This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AGCCTC -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 69.71 s (27 us/read; 2.19 M reads/minute). === Summary === Total reads processed: 2,546,118 Reads with adapters: 221,205 (8.7%) Reads that were too short: 21,087 (0.8%) Reads written (passing filters): 200,118 (7.9%) Total basepairs processed: 766,381,518 bp Total written (filtered): 45,341,154 bp (5.9%) === Adapter 1 === Sequence: AGCCTC; Type: regular 5'; Length: 6; Trimmed: 221205 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 557 621.6 0 557 7 6472 621.6 0 6472 8 5405 621.6 0 5405 9 139 621.6 0 139 10 139 621.6 0 139 11 224 621.6 0 224 12 223 621.6 0 223 13 152 621.6 0 152 14 129 621.6 0 129 15 122 621.6 0 122 16 135 621.6 0 135 17 123 621.6 0 123 18 148 621.6 0 148 19 173 621.6 0 173 20 132 621.6 0 132 21 149 621.6 0 149 22 153 621.6 0 153 23 147 621.6 0 147 24 148 621.6 0 148 25 152 621.6 0 152 26 138 621.6 0 138 27 127 621.6 0 127 28 152 621.6 0 152 29 305 621.6 0 305 30 121 621.6 0 121 31 116 621.6 0 116 32 102 621.6 0 102 33 121 621.6 0 121 34 110 621.6 0 110 35 130 621.6 0 130 36 155 621.6 0 155 37 152 621.6 0 152 38 220 621.6 0 220 39 434 621.6 0 434 40 174 621.6 0 174 41 221 621.6 0 221 42 172 621.6 0 172 43 228 621.6 0 228 44 369 621.6 0 369 45 211 621.6 0 211 46 222 621.6 0 222 47 163 621.6 0 163 48 185 621.6 0 185 49 322 621.6 0 322 50 358 621.6 0 358 51 592 621.6 0 592 52 784 621.6 0 784 53 1002 621.6 0 1002 54 2731 621.6 0 2731 55 6539 621.6 0 6539 56 69180 621.6 0 69180 57 21087 621.6 0 21087 58 31595 621.6 0 31595 59 239 621.6 0 239 60 139 621.6 0 139 61 167 621.6 0 167 62 417 621.6 0 417 63 192 621.6 0 192 64 391 621.6 0 391 65 112 621.6 0 112 66 136 621.6 0 136 67 141 621.6 0 141 68 116 621.6 0 116 69 151 621.6 0 151 70 209 621.6 0 209 71 130 621.6 0 130 72 146 621.6 0 146 73 131 621.6 0 131 74 146 621.6 0 146 75 123 621.6 0 123 76 114 621.6 0 114 77 110 621.6 0 110 78 77 621.6 0 77 79 100 621.6 0 100 80 126 621.6 0 126 81 137 621.6 0 137 82 125 621.6 0 125 83 219 621.6 0 219 84 152 621.6 0 152 85 177 621.6 0 177 86 156 621.6 0 156 87 141 621.6 0 141 88 220 621.6 0 220 89 163 621.6 0 163 90 128 621.6 0 128 91 86 621.6 0 86 92 100 621.6 0 100 93 92 621.6 0 92 94 91 621.6 0 91 95 108 621.6 0 108 96 106 621.6 0 106 97 93 621.6 0 93 98 114 621.6 0 114 99 90 621.6 0 90 100 115 621.6 0 115 101 141 621.6 0 141 102 81 621.6 0 81 103 235 621.6 0 235 104 265 621.6 0 265 105 267 621.6 0 267 106 93 621.6 0 93 107 80 621.6 0 80 108 117 621.6 0 117 109 107 621.6 0 107 110 105 621.6 0 105 111 120 621.6 0 120 112 88 621.6 0 88 113 129 621.6 0 129 114 119 621.6 0 119 115 120 621.6 0 120 116 87 621.6 0 87 117 116 621.6 0 116 118 123 621.6 0 123 119 115 621.6 0 115 120 125 621.6 0 125 121 141 621.6 0 141 122 86 621.6 0 86 123 