This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AAGCAG -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 57.00 s (26 us/read; 2.31 M reads/minute). === Summary === Total reads processed: 2,192,295 Reads with adapters: 216,753 (9.9%) Reads that were too short: 19,968 (0.9%) Reads written (passing filters): 196,785 (9.0%) Total basepairs processed: 659,880,795 bp Total written (filtered): 38,148,440 bp (5.8%) === Adapter 1 === Sequence: AAGCAG; Type: regular 5'; Length: 6; Trimmed: 216753 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 419 535.2 0 419 7 11267 535.2 0 11267 8 343 535.2 0 343 9 9031 535.2 0 9031 10 174 535.2 0 174 11 216 535.2 0 216 12 175 535.2 0 175 13 153 535.2 0 153 14 186 535.2 0 186 15 199 535.2 0 199 16 176 535.2 0 176 17 215 535.2 0 215 18 172 535.2 0 172 19 160 535.2 0 160 20 154 535.2 0 154 21 209 535.2 0 209 22 229 535.2 0 229 23 295 535.2 0 295 24 738 535.2 0 738 25 459 535.2 0 459 26 547 535.2 0 547 27 167 535.2 0 167 28 177 535.2 0 177 29 141 535.2 0 141 30 174 535.2 0 174 31 144 535.2 0 144 32 172 535.2 0 172 33 209 535.2 0 209 34 168 535.2 0 168 35 140 535.2 0 140 36 166 535.2 0 166 37 163 535.2 0 163 38 173 535.2 0 173 39 155 535.2 0 155 40 148 535.2 0 148 41 190 535.2 0 190 42 165 535.2 0 165 43 157 535.2 0 157 44 191 535.2 0 191 45 165 535.2 0 165 46 178 535.2 0 178 47 202 535.2 0 202 48 148 535.2 0 148 49 183 535.2 0 183 50 182 535.2 0 182 51 181 535.2 0 181 52 139 535.2 0 139 53 171 535.2 0 171 54 174 535.2 0 174 55 170 535.2 0 170 56 145 535.2 0 145 57 188 535.2 0 188 58 198 535.2 0 198 59 198 535.2 0 198 60 165 535.2 0 165 61 341 535.2 0 341 62 560 535.2 0 560 63 358 535.2 0 358 64 144 535.2 0 144 65 143 535.2 0 143 66 163 535.2 0 163 67 158 535.2 0 158 68 159 535.2 0 159 69 190 535.2 0 190 70 224 535.2 0 224 71 203 535.2 0 203 72 186 535.2 0 186 73 194 535.2 0 194 74 175 535.2 0 175 75 166 535.2 0 166 76 195 535.2 0 195 77 197 535.2 0 197 78 236 535.2 0 236 79 214 535.2 0 214 80 218 535.2 0 218 81 204 535.2 0 204 82 268 535.2 0 268 83 687 535.2 0 687 84 1228 535.2 0 1228 85 773 535.2 0 773 86 232 535.2 0 232 87 239 535.2 0 239 88 382 535.2 0 382 89 224 535.2 0 224 90 190 535.2 0 190 91 152 535.2 0 152 92 216 535.2 0 216 93 193 535.2 0 193 94 183 535.2 0 183 95 234 535.2 0 234 96 188 535.2 0 188 97 242 535.2 0 242 98 386 535.2 0 386 99 701 535.2 0 701 100 253 535.2 0 253 101 332 535.2 0 332 102 434 535.2 0 434 103 264 535.2 0 264 104 250 535.2 0 250 105 509 535.2 0 509 106 504 535.2 0 504 107 571 535.2 0 571 108 653 535.2 0 653 109 847 535.2 0 847 110 974 535.2 0 974 111 1258 535.2 0 1258 112 20078 535.2 0 20078 113 46838 535.2 0 46838 114 34788 535.2 0 34788 115 295 535.2 0 295 116 154 535.2 0 154 117 165 535.2 0 165 118 225 535.2 0 225 119 274 535.2 0 274 120 1118 535.2 0 1118 121 1521 535.2 0 1521 122 1295 535.2 0 1295 123 199 535.2 0 199 124 243 535.2 0 243 125 894 535.2 0 894 126 1055 535.2 0 1055 127 1159 535.2 0 1159 128 284 535.2 0 284 129 479 535.2 0 479 130 309 535.2 0 309 131 364 535.2 0 364 132 176 535.2 0 176 133 171 535.2 0 171 134 193 535.2 0 193 135 194 535.2 0 194 136 199 535.2 0 199 137 217 535.2 0 217 138 