This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CTCTGC -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 134.62 s (46 us/read; 1.31 M reads/minute). === Summary === Total reads processed: 2,949,860 Reads with adapters: 321,049 (10.9%) Reads that were too short: 21,016 (0.7%) Reads written (passing filters): 300,033 (10.2%) Total basepairs processed: 887,907,860 bp Total written (filtered): 55,165,126 bp (6.2%) === Adapter 1 === Sequence: CTCTGC; Type: regular 5'; Length: 6; Trimmed: 321049 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 472 720.2 0 472 7 12294 720.2 0 12294 8 322 720.2 0 322 9 8660 720.2 0 8660 10 30 720.2 0 30 11 18 720.2 0 18 12 21 720.2 0 21 13 33 720.2 0 33 14 77 720.2 0 77 15 48 720.2 0 48 16 77 720.2 0 77 17 18 720.2 0 18 18 22 720.2 0 22 19 32 720.2 0 32 20 29 720.2 0 29 21 30 720.2 0 30 22 37 720.2 0 37 23 42 720.2 0 42 24 108 720.2 0 108 25 51 720.2 0 51 26 34 720.2 0 34 27 40 720.2 0 40 28 37 720.2 0 37 29 32 720.2 0 32 30 31 720.2 0 31 31 32 720.2 0 32 32 34 720.2 0 34 33 80 720.2 0 80 34 70 720.2 0 70 35 53 720.2 0 53 36 43 720.2 0 43 37 50 720.2 0 50 38 48 720.2 0 48 39 86 720.2 0 86 40 115 720.2 0 115 41 118 720.2 0 118 42 33 720.2 0 33 43 47 720.2 0 47 44 42 720.2 0 42 45 39 720.2 0 39 46 53 720.2 0 53 47 39 720.2 0 39 48 52 720.2 0 52 49 36 720.2 0 36 50 41 720.2 0 41 51 55 720.2 0 55 52 72 720.2 0 72 53 52 720.2 0 52 54 46 720.2 0 46 55 42 720.2 0 42 56 123 720.2 0 123 57 165 720.2 0 165 58 178 720.2 0 178 59 396 720.2 0 396 60 119 720.2 0 119 61 332 720.2 0 332 62 34 720.2 0 34 63 40 720.2 0 40 64 56 720.2 0 56 65 51 720.2 0 51 66 26 720.2 0 26 67 90 720.2 0 90 68 33 720.2 0 33 69 51 720.2 0 51 70 69 720.2 0 69 71 41 720.2 0 41 72 39 720.2 0 39 73 72 720.2 0 72 74 49 720.2 0 49 75 49 720.2 0 49 76 51 720.2 0 51 77 237 720.2 0 237 78 66 720.2 0 66 79 35 720.2 0 35 80 72 720.2 0 72 81 57 720.2 0 57 82 49 720.2 0 49 83 84 720.2 0 84 84 116 720.2 0 116 85 104 720.2 0 104 86 88 720.2 0 88 87 404 720.2 0 404 88 63 720.2 0 63 89 95 720.2 0 95 90 93 720.2 0 93 91 116 720.2 0 116 92 113 720.2 0 113 93 111 720.2 0 111 94 191 720.2 0 191 95 119 720.2 0 119 96 189 720.2 0 189 97 501 720.2 0 501 98 138 720.2 0 138 99 223 720.2 0 223 100 182 720.2 0 182 101 216 720.2 0 216 102 345 720.2 0 345 103 185 720.2 0 185 104 136 720.2 0 136 105 152 720.2 0 152 106 527 720.2 0 527 107 824 720.2 0 824 108 645 720.2 0 645 109 577 720.2 0 577 110 836 720.2 0 836 111 977 720.2 0 977 112 2723 720.2 0 2723 113 2760 720.2 0 2760 114 49169 720.2 0 49169 115 32524 720.2 0 32524 116 82669 720.2 0 82669 117 434 720.2 0 434 118 185 720.2 0 185 119 52 720.2 0 52 120 76 720.2 0 76 121 38 720.2 0 38 122 39 720.2 0 39 123 46 720.2 0 46 124 51 720.2 0 51 125 50 720.2 0 50 126 119 720.2 0 119 127 243 720.2 0 243 128 161 720.2 0 161 129 295 720.2 0 295 130 192 720.2 0 192 131 