This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TTCCTT -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 87.84 s (25 us/read; 2.37 M reads/minute). === Summary === Total reads processed: 3,465,239 Reads with adapters: 81,866 (2.4%) Reads that were too short: 17,143 (0.5%) Reads written (passing filters): 64,723 (1.9%) Total basepairs processed: 1,043,036,939 bp Total written (filtered): 13,261,676 bp (1.3%) === Adapter 1 === Sequence: TTCCTT; Type: regular 5'; Length: 6; Trimmed: 81866 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 70 846.0 0 70 7 73 846.0 0 73 8 187 846.0 0 187 9 8638 846.0 0 8638 10 38 846.0 0 38 11 25 846.0 0 25 12 29 846.0 0 29 13 18 846.0 0 18 14 30 846.0 0 30 15 22 846.0 0 22 16 29 846.0 0 29 17 23 846.0 0 23 18 54 846.0 0 54 19 24 846.0 0 24 20 32 846.0 0 32 21 16 846.0 0 16 22 33 846.0 0 33 23 28 846.0 0 28 24 19 846.0 0 19 25 36 846.0 0 36 26 35 846.0 0 35 27 19 846.0 0 19 28 25 846.0 0 25 29 43 846.0 0 43 30 33 846.0 0 33 31 46 846.0 0 46 32 62 846.0 0 62 33 94 846.0 0 94 34 41 846.0 0 41 35 38 846.0 0 38 36 35 846.0 0 35 37 21 846.0 0 21 38 56 846.0 0 56 39 705 846.0 0 705 40 217 846.0 0 217 41 24 846.0 0 24 42 55 846.0 0 55 43 33 846.0 0 33 44 25 846.0 0 25 45 23 846.0 0 23 46 31 846.0 0 31 47 41 846.0 0 41 48 41 846.0 0 41 49 37 846.0 0 37 50 53 846.0 0 53 51 41 846.0 0 41 52 94 846.0 0 94 53 55 846.0 0 55 54 620 846.0 0 620 55 116 846.0 0 116 56 51 846.0 0 51 57 152 846.0 0 152 58 35 846.0 0 35 59 60 846.0 0 60 60 62 846.0 0 62 61 1703 846.0 0 1703 62 59 846.0 0 59 63 111 846.0 0 111 64 121 846.0 0 121 65 453 846.0 0 453 66 574 846.0 0 574 67 186 846.0 0 186 68 28 846.0 0 28 69 28 846.0 0 28 70 38 846.0 0 38 71 55 846.0 0 55 72 87 846.0 0 87 73 34 846.0 0 34 74 32 846.0 0 32 75 28 846.0 0 28 76 68 846.0 0 68 77 74 846.0 0 74 78 37 846.0 0 37 79 53 846.0 0 53 80 26 846.0 0 26 81 44 846.0 0 44 82 95 846.0 0 95 83 100 846.0 0 100 84 400 846.0 0 400 85 178 846.0 0 178 86 1187 846.0 0 1187 87 809 846.0 0 809 88 535 846.0 0 535 89 137 846.0 0 137 90 261 846.0 0 261 91 45 846.0 0 45 92 72 846.0 0 72 93 171 846.0 0 171 94 202 846.0 0 202 95 80 846.0 0 80 96 91 846.0 0 91 97 88 846.0 0 88 98 179 846.0 0 179 99 161 846.0 0 161 100 206 846.0 0 206 101 313 846.0 0 313 102 358 846.0 0 358 103 9761 846.0 0 9761 104 13621 846.0 0 13621 105 3643 846.0 0 3643 106 262 846.0 0 262 107 308 846.0 0 308 108 125 846.0 0 125 109 99 846.0 0 99 110 174 846.0 0 174 111 79 846.0 0 79 112 108 846.0 0 108 113 71 846.0 0 71 114 57 846.0 0 57 115 57 846.0 0 57 116 48 846.0 0 48 117 69 846.0 0 69 118 85 846.0 0 85 119 235 846.0 0 235 120 107 846.0 0 107 121 89 846.0 0 89 122 78 846.0 0 78 123 67 846.0 0 67 124 123 846.0 0 123 125 192 846.0 0 192 126 158 846.0 0 158 127 154 846.0 0 154 128 89 846.0 0 89 129 75 846.0 0 75 130 87 846.0 0 87 131 