This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CCTAAT -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 104.55 s (33 us/read; 1.83 M reads/minute). === Summary === Total reads processed: 3,184,960 Reads with adapters: 458,823 (14.4%) Reads that were too short: 23,326 (0.7%) Reads written (passing filters): 435,497 (13.7%) Total basepairs processed: 958,672,960 bp Total written (filtered): 90,957,526 bp (9.5%) === Adapter 1 === Sequence: CCTAAT; Type: regular 5'; Length: 6; Trimmed: 458823 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1521 777.6 0 1521 7 164864 777.6 0 164864 8 99 777.6 0 99 9 1329 777.6 0 1329 10 47 777.6 0 47 11 13 777.6 0 13 12 9 777.6 0 9 13 42 777.6 0 42 14 29 777.6 0 29 15 31 777.6 0 31 16 14 777.6 0 14 17 14 777.6 0 14 18 15 777.6 0 15 19 21 777.6 0 21 20 16 777.6 0 16 21 14 777.6 0 14 22 12 777.6 0 12 23 18 777.6 0 18 24 25 777.6 0 25 25 37 777.6 0 37 26 29 777.6 0 29 27 230 777.6 0 230 28 299 777.6 0 299 29 213 777.6 0 213 30 22 777.6 0 22 31 41 777.6 0 41 32 14 777.6 0 14 33 20 777.6 0 20 34 20 777.6 0 20 35 23 777.6 0 23 36 170 777.6 0 170 37 28 777.6 0 28 38 11 777.6 0 11 39 20 777.6 0 20 40 14 777.6 0 14 41 12 777.6 0 12 42 18 777.6 0 18 43 19 777.6 0 19 44 24 777.6 0 24 45 21 777.6 0 21 46 20 777.6 0 20 47 16 777.6 0 16 48 17 777.6 0 17 49 14 777.6 0 14 50 33 777.6 0 33 51 44 777.6 0 44 52 85 777.6 0 85 53 26 777.6 0 26 54 14 777.6 0 14 55 10 777.6 0 10 56 19 777.6 0 19 57 50 777.6 0 50 58 116 777.6 0 116 59 383 777.6 0 383 60 28 777.6 0 28 61 11 777.6 0 11 62 10 777.6 0 10 63 18 777.6 0 18 64 11 777.6 0 11 65 23 777.6 0 23 66 28 777.6 0 28 67 19 777.6 0 19 68 22 777.6 0 22 69 13 777.6 0 13 70 12 777.6 0 12 71 19 777.6 0 19 72 23 777.6 0 23 73 27 777.6 0 27 74 259 777.6 0 259 75 44 777.6 0 44 76 59 777.6 0 59 77 80 777.6 0 80 78 66 777.6 0 66 79 65 777.6 0 65 80 93 777.6 0 93 81 207 777.6 0 207 82 96 777.6 0 96 83 102 777.6 0 102 84 82 777.6 0 82 85 67 777.6 0 67 86 97 777.6 0 97 87 289 777.6 0 289 88 79 777.6 0 79 89 83 777.6 0 83 90 339 777.6 0 339 91 258 777.6 0 258 92 178 777.6 0 178 93 93 777.6 0 93 94 131 777.6 0 131 95 229 777.6 0 229 96 391 777.6 0 391 97 833 777.6 0 833 98 197 777.6 0 197 99 49 777.6 0 49 100 85 777.6 0 85 101 130 777.6 0 130 102 166 777.6 0 166 103 317 777.6 0 317 104 348 777.6 0 348 105 410 777.6 0 410 106 752 777.6 0 752 107 1796 777.6 0 1796 108 23462 777.6 0 23462 109 9113 777.6 0 9113 110 18226 777.6 0 18226 111 124 777.6 0 124 112 83 777.6 0 83 113 119 777.6 0 119 114 97 777.6 0 97 115 120 777.6 0 120 116 74 777.6 0 74 117 134 777.6 0 134 118 199 777.6 0 199 119 110 777.6 0 110 120 174 777.6 0 174 121 211 777.6 0 211 122 127 777.6 0 127 123 120 777.6 0 120 124 195 777.6 0 195 125 148 777.6 0 148 126 140 777.6 0 140 127 329 777.6 0 329 128 518 777.6 0 518 129 333 777.6 0 333 130 167 777.6 0 167 131 196 777.6 0 196 132 162 777.6 0 162 133 338 777.6 0 338 134 8798 777.6 0 