141 720.2 0 141 132 70 720.2 0 70 133 54 720.2 0 54 134 68 720.2 0 68 135 96 720.2 0 96 136 150 720.2 0 150 137 154 720.2 0 154 138 89 720.2 0 89 139 102 720.2 0 102 140 504 720.2 0 504 141 1000 720.2 0 1000 142 1014 720.2 0 1014 143 623 720.2 0 623 144 545 720.2 0 545 145 679 720.2 0 679 146 875 720.2 0 875 147 11947 720.2 0 11947 148 15839 720.2 0 15839 149 38610 720.2 0 38610 150 540 720.2 0 540 151 270 720.2 0 270 152 299 720.2 0 299 153 4317 720.2 0 4317 154 2549 720.2 0 2549 155 5064 720.2 0 5064 156 422 720.2 0 422 157 476 720.2 0 476 158 333 720.2 0 333 159 64 720.2 0 64 160 159 720.2 0 159 161 271 720.2 0 271 162 265 720.2 0 265 163 390 720.2 0 390 164 130 720.2 0 130 165 90 720.2 0 90 166 52 720.2 0 52 167 76 720.2 0 76 168 265 720.2 0 265 169 145 720.2 0 145 170 329 720.2 0 329 171 313 720.2 0 313 172 43 720.2 0 43 173 43 720.2 0 43 174 38 720.2 0 38 175 51 720.2 0 51 176 80 720.2 0 80 177 63 720.2 0 63 178 54 720.2 0 54 179 36 720.2 0 36 180 33 720.2 0 33 181 142 720.2 0 142 182 117 720.2 0 117 183 357 720.2 0 357 184 331 720.2 0 331 185 510 720.2 0 510 186 747 720.2 0 747 187 209 720.2 0 209 188 199 720.2 0 199 189 56 720.2 0 56 190 86 720.2 0 86 191 95 720.2 0 95 192 127 720.2 0 127 193 60 720.2 0 60 194 49 720.2 0 49 195 32 720.2 0 32 196 48 720.2 0 48 197 106 720.2 0 106 198 74 720.2 0 74 199 53 720.2 0 53 200 49 720.2 0 49 201 37 720.2 0 37 202 96 720.2 0 96 203 64 720.2 0 64 204 161 720.2 0 161 205 35 720.2 0 35 206 50 720.2 0 50 207 49 720.2 0 49 208 25 720.2 0 25 209 32 720.2 0 32 210 23 720.2 0 23 211 33 720.2 0 33 212 49 720.2 0 49 213 59 720.2 0 59 214 46 720.2 0 46 215 67 720.2 0 67 216 333 720.2 0 333 217 199 720.2 0 199 218 456 720.2 0 456 219 40 720.2 0 40 220 30 720.2 0 30 221 43 720.2 0 43 222 57 720.2 0 57 223 34 720.2 0 34 224 45 720.2 0 45 225 38 720.2 0 38 226 87 720.2 0 87 227 81 720.2 0 81 228 133 720.2 0 133 229 43 720.2 0 43 230 50 720.2 0 50 231 61 720.2 0 61 232 51 720.2 0 51 233 68 720.2 0 68 234 142 720.2 0 142 235 235 720.2 0 235 236 258 720.2 0 258 237 157 720.2 0 157 238 227 720.2 0 227 239 52 720.2 0 52 240 42 720.2 0 42 241 43 720.2 0 43 242 56 720.2 0 56 243 40 720.2 0 40 244 79 720.2 0 79 245 90 720.2 0 90 246 122 720.2 0 122 247 89 720.2 0 89 248 59 720.2 0 59 249 103 720.2 0 103 250 191 720.2 0 191 251 176 720.2 0 176 252 58 720.2 0 58 253 70 720.2 0 70 254 100 720.2 0 100 255 77 720.2 0 77 256 59 720.2 0 59 257 98 720.2 0 98 258 61 720.2 0 61 259 90 720.2 0 90 260 48 720.2 0 48 261 94 720.2 0 94 262 105 720.2 0 105 263 76 720.2 0 76 264 63 720.2 0 63 265 81 720.2 0 81 266 72 720.2 0 72 267 85 720.2 0 85 268 109 720.2 0 109 269 116 720.2 0 116 270 260 720.2 0 260 271 330 720.2 0 330 272 268 720.2 0 268 273 130 720.2 0 130 274 117 720.2 0 117 275 139 720.2 0 139 276 202 720.2 0 202 277 183 720.2 0 183 278 182 720.2 0 182 279 1243 720.2 0 1243 