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 72.42 s (27 us/read; 2.20 M reads/minute). === Summary === Total reads processed: 2,658,179 Reads with adapters: 370,858 (14.0%) Reads that were too short: 20,346 (0.8%) Reads written (passing filters): 350,512 (13.2%) Total basepairs processed: 800,111,879 bp Total written (filtered): 72,605,760 bp (9.1%) === Adapter 1 === Sequence: TCCAGC; Type: regular 5'; Length: 6; Trimmed: 370858 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 66 649.0 0 66 7 67 649.0 0 67 8 60 649.0 0 60 9 100 649.0 0 100 10 63 649.0 0 63 11 65 649.0 0 65 12 80 649.0 0 80 13 73 649.0 0 73 14 58 649.0 0 58 15 66 649.0 0 66 16 46 649.0 0 46 17 72 649.0 0 72 18 97 649.0 0 97 19 86 649.0 0 86 20 88 649.0 0 88 21 77 649.0 0 77 22 87 649.0 0 87 23 107 649.0 0 107 24 118 649.0 0 118 25 88 649.0 0 88 26 71 649.0 0 71 27 73 649.0 0 73 28 77 649.0 0 77 29 82 649.0 0 82 30 85 649.0 0 85 31 100 649.0 0 100 32 109 649.0 0 109 33 99 649.0 0 99 34 79 649.0 0 79 35 121 649.0 0 121 36 161 649.0 0 161 37 129 649.0 0 129 38 216 649.0 0 216 39 157 649.0 0 157 40 159 649.0 0 159 41 115 649.0 0 115 42 154 649.0 0 154 43 131 649.0 0 131 44 166 649.0 0 166 45 199 649.0 0 199 46 327 649.0 0 327 47 499 649.0 0 499 48 725 649.0 0 725 49 1427 649.0 0 1427 50 384 649.0 0 384 51 494 649.0 0 494 52 842 649.0 0 842 53 651 649.0 0 651 54 524 649.0 0 524 55 732 649.0 0 732 56 763 649.0 0 763 57 1055 649.0 0 1055 58 1013 649.0 0 1013 59 2023 649.0 0 2023 60 2224 649.0 0 2224 61 4752 649.0 0 4752 62 88574 649.0 0 88574 63 53186 649.0 0 53186 64 55430 649.0 0 55430 65 745 649.0 0 745 66 237 649.0 0 237 67 70 649.0 0 70 68 108 649.0 0 108 69 92 649.0 0 92 70 168 649.0 0 168 71 433 649.0 0 433 72 341 649.0 0 341 73 365 649.0 0 365 74 299 649.0 0 299 75 499 649.0 0 499 76 5302 649.0 0 5302 77 4920 649.0 0 4920 78 2316 649.0 0 2316 79 1341 649.0 0 1341 80 129 649.0 0 129 81 167 649.0 0 167 82 87 649.0 0 87 83 98 649.0 0 98 84 95 649.0 0 95 85 113 649.0 0 113 86 79 649.0 0 79 87 97 649.0 0 97 88 97 649.0 0 97 89 89 649.0 0 89 90 78 649.0 0 78 91 80 649.0 0 80 92 89 649.0 0 89 93 148 649.0 0 148 94 131 649.0 0 131 95 111 649.0 0 111 96 71 649.0 0 71 97 77 649.0 0 77 98 150 649.0 0 150 99 745 649.0 0 745 100 414 649.0 0 414 101 74 649.0 0 74 102 110 649.0 0 110 103 156 649.0 0 156 104 128 649.0 0 128 105 94 649.0 0 94 106 156 649.0 0 156 107 558 649.0 0 558 108 923 649.0 0 923 109 813 649.0 0 813 110 159 649.0 0 159 111 121 649.0 0 121 112 116 649.0 0 116 113 55 649.0 0 55 114 69 649.0 0 69 115 94 649.0 0 94 116 83 649.0 0 83 117 101 649.0 0 101 118 88 649.0 0 88 119 82 649.0 0 82 120 97 649.0 0 97 121 96 649.0 0 96 122 62 649.0 0 62 123 99 649.0 0 99 124 109 649.0 0 109 125 114 649.0 0 114 126 203 649.0 0 203 127 236 649.0 0 236 128 179 649.0 0 179 129 247 649.0 0 247 130 130 649.0 0 130 131 116 649.0 0 116 132 93 649.0 0 93 133 100 649.0 0 100 134 115 649.0 0 115 135 111 649.0 0 111 136 120 649.0 0 120 137 207 649.0 0 207 138 164 649.0 0 164 139 168 649.0 0 168 140 211 649.0 0 211 141 200 649.0 0 200 142 373 649.0 0 373 143 611 649.0 0 611 144 5280 