This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g GGCGCA -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 94.98 s (30 us/read; 2.02 M reads/minute). === Summary === Total reads processed: 3,193,041 Reads with adapters: 452,515 (14.2%) Reads that were too short: 7,446 (0.2%) Reads written (passing filters): 445,069 (13.9%) Total basepairs processed: 961,105,341 bp Total written (filtered): 115,724,836 bp (12.0%) === Adapter 1 === Sequence: GGCGCA; Type: regular 5'; Length: 6; Trimmed: 452515 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 936 779.6 0 936 7 63149 779.6 0 63149 8 3184 779.6 0 3184 9 207 779.6 0 207 10 306 779.6 0 306 11 142 779.6 0 142 12 170 779.6 0 170 13 397 779.6 0 397 14 525 779.6 0 525 15 418 779.6 0 418 16 415 779.6 0 415 17 624 779.6 0 624 18 774 779.6 0 774 19 1105 779.6 0 1105 20 16443 779.6 0 16443 21 31520 779.6 0 31520 22 39238 779.6 0 39238 23 311 779.6 0 311 24 198 779.6 0 198 25 276 779.6 0 276 26 98 779.6 0 98 27 78 779.6 0 78 28 57 779.6 0 57 29 97 779.6 0 97 30 98 779.6 0 98 31 203 779.6 0 203 32 313 779.6 0 313 33 459 779.6 0 459 34 500 779.6 0 500 35 1155 779.6 0 1155 36 2568 779.6 0 2568 37 535 779.6 0 535 38 760 779.6 0 760 39 1399 779.6 0 1399 40 593 779.6 0 593 41 549 779.6 0 549 42 1017 779.6 0 1017 43 915 779.6 0 915 44 1347 779.6 0 1347 45 1316 779.6 0 1316 46 1863 779.6 0 1863 47 2641 779.6 0 2641 48 4011 779.6 0 4011 49 66406 779.6 0 66406 50 86536 779.6 0 86536 51 93772 779.6 0 93772 52 398 779.6 0 398 53 20 779.6 0 20 54 20 779.6 0 20 55 18 779.6 0 18 56 39 779.6 0 39 57 52 779.6 0 52 58 22 779.6 0 22 59 24 779.6 0 24 60 15 779.6 0 15 61 22 779.6 0 22 62 52 779.6 0 52 63 442 779.6 0 442 64 794 779.6 0 794 65 629 779.6 0 629 66 12 779.6 0 12 67 5 779.6 0 5 68 9 779.6 0 9 69 8 779.6 0 8 70 10 779.6 0 10 71 8 779.6 0 8 72 17 779.6 0 17 73 7 779.6 0 7 74 10 779.6 0 10 75 10 779.6 0 10 76 12 779.6 0 12 77 6 779.6 0 6 78 7 779.6 0 7 79 8 779.6 0 8 80 12 779.6 0 12 81 17 779.6 0 17 82 19 779.6 0 19 83 5 779.6 0 5 84 27 779.6 0 27 85 42 779.6 0 42 86 37 779.6 0 37 87 5 779.6 0 5 88 31 779.6 0 31 89 21 779.6 0 21 90 11 779.6 0 11 91 7 779.6 0 7 92 11 779.6 0 11 93 10 779.6 0 10 94 15 779.6 0 15 95 14 779.6 0 14 96 12 779.6 0 12 97 8 779.6 0 8 98 10 779.6 0 10 99 9 779.6 0 9 100 6 779.6 0 6 101 9 779.6 0 9 102 10 779.6 0 10 103 7 779.6 0 7 104 6 779.6 0 6 105 9 779.6 0 9 106 10 779.6 0 10 107 9 779.6 0 9 108 7 779.6 0 7 109 8 779.6 0 8 110 3 779.6 0 3 111 11 779.6 0 11 112 8 779.6 0 8 113 10 779.6 0 10 114 6 779.6 0 6 115 8 779.6 0 8 116 6 779.6 0 6 117 33 779.6 0 33 118 72 779.6 0 72 119 111 779.6 0 111 120 52 779.6 0 52 121 9 779.6 0 9 122 24 779.6 0 24 123 16 779.6 0 16 124 93 779.6 0 93 125 69 779.6 0 69 126 35 779.6 0 35 127 12 779.6 0 12 128 47 779.6 0 47 129 8 779.6 0 8 130 27 779.6 0 27 131 62 779.6 0 62 132 20 779.6 0 20 133 8 779.6 0 8 134 7 779.6 0 7 135 4 779.6 0 4 136 2 779.6 0 2 137 3 779.6 0 3 138 12 779.6 0 12 139 18 779.6 0 18 140 18 779.6 0 18 141 11 779.6 0 11 142 13 779.6 0 13 143 11 779.6 0 11 144 25 