8798 135 1483 777.6 0 1483 136 2415 777.6 0 2415 137 212 777.6 0 212 138 285 777.6 0 285 139 180 777.6 0 180 140 373 777.6 0 373 141 400 777.6 0 400 142 371 777.6 0 371 143 362 777.6 0 362 144 491 777.6 0 491 145 492 777.6 0 492 146 943 777.6 0 943 147 1947 777.6 0 1947 148 655 777.6 0 655 149 1006 777.6 0 1006 150 981 777.6 0 981 151 669 777.6 0 669 152 775 777.6 0 775 153 1171 777.6 0 1171 154 1862 777.6 0 1862 155 11716 777.6 0 11716 156 4106 777.6 0 4106 157 4990 777.6 0 4990 158 1882 777.6 0 1882 159 2298 777.6 0 2298 160 36066 777.6 0 36066 161 57762 777.6 0 57762 162 49695 777.6 0 49695 163 357 777.6 0 357 164 269 777.6 0 269 165 181 777.6 0 181 166 261 777.6 0 261 167 198 777.6 0 198 168 166 777.6 0 166 169 121 777.6 0 121 170 121 777.6 0 121 171 151 777.6 0 151 172 68 777.6 0 68 173 68 777.6 0 68 174 219 777.6 0 219 175 536 777.6 0 536 176 377 777.6 0 377 177 217 777.6 0 217 178 109 777.6 0 109 179 73 777.6 0 73 180 139 777.6 0 139 181 129 777.6 0 129 182 248 777.6 0 248 183 256 777.6 0 256 184 244 777.6 0 244 185 121 777.6 0 121 186 166 777.6 0 166 187 170 777.6 0 170 188 142 777.6 0 142 189 68 777.6 0 68 190 53 777.6 0 53 191 103 777.6 0 103 192 209 777.6 0 209 193 288 777.6 0 288 194 258 777.6 0 258 195 288 777.6 0 288 196 87 777.6 0 87 197 43 777.6 0 43 198 54 777.6 0 54 199 212 777.6 0 212 200 218 777.6 0 218 201 105 777.6 0 105 202 104 777.6 0 104 203 137 777.6 0 137 204 202 777.6 0 202 205 153 777.6 0 153 206 214 777.6 0 214 207 209 777.6 0 209 208 205 777.6 0 205 209 127 777.6 0 127 210 80 777.6 0 80 211 173 777.6 0 173 212 177 777.6 0 177 213 96 777.6 0 96 214 157 777.6 0 157 215 149 777.6 0 149 216 213 777.6 0 213 217 104 777.6 0 104 218 144 777.6 0 144 219 223 777.6 0 223 220 610 777.6 0 610 221 276 777.6 0 276 222 540 777.6 0 540 223 268 777.6 0 268 224 60 777.6 0 60 225 240 777.6 0 240 226 191 777.6 0 191 227 211 777.6 0 211 228 260 777.6 0 260 229 280 777.6 0 280 230 278 777.6 0 278 231 369 777.6 0 369 232 269 777.6 0 269 233 156 777.6 0 156 234 212 777.6 0 212 235 352 777.6 0 352 236 392 777.6 0 392 237 194 777.6 0 194 238 97 777.6 0 97 239 88 777.6 0 88 240 67 777.6 0 67 241 109 777.6 0 109 242 43 777.6 0 43 243 57 777.6 0 57 244 61 777.6 0 61 245 78 777.6 0 78 246 205 777.6 0 205 247 261 777.6 0 261 248 316 777.6 0 316 249 168 777.6 0 168 250 94 777.6 0 94 251 114 777.6 0 114 252 161 777.6 0 161 253 143 777.6 0 143 254 197 777.6 0 197 255 376 777.6 0 376 256 896 777.6 0 896 257 825 777.6 0 825 258 456 777.6 0 456 259 202 777.6 0 202 260 151 777.6 0 151 261 371 777.6 0 371 262 363 777.6 0 363 263 145 777.6 0 145 264 56 777.6 0 56 265 89 777.6 0 89 266 84 777.6 0 84 267 290 777.6 0 290 268 449 777.6 0 449 269 206 777.6 0 206 270 160 777.6 0 160 271 82 777.6 0 82 272 90 777.6 0 90 273 255 777.6 0 255 274 113 777.6 0 113 275 158 777.6 0 158 276 92 777.6 0 92 277 105 777.6 0 105 278 143 777.6 0 143 279 237 777.6 0 237 280 542 777.6 0 