287 535.2 0 287 139 311 535.2 0 311 140 243 535.2 0 243 141 225 535.2 0 225 142 462 535.2 0 462 143 509 535.2 0 509 144 410 535.2 0 410 145 203 535.2 0 203 146 233 535.2 0 233 147 493 535.2 0 493 148 947 535.2 0 947 149 1005 535.2 0 1005 150 453 535.2 0 453 151 186 535.2 0 186 152 257 535.2 0 257 153 198 535.2 0 198 154 187 535.2 0 187 155 171 535.2 0 171 156 153 535.2 0 153 157 193 535.2 0 193 158 174 535.2 0 174 159 170 535.2 0 170 160 150 535.2 0 150 161 177 535.2 0 177 162 223 535.2 0 223 163 209 535.2 0 209 164 230 535.2 0 230 165 241 535.2 0 241 166 541 535.2 0 541 167 802 535.2 0 802 168 998 535.2 0 998 169 484 535.2 0 484 170 445 535.2 0 445 171 1123 535.2 0 1123 172 971 535.2 0 971 173 1265 535.2 0 1265 174 314 535.2 0 314 175 214 535.2 0 214 176 194 535.2 0 194 177 189 535.2 0 189 178 224 535.2 0 224 179 184 535.2 0 184 180 260 535.2 0 260 181 263 535.2 0 263 182 379 535.2 0 379 183 2501 535.2 0 2501 184 2800 535.2 0 2800 185 2774 535.2 0 2774 186 353 535.2 0 353 187 268 535.2 0 268 188 303 535.2 0 303 189 204 535.2 0 204 190 196 535.2 0 196 191 612 535.2 0 612 192 1182 535.2 0 1182 193 1082 535.2 0 1082 194 487 535.2 0 487 195 222 535.2 0 222 196 244 535.2 0 244 197 218 535.2 0 218 198 259 535.2 0 259 199 2258 535.2 0 2258 200 447 535.2 0 447 201 439 535.2 0 439 202 250 535.2 0 250 203 298 535.2 0 298 204 142 535.2 0 142 205 167 535.2 0 167 206 176 535.2 0 176 207 195 535.2 0 195 208 187 535.2 0 187 209 178 535.2 0 178 210 173 535.2 0 173 211 167 535.2 0 167 212 137 535.2 0 137 213 191 535.2 0 191 214 161 535.2 0 161 215 239 535.2 0 239 216 228 535.2 0 228 217 237 535.2 0 237 218 198 535.2 0 198 219 196 535.2 0 196 220 167 535.2 0 167 221 136 535.2 0 136 222 195 535.2 0 195 223 144 535.2 0 144 224 158 535.2 0 158 225 213 535.2 0 213 226 274 535.2 0 274 227 271 535.2 0 271 228 415 535.2 0 415 229 327 535.2 0 327 230 280 535.2 0 280 231 156 535.2 0 156 232 193 535.2 0 193 233 169 535.2 0 169 234 149 535.2 0 149 235 179 535.2 0 179 236 154 535.2 0 154 237 185 535.2 0 185 238 184 535.2 0 184 239 192 535.2 0 192 240 141 535.2 0 141 241 169 535.2 0 169 242 161 535.2 0 161 243 168 535.2 0 168 244 233 535.2 0 233 245 197 535.2 0 197 246 281 535.2 0 281 247 187 535.2 0 187 248 159 535.2 0 159 249 167 535.2 0 167 250 136 535.2 0 136 251 176 535.2 0 176 252 164 535.2 0 164 253 173 535.2 0 173 254 154 535.2 0 154 255 164 535.2 0 164 256 166 535.2 0 166 257 177 535.2 0 177 258 213 535.2 0 213 259 178 535.2 0 178 260 142 535.2 0 142 261 159 535.2 0 159 262 153 535.2 0 153 263 178 535.2 0 178 264 174 535.2 0 174 265 187 535.2 0 187 266 196 535.2 0 196 267 793 535.2 0 793 268 973 535.2 0 973 269 604 535.2 0 604 270 153 535.2 0 153 271 164 535.2 0 164 272 123 535.2 0 123 273 122 535.2 0 122 274 170 535.2 0 170 275 169 535.2 0 169 276 210 535.2 0 210 277 268 535.2 0 268 278 206 535.2 0 206 279 184 535.2 0 184 280 143 535.2 0 143 281 172 535.2 0 172 282 178 535.2 0 178 283 167 535.2 0 167 284 138 535.2 0 138 285 124 535.2 0 124 286 138 535.2 0 138 287 144 535.2 0 144 288 148 535.2 0 148 289 145 535.2 0 145 290 162 535.2 0 162 291 145 535.2 0 145 292 156 535.2 0 156 293 148 535.2 0 148 294 