779.6 0 25 145 12 779.6 0 12 146 12 779.6 0 12 147 9 779.6 0 9 148 13 779.6 0 13 149 7 779.6 0 7 150 6 779.6 0 6 151 5 779.6 0 5 152 16 779.6 0 16 153 7 779.6 0 7 154 9 779.6 0 9 155 13 779.6 0 13 156 11 779.6 0 11 157 43 779.6 0 43 158 24 779.6 0 24 159 43 779.6 0 43 160 12 779.6 0 12 161 11 779.6 0 11 162 6 779.6 0 6 163 5 779.6 0 5 164 5 779.6 0 5 165 8 779.6 0 8 166 9 779.6 0 9 167 17 779.6 0 17 168 8 779.6 0 8 169 16 779.6 0 16 170 20 779.6 0 20 171 14 779.6 0 14 172 16 779.6 0 16 173 11 779.6 0 11 174 13 779.6 0 13 175 16 779.6 0 16 176 25 779.6 0 25 177 23 779.6 0 23 178 32 779.6 0 32 179 48 779.6 0 48 180 83 779.6 0 83 181 57 779.6 0 57 182 460 779.6 0 460 183 625 779.6 0 625 184 547 779.6 0 547 185 42 779.6 0 42 186 28 779.6 0 28 187 43 779.6 0 43 188 34 779.6 0 34 189 48 779.6 0 48 190 74 779.6 0 74 191 95 779.6 0 95 192 178 779.6 0 178 193 2741 779.6 0 2741 194 1948 779.6 0 1948 195 2577 779.6 0 2577 196 1073 779.6 0 1073 197 198 779.6 0 198 198 51 779.6 0 51 199 11 779.6 0 11 200 14 779.6 0 14 201 19 779.6 0 19 202 8 779.6 0 8 203 10 779.6 0 10 204 8 779.6 0 8 205 23 779.6 0 23 206 49 779.6 0 49 207 17 779.6 0 17 208 21 779.6 0 21 209 13 779.6 0 13 210 35 779.6 0 35 211 11 779.6 0 11 212 19 779.6 0 19 213 183 779.6 0 183 214 132 779.6 0 132 215 241 779.6 0 241 216 164 779.6 0 164 217 45 779.6 0 45 218 69 779.6 0 69 219 117 779.6 0 117 220 85 779.6 0 85 221 82 779.6 0 82 222 95 779.6 0 95 223 17 779.6 0 17 224 18 779.6 0 18 225 36 779.6 0 36 226 28 779.6 0 28 227 66 779.6 0 66 228 17 779.6 0 17 229 18 779.6 0 18 230 18 779.6 0 18 231 10 779.6 0 10 232 12 779.6 0 12 233 25 779.6 0 25 234 26 779.6 0 26 235 23 779.6 0 23 236 80 779.6 0 80 237 44 779.6 0 44 238 37 779.6 0 37 239 74 779.6 0 74 240 261 779.6 0 261 241 196 779.6 0 196 242 64 779.6 0 64 243 8 779.6 0 8 244 16 779.6 0 16 245 48 779.6 0 48 246 97 779.6 0 97 247 91 779.6 0 91 248 50 779.6 0 50 249 28 779.6 0 28 250 110 779.6 0 110 251 168 779.6 0 168 252 191 779.6 0 191 253 68 779.6 0 68 254 50 779.6 0 50 255 41 779.6 0 41 256 44 779.6 0 44 257 51 779.6 0 51 258 32 779.6 0 32 259 38 779.6 0 38 260 14 779.6 0 14 261 28 779.6 0 28 262 14 779.6 0 14 263 84 779.6 0 84 264 160 779.6 0 160 265 448 779.6 0 448 266 128 779.6 0 128 267 118 779.6 0 118 268 68 779.6 0 68 269 24 779.6 0 24 270 22 779.6 0 22 271 9 779.6 0 9 272 15 779.6 0 15 273 8 779.6 0 8 274 14 779.6 0 14 275 33 779.6 0 33 276 18 779.6 0 18 277 28 779.6 0 28 278 43 779.6 0 43 279 30 779.6 0 30 280 28 779.6 0 28 281 29 779.6 0 29 282 21 779.6 0 21 283 52 779.6 0 52 284 65 779.6 0 65 285 124 779.6 0 124 286 104 779.6 0 104 287 32 779.6 0 32 288 241 779.6 0 241 289 756 779.6 0 756 290 534 779.6 0 534 291 66 779.6 0 66 292 36 779.6 0 36 293 94 779.6 0 94 294 160 779.6 0 160 295 67 779.6 0 67 296 11 779.6 0 11 297 12 779.6 0 12 298 10 779.6 0 10 299 12 779.6 0 12 300 40 779.6 0 40 301 18 779.6 0 18 Finished in 24.44 s (55 us/read; 1.09 M reads/minute). === Summary === Total reads processed: 445,069 Reads with adapters: 5,828 (1.3%) Reads that were too short: 223 (0.1%) Reads written (passing filters): 5,605 (1.3%) Total basepairs processed: 115,724,836 bp Total written (filtered): 1,257,312 bp (1.1%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 5828 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 50 0.0 3 0 40 3 2 5 20 2972 0.0 4 2903 56 7 4 2 21 9 0.0 4 1 6 1 0 1 22 5 0.0 4 0 0 3 1 1 23 2 0.0 4 0 0 0 1 1 28 2 0.0 4 0 0 0 0 2 41 1 0.0 4 0 0 0 0 1 43 1 0.0 4 1 49 1 0.0 4 0 0 0 0 1 52 1 0.0 4 0 0 0 0 1 76 1 0.0 4 0 0 0 0 1 79 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 84 1 0.0 4 0 0 0 0 1 85 910 0.0 4 0 0 0 0 910 97 7 0.0 4 0 0 0 0 7 110 6 0.0 4 0 0 0 0 6 111 1 0.0 4 0 0 0 0 1 112 2 0.0 4 0 0 0 0 2 113 1 0.0 4 0 0 0 0 1 114 309 0.0 4 0 0 0 0 309 115 1 0.0 4 0 1 124 1 0.0 4 0 0 0 0 1 125 3 0.0 4 0 0 0 0 3 126 22 0.0 4 0 0 0 0 22 127 1274 0.0 4 0 0 0 0 1274 128 3 0.0 4 0 0 0 0 3 129 1 0.0 4 0 0 0 0 1 130 1 0.0 4 0 0 0 0 1 139 1 0.0 4 0 0 0 0 1 140 7 0.0 4 0 0 0 0 7 147 2 0.0 4 0 0 0 0 2 153 5 0.0 4 0 0 0 0 5 160 1 0.0 4 0 0 0 0 1 166 1 0.0 4 0 0 0 0 1 167 1 0.0 4 0 0 0 0 1 170 1 0.0 4 0 0 0 0 1 180 1 0.0 4 0 0 0 0 1 182 1 0.0 4 0 0 0 0 1 183 4 0.0 4 0 0 0 0 4 185 1 0.0 4 0 0 0 0 1 186 16 0.0 4 0 0 0 0 16 187 2 0.0 4 0 0 0 0 2 188 1 0.0 4 0 0 0 0 1 190 2 0.0 4 0 0 0 0 2 192 1 0.0 4 0 0 0 0 1 193 1 0.0 4 0 0 0 0 1 203 1 0.0 4 0 0 0 0 1 212 3 0.0 4 0 0 0 0 3 214 2 0.0 4 0 1 0 0 1 215 6 0.0 4 0 0 0 0 6 216 11 0.0 4 0 0 0 1 10 218 30 0.0 4 0 0 0 0 30 221 4 0.0 4 0 0 0 0 4 222 3 0.0 4 0 0 0 0 3 223 5 0.0 4 0 0 0 1 4 224 1 0.0 4 0 0 0 0 1 225 1 0.0 4 0 0 0 0 1 227 1 0.0 4 0 0 0 1 228 6 0.0 4 0 0 0 0 6 229 1 0.0 4 0 0 0 0 1 233 1 0.0 4 0 0 0 0 1 240 6 0.0 4 0 0 0 0 6 241 2 0.0 4 0 0 0 0 2 242 1 0.0 4 0 0 0 0 1 243 4 0.0 4 0 0 0 0 4 244 4 0.0 4 0 0 0 0 4 245 13 0.0 4 0 0 0 1 12 246 4 0.0 4 0 0 0 0 4 247 7 0.0 4 0 0 0 0 7 248 6 0.0 4 0 0 0 0 6 249 13 0.0 4 0 0 0 0 13 250 6 0.0 4 0 0 0 0 6 251 4 0.0 4 0 0 0 0 4 252 6 0.0 4 0 0 0 0 6 253 1 0.0 4 0 0 0 0 1 255 2 0.0 4 0 0 0 0 2 257 6 0.0 4 0 0 0 0 6 258 4 0.0 4 0 0 0 0 4 260 3 0.0 4 0 0 0 0 3 262 1 0.0 4 0 0 0 0 1 269 2 0.0 4 0 0 0 0 2 270 2 0.0 4 0 0 0 0 2 271 1 0.0 4 0 0 0 0 1 272 2 0.0 4 0 0 0 0 2 274 1 0.0 4 0 0 0 0 1 275 1 0.0 4 0 0 0 0 1 277 1 0.0 4 0 0 0 0 1 278 1 0.0 4 0 0 0 0 1 280 1 0.0 4 0 0 0 0 1 281 1 0.0 4 0 0 0 0 1 282 1 0.0 4 0 0 0 0 1 289 1 0.0 4 0 0 0 0 1 294 3 0.0 4 0 0 0 0 3 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 0.20 s (36 us/read; 1.68 M reads/minute). === Summary === Total reads processed: 5,605 Reads with adapters: 2,107 (37.6%) Reads written (passing filters): 5,605 (100.0%) Total basepairs processed: 1,257,312 bp Total written (filtered): 748,377 bp (59.5%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 2107 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 0.6% C: 0.1% G: 11.2% T: 0.3% none/other: 87.8% Overview of removed sequences length count expect max.err error counts 3 2 87.6 0 2 4 10 21.9 0 10 9 1 0.0 0 0 1 11 240 0.0 1 0 240 268 1 0.0 1 1 271 1 0.0 1 1 272 5 0.0 1 4 1 273 1758 0.0 1 1676 82 274 68 0.0 1 63 5 275 21 0.0 1 21