This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CACTCT -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 57.81 s (26 us/read; 2.28 M reads/minute). === Summary === Total reads processed: 2,192,295 Reads with adapters: 260,508 (11.9%) Reads that were too short: 26,808 (1.2%) Reads written (passing filters): 233,700 (10.7%) Total basepairs processed: 659,880,795 bp Total written (filtered): 35,246,400 bp (5.3%) === Adapter 1 === Sequence: CACTCT; Type: regular 5'; Length: 6; Trimmed: 260508 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 205 535.2 0 205 7 1385 535.2 0 1385 8 102 535.2 0 102 9 1421 535.2 0 1421 10 148 535.2 0 148 11 39 535.2 0 39 12 204 535.2 0 204 13 43 535.2 0 43 14 93 535.2 0 93 15 38 535.2 0 38 16 24 535.2 0 24 17 42 535.2 0 42 18 42 535.2 0 42 19 47 535.2 0 47 20 90 535.2 0 90 21 152 535.2 0 152 22 55 535.2 0 55 23 38 535.2 0 38 24 49 535.2 0 49 25 50 535.2 0 50 26 56 535.2 0 56 27 33 535.2 0 33 28 55 535.2 0 55 29 36 535.2 0 36 30 55 535.2 0 55 31 57 535.2 0 57 32 46 535.2 0 46 33 38 535.2 0 38 34 75 535.2 0 75 35 58 535.2 0 58 36 83 535.2 0 83 37 46 535.2 0 46 38 38 535.2 0 38 39 47 535.2 0 47 40 50 535.2 0 50 41 53 535.2 0 53 42 53 535.2 0 53 43 108 535.2 0 108 44 142 535.2 0 142 45 94 535.2 0 94 46 750 535.2 0 750 47 231 535.2 0 231 48 581 535.2 0 581 49 55 535.2 0 55 50 91 535.2 0 91 51 48 535.2 0 48 52 50 535.2 0 50 53 53 535.2 0 53 54 169 535.2 0 169 55 180 535.2 0 180 56 290 535.2 0 290 57 75 535.2 0 75 58 55 535.2 0 55 59 47 535.2 0 47 60 65 535.2 0 65 61 71 535.2 0 71 62 65 535.2 0 65 63 54 535.2 0 54 64 58 535.2 0 58 65 66 535.2 0 66 66 64 535.2 0 64 67 581 535.2 0 581 68 186 535.2 0 186 69 412 535.2 0 412 70 51 535.2 0 51 71 81 535.2 0 81 72 93 535.2 0 93 73 85 535.2 0 85 74 66 535.2 0 66 75 57 535.2 0 57 76 24 535.2 0 24 77 43 535.2 0 43 78 55 535.2 0 55 79 60 535.2 0 60 80 66 535.2 0 66 81 57 535.2 0 57 82 79 535.2 0 79 83 58 535.2 0 58 84 72 535.2 0 72 85 64 535.2 0 64 86 45 535.2 0 45 87 71 535.2 0 71 88 95 535.2 0 95 89 66 535.2 0 66 90 140 535.2 0 140 91 135 535.2 0 135 92 111 535.2 0 111 93 73 535.2 0 73 94 102 535.2 0 102 95 120 535.2 0 120 96 124 535.2 0 124 97 71 535.2 0 71 98 64 535.2 0 64 99 66 535.2 0 66 100 56 535.2 0 56 101 61 535.2 0 61 102 68 535.2 0 68 103 109 535.2 0 109 104 385 535.2 0 385 105 922 535.2 0 922 106 1840 535.2 0 1840 107 542 535.2 0 542 108 487 535.2 0 487 109 115 535.2 0 115 110 107 535.2 0 107 111 99 535.2 0 99 112 275 535.2 0 275 113 153 535.2 0 153 114 185 535.2 0 185 115 73 535.2 0 73 116 83 535.2 0 83 117 58 535.2 0 58 118 93 535.2 0 93 119 152 535.2 0 152 120 67 535.2 0 67 121 104 535.2 0 104 122 80 535.2 0 80 123 97 535.2 0 97 124 132 535.2 0 132 125 89 535.2 