This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TCCAGC -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 184.73 s (51 us/read; 1.18 M reads/minute). === Summary === Total reads processed: 3,634,272 Reads with adapters: 699,170 (19.2%) Reads that were too short: 21,439 (0.6%) Reads written (passing filters): 677,731 (18.6%) Total basepairs processed: 1,093,915,872 bp Total written (filtered): 148,426,813 bp (13.6%) === Adapter 1 === Sequence: TCCAGC; Type: regular 5'; Length: 6; Trimmed: 699170 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 762 887.3 0 762 7 1752 887.3 0 1752 8 31883 887.3 0 31883 9 21283 887.3 0 21283 10 128 887.3 0 128 11 114 887.3 0 114 12 166 887.3 0 166 13 135 887.3 0 135 14 110 887.3 0 110 15 108 887.3 0 108 16 86 887.3 0 86 17 123 887.3 0 123 18 199 887.3 0 199 19 217 887.3 0 217 20 185 887.3 0 185 21 149 887.3 0 149 22 188 887.3 0 188 23 196 887.3 0 196 24 214 887.3 0 214 25 126 887.3 0 126 26 115 887.3 0 115 27 105 887.3 0 105 28 130 887.3 0 130 29 166 887.3 0 166 30 183 887.3 0 183 31 153 887.3 0 153 32 126 887.3 0 126 33 140 887.3 0 140 34 151 887.3 0 151 35 174 887.3 0 174 36 307 887.3 0 307 37 228 887.3 0 228 38 580 887.3 0 580 39 205 887.3 0 205 40 185 887.3 0 185 41 146 887.3 0 146 42 209 887.3 0 209 43 151 887.3 0 151 44 216 887.3 0 216 45 263 887.3 0 263 46 309 887.3 0 309 47 371 887.3 0 371 48 731 887.3 0 731 49 2022 887.3 0 2022 50 492 887.3 0 492 51 647 887.3 0 647 52 1270 887.3 0 1270 53 753 887.3 0 753 54 851 887.3 0 851 55 1328 887.3 0 1328 56 1397 887.3 0 1397 57 1653 887.3 0 1653 58 1760 887.3 0 1760 59 3402 887.3 0 3402 60 4775 887.3 0 4775 61 9979 887.3 0 9979 62 157226 887.3 0 157226 63 143165 887.3 0 143165 64 92895 887.3 0 92895 65 1337 887.3 0 1337 66 126 887.3 0 126 67 103 887.3 0 103 68 114 887.3 0 114 69 139 887.3 0 139 70 198 887.3 0 198 71 746 887.3 0 746 72 1058 887.3 0 1058 73 857 887.3 0 857 74 298 887.3 0 298 75 383 887.3 0 383 76 3323 887.3 0 3323 77 6145 887.3 0 6145 78 5473 887.3 0 5473 79 439 887.3 0 439 80 103 887.3 0 103 81 92 887.3 0 92 82 119 887.3 0 119 83 128 887.3 0 128 84 100 887.3 0 100 85 103 887.3 0 103 86 102 887.3 0 102 87 82 887.3 0 82 88 91 887.3 0 91 89 99 887.3 0 99 90 103 887.3 0 103 91 114 887.3 0 114 92 101 887.3 0 101 93 142 887.3 0 142 94 116 887.3 0 116 95 111 887.3 0 111 96 72 887.3 0 72 97 69 887.3 0 69 98 120 887.3 0 120 99 420 887.3 0 420 100 92 887.3 0 92 101 89 887.3 0 89 102 129 887.3 0 129 103 166 887.3 0 166 104 215 887.3 0 215 105 188 887.3 0 188 106 176 887.3 0 176 107 802 887.3 0 802 108 1273 887.3 0 