280 746 720.2 0 746 281 2417 720.2 0 2417 282 2083 720.2 0 2083 283 2099 720.2 0 2099 284 151 720.2 0 151 285 220 720.2 0 220 286 273 720.2 0 273 287 123 720.2 0 123 288 75 720.2 0 75 289 116 720.2 0 116 290 432 720.2 0 432 291 475 720.2 0 475 292 608 720.2 0 608 293 262 720.2 0 262 294 216 720.2 0 216 295 308 720.2 0 308 296 277 720.2 0 277 297 299 720.2 0 299 298 297 720.2 0 297 299 111 720.2 0 111 300 52 720.2 0 52 301 61 720.2 0 61 Finished in 16.84 s (56 us/read; 1.07 M reads/minute). === Summary === Total reads processed: 300,033 Reads with adapters: 9,255 (3.1%) Reads that were too short: 36 (0.0%) Reads written (passing filters): 9,219 (3.1%) Total basepairs processed: 55,165,126 bp Total written (filtered): 2,492,759 bp (4.5%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 9255 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 16 1 0.0 3 0 0 0 0 1 18 8 0.0 3 0 0 4 3 1 19 94 0.0 3 0 80 5 8 1 20 8917 0.0 4 8488 345 57 23 4 21 28 0.0 4 5 20 3 22 4 0.0 4 1 0 1 1 1 23 18 0.0 4 1 0 0 9 8 29 1 0.0 4 0 0 0 0 1 30 2 0.0 4 1 0 0 0 1 49 2 0.0 4 0 1 1 50 1 0.0 4 0 1 54 1 0.0 4 0 0 0 0 1 55 1 0.0 4 0 0 0 0 1 57 1 0.0 4 0 0 0 0 1 67 1 0.0 4 0 0 0 0 1 73 1 0.0 4 0 0 0 0 1 75 2 0.0 4 0 0 0 0 2 76 1 0.0 4 0 0 0 1 78 1 0.0 4 0 0 0 0 1 79 1 0.0 4 0 1 80 3 0.0 4 1 0 0 0 2 81 2 0.0 4 0 0 0 0 2 82 1 0.0 4 0 0 0 0 1 83 1 0.0 4 0 0 0 0 1 88 2 0.0 4 1 0 0 0 1 92 1 0.0 4 0 0 0 0 1 93 1 0.0 4 0 0 0 0 1 101 2 0.0 4 0 0 0 0 2 104 1 0.0 4 0 0 0 0 1 106 1 0.0 4 0 0 0 0 1 107 1 0.0 4 0 0 0 0 1 120 1 0.0 4 0 0 0 0 1 122 1 0.0 4 0 0 0 0 1 126 5 0.0 4 0 0 0 0 5 127 125 0.0 4 0 0 0 0 125 128 1 0.0 4 0 0 0 0 1 130 1 0.0 4 0 0 0 0 1 138 1 0.0 4 0 0 0 0 1 141 2 0.0 4 0 0 1 0 1 157 1 0.0 4 0 0 1 158 1 0.0 4 0 0 0 0 1 162 1 0.0 4 1 164 2 0.0 4 1 0 1 166 1 0.0 4 1 175 1 0.0 4 0 0 0 0 1 179 1 0.0 4 0 0 0 0 1 180 1 0.0 4 0 0 0 0 1 184 1 0.0 4 0 1 198 1 0.0 4 0 0 0 0 1 202 1 0.0 4 0 0 0 0 1 211 1 0.0 4 0 0 0 0 1 228 1 0.0 4 0 0 0 0 1 229 1 0.0 4 0 0 0 0 1 294 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 0.56 s (61 us/read; 0.99 M reads/minute). === Summary === Total reads processed: 9,219 Reads with adapters: 2,192 (23.8%) Reads written (passing filters): 9,219 (100.0%) Total basepairs processed: 2,492,759 bp Total written (filtered): 2,446,015 bp (98.1%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 2192 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.6% C: 6.2% G: 86.3% T: 5.9% 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 3 144.0 0 3 4 2 36.0 0 2 7 1 0.6 0 1 9 631 0.0 0 37 594 10 1170 0.0 1 60 1110 11 271 0.0 1 5 266 12 4 0.0 1 0 4 13 3 0.0 1 0 3 14 1 0.0 1 0 1 19 1 0.0 1 1 22 2 0.0 1 2 23 1 0.0 1 1 63 1 0.0 1 1 73 1 0.0 1 1 102 1 0.0 1 1 113 1 0.0 1 0 1 208 6 0.0 1 4 2 267 87 0.0 1 85 2 268 2 0.0 1 2 269 1 0.0 1 0 1 270 2 0.0 1 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.