This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TACTTC -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 91.31 s (30 us/read; 2.03 M reads/minute). === Summary === Total reads processed: 3,094,653 Reads with adapters: 83,937 (2.7%) Reads that were too short: 42,331 (1.4%) Reads written (passing filters): 41,606 (1.3%) Total basepairs processed: 931,490,553 bp Total written (filtered): 7,989,640 bp (0.9%) === Adapter 1 === Sequence: TACTTC; Type: regular 5'; Length: 6; Trimmed: 83937 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1088 755.5 0 1088 7 4491 755.5 0 4491 8 92 755.5 0 92 9 4904 755.5 0 4904 10 7 755.5 0 7 11 4 755.5 0 4 12 7 755.5 0 7 13 6 755.5 0 6 14 8 755.5 0 8 15 6 755.5 0 6 16 4 755.5 0 4 17 13 755.5 0 13 18 11 755.5 0 11 19 7 755.5 0 7 20 10 755.5 0 10 21 7 755.5 0 7 22 4 755.5 0 4 23 8 755.5 0 8 24 8 755.5 0 8 25 3 755.5 0 3 26 10 755.5 0 10 27 10 755.5 0 10 28 2 755.5 0 2 29 11 755.5 0 11 30 6 755.5 0 6 31 13 755.5 0 13 32 15 755.5 0 15 33 9 755.5 0 9 34 4 755.5 0 4 35 2 755.5 0 2 36 4 755.5 0 4 37 8 755.5 0 8 38 11 755.5 0 11 39 15 755.5 0 15 40 4 755.5 0 4 41 6 755.5 0 6 42 7 755.5 0 7 43 7 755.5 0 7 44 10 755.5 0 10 45 3 755.5 0 3 46 3 755.5 0 3 47 4 755.5 0 4 48 2 755.5 0 2 49 9 755.5 0 9 50 8 755.5 0 8 51 7 755.5 0 7 52 9 755.5 0 9 53 4 755.5 0 4 54 13 755.5 0 13 55 10 755.5 0 10 56 308 755.5 0 308 57 45 755.5 0 45 58 33 755.5 0 33 59 14 755.5 0 14 60 5 755.5 0 5 61 5 755.5 0 5 62 22 755.5 0 22 63 7 755.5 0 7 64 4 755.5 0 4 65 4 755.5 0 4 66 6 755.5 0 6 67 5 755.5 0 5 68 5 755.5 0 5 69 15 755.5 0 15 70 12 755.5 0 12 71 16 755.5 0 16 72 14 755.5 0 14 73 19 755.5 0 19 74 3 755.5 0 3 75 10 755.5 0 10 76 6 755.5 0 6 77 11 755.5 0 11 78 10 755.5 0 10 79 34 755.5 0 34 80 12 755.5 0 12 81 42 755.5 0 42 82 42 755.5 0 42 83 96 755.5 0 96 84 48 755.5 0 48 85 34 755.5 0 34 86 33 755.5 0 33 87 189 755.5 0 189 88 105 755.5 0 105 89 313 755.5 0 313 90 87 755.5 0 87 91 27 755.5 0 27 92 94 755.5 0 94 93 82 755.5 0 82 94 64 755.5 0 64 95 29 755.5 0 29 96 25 755.5 0 25 97 27 755.5 0 27 98 30 755.5 0 30 99 122 755.5 0 122 100 234 755.5 0 234 101 51 755.5 0 51 102 106 755.5 0 106 103 195 755.5 0 195 104 253 755.5 0 253 105 349 755.5 0 349 106 181 755.5 0 181 107 61 755.5 0 61 108 71 755.5 0 71 109 148 755.5 0 148 110 22 755.5 0 22 111 29 755.5 0 29 112 48 755.5 0 48 113 54 755.5 0 54 114 49 755.5 0 49 115 32 755.5 0 32 116 65 755.5 0 65 117 86 755.5 0 86 118 95 755.5 0 95 119 79 755.5 0 79 120 180 755.5 0 180 121 172 755.5 0 172 122 158 755.5 0 158 123 63 755.5 0 63 124 71 755.5 0 71 125 52 755.5 0 52 126 69 755.5 0 69 127 39 755.5 0 39 128 37 755.5 0 37 129 92 755.5 0 92 130 83 755.5 0 83 131 109 755.5 0 109 132 91 755.5 0 91 133 145 755.5 0 145 134 157 755.5 0 157 135 195 755.5 0 195 136 91 755.5 0 91 137 105 755.5 0 105 138 131 755.5 0 131 139 214 755.5 0 214 140 1278 755.5 0 1278 141 446 755.5 0 446 142 417 755.5 0 417 143 127 755.5 0 127 144 270 755.5 0 270 145 388 755.5 0 388 146 4909 755.5 0 4909 147 1830 755.5 0 1830 148 1226 755.5 0 1226 149 169 755.5 0 169 150 1769 755.5 0 1769 151 834 755.5 0 834 152 1835 755.5 0 1835 153 129 755.5 0 129 154 97 755.5 0 97 155 141 755.5 0 141 156 1690 755.5 0 1690 157 613 755.5 0 613 158 574 755.5 0 574 159 119 755.5 0 119 160 228 755.5 0 228 161 237 755.5 0 237 162 175 755.5 0 175 163 98 755.5 0 98 164 190 755.5 0 190 165 120 755.5 0 120 166 182 755.5 0 182 167 122 755.5 0 122 168 235 755.5 0 235 169 157 755.5 0 157 170 85 755.5 0 85 171 41 755.5 0 41 172 36 755.5 0 36 173 85 755.5 0 85 174 31 755.5 0 31 175 49 755.5 0 49 176 53 755.5 0 53 177 57 755.5 0 57 178 70 755.5 0 70 179 140 755.5 0 140 180 145 755.5 0 145 181 252 755.5 0 252 182 403 755.5 0 403 183 281 755.5 0 