1273 109 1373 887.3 0 1373 110 285 887.3 0 285 111 235 887.3 0 235 112 172 887.3 0 172 113 90 887.3 0 90 114 92 887.3 0 92 115 125 887.3 0 125 116 99 887.3 0 99 117 104 887.3 0 104 118 110 887.3 0 110 119 102 887.3 0 102 120 110 887.3 0 110 121 110 887.3 0 110 122 97 887.3 0 97 123 99 887.3 0 99 124 107 887.3 0 107 125 145 887.3 0 145 126 379 887.3 0 379 127 420 887.3 0 420 128 260 887.3 0 260 129 233 887.3 0 233 130 127 887.3 0 127 131 111 887.3 0 111 132 156 887.3 0 156 133 137 887.3 0 137 134 153 887.3 0 153 135 128 887.3 0 128 136 137 887.3 0 137 137 316 887.3 0 316 138 156 887.3 0 156 139 226 887.3 0 226 140 323 887.3 0 323 141 319 887.3 0 319 142 574 887.3 0 574 143 819 887.3 0 819 144 9922 887.3 0 9922 145 12984 887.3 0 12984 146 10021 887.3 0 10021 147 459 887.3 0 459 148 302 887.3 0 302 149 199 887.3 0 199 150 172 887.3 0 172 151 156 887.3 0 156 152 189 887.3 0 189 153 182 887.3 0 182 154 224 887.3 0 224 155 283 887.3 0 283 156 1878 887.3 0 1878 157 2215 887.3 0 2215 158 2036 887.3 0 2036 159 462 887.3 0 462 160 431 887.3 0 431 161 569 887.3 0 569 162 1255 887.3 0 1255 163 2492 887.3 0 2492 164 47285 887.3 0 47285 165 24987 887.3 0 24987 166 21238 887.3 0 21238 167 363 887.3 0 363 168 392 887.3 0 392 169 1150 887.3 0 1150 170 1581 887.3 0 1581 171 1726 887.3 0 1726 172 663 887.3 0 663 173 537 887.3 0 537 174 430 887.3 0 430 175 104 887.3 0 104 176 89 887.3 0 89 177 100 887.3 0 100 178 112 887.3 0 112 179 259 887.3 0 259 180 331 887.3 0 331 181 313 887.3 0 313 182 128 887.3 0 128 183 196 887.3 0 196 184 324 887.3 0 324 185 413 887.3 0 413 186 319 887.3 0 319 187 166 887.3 0 166 188 226 887.3 0 226 189 937 887.3 0 937 190 1688 887.3 0 1688 191 1663 887.3 0 1663 192 762 887.3 0 762 193 104 887.3 0 104 194 85 887.3 0 85 195 86 887.3 0 86 196 111 887.3 0 111 197 127 887.3 0 127 198 210 887.3 0 210 199 160 887.3 0 160 200 103 887.3 0 103 201 64 887.3 0 64 202 100 887.3 0 100 203 131 887.3 0 131 204 147 887.3 0 147 205 116 887.3 0 116 206 166 887.3 0 166 207 145 887.3 0 145 208 125 887.3 0 125 209 106 887.3 0 106 210 81 887.3 0 81 211 82 887.3 0 82 212 152 887.3 0 152 213 161 887.3 0 161 214 169 887.3 0 169 215 187 887.3 0 187 216 305 887.3 0 305 217 408 887.3 0 408 218 295 887.3 0 295 219 156 887.3 0 156 220 96 887.3 0 96 221 106 887.3 0 106 222 103 887.3 0 103 223 124 887.3 0 124 224 138 887.3 0 138 225 151 887.3 0 151 226 516 887.3 0 516 227 286 887.3 0 286 228 225 887.3 0 225 229 659 887.3 0 659 230 470 887.3 0 470 231 1463 887.3 0 1463 232 134 887.3 0 134 233 92 887.3 0 92 234 104 887.3 0 104 235 92 887.3 0 92 