649.0 0 5280 145 6013 649.0 0 6013 146 4977 649.0 0 4977 147 274 649.0 0 274 148 193 649.0 0 193 149 228 649.0 0 228 150 163 649.0 0 163 151 193 649.0 0 193 152 249 649.0 0 249 153 166 649.0 0 166 154 267 649.0 0 267 155 264 649.0 0 264 156 1448 649.0 0 1448 157 690 649.0 0 690 158 891 649.0 0 891 159 334 649.0 0 334 160 622 649.0 0 622 161 534 649.0 0 534 162 1039 649.0 0 1039 163 1656 649.0 0 1656 164 19973 649.0 0 19973 165 25723 649.0 0 25723 166 13274 649.0 0 13274 167 612 649.0 0 612 168 180 649.0 0 180 169 666 649.0 0 666 170 1068 649.0 0 1068 171 1275 649.0 0 1275 172 1366 649.0 0 1366 173 646 649.0 0 646 174 549 649.0 0 549 175 1832 649.0 0 1832 176 120 649.0 0 120 177 136 649.0 0 136 178 147 649.0 0 147 179 353 649.0 0 353 180 217 649.0 0 217 181 269 649.0 0 269 182 204 649.0 0 204 183 130 649.0 0 130 184 517 649.0 0 517 185 365 649.0 0 365 186 501 649.0 0 501 187 154 649.0 0 154 188 205 649.0 0 205 189 1363 649.0 0 1363 190 1732 649.0 0 1732 191 1421 649.0 0 1421 192 879 649.0 0 879 193 71 649.0 0 71 194 75 649.0 0 75 195 74 649.0 0 74 196 95 649.0 0 95 197 131 649.0 0 131 198 191 649.0 0 191 199 150 649.0 0 150 200 103 649.0 0 103 201 70 649.0 0 70 202 115 649.0 0 115 203 112 649.0 0 112 204 108 649.0 0 108 205 97 649.0 0 97 206 99 649.0 0 99 207 101 649.0 0 101 208 127 649.0 0 127 209 122 649.0 0 122 210 203 649.0 0 203 211 105 649.0 0 105 212 144 649.0 0 144 213 104 649.0 0 104 214 121 649.0 0 121 215 185 649.0 0 185 216 236 649.0 0 236 217 302 649.0 0 302 218 254 649.0 0 254 219 120 649.0 0 120 220 71 649.0 0 71 221 73 649.0 0 73 222 109 649.0 0 109 223 92 649.0 0 92 224 148 649.0 0 148 225 186 649.0 0 186 226 506 649.0 0 506 227 558 649.0 0 558 228 368 649.0 0 368 229 558 649.0 0 558 230 276 649.0 0 276 231 225 649.0 0 225 232 104 649.0 0 104 233 87 649.0 0 87 234 105 649.0 0 105 235 90 649.0 0 90 236 137 649.0 0 137 237 119 649.0 0 119 238 145 649.0 0 145 239 132 649.0 0 132 240 133 649.0 0 133 241 95 649.0 0 95 242 75 649.0 0 75 243 154 649.0 0 154 244 141 649.0 0 141 245 203 649.0 0 203 246 180 649.0 0 180 247 153 649.0 0 153 248 147 649.0 0 147 249 98 649.0 0 98 250 105 649.0 0 105 251 71 649.0 0 71 252 128 649.0 0 128 253 108 649.0 0 108 254 95 649.0 0 95 255 87 649.0 0 87 256 87 649.0 0 87 257 95 649.0 0 95 258 124 649.0 0 124 259 235 649.0 0 235 260 366 649.0 0 366 261 385 649.0 0 385 262 358 649.0 0 358 263 212 649.0 0 212 264 155 649.0 0 155 265 257 649.0 0 257 266 282 649.0 0 282 267 334 649.0 0 334 268 210 649.0 0 210 269 132 649.0 0 132 270 152 649.0 0 152 271 500 649.0 0 500 272 295 649.0 0 295 273 258 649.0 0 258 274 118 649.0 0 118 275 121 649.0 0 121 276 126 649.0 0 126 277 308 649.0 0 308 278 170 649.0 0 170 279 237 649.0 0 237 280 141 649.0 0 141 281 152 649.0 0 152 282 137 649.0 0 137 283 117 649.0 0 117 284 161 649.0 0 161 285 215 649.0 0 215 286 438 649.0 0 438 287 987 649.0 0 987 288 840 649.0 0 840 289 578 649.0 0 578 290 212 649.0 0 212 291 121 649.0 0 121 292 305 649.0 0 305 293 210 649.0 0 210 294 244 649.0 0 244 295 142 649.0 0 142 296 154 649.0 0 154 297 232 649.0 0 232 298 198 649.0 0 198 299 223 