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 182.36 s (50 us/read; 1.20 M reads/minute). === Summary === Total reads processed: 3,634,272 Reads with adapters: 916,079 (25.2%) Reads that were too short: 19,280 (0.5%) Reads written (passing filters): 896,799 (24.7%) Total basepairs processed: 1,093,915,872 bp Total written (filtered): 172,249,922 bp (15.7%) === Adapter 1 === Sequence: AGAAGA; Type: regular 5'; Length: 6; Trimmed: 916079 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1170 887.3 0 1170 7 89368 887.3 0 89368 8 101436 887.3 0 101436 9 225 887.3 0 225 10 113 887.3 0 113 11 124 887.3 0 124 12 137 887.3 0 137 13 77 887.3 0 77 14 96 887.3 0 96 15 99 887.3 0 99 16 100 887.3 0 100 17 117 887.3 0 117 18 96 887.3 0 96 19 66 887.3 0 66 20 85 887.3 0 85 21 73 887.3 0 73 22 69 887.3 0 69 23 90 887.3 0 90 24 77 887.3 0 77 25 106 887.3 0 106 26 194 887.3 0 194 27 157 887.3 0 157 28 124 887.3 0 124 29 167 887.3 0 167 30 142 887.3 0 142 31 84 887.3 0 84 32 91 887.3 0 91 33 86 887.3 0 86 34 87 887.3 0 87 35 139 887.3 0 139 36 126 887.3 0 126 37 162 887.3 0 162 38 98 887.3 0 98 39 104 887.3 0 104 40 121 887.3 0 121 41 91 887.3 0 91 42 109 887.3 0 109 43 136 887.3 0 136 44 99 887.3 0 99 45 109 887.3 0 109 46 98 887.3 0 98 47 92 887.3 0 92 48 95 887.3 0 95 49 95 887.3 0 95 50 138 887.3 0 138 51 120 887.3 0 120 52 131 887.3 0 131 53 114 887.3 0 114 54 126 887.3 0 126 55 122 887.3 0 122 56 144 887.3 0 144 57 207 887.3 0 207 58 222 887.3 0 222 59 116 887.3 0 116 60 151 887.3 0 151 61 164 887.3 0 164 62 183 887.3 0 183 63 205 887.3 0 205 64 126 887.3 0 126 65 111 887.3 0 111 66 131 887.3 0 131 67 111 887.3 0 111 68 183 887.3 0 183 69 215 887.3 0 215 70 120 887.3 0 120 71 137 887.3 0 137 72 153 887.3 0 153 73 116 887.3 0 116 74 194 887.3 0 194 75 223 887.3 0 223 76 184 887.3 0 184 77 185 887.3 0 185 78 250 887.3 0 250 79 1172 887.3 0 1172 80 778 887.3 0 778 81 1806 887.3 0 1806 82 785 887.3 0 785 83 970 887.3 0 970 84 486 887.3 0 486 85 533 887.3 0 533 86 478 887.3 0 478 87 287 887.3 0 287 88 212 887.3 0 212 89 241 887.3 0 241 90 302 887.3 0 302 91 226 887.3 0 226 92 297 887.3 0 297 93 303 887.3 0 303 94 486 887.3 0 486 95 346 887.3 0 346 96 311 887.3 0 311 97 265 887.3 0 265 98 309 887.3 0 309 99 261 887.3 0 261 100 299 887.3 0 299 101 541 887.3 0 541 102 404 887.3 0 404 103 379 887.3 0 379 104 507 887.3 0 507 105 1092 887.3 0 1092 106 340 887.3 0 340 107 481 887.3 0 481 108 708 887.3 0 708 