542 281 700 777.6 0 700 282 959 777.6 0 959 283 571 777.6 0 571 284 270 777.6 0 270 285 224 777.6 0 224 286 232 777.6 0 232 287 219 777.6 0 219 288 311 777.6 0 311 289 300 777.6 0 300 290 159 777.6 0 159 291 95 777.6 0 95 292 55 777.6 0 55 293 161 777.6 0 161 294 351 777.6 0 351 295 362 777.6 0 362 296 179 777.6 0 179 297 296 777.6 0 296 298 104 777.6 0 104 299 72 777.6 0 72 300 232 777.6 0 232 301 254 777.6 0 254 Finished in 22.41 s (51 us/read; 1.17 M reads/minute). === Summary === Total reads processed: 435,497 Reads with adapters: 1,622 (0.4%) Reads that were too short: 70 (0.0%) Reads written (passing filters): 1,552 (0.4%) Total basepairs processed: 90,957,526 bp Total written (filtered): 405,299 bp (0.4%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 1622 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 19 5 0.0 3 0 4 0 0 1 20 1379 0.0 4 1315 48 7 7 2 21 5 0.0 4 0 5 24 1 0.0 4 0 1 25 4 0.0 4 3 0 0 0 1 28 1 0.0 4 0 0 0 1 34 1 0.0 4 1 36 1 0.0 4 0 0 0 1 40 1 0.0 4 0 0 0 0 1 41 1 0.0 4 1 54 1 0.0 4 0 0 0 0 1 65 1 0.0 4 0 0 0 0 1 72 1 0.0 4 0 0 0 0 1 77 2 0.0 4 0 0 0 0 2 79 1 0.0 4 0 0 0 0 1 80 3 0.0 4 0 0 0 0 3 81 1 0.0 4 0 0 0 0 1 82 1 0.0 4 0 0 0 0 1 85 1 0.0 4 0 0 0 0 1 88 1 0.0 4 0 0 0 0 1 91 1 0.0 4 0 0 0 0 1 92 1 0.0 4 0 0 0 0 1 99 1 0.0 4 0 0 0 0 1 102 1 0.0 4 0 0 0 0 1 103 4 0.0 4 0 0 0 0 4 104 6 0.0 4 0 0 0 0 6 105 2 0.0 4 0 0 0 0 2 107 1 0.0 4 0 0 0 0 1 122 1 0.0 4 0 0 0 0 1 125 1 0.0 4 0 0 0 0 1 126 2 0.0 4 0 0 0 0 2 127 132 0.0 4 0 0 0 0 132 129 2 0.0 4 0 0 0 0 2 130 1 0.0 4 0 0 0 0 1 138 1 0.0 4 0 0 0 0 1 143 1 0.0 4 0 0 0 0 1 153 7 0.0 4 0 0 0 0 7 155 1 0.0 4 0 0 0 0 1 158 1 0.0 4 0 0 0 0 1 167 1 0.0 4 0 0 0 0 1 169 1 0.0 4 0 0 0 0 1 188 1 0.0 4 0 0 0 0 1 189 2 0.0 4 0 0 0 0 2 203 1 0.0 4 0 0 0 0 1 215 1 0.0 4 0 0 0 0 1 225 1 0.0 4 0 0 0 0 1 228 3 0.0 4 0 0 0 0 3 229 2 0.0 4 0 0 0 0 2 235 1 0.0 4 0 0 0 0 1 242 1 0.0 4 0 0 0 0 1 243 1 0.0 4 0 0 0 0 1 244 2 0.0 4 0 0 0 0 2 254 1 0.0 4 0 0 0 0 1 256 1 0.0 4 0 0 0 0 1 257 6 0.0 4 0 0 0 0 6 258 1 0.0 4 0 0 0 0 1 282 2 0.0 4 0 0 0 0 2 283 1 0.0 4 0 0 0 0 1 284 1 0.0 4 0 0 0 0 1 285 1 0.0 4 0 0 0 0 1 289 1 0.0 4 0 0 0 0 1 290 2 0.0 4 0 0 0 0 2 291 2 0.0 4 0 0 0 0 2 292 1 0.0 4 0 0 0 0 1 293 1 0.0 4 0 0 0 0 1 294 4 0.0 4 0 0 0 0 4 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 0.07 s (45 us/read; 1.33 M reads/minute). === Summary === Total reads processed: 1,552 Reads with adapters: 96 (6.2%) Reads written (passing filters): 1,552 (100.0%) Total basepairs processed: 405,299 bp Total written (filtered): 404,008 bp (99.7%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 96 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 3.1% C: 2.1% G: 89.6% T: 5.2% 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 2 24.2 0 2 4 1 6.1 0 1 9 16 0.0 0 2 14 10 25 0.0 1 0 25 11 49 0.0 1 0 49 12 1 0.0 1 0 1 150 1 0.0 1 0 1 186 1 0.0 1 0 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.