.0 3 0 0 0 1 83 1 0.0 3 0 0 0 1 85 3 0.0 3 0 0 0 3 86 9 0.0 3 2 0 0 7 87 5 0.0 3 0 0 0 5 92 1 0.0 3 0 1 95 2 0.0 3 0 0 0 2 96 1 0.0 3 0 0 0 1 98 2 0.0 3 0 0 0 2 99 4 0.0 3 0 0 0 4 100 1 0.0 3 0 0 0 1 101 4 0.0 3 0 0 1 3 105 1 0.0 3 0 0 0 1 106 2 0.0 3 0 0 0 2 107 3 0.0 3 0 0 0 3 108 1 0.0 3 0 0 0 1 109 1 0.0 3 0 0 0 1 110 7 0.0 3 0 0 0 7 111 7 0.0 3 0 0 0 7 112 1 0.0 3 0 0 0 1 113 3 0.0 3 0 0 0 3 114 3 0.0 3 0 0 0 3 116 1 0.0 3 0 0 0 1 119 5 0.0 3 0 0 0 5 124 2 0.0 3 0 0 0 2 125 3 0.0 3 0 0 0 3 126 2 0.0 3 0 0 0 2 127 7 0.0 3 0 0 0 7 128 27 0.0 3 0 0 2 25 129 14 0.0 3 0 0 0 14 130 2 0.0 3 0 0 0 2 131 1 0.0 3 0 0 0 1 132 2 0.0 3 0 0 0 2 133 14 0.0 3 0 0 2 12 134 2 0.0 3 0 0 0 2 135 7 0.0 3 0 0 1 6 136 3 0.0 3 0 0 0 3 137 4 0.0 3 0 0 1 3 138 178 0.0 3 0 0 3 175 139 14 0.0 3 0 0 0 14 140 25 0.0 3 0 0 1 24 141 173 0.0 3 0 0 7 166 142 3 0.0 3 0 0 0 3 143 2 0.0 3 1 0 0 1 145 1 0.0 3 0 0 0 1 146 2 0.0 3 0 0 0 2 147 5 0.0 3 0 0 2 3 148 1 0.0 3 0 0 0 1 149 1 0.0 3 0 0 0 1 150 2 0.0 3 0 0 0 2 151 1 0.0 3 0 0 0 1 153 1 0.0 3 0 0 0 1 155 3 0.0 3 0 0 0 3 156 21 0.0 3 0 0 2 19 157 1 0.0 3 0 0 0 1 158 1 0.0 3 0 0 0 1 159 2 0.0 3 0 0 0 2 160 2 0.0 3 0 0 0 2 161 1 0.0 3 0 0 0 1 162 1 0.0 3 0 0 0 1 163 2 0.0 3 0 0 0 2 164 2 0.0 3 1 0 0 1 165 4 0.0 3 0 0 0 4 166 8 0.0 3 0 0 0 8 171 2 0.0 3 0 0 1 1 172 1 0.0 3 0 0 0 1 173 1 0.0 3 0 0 0 1 174 4 0.0 3 0 0 0 4 175 1 0.0 3 0 0 0 1 177 3 0.0 3 0 1 0 2 180 1 0.0 3 0 0 0 1 181 2 0.0 3 0 0 0 2 182 1 0.0 3 0 0 0 1 192 2 0.0 3 0 0 0 2 195 1 0.0 3 0 0 0 1 196 1 0.0 3 0 0 0 1 202 1 0.0 3 0 0 0 1 209 1 0.0 3 0 0 0 1 211 1 0.0 3 0 0 0 1 212 1 0.0 3 0 0 0 1 244 1 0.0 3 0 0 0 1 271 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 0.86 s (54 us/read; 1.11 M reads/minute). === Summary === Total reads processed: 15,881 Reads with adapters: 249 (1.6%) Reads written (passing filters): 15,881 (100.0%) Total basepairs processed: 3,691,767 bp Total written (filtered): 3,690,967 bp (100.0%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 249 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 59.4% C: 10.4% G: 28.1% T: 2.0% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 200 248.1 0 200 4 46 62.0 0 46 5 2 15.5 0 2 6 1 3.9 0 1