109 491 887.3 0 491 110 516 887.3 0 516 111 828 887.3 0 828 112 818 887.3 0 818 113 946 887.3 0 946 114 799 887.3 0 799 115 1568 887.3 0 1568 116 1755 887.3 0 1755 117 3942 887.3 0 3942 118 51650 887.3 0 51650 119 59899 887.3 0 59899 120 77788 887.3 0 77788 121 3042 887.3 0 3042 122 3387 887.3 0 3387 123 2966 887.3 0 2966 124 603 887.3 0 603 125 381 887.3 0 381 126 407 887.3 0 407 127 581 887.3 0 581 128 511 887.3 0 511 129 552 887.3 0 552 130 625 887.3 0 625 131 806 887.3 0 806 132 1844 887.3 0 1844 133 806 887.3 0 806 134 921 887.3 0 921 135 1445 887.3 0 1445 136 1013 887.3 0 1013 137 1339 887.3 0 1339 138 2055 887.3 0 2055 139 8468 887.3 0 8468 140 23067 887.3 0 23067 141 26890 887.3 0 26890 142 13191 887.3 0 13191 143 3323 887.3 0 3323 144 7587 887.3 0 7587 145 99803 887.3 0 99803 146 101058 887.3 0 101058 147 92111 887.3 0 92111 148 6256 887.3 0 6256 149 3481 887.3 0 3481 150 962 887.3 0 962 151 504 887.3 0 504 152 788 887.3 0 788 153 886 887.3 0 886 154 789 887.3 0 789 155 1323 887.3 0 1323 156 983 887.3 0 983 157 2575 887.3 0 2575 158 2399 887.3 0 2399 159 2428 887.3 0 2428 160 3573 887.3 0 3573 161 1711 887.3 0 1711 162 661 887.3 0 661 163 1033 887.3 0 1033 164 2904 887.3 0 2904 165 16780 887.3 0 16780 166 16687 887.3 0 16687 167 6430 887.3 0 6430 168 399 887.3 0 399 169 308 887.3 0 308 170 208 887.3 0 208 171 197 887.3 0 197 172 211 887.3 0 211 173 184 887.3 0 184 174 236 887.3 0 236 175 187 887.3 0 187 176 185 887.3 0 185 177 194 887.3 0 194 178 186 887.3 0 186 179 182 887.3 0 182 180 154 887.3 0 154 181 181 887.3 0 181 182 212 887.3 0 212 183 247 887.3 0 247 184 194 887.3 0 194 185 194 887.3 0 194 186 189 887.3 0 189 187 183 887.3 0 183 188 150 887.3 0 150 189 152 887.3 0 152 190 171 887.3 0 171 191 166 887.3 0 166 192 197 887.3 0 197 193 282 887.3 0 282 194 355 887.3 0 355 195 236 887.3 0 236 196 192 887.3 0 192 197 230 887.3 0 230 198 183 887.3 0 183 199 235 887.3 0 235 200 214 887.3 0 214 201 153 887.3 0 153 202 181 887.3 0 181 203 141 887.3 0 141 204 180 887.3 0 180 205 176 887.3 0 176 206 194 887.3 0 194 207 210 887.3 0 210 208 167 887.3 0 167 209 289 887.3 0 289 210 199 887.3 0 199 211 200 887.3 0 200 212 165 887.3 0 165 213 162 887.3 0 162 214 174 887.3 0 174 215 178 887.3 0 178 216 320 887.3 0 320 217 601 887.3 0 601 218 705 887.3 0 705 219 510 887.3 0 510 220 212 887.3 0 212 221 208 887.3 0 208 222 142 887.3 0 142 223 172 887.3 0 172 224 148 887.3 0 148 225 157 887.3 0 