649.0 0 223 300 114 649.0 0 114 301 191 649.0 0 191 Finished in 14.87 s (42 us/read; 1.41 M reads/minute). === Summary === Total reads processed: 350,512 Reads with adapters: 16,918 (4.8%) Reads that were too short: 313 (0.1%) Reads written (passing filters): 16,605 (4.7%) Total basepairs processed: 72,605,760 bp Total written (filtered): 2,767,121 bp (3.8%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 16918 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 0 1 19 2 0.0 3 0 1 0 1 20 24 0.0 4 19 2 2 1 25 1 0.0 4 0 0 0 1 26 1 0.0 4 0 0 0 0 1 34 123 0.0 4 0 0 0 0 123 42 1 0.0 4 0 0 0 0 1 47 1 0.0 4 1 49 1 0.0 4 0 0 0 0 1 51 5 0.0 4 0 1 0 0 4 52 6 0.0 4 4 1 0 0 1 53 1 0.0 4 1 54 2 0.0 4 0 1 0 1 59 2 0.0 4 0 1 0 0 1 68 1 0.0 4 0 0 0 0 1 69 4 0.0 4 0 0 0 0 4 70 22 0.0 4 0 0 0 0 22 71 21 0.0 4 0 0 0 0 21 72 16362 0.0 4 0 0 0 1 16361 73 1 0.0 4 0 0 0 0 1 74 1 0.0 4 0 0 0 0 1 75 26 0.0 4 0 0 0 0 26 76 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 82 2 0.0 4 1 0 0 0 1 85 5 0.0 4 1 0 0 0 4 97 1 0.0 4 0 0 0 0 1 99 1 0.0 4 0 0 0 0 1 100 2 0.0 4 0 0 0 0 2 102 1 0.0 4 0 0 0 0 1 112 2 0.0 4 0 0 0 0 2 115 2 0.0 4 0 1 0 0 1 123 1 0.0 4 0 0 0 0 1 129 1 0.0 4 0 0 0 0 1 134 1 0.0 4 1 136 1 0.0 4 1 145 1 0.0 4 0 0 0 0 1 147 11 0.0 4 0 0 0 0 11 148 1 0.0 4 0 0 0 0 1 152 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 1 155 1 0.0 4 0 0 0 0 1 164 1 0.0 4 0 0 0 0 1 165 1 0.0 4 0 0 0 0 1 166 7 0.0 4 0 0 0 0 7 167 7 0.0 4 0 0 0 1 6 168 3 0.0 4 0 0 0 0 3 170 5 0.0 4 0 0 0 0 5 171 3 0.0 4 0 0 0 0 3 172 1 0.0 4 0 0 0 0 1 173 137 0.0 4 0 0 0 9 128 174 21 0.0 4 0 0 0 2 19 175 4 0.0 4 0 0 0 0 4 178 3 0.0 4 0 0 0 0 3 179 9 0.0 4 0 0 1 1 7 180 8 0.0 4 0 0 0 0 8 181 8 0.0 4 0 0 0 0 8 182 1 0.0 4 0 0 0 0 1 183 1 0.0 4 0 0 0 0 1 184 1 0.0 4 0 0 0 0 1 187 1 0.0 4 0 0 0 0 1 189 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 1 202 3 0.0 4 0 0 0 0 3 208 1 0.0 4 0 0 0 0 1 209 2 0.0 4 0 0 0 0 2 221 1 0.0 4 0 0 0 0 1 227 8 0.0 4 0 0 0 0 8 228 1 0.0 4 0 0 0 0 1 229 1 0.0 4 0 0 0 1 230 2 0.0 4 0 0 0 0 2 231 1 0.0 4 0 0 0 1 233 8 0.0 4 0 0 0 0 8 235 2 0.0 4 0 0 0 0 2 236 1 0.0 4 0 0 0 0 1 237 2 0.0 4 0 0 0 0 2 238 1 0.0 4 0 0 0 0 1 239 1 0.0 4 0 0 0 0 1 241 1 0.0 4 0 0 0 0 1 248 1 0.0 4 0 0 0 0 1 249 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 0.44 s (26 us/read; 2.26 M reads/minute). === Summary === Total reads processed: 16,605 Reads with adapters: 177 (1.1%) Reads written (passing filters): 16,605 (100.0%) Total basepairs processed: 2,767,121 bp Total written (filtered): 2,766,123 bp (100.0%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 177 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 81.9% C: 3.4% G: 11.3% T: 3.4% none/other: 0.0% WARNING: The adapter is preceded by "A" extremely often. The provided adapter sequence may be incomplete. To fix the problem, add "A" to the beginning of the adapter sequence. Overview of removed sequences length count expect max.err error counts 3 54 259.5 0 54 4 94 64.9 0 94 5 11 16.2 0 11 10 9 0.0 1 1 8 11 7 0.0 1 0 7 18 1 0.0 1 1 220 1 0.0 1 0 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.