144 621.6 0 144 124 519 621.6 0 519 125 1421 621.6 0 1421 126 1046 621.6 0 1046 127 150 621.6 0 150 128 125 621.6 0 125 129 143 621.6 0 143 130 179 621.6 0 179 131 150 621.6 0 150 132 147 621.6 0 147 133 143 621.6 0 143 134 110 621.6 0 110 135 158 621.6 0 158 136 89 621.6 0 89 137 102 621.6 0 102 138 130 621.6 0 130 139 136 621.6 0 136 140 183 621.6 0 183 141 163 621.6 0 163 142 171 621.6 0 171 143 166 621.6 0 166 144 160 621.6 0 160 145 229 621.6 0 229 146 358 621.6 0 358 147 1721 621.6 0 1721 148 1243 621.6 0 1243 149 2051 621.6 0 2051 150 892 621.6 0 892 151 356 621.6 0 356 152 504 621.6 0 504 153 178 621.6 0 178 154 176 621.6 0 176 155 133 621.6 0 133 156 130 621.6 0 130 157 129 621.6 0 129 158 147 621.6 0 147 159 126 621.6 0 126 160 404 621.6 0 404 161 347 621.6 0 347 162 1346 621.6 0 1346 163 158 621.6 0 158 164 144 621.6 0 144 165 202 621.6 0 202 166 429 621.6 0 429 167 2278 621.6 0 2278 168 2108 621.6 0 2108 169 1978 621.6 0 1978 170 197 621.6 0 197 171 230 621.6 0 230 172 345 621.6 0 345 173 324 621.6 0 324 174 210 621.6 0 210 175 656 621.6 0 656 176 439 621.6 0 439 177 723 621.6 0 723 178 219 621.6 0 219 179 90 621.6 0 90 180 188 621.6 0 188 181 146 621.6 0 146 182 142 621.6 0 142 183 165 621.6 0 165 184 97 621.6 0 97 185 134 621.6 0 134 186 147 621.6 0 147 187 122 621.6 0 122 188 171 621.6 0 171 189 127 621.6 0 127 190 150 621.6 0 150 191 108 621.6 0 108 192 196 621.6 0 196 193 235 621.6 0 235 194 294 621.6 0 294 195 1143 621.6 0 1143 196 1116 621.6 0 1116 197 719 621.6 0 719 198 400 621.6 0 400 199 466 621.6 0 466 200 2905 621.6 0 2905 201 1386 621.6 0 1386 202 1659 621.6 0 1659 203 172 621.6 0 172 204 104 621.6 0 104 205 147 621.6 0 147 206 140 621.6 0 140 207 109 621.6 0 109 208 118 621.6 0 118 209 89 621.6 0 89 210 75 621.6 0 75 211 105 621.6 0 105 212 92 621.6 0 92 213 90 621.6 0 90 214 109 621.6 0 109 215 118 621.6 0 118 216 103 621.6 0 103 217 108 621.6 0 108 218 140 621.6 0 140 219 232 621.6 0 232 220 296 621.6 0 296 221 351 621.6 0 351 222 126 621.6 0 126 223 113 621.6 0 113 224 97 621.6 0 97 225 108 621.6 0 108 226 127 621.6 0 127 227 108 621.6 0 108 228 159 621.6 0 159 229 249 621.6 0 249 230 387 621.6 0 387 231 542 621.6 0 542 232 731 621.6 0 731 233 398 621.6 0 398 234 525 621.6 0 525 235 107 621.6 0 107 236 84 621.6 0 84 237 97 621.6 0 97 238 100 621.6 0 100 239 155 621.6 0 155 240 186 621.6 0 186 241 178 621.6 0 178 242 151 621.6 0 151 243 157 621.6 0 157 244 177 621.6 0 177 245 97 621.6 0 97 246 164 621.6 0 164 247 139 621.6 0 139 248 155 621.6 0 155 249 137 621.6 0 137 250 135 621.6 0 135 251 126 621.6 0 126 252 100 621.6 0 100 253 93 621.6 0 93 254 111 621.6 0 111 255 113 621.6 0 113 256 119 621.6 0 119 257 105 621.6 0 105 258 141 621.6 0 141 259 118 621.6 0 118 260 112 621.6 0 112 261 132 621.6 0 132 262 127 621.6 0 127 