157 226 278 887.3 0 278 227 271 887.3 0 271 228 204 887.3 0 204 229 133 887.3 0 133 230 160 887.3 0 160 231 155 887.3 0 155 232 133 887.3 0 133 233 134 887.3 0 134 234 170 887.3 0 170 235 141 887.3 0 141 236 132 887.3 0 132 237 196 887.3 0 196 238 154 887.3 0 154 239 159 887.3 0 159 240 164 887.3 0 164 241 202 887.3 0 202 242 125 887.3 0 125 243 165 887.3 0 165 244 142 887.3 0 142 245 152 887.3 0 152 246 165 887.3 0 165 247 179 887.3 0 179 248 165 887.3 0 165 249 139 887.3 0 139 250 127 887.3 0 127 251 127 887.3 0 127 252 129 887.3 0 129 253 133 887.3 0 133 254 128 887.3 0 128 255 159 887.3 0 159 256 143 887.3 0 143 257 143 887.3 0 143 258 116 887.3 0 116 259 127 887.3 0 127 260 197 887.3 0 197 261 180 887.3 0 180 262 187 887.3 0 187 263 183 887.3 0 183 264 188 887.3 0 188 265 202 887.3 0 202 266 185 887.3 0 185 267 159 887.3 0 159 268 144 887.3 0 144 269 121 887.3 0 121 270 151 887.3 0 151 271 150 887.3 0 150 272 141 887.3 0 141 273 129 887.3 0 129 274 139 887.3 0 139 275 181 887.3 0 181 276 131 887.3 0 131 277 184 887.3 0 184 278 152 887.3 0 152 279 130 887.3 0 130 280 127 887.3 0 127 281 172 887.3 0 172 282 140 887.3 0 140 283 142 887.3 0 142 284 147 887.3 0 147 285 156 887.3 0 156 286 134 887.3 0 134 287 168 887.3 0 168 288 204 887.3 0 204 289 192 887.3 0 192 290 186 887.3 0 186 291 182 887.3 0 182 292 190 887.3 0 190 293 163 887.3 0 163 294 171 887.3 0 171 295 162 887.3 0 162 296 190 887.3 0 190 297 207 887.3 0 207 298 208 887.3 0 208 299 218 887.3 0 218 300 239 887.3 0 239 301 1207 887.3 0 1207 Finished in 55.87 s (62 us/read; 0.96 M reads/minute). === Summary === Total reads processed: 896,799 Reads with adapters: 104,719 (11.7%) Reads that were too short: 134 (0.0%) Reads written (passing filters): 104,585 (11.7%) Total basepairs processed: 172,249,922 bp Total written (filtered): 28,376,691 bp (16.5%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 104719 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 2 0.0 3 0 0 0 1 1 18 28 0.0 3 0 0 28 19 945 0.0 3 0 912 23 5 5 20 101554 0.0 4 99894 1579 59 19 3 21 289 0.0 4 42 245 2 22 34 0.0 4 10 1 21 2 23 65 0.0 4 3 0 0 52 10 24 2 0.0 4 1 0 0 0 1 25 7 0.0 4 1 0 1 0 5 26 3 0.0 4 0 0 0 0 3 28 1 0.0 4 0 0 1 29 2 0.0 4 0 0 0 0 2 30 1 0.0 4 1 41 6 0.0 4 0 0 0 0 6 42 4 0.0 4 1 0 0 0 3 44 2 0.0 4 2 47 1 0.0 4 0 0 0 0 1 49 2 0.0 4 0 0 0 0 2 50 13 0.0 4 0 0 0 0 13 53 27 0.0 4 0 0 0 0 27 54 1 0.0 4 0 0 0 0 1 55 2 0.0 4 0 0 0 0 2 66 1 0.0 4 0 0 0 