This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g ACATTG -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 89.28 s (26 us/read; 2.33 M reads/minute). === Summary === Total reads processed: 3,465,239 Reads with adapters: 64,333 (1.9%) Reads that were too short: 23,704 (0.7%) Reads written (passing filters): 40,629 (1.2%) Total basepairs processed: 1,043,036,939 bp Total written (filtered): 9,396,437 bp (0.9%) === Adapter 1 === Sequence: ACATTG; Type: regular 5'; Length: 6; Trimmed: 64333 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 264 846.0 0 264 7 8877 846.0 0 8877 8 12221 846.0 0 12221 9 27 846.0 0 27 10 11 846.0 0 11 11 11 846.0 0 11 12 38 846.0 0 38 13 4 846.0 0 4 14 10 846.0 0 10 15 6 846.0 0 6 16 7 846.0 0 7 17 8 846.0 0 8 18 40 846.0 0 40 19 23 846.0 0 23 20 14 846.0 0 14 21 14 846.0 0 14 22 20 846.0 0 20 23 9 846.0 0 9 24 9 846.0 0 9 25 15 846.0 0 15 26 12 846.0 0 12 27 16 846.0 0 16 28 8 846.0 0 8 29 19 846.0 0 19 30 28 846.0 0 28 31 16 846.0 0 16 32 21 846.0 0 21 33 22 846.0 0 22 34 14 846.0 0 14 35 13 846.0 0 13 36 240 846.0 0 240 37 55 846.0 0 55 38 90 846.0 0 90 39 35 846.0 0 35 40 14 846.0 0 14 41 11 846.0 0 11 42 16 846.0 0 16 43 141 846.0 0 141 44 177 846.0 0 177 45 65 846.0 0 65 46 9 846.0 0 9 47 9 846.0 0 9 48 6 846.0 0 6 49 18 846.0 0 18 50 16 846.0 0 16 51 5 846.0 0 5 52 20 846.0 0 20 53 21 846.0 0 21 54 13 846.0 0 13 55 20 846.0 0 20 56 18 846.0 0 18 57 17 846.0 0 17 58 35 846.0 0 35 59 28 846.0 0 28 60 10 846.0 0 10 61 14 846.0 0 14 62 8 846.0 0 8 63 13 846.0 0 13 64 6 846.0 0 6 65 15 846.0 0 15 66 13 846.0 0 13 67 7 846.0 0 7 68 13 846.0 0 13 69 8 846.0 0 8 70 14 846.0 0 14 71 30 846.0 0 30 72 15 846.0 0 15 73 23 846.0 0 23 74 8 846.0 0 8 75 9 846.0 0 9 76 16 846.0 0 16 77 7 846.0 0 7 78 18 846.0 0 18 79 23 846.0 0 23 80 22 846.0 0 22 81 21 846.0 0 21 82 41 846.0 0 41 83 34 846.0 0 34 84 24 846.0 0 24 85 8 846.0 0 8 86 15 846.0 0 15 87 28 846.0 0 28 88 42 846.0 0 42 89 63 846.0 0 63 90 75 846.0 0 75 91 96 846.0 0 96 92 59 846.0 0 59 93 105 846.0 0 105 94 192 846.0 0 192 95 317 846.0 0 317 96 132 846.0 0 132 97 121 846.0 0 121 98 96 846.0 0 96 99 115 846.0 0 115 100 78 846.0 0 78 101 75 846.0 0 75 102 27 846.0 0 27 103 9 846.0 0 9 104 9 846.0 0 9 105 19 846.0 0 19 106 37 846.0 0 37 107 118 846.0 0 118 108 73 846.0 0 73 109 91 846.0 0 91 110 34 846.0 0 34 111 29 846.0 0 29 112 44 846.0 0 44 113 74 846.0 0 74 114 128 846.0 0 128 115 115 846.0 0 115 116 68 846.0 0 68 117 39 846.0 0 39 118 51 846.0 0 51 119 45 846.0 0 45 120 165 846.0 0 165 121 161 846.0 0 161 122 170 846.0 0 170 123 82 846.0 0 82 124 61 846.0 0 61 125 92 846.0 0 92 126 104 846.0 0 104 127 117 846.0 0 117 128 457 846.0 0 457 129 227 846.0 0 227 130 167 846.0 0 167 131 104 846.0 0 104 132 252 846.0 0 252 133 110 846.0 0 110 134 173 846.0 0 173 135 1124 846.0 0 1124 136 776 846.0 0 776 137 591 846.0 0 591 138 94 846.0 0 94 139 135 846.0 0 135 140 190 846.0 0 190 141 208 846.0 0 208 142 303 846.0 0 303 143 216 846.0 0 216 144 146 846.0 0 146 145 206 846.0 0 206 146 124 846.0 0 124 147 141 846.0 0 141 148 162 846.0 0 162 149 154 846.0 0 154 150 154 846.0 0 154 151 99 846.0 0 99 152 79 846.0 0 79 153 96 846.0 0 96 154 161 846.0 0 161 155 126 846.0 0 126 156 172 846.0 0 172 157 125 846.0 0 125 158 127 846.0 0 127 159 170 846.0 0 170 160 81 846.0 0 81 161 102 846.0 0 102 162 63 846.0 0 63 163 123 846.0 0 123 164 140 846.0 0 140 165 146 846.0 0 146 166 197 846.0 0 197 167 205 846.0 0 205 168 175 846.0 0 175 169 124 846.0 0 124 170 74 846.0 0 74 171 77 846.0 0 77 172 79 846.0 0 79 173 114 846.0 0 114 174 217 846.0 0 217 175 159 846.0 0 159 176 86 846.0 0 86 177 94 846.0 0 94 178 96 846.0 0 96 179 106 846.0 0 106 180 154 846.0 0 154 181 199 846.0 0 199 182 191 846.0 0 191 183 158 846.0 0 158 184 165 846.0 0 165 185 166 846.0 0 166 186 146 846.0 0 146 187 107 846.0 0 107 188 88 846.0 0 88 189 192 846.0 0 192 