0 89 126 143 535.2 0 143 127 269 535.2 0 269 128 295 535.2 0 295 129 359 535.2 0 359 130 140 535.2 0 140 131 187 535.2 0 187 132 119 535.2 0 119 133 144 535.2 0 144 134 634 535.2 0 634 135 206 535.2 0 206 136 245 535.2 0 245 137 116 535.2 0 116 138 137 535.2 0 137 139 243 535.2 0 243 140 278 535.2 0 278 141 500 535.2 0 500 142 468 535.2 0 468 143 759 535.2 0 759 144 1248 535.2 0 1248 145 1604 535.2 0 1604 146 19903 535.2 0 19903 147 17381 535.2 0 17381 148 24575 535.2 0 24575 149 584 535.2 0 584 150 424 535.2 0 424 151 1501 535.2 0 1501 152 808 535.2 0 808 153 1711 535.2 0 1711 154 490 535.2 0 490 155 716 535.2 0 716 156 659 535.2 0 659 157 900 535.2 0 900 158 1353 535.2 0 1353 159 2267 535.2 0 2267 160 3820 535.2 0 3820 161 47504 535.2 0 47504 162 31242 535.2 0 31242 163 39885 535.2 0 39885 164 240 535.2 0 240 165 138 535.2 0 138 166 139 535.2 0 139 167 175 535.2 0 175 168 152 535.2 0 152 169 96 535.2 0 96 170 70 535.2 0 70 171 63 535.2 0 63 172 103 535.2 0 103 173 130 535.2 0 130 174 612 535.2 0 612 175 427 535.2 0 427 176 550 535.2 0 550 177 178 535.2 0 178 178 110 535.2 0 110 179 99 535.2 0 99 180 204 535.2 0 204 181 995 535.2 0 995 182 2250 535.2 0 2250 183 1989 535.2 0 1989 184 820 535.2 0 820 185 97 535.2 0 97 186 205 535.2 0 205 187 258 535.2 0 258 188 168 535.2 0 168 189 124 535.2 0 124 190 66 535.2 0 66 191 58 535.2 0 58 192 79 535.2 0 79 193 103 535.2 0 103 194 90 535.2 0 90 195 81 535.2 0 81 196 90 535.2 0 90 197 86 535.2 0 86 198 78 535.2 0 78 199 75 535.2 0 75 200 97 535.2 0 97 201 75 535.2 0 75 202 72 535.2 0 72 203 71 535.2 0 71 204 66 535.2 0 66 205 107 535.2 0 107 206 100 535.2 0 100 207 111 535.2 0 111 208 86 535.2 0 86 209 107 535.2 0 107 210 64 535.2 0 64 211 94 535.2 0 94 212 96 535.2 0 96 213 183 535.2 0 183 214 199 535.2 0 199 215 245 535.2 0 245 216 194 535.2 0 194 217 99 535.2 0 99 218 115 535.2 0 115 219 124 535.2 0 124 220 189 535.2 0 189 221 137 535.2 0 137 222 122 535.2 0 122 223 88 535.2 0 88 224 97 535.2 0 97 225 87 535.2 0 87 226 95 535.2 0 95 227 87 535.2 0 87 228 80 535.2 0 80 229 88 535.2 0 88 230 92 535.2 0 92 231 160 535.2 0 160 232 181 535.2 0 181 233 165 535.2 0 165 234 129 535.2 0 129 235 126 535.2 0 126 236 106 535.2 0 106 237 142 535.2 0 142 238 229 535.2 0 229 239 636 535.2 0 636 240 1805 535.2 0 1805 241 1762 535.2 0 1762 242 1250 535.2 0 1250 243 391 535.2 0 391 244 336 535.2 0 336 245 154 535.2 0 154 246 86 535.2 0 86 247 92 535.2 0 92 248 119 535.2 0 119 249 145 535.2 0 145 250 80 535.2 0 80 251 109 535.2 0 109 252 99 535.2 0 99 253 188 535.2 0 188 254 159 535.2 0 159 255 167 535.2 0 167 256 146 535.2 0 146 257 160 535.2 0 160 258 123 535.2 0 123 259 154 535.2 0 154 260 130 535.2 0 130 261 139 535.2 0 139 