0 1 67 1 0.0 4 0 0 0 0 1 69 1 0.0 4 0 0 0 0 1 72 1 0.0 4 0 0 0 0 1 74 1 0.0 4 0 0 0 0 1 76 5 0.0 4 0 0 0 0 5 77 1 0.0 4 0 0 0 0 1 78 4 0.0 4 0 0 0 0 4 83 1 0.0 4 0 0 0 0 1 85 1 0.0 4 0 0 0 0 1 86 1 0.0 4 0 1 87 2 0.0 4 0 0 0 0 2 91 1 0.0 4 0 0 0 0 1 94 1 0.0 4 0 0 0 0 1 97 2 0.0 4 0 0 0 0 2 98 3 0.0 4 0 0 0 0 3 99 6 0.0 4 1 0 0 0 5 100 14 0.0 4 0 0 0 1 13 101 1 0.0 4 0 0 0 0 1 104 1 0.0 4 0 0 0 0 1 110 1 0.0 4 0 0 0 0 1 112 1 0.0 4 0 0 0 0 1 114 1 0.0 4 0 0 0 0 1 116 2 0.0 4 0 0 0 0 2 118 1 0.0 4 1 120 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 1 124 10 0.0 4 0 0 0 1 9 125 10 0.0 4 0 0 0 0 10 126 15 0.0 4 0 0 0 0 15 127 1519 0.0 4 0 0 0 0 1519 128 6 0.0 4 0 0 0 0 6 129 52 0.0 4 0 0 0 0 52 130 5 0.0 4 0 0 0 0 5 131 1 0.0 4 0 0 0 0 1 132 1 0.0 4 0 0 0 0 1 134 2 0.0 4 0 0 0 0 2 135 1 0.0 4 0 0 0 0 1 137 1 0.0 4 0 0 0 0 1 138 1 0.0 4 0 0 0 0 1 139 1 0.0 4 0 0 0 0 1 140 1 0.0 4 0 0 0 0 1 142 1 0.0 4 1 143 3 0.0 4 1 0 0 0 2 144 1 0.0 4 0 0 0 0 1 146 1 0.0 4 0 0 0 0 1 147 2 0.0 4 0 0 0 0 2 149 1 0.0 4 0 0 0 1 150 1 0.0 4 0 0 0 0 1 152 1 0.0 4 0 0 0 0 1 153 1 0.0 4 0 0 0 0 1 154 1 0.0 4 0 0 0 0 1 155 5 0.0 4 0 0 0 0 5 156 2 0.0 4 0 0 0 0 2 157 3 0.0 4 0 0 0 0 3 158 1 0.0 4 0 0 0 0 1 170 1 0.0 4 0 0 0 0 1 172 1 0.0 4 0 0 0 0 1 174 1 0.0 4 0 0 0 0 1 179 1 0.0 4 0 0 0 0 1 190 1 0.0 4 0 0 0 0 1 196 1 0.0 4 0 0 0 0 1 197 1 0.0 4 0 0 0 0 1 201 1 0.0 4 0 0 0 0 1 209 1 0.0 4 0 0 0 0 1 216 1 0.0 4 0 0 0 0 1 227 1 0.0 4 0 0 0 0 1 228 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 1 258 1 0.0 4 0 0 0 0 1 282 2 0.0 4 0 0 0 0 2 293 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 5.97 s (57 us/read; 1.05 M reads/minute). === Summary === Total reads processed: 104,585 Reads with adapters: 6,808 (6.5%) Reads written (passing filters): 104,585 (100.0%) Total basepairs processed: 28,376,691 bp Total written (filtered): 28,299,300 bp (99.7%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 6808 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.7% C: 2.9% G: 93.8% 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 50 1634.1 0 50 4 15 408.5 0 15 5 4 102.1 0 4 6 5 25.5 0 5 7 1 6.4 0 1 8 1 1.6 0 1 9 58 0.4 0 0 58 10 1281 0.1 1 58 1223 11 5345 0.0 1 31 5314 12 18 0.0 1 2 16 13 1 0.0 1 0 1 14 2 0.0 1 0 2 25 1 0.0 1 1 34 1 0.0 1 1 85 1 0.0 1 1 151 9 0.0 1 1 8 170 1 0.0 1 0 1 190 1 0.0 1 0 1 209 3 0.0 1 3 221 1 0.0 1 0 1 224 8 0.0 1 7 1 229 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.