190 150 846.0 0 150 191 259 846.0 0 259 192 203 846.0 0 203 193 146 846.0 0 146 194 192 846.0 0 192 195 359 846.0 0 359 196 258 846.0 0 258 197 132 846.0 0 132 198 63 846.0 0 63 199 63 846.0 0 63 200 107 846.0 0 107 201 437 846.0 0 437 202 497 846.0 0 497 203 465 846.0 0 465 204 267 846.0 0 267 205 157 846.0 0 157 206 105 846.0 0 105 207 189 846.0 0 189 208 322 846.0 0 322 209 318 846.0 0 318 210 248 846.0 0 248 211 252 846.0 0 252 212 237 846.0 0 237 213 213 846.0 0 213 214 217 846.0 0 217 215 256 846.0 0 256 216 309 846.0 0 309 217 213 846.0 0 213 218 112 846.0 0 112 219 116 846.0 0 116 220 221 846.0 0 221 221 351 846.0 0 351 222 416 846.0 0 416 223 176 846.0 0 176 224 178 846.0 0 178 225 674 846.0 0 674 226 209 846.0 0 209 227 159 846.0 0 159 228 137 846.0 0 137 229 170 846.0 0 170 230 179 846.0 0 179 231 141 846.0 0 141 232 172 846.0 0 172 233 216 846.0 0 216 234 260 846.0 0 260 235 316 846.0 0 316 236 331 846.0 0 331 237 212 846.0 0 212 238 148 846.0 0 148 239 136 846.0 0 136 240 136 846.0 0 136 241 184 846.0 0 184 242 288 846.0 0 288 243 356 846.0 0 356 244 345 846.0 0 345 245 191 846.0 0 191 246 92 846.0 0 92 247 54 846.0 0 54 248 32 846.0 0 32 249 59 846.0 0 59 250 119 846.0 0 119 251 270 846.0 0 270 252 195 846.0 0 195 253 363 846.0 0 363 254 260 846.0 0 260 255 249 846.0 0 249 256 158 846.0 0 158 257 153 846.0 0 153 258 115 846.0 0 115 259 186 846.0 0 186 260 190 846.0 0 190 261 203 846.0 0 203 262 181 846.0 0 181 263 167 846.0 0 167 264 197 846.0 0 197 265 151 846.0 0 151 266 147 846.0 0 147 267 97 846.0 0 97 268 69 846.0 0 69 269 765 846.0 0 765 270 406 846.0 0 406 271 435 846.0 0 435 272 263 846.0 0 263 273 233 846.0 0 233 274 213 846.0 0 213 275 216 846.0 0 216 276 224 846.0 0 224 277 176 846.0 0 176 278 183 846.0 0 183 279 163 846.0 0 163 280 268 846.0 0 268 281 259 846.0 0 259 282 272 846.0 0 272 283 210 846.0 0 210 284 452 846.0 0 452 285 463 846.0 0 463 286 291 846.0 0 291 287 87 846.0 0 87 288 70 846.0 0 70 289 179 846.0 0 179 290 406 846.0 0 406 291 315 846.0 0 315 292 174 846.0 0 174 293 114 846.0 0 114 294 182 846.0 0 182 295 198 846.0 0 198 296 309 846.0 0 309 297 369 846.0 0 369 298 462 846.0 0 462 299 259 846.0 0 259 300 357 846.0 0 357 301 229 846.0 0 229 Finished in 1.67 s (41 us/read; 1.46 M reads/minute). === Summary === Total reads processed: 40,629 Reads with adapters: 8,856 (21.8%) Reads that were too short: 11 (0.0%) Reads written (passing filters): 8,845 (21.8%) Total basepairs processed: 9,396,437 bp Total written (filtered): 2,449,057 bp (26.1%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 8856 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 4 0.0 2 0 0 0 4 15 5 0.0 3 0 0 5 16 68 0.0 3 0 67 1 17 8695 0.0 3 8596 98 1 18 43 0.0 3 22 18 2 1 19 11 0.0 3 1 1 7 2 20 12 0.0 3 1 0 0 11 32 1 0.0 3 0 0 0 1 42 1 0.0 3 0 0 0 1 43 1 0.0 3 0 0 0 1 52 1 0.0 3 0 0 0 1 63 1 0.0 3 0 0 0 1 69 1 0.0 3 0 0 0 1 99 1 0.0 3 0 0 0 1 144 1 0.0 3 0 0 0 1 153 2 0.0 3 0 0 0 2 156 1 0.0 3 0 0 0 1 158 1 0.0 3 0 0 0 1 167 1 0.0 3 0 0 0 1 207 1 0.0 3 0 0 0 1 247 1 0.0 3 0 0 0 1 281 1 0.0 3 0 0 0 1 282 1 0.0 3 0 0 0 1 288 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 (37 us/read; 1.61 M reads/minute). === Summary === Total reads processed: 8,845 Reads with adapters: 1,393 (15.7%) Reads written (passing filters): 8,845 (100.0%) Total basepairs processed: 2,449,057 bp Total written (filtered): 2,444,878 bp (99.8%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 1393 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 3.9% C: 91.1% G: 4.6% T: 0.4% none/other: 0.0% WARNING: The adapter is preceded by "C" extremely often. The provided adapter sequence may be incomplete. To fix the problem, add "C" to the beginning of the adapter sequence. Overview of removed sequences length count expect max.err error counts 3 1393 138.2 0 1393 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.