236 170 887.3 0 170 237 165 887.3 0 165 238 239 887.3 0 239 239 122 887.3 0 122 240 156 887.3 0 156 241 136 887.3 0 136 242 83 887.3 0 83 243 137 887.3 0 137 244 179 887.3 0 179 245 188 887.3 0 188 246 160 887.3 0 160 247 204 887.3 0 204 248 177 887.3 0 177 249 142 887.3 0 142 250 115 887.3 0 115 251 100 887.3 0 100 252 137 887.3 0 137 253 102 887.3 0 102 254 110 887.3 0 110 255 89 887.3 0 89 256 91 887.3 0 91 257 98 887.3 0 98 258 107 887.3 0 107 259 190 887.3 0 190 260 280 887.3 0 280 261 413 887.3 0 413 262 343 887.3 0 343 263 175 887.3 0 175 264 148 887.3 0 148 265 200 887.3 0 200 266 206 887.3 0 206 267 221 887.3 0 221 268 174 887.3 0 174 269 90 887.3 0 90 270 103 887.3 0 103 271 185 887.3 0 185 272 196 887.3 0 196 273 167 887.3 0 167 274 126 887.3 0 126 275 148 887.3 0 148 276 160 887.3 0 160 277 301 887.3 0 301 278 161 887.3 0 161 279 255 887.3 0 255 280 169 887.3 0 169 281 289 887.3 0 289 282 142 887.3 0 142 283 117 887.3 0 117 284 164 887.3 0 164 285 227 887.3 0 227 286 300 887.3 0 300 287 831 887.3 0 831 288 894 887.3 0 894 289 778 887.3 0 778 290 252 887.3 0 252 291 170 887.3 0 170 292 173 887.3 0 173 293 208 887.3 0 208 294 167 887.3 0 167 295 160 887.3 0 160 296 261 887.3 0 261 297 222 887.3 0 222 298 227 887.3 0 227 299 166 887.3 0 166 300 127 887.3 0 127 301 155 887.3 0 155 Finished in 45.77 s (68 us/read; 0.89 M reads/minute). === Summary === Total reads processed: 677,731 Reads with adapters: 52,202 (7.7%) Reads that were too short: 381 (0.1%) Reads written (passing filters): 51,821 (7.6%) Total basepairs processed: 148,426,813 bp Total written (filtered): 11,060,157 bp (7.5%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 52202 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 16 1 0.0 3 0 0 0 0 1 17 2 0.0 3 0 0 0 2 18 18 0.0 3 0 0 16 1 1 19 245 0.0 3 0 220 16 6 3 20 22668 0.0 4 21777 736 119 25 11 21 49 0.0 4 9 37 1 2 22 7 0.0 4 1 0 4 1 1 23 48 0.0 4 0 0 0 34 14 24 1 0.0 4 1 25 3 0.0 4 0 0 0 0 3 34 133 0.0 4 0 0 0 1 132 35 1 0.0 4 0 0 0 0 1 36 1 0.0 4 0 0 0 0 1 37 4 0.0 4 0 0 0 0 4 40 1 0.0 4 0 0 0 0 1 43 1 0.0 4 0 0 0 0 1 48 1 0.0 4 0 0 0 0 1 51 3 0.0 4 0 0 0 0 3 52 4 0.0 4 0 0 0 0 4 53 5 0.0 4 0 0 0 1 4 63 1 0.0 4 0 0 0 0 1 66 1 0.0 4 0 0 0 0 1 68 1 0.0 4 0 0 0 0 1 69 5 0.0 4 0 0 0 0 5 70 37 0.0 4 0 0 0 1 36 71 27 0.0 4 0 0 0 0 27 72 28092 0.0 4 0 1 0 1 28090 73 1 0.0 4 0 0 0 0 1 74 6 0.0 4 0 0 0 0 6 75 35 0.0 4 0 0 0 0 35 80 4 0.0 4 0 0 0 0 4 82 2 0.0 4 0 0 0 0 2 85 1 0.0 4 0 0 0 0 1 86 1 0.0 4 0 0 0 0 1 87 1 0.0 4 0 0 0 0 1 91 1 0.0 4 0 0 0 0 1 93 1 0.0 4 0 0 0 0 1 94 1 0.0 4 0 0 0 0 1 