262 133 535.2 0 133 263 158 535.2 0 158 264 98 535.2 0 98 265 105 535.2 0 105 266 141 535.2 0 141 267 468 535.2 0 468 268 767 535.2 0 767 269 1310 535.2 0 1310 270 583 535.2 0 583 271 257 535.2 0 257 272 205 535.2 0 205 273 205 535.2 0 205 274 247 535.2 0 247 275 372 535.2 0 372 276 342 535.2 0 342 277 767 535.2 0 767 278 876 535.2 0 876 279 837 535.2 0 837 280 1197 535.2 0 1197 281 617 535.2 0 617 282 464 535.2 0 464 283 305 535.2 0 305 284 172 535.2 0 172 285 120 535.2 0 120 286 122 535.2 0 122 287 107 535.2 0 107 288 238 535.2 0 238 289 180 535.2 0 180 290 276 535.2 0 276 291 169 535.2 0 169 292 224 535.2 0 224 293 232 535.2 0 232 294 342 535.2 0 342 295 346 535.2 0 346 296 296 535.2 0 296 297 118 535.2 0 118 298 108 535.2 0 108 299 89 535.2 0 89 300 96 535.2 0 96 301 156 535.2 0 156 Finished in 7.60 s (33 us/read; 1.84 M reads/minute). === Summary === Total reads processed: 233,700 Reads with adapters: 1,525 (0.7%) Reads that were too short: 35 (0.0%) Reads written (passing filters): 1,490 (0.6%) Total basepairs processed: 35,246,400 bp Total written (filtered): 403,720 bp (1.1%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 1525 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 3 0.0 3 0 0 0 1 2 19 24 0.0 3 0 16 6 1 1 20 1379 0.0 4 1273 87 13 4 2 21 6 0.0 4 1 3 0 2 22 3 0.0 4 0 0 1 0 2 23 38 0.0 4 33 2 0 2 1 28 20 0.0 4 0 0 0 0 20 31 1 0.0 4 0 0 0 0 1 33 2 0.0 4 0 0 0 0 2 35 2 0.0 4 0 0 0 0 2 36 2 0.0 4 0 0 0 0 2 38 1 0.0 4 0 0 0 0 1 44 2 0.0 4 0 0 0 0 2 46 1 0.0 4 0 0 0 0 1 51 2 0.0 4 0 0 0 0 2 56 4 0.0 4 0 0 0 0 4 61 1 0.0 4 0 0 0 0 1 72 1 0.0 4 0 0 0 0 1 79 1 0.0 4 0 0 0 0 1 89 1 0.0 4 0 0 0 0 1 91 1 0.0 4 0 0 0 0 1 104 1 0.0 4 0 0 0 0 1 107 1 0.0 4 1 108 3 0.0 4 0 0 0 0 3 109 2 0.0 4 0 0 0 0 2 123 2 0.0 4 0 0 0 0 2 126 1 0.0 4 0 0 0 0 1 132 1 0.0 4 0 0 0 0 1 133 1 0.0 4 0 0 0 0 1 137 1 0.0 4 0 0 0 0 1 156 1 0.0 4 0 0 0 0 1 158 1 0.0 4 0 0 0 0 1 182 1 0.0 4 0 0 0 1 191 5 0.0 4 0 0 0 0 5 193 1 0.0 4 1 210 1 0.0 4 0 0 0 0 1 213 1 0.0 4 0 0 0 0 1 221 2 0.0 4 0 0 0 0 2 229 1 0.0 4 0 0 0 0 1 236 1 0.0 4 0 0 0 0 1 244 1 0.0 4 0 0 0 0 1 275 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 0.05 s (34 us/read; 1.79 M reads/minute). === Summary === Total reads processed: 1,490 Reads with adapters: 52 (3.5%) Reads written (passing filters): 1,490 (100.0%) Total basepairs processed: 403,720 bp Total written (filtered): 403,092 bp (99.8%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 52 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 19.2% C: 21.2% G: 57.7% T: 1.9% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 13 23.3 0 13 4 2 5.8 0 2 9 4 0.0 0 1 3 10 3 0.0 1 0 3 11 5 0.0 1 1 4 12 23 0.0 1 0 23 13 1 0.0 1 0 1 171 1 0.0 1 1