166 535.2 0 166 295 155 535.2 0 155 296 139 535.2 0 139 297 167 535.2 0 167 298 157 535.2 0 157 299 256 535.2 0 256 300 134 535.2 0 134 301 133 535.2 0 133 Finished in 7.03 s (36 us/read; 1.68 M reads/minute). === Summary === Total reads processed: 196,785 Reads with adapters: 9,510 (4.8%) Reads that were too short: 166 (0.1%) Reads written (passing filters): 9,344 (4.7%) Total basepairs processed: 38,148,440 bp Total written (filtered): 2,529,605 bp (6.6%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 9510 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 3 0.0 3 0 0 2 1 16 85 0.0 3 0 84 1 17 8947 0.0 3 8749 192 5 1 18 36 0.0 3 18 17 0 1 19 5 0.0 3 1 0 3 1 20 7 0.0 3 1 0 0 6 21 1 0.0 3 0 0 0 1 23 1 0.0 3 0 0 0 1 24 54 0.0 3 0 0 1 53 25 1 0.0 3 0 0 0 1 26 7 0.0 3 0 0 0 7 27 10 0.0 3 0 0 0 10 30 1 0.0 3 0 0 0 1 31 1 0.0 3 0 0 0 1 35 1 0.0 3 0 1 36 1 0.0 3 0 0 0 1 41 2 0.0 3 0 0 0 2 46 1 0.0 3 0 0 0 1 48 3 0.0 3 0 0 0 3 50 1 0.0 3 0 0 0 1 51 12 0.0 3 0 0 0 12 53 2 0.0 3 0 0 0 2 54 2 0.0 3 0 0 0 2 55 1 0.0 3 0 0 0 1 56 1 0.0 3 0 0 0 1 58 1 0.0 3 0 0 0 1 59 3 0.0 3 0 0 0 3 60 4 0.0 3 0 0 0 4 63 9 0.0 3 0 0 0 9 66 7 0.0 3 0 0 0 7 67 1 0.0 3 0 0 0 1 68 7 0.0 3 0 0 0 7 69 8 0.0 3 0 0 0 8 73 3 0.0 3 0 0 0 3 76 1 0.0 3 0 0 0 1 79 33 0.0 3 0 0 1 32 81 12 0.0 3 0 0 0 12 82 6 0.0 3 0 0 0 6 83 1 0.0 3 0 0 0 1 89 1 0.0 3 0 0 0 1 90 1 0.0 3 0 0 0 1 96 1 0.0 3 0 0 0 1 99 1 0.0 3 0 0 0 1 100 3 0.0 3 0 0 0 3 102 4 0.0 3 0 0 0 4 103 2 0.0 3 0 0 0 2 104 1 0.0 3 0 0 0 1 105 8 0.0 3 0 0 0 8 106 2 0.0 3 0 0 0 2 108 15 0.0 3 0 0 0 15 109 9 0.0 3 1 0 0 8 111 4 0.0 3 0 0 0 4 112 6 0.0 3 0 0 0 6 113 3 0.0 3 0 0 0 3 115 6 0.0 3 0 0 0 6 117 2 0.0 3 0 0 0 2 122 1 0.0 3 0 0 0 1 123 2 0.0 3 0 0 0 2 125 2 0.0 3 0 0 0 2 126 2 0.0 3 0 0 0 2 129 2 0.0 3 0 0 0 2 130 12 0.0 3 0 0 1 11 131 1 0.0 3 0 0 0 1 132 1 0.0 3 0 0 0 1 136 7 0.0 3 0 0 0 7 137 1 0.0 3 0 0 0 1 138 1 0.0 3 1 139 4 0.0 3 0 0 0 4 143 1 0.0 3 0 0 0 1 145 1 0.0 3 0 0 0 1 146 1 0.0 3 0 0 0 1 147 6 0.0 3 0 0 0 6 148 2 0.0 3 0 0 0 2 150 4 0.0 3 0 0 0 4 153 1 0.0 3 0 0 0 1 154 1 0.0 3 0 0 0 1 159 2 0.0 3 0 0 0 2 162 40 0.0 3 0 0 0 40 165 2 0.0 3 0 0 0 2 167 10 0.0 3 0 0 0 10 168 1 0.0 3 0 0 0 1 169 1 0.0 3 0 0 0 1 170 4 0.0 3 0 0 0 4 171 1 0.0 3 0 0 0 1 172 2 0.0 3 0 0 0 2 173 1 0.0 3 0 0 0 1 174 1 0.0 3 0 0 0 1 180 2 0.0 3 0 0 0 2 181 23 0.0 3 0 0 0 23 182 2 0.0 3 0 0 0 2 188 1 0.0 3 0 0 0 1 189 1 0.0 3 0 0 0 1 213 1 0.0 3 0 0 0 1 217 1 0.0 3 0 0 0 1 220 1 0.0 3 1 223 2 0.0 3 0 0 0 2 224 1 0.0 3 0 0 0 1 259 1 0.0 3 0 0 0 1 260 1 0.0 3 0 0 0 1 269 1 0.0 3 0 0 0 1 280 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 0.33 s (35 us/read; 1.70 M reads/minute). === Summary === Total reads processed: 9,344 Reads with adapters: 258 (2.8%) Reads written (passing filters): 9,344 (100.0%) Total basepairs processed: 2,529,605 bp Total written (filtered): 2,528,821 bp (100.0%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 258 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 84.1% C: 7.8% G: 7.4% T: 0.8% 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 3 248 146.0 0 248 4 10 36.5 0 10 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.