97 1 0.0 4 0 0 0 0 1 98 11 0.0 4 0 0 0 1 10 99 2 0.0 4 0 0 0 0 2 100 1 0.0 4 0 0 0 0 1 103 1 0.0 4 0 0 0 0 1 107 1 0.0 4 0 0 0 0 1 110 1 0.0 4 0 0 0 0 1 112 2 0.0 4 0 0 0 0 2 114 2 0.0 4 0 0 0 0 2 122 1 0.0 4 0 0 0 0 1 125 1 0.0 4 0 0 0 0 1 126 3 0.0 4 0 0 0 0 3 127 393 0.0 4 0 0 0 0 393 128 1 0.0 4 0 0 0 0 1 129 1 0.0 4 0 0 0 0 1 132 1 0.0 4 0 0 0 0 1 133 1 0.0 4 0 0 0 0 1 134 1 0.0 4 0 0 0 0 1 137 2 0.0 4 1 1 141 1 0.0 4 0 0 0 0 1 147 3 0.0 4 0 0 0 1 2 148 3 0.0 4 0 0 0 0 3 152 3 0.0 4 0 0 0 0 3 153 4 0.0 4 0 0 0 0 4 154 1 0.0 4 0 0 0 0 1 156 1 0.0 4 0 0 0 0 1 157 3 0.0 4 1 0 0 0 2 158 1 0.0 4 0 0 0 0 1 166 6 0.0 4 0 0 0 0 6 167 4 0.0 4 0 0 0 1 3 168 4 0.0 4 0 0 0 0 4 169 2 0.0 4 0 0 0 0 2 170 4 0.0 4 0 0 0 1 3 171 2 0.0 4 0 0 0 0 2 172 3 0.0 4 0 0 0 0 3 173 119 0.0 4 0 0 0 3 116 174 32 0.0 4 0 0 1 4 27 175 7 0.0 4 0 0 0 2 5 176 1 0.0 4 0 0 0 0 1 177 5 0.0 4 0 0 0 0 5 178 3 0.0 4 0 0 0 1 2 179 12 0.0 4 0 0 0 0 12 180 14 0.0 4 0 0 0 1 13 181 22 0.0 4 0 0 0 1 21 182 1 0.0 4 0 0 0 0 1 183 1 0.0 4 0 0 0 0 1 187 3 0.0 4 0 0 0 0 3 194 2 0.0 4 0 0 0 1 1 199 1 0.0 4 0 0 0 0 1 201 1 0.0 4 0 0 0 0 1 202 6 0.0 4 0 0 0 0 6 203 1 0.0 4 0 0 0 0 1 207 1 0.0 4 0 0 0 0 1 208 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 1 215 1 0.0 4 0 0 0 0 1 227 14 0.0 4 0 0 0 0 14 228 9 0.0 4 0 0 0 0 9 229 1 0.0 4 0 0 0 0 1 230 8 0.0 4 0 0 0 0 8 233 22 0.0 4 0 0 0 0 22 234 4 0.0 4 0 0 0 0 4 235 4 0.0 4 0 0 0 0 4 236 2 0.0 4 0 0 0 0 2 237 3 0.0 4 0 0 0 0 3 238 1 0.0 4 0 0 0 0 1 239 3 0.0 4 0 0 0 1 2 241 2 0.0 4 0 0 0 0 2 242 1 0.0 4 0 0 0 0 1 255 1 0.0 4 0 0 0 0 1 260 1 0.0 4 0 0 0 0 1 262 1 0.0 4 0 0 0 0 1 267 1 0.0 4 0 0 0 1 281 1 0.0 4 0 0 0 0 1 283 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 2.81 s (54 us/read; 1.11 M reads/minute). === Summary === Total reads processed: 51,821 Reads with adapters: 5,349 (10.3%) Reads written (passing filters): 51,821 (100.0%) Total basepairs processed: 11,060,157 bp Total written (filtered): 11,006,479 bp (99.5%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 5349 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 9.2% C: 5.7% G: 83.5% T: 1.6% 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 3 177 809.7 0 177 4 175 202.4 0 175 5 4 50.6 0 4 6 2 12.7 0 2 8 1 0.8 0 1 9 1039 0.2 0 47 992 10 3350 0.0 1 182 3168 11 485 0.0 1 7 478 12 5 0.0 1 0 5 13 3 0.0 1 0 3 16 1 0.0 1 0 1 17 1 0.0 1 1 18 81 0.0 1 58 23 19 6 0.0 1 4 2 21 1 0.0 1 0 1 22 2 0.0 1 1 1 122 1 0.0 1 0 1 129 8 0.0 1 4 4 150 3 0.0 1 1 2 208 2 0.0 1 2 209 1 0.0 1 0 1 223 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.