263 114 621.6 0 114 264 111 621.6 0 111 265 145 621.6 0 145 266 120 621.6 0 120 267 151 621.6 0 151 268 373 621.6 0 373 269 344 621.6 0 344 270 417 621.6 0 417 271 201 621.6 0 201 272 107 621.6 0 107 273 165 621.6 0 165 274 154 621.6 0 154 275 195 621.6 0 195 276 240 621.6 0 240 277 161 621.6 0 161 278 289 621.6 0 289 279 214 621.6 0 214 280 247 621.6 0 247 281 468 621.6 0 468 282 427 621.6 0 427 283 666 621.6 0 666 284 116 621.6 0 116 285 88 621.6 0 88 286 85 621.6 0 85 287 166 621.6 0 166 288 179 621.6 0 179 289 402 621.6 0 402 290 180 621.6 0 180 291 182 621.6 0 182 292 213 621.6 0 213 293 317 621.6 0 317 294 354 621.6 0 354 295 278 621.6 0 278 296 153 621.6 0 153 297 139 621.6 0 139 298 109 621.6 0 109 299 126 621.6 0 126 300 538 621.6 0 538 301 510 621.6 0 510 Finished in 8.77 s (44 us/read; 1.37 M reads/minute). === Summary === Total reads processed: 200,118 Reads with adapters: 5,665 (2.8%) Reads that were too short: 48 (0.0%) Reads written (passing filters): 5,617 (2.8%) Total basepairs processed: 45,341,154 bp Total written (filtered): 1,529,433 bp (3.4%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 5665 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 7 0.0 3 0 0 4 1 2 19 70 0.0 3 0 55 11 2 2 20 5323 0.0 4 4936 311 56 14 6 21 16 0.0 4 0 12 1 0 3 22 7 0.0 4 2 2 2 1 23 158 0.0 4 130 8 4 12 4 24 2 0.0 4 0 0 0 0 2 26 2 0.0 4 0 0 0 0 2 44 1 0.0 4 0 0 0 0 1 46 1 0.0 4 0 0 0 0 1 47 1 0.0 4 0 0 0 0 1 66 1 0.0 4 0 0 0 0 1 70 1 0.0 4 0 0 0 0 1 77 1 0.0 4 0 0 0 0 1 79 6 0.0 4 0 0 0 0 6 88 1 0.0 4 0 0 0 0 1 95 1 0.0 4 0 0 0 0 1 96 2 0.0 4 0 0 0 0 2 104 1 0.0 4 1 106 1 0.0 4 0 0 0 0 1 108 1 0.0 4 0 0 0 0 1 120 1 0.0 4 0 0 0 0 1 122 3 0.0 4 0 0 0 0 3 123 7 0.0 4 0 0 0 0 7 127 13 0.0 4 0 0 0 0 13 138 1 0.0 4 0 0 0 0 1 149 1 0.0 4 0 0 0 0 1 150 1 0.0 4 0 1 152 1 0.0 4 0 0 0 0 1 157 3 0.0 4 0 0 1 0 2 166 1 0.0 4 0 0 0 0 1 172 2 0.0 4 0 0 0 0 2 202 23 0.0 4 0 0 0 1 22 225 1 0.0 4 0 0 0 0 1 229 1 0.0 4 0 0 0 0 1 238 1 0.0 4 0 0 0 0 1 241 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 0.21 s (37 us/read; 1.60 M reads/minute). === Summary === Total reads processed: 5,617 Reads with adapters: 1,349 (24.0%) Reads written (passing filters): 5,617 (100.0%) Total basepairs processed: 1,529,433 bp Total written (filtered): 1,509,097 bp (98.7%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 1349 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 2.5% C: 9.8% G: 85.1% T: 2.6% 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 10 87.8 0 10 4 2 21.9 0 2 9 25 0.0 0 1 24 10 220 0.0 1 6 214 11 1027 0.0 1 28 999 12 8 0.0 1 1 7 13 1 0.0 1 0 1 14 1 0.0 1 0 1 89 1 0.0 1 1 90 34 0.0 1 28 6 91 2 0.0 1 2 92 1 0.0 1 1 151 2 0.0 1 0 2 177 9 0.0 1 6 3 178 1 0.0 1 1 180 3 0.0 1 2 1 208 1 0.0 1 0 1 209 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.