281 184 254 755.5 0 254 185 202 755.5 0 202 186 224 755.5 0 224 187 61 755.5 0 61 188 90 755.5 0 90 189 94 755.5 0 94 190 117 755.5 0 117 191 166 755.5 0 166 192 58 755.5 0 58 193 65 755.5 0 65 194 40 755.5 0 40 195 46 755.5 0 46 196 39 755.5 0 39 197 153 755.5 0 153 198 40 755.5 0 40 199 21 755.5 0 21 200 27 755.5 0 27 201 86 755.5 0 86 202 277 755.5 0 277 203 215 755.5 0 215 204 181 755.5 0 181 205 171 755.5 0 171 206 157 755.5 0 157 207 268 755.5 0 268 208 530 755.5 0 530 209 336 755.5 0 336 210 174 755.5 0 174 211 171 755.5 0 171 212 503 755.5 0 503 213 350 755.5 0 350 214 195 755.5 0 195 215 189 755.5 0 189 216 270 755.5 0 270 217 244 755.5 0 244 218 128 755.5 0 128 219 106 755.5 0 106 220 372 755.5 0 372 221 578 755.5 0 578 222 816 755.5 0 816 223 443 755.5 0 443 224 256 755.5 0 256 225 355 755.5 0 355 226 232 755.5 0 232 227 163 755.5 0 163 228 184 755.5 0 184 229 91 755.5 0 91 230 88 755.5 0 88 231 84 755.5 0 84 232 186 755.5 0 186 233 181 755.5 0 181 234 295 755.5 0 295 235 273 755.5 0 273 236 134 755.5 0 134 237 114 755.5 0 114 238 83 755.5 0 83 239 45 755.5 0 45 240 45 755.5 0 45 241 118 755.5 0 118 242 125 755.5 0 125 243 301 755.5 0 301 244 201 755.5 0 201 245 188 755.5 0 188 246 112 755.5 0 112 247 73 755.5 0 73 248 47 755.5 0 47 249 33 755.5 0 33 250 94 755.5 0 94 251 245 755.5 0 245 252 401 755.5 0 401 253 177 755.5 0 177 254 504 755.5 0 504 255 3049 755.5 0 3049 256 15859 755.5 0 15859 257 2023 755.5 0 2023 258 970 755.5 0 970 259 183 755.5 0 183 260 184 755.5 0 184 261 232 755.5 0 232 262 318 755.5 0 318 263 344 755.5 0 344 264 244 755.5 0 244 265 179 755.5 0 179 266 290 755.5 0 290 267 172 755.5 0 172 268 97 755.5 0 97 269 35 755.5 0 35 270 116 755.5 0 116 271 189 755.5 0 189 272 124 755.5 0 124 273 123 755.5 0 123 274 113 755.5 0 113 275 107 755.5 0 107 276 70 755.5 0 70 277 111 755.5 0 111 278 165 755.5 0 165 279 253 755.5 0 253 280 489 755.5 0 489 281 377 755.5 0 377 282 479 755.5 0 479 283 808 755.5 0 808 284 382 755.5 0 382 285 320 755.5 0 320 286 123 755.5 0 123 287 99 755.5 0 99 288 44 755.5 0 44 289 52 755.5 0 52 290 155 755.5 0 155 291 147 755.5 0 147 292 193 755.5 0 193 293 212 755.5 0 212 294 84 755.5 0 84 295 52 755.5 0 52 296 96 755.5 0 96 297 65 755.5 0 65 298 154 755.5 0 154 299 182 755.5 0 182 300 115 755.5 0 115 301 51 755.5 0 51 Finished in 1.81 s (44 us/read; 1.38 M reads/minute). === Summary === Total reads processed: 41,606 Reads with adapters: 5,529 (13.3%) Reads that were too short: 2 (0.0%) Reads written (passing filters): 5,527 (13.3%) Total basepairs processed: 7,989,640 bp Total written (filtered): 1,511,481 bp (18.9%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 5529 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 17 1 0.0 3 0 0 0 0 1 18 4 0.0 3 0 0 1 1 2 19 43 0.0 3 0 41 0 1 1 20 5232 0.0 4 5098 128 4 1 1 21 23 0.0 4 11 12 23 194 0.0 4 185 5 0 4 67 1 0.0 4 0 0 0 0 1 73 1 0.0 4 0 0 0 0 1 106 1 0.0 4 0 0 0 0 1 122 1 0.0 4 0 0 0 0 1 127 25 0.0 4 0 0 0 0 25 151 1 0.0 4 0 0 0 0 1 153 1 0.0 4 0 0 0 0 1 168 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 0.22 s (40 us/read; 1.51 M reads/minute). === Summary === Total reads processed: 5,527 Reads with adapters: 572 (10.3%) Reads written (passing filters): 5,527 (100.0%) Total basepairs processed: 1,511,481 bp Total written (filtered): 1,365,219 bp (90.3%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 572 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 0.3% C: 0.0% G: 6.5% T: 3.0% none/other: 90.2% Overview of removed sequences length count expect max.err error counts 3 1 86.4 0 1 10 1 0.0 1 0 1 11 37 0.0 1 0 37 12 1 0.0 1 0 1 267 1 0.0 1 1 271 3 0.0 1 3 272 1 0.0 1 1 273 11 0.0 1 11 274 425 0.0 1 399 26 275 91 0.0 1 89 2