66 846.0 0 66 132 246 846.0 0 246 133 245 846.0 0 245 134 245 846.0 0 245 135 129 846.0 0 129 136 104 846.0 0 104 137 74 846.0 0 74 138 170 846.0 0 170 139 478 846.0 0 478 140 388 846.0 0 388 141 146 846.0 0 146 142 56 846.0 0 56 143 206 846.0 0 206 144 294 846.0 0 294 145 353 846.0 0 353 146 141 846.0 0 141 147 78 846.0 0 78 148 74 846.0 0 74 149 166 846.0 0 166 150 304 846.0 0 304 151 205 846.0 0 205 152 218 846.0 0 218 153 260 846.0 0 260 154 171 846.0 0 171 155 155 846.0 0 155 156 113 846.0 0 113 157 158 846.0 0 158 158 237 846.0 0 237 159 185 846.0 0 185 160 213 846.0 0 213 161 97 846.0 0 97 162 60 846.0 0 60 163 104 846.0 0 104 164 238 846.0 0 238 165 202 846.0 0 202 166 94 846.0 0 94 167 86 846.0 0 86 168 145 846.0 0 145 169 96 846.0 0 96 170 86 846.0 0 86 171 174 846.0 0 174 172 490 846.0 0 490 173 485 846.0 0 485 174 110 846.0 0 110 175 68 846.0 0 68 176 82 846.0 0 82 177 76 846.0 0 76 178 356 846.0 0 356 179 282 846.0 0 282 180 378 846.0 0 378 181 139 846.0 0 139 182 76 846.0 0 76 183 88 846.0 0 88 184 222 846.0 0 222 185 424 846.0 0 424 186 212 846.0 0 212 187 82 846.0 0 82 188 91 846.0 0 91 189 267 846.0 0 267 190 507 846.0 0 507 191 211 846.0 0 211 192 66 846.0 0 66 193 58 846.0 0 58 194 64 846.0 0 64 195 48 846.0 0 48 196 45 846.0 0 45 197 71 846.0 0 71 198 70 846.0 0 70 199 76 846.0 0 76 200 126 846.0 0 126 201 122 846.0 0 122 202 86 846.0 0 86 203 83 846.0 0 83 204 213 846.0 0 213 205 394 846.0 0 394 206 544 846.0 0 544 207 585 846.0 0 585 208 434 846.0 0 434 209 163 846.0 0 163 210 124 846.0 0 124 211 246 846.0 0 246 212 185 846.0 0 185 213 187 846.0 0 187 214 230 846.0 0 230 215 250 846.0 0 250 216 172 846.0 0 172 217 125 846.0 0 125 218 151 846.0 0 151 219 316 846.0 0 316 220 250 846.0 0 250 221 298 846.0 0 298 222 78 846.0 0 78 223 189 846.0 0 189 224 235 846.0 0 235 225 302 846.0 0 302 226 163 846.0 0 163 227 183 846.0 0 183 228 156 846.0 0 156 229 166 846.0 0 166 230 149 846.0 0 149 231 134 846.0 0 134 232 80 846.0 0 80 233 262 846.0 0 262 234 197 846.0 0 197 235 212 846.0 0 212 236 145 846.0 0 145 237 80 846.0 0 80 238 69 846.0 0 69 239 80 846.0 0 80 240 122 846.0 0 122 241 137 846.0 0 137 242 115 846.0 0 115 243 92 846.0 0 92 244 97 846.0 0 97 245 99 846.0 0 99 246 109 846.0 0 109 247 66 846.0 0 66 248 47 846.0 0 47 249 35 846.0 0 35 250 42 846.0 0 42 251 79 846.0 0 79 252 87 846.0 0 87 253 121 846.0 0 121 254 152 846.0 0 152 255 206 846.0 0 206 256 373 846.0 0 373 257 207 846.0 0 207 258 130 846.0 0 130 259 675 846.0 0 675 260 816 846.0 0 816 261 689 846.0 0 689 262 557 846.0 0 557 263 706 846.0 0 706 264 125 846.0 0 125 265 218 846.0 0 218 266 199 846.0 0 199 267 118 846.0 0 118 268 55 846.0 0 55 269 30 846.0 0 30 270 34 846.0 0 34 271 28 846.0 0 28 272 54 846.0 0 54 273 69 846.0 0 69 274 96 846.0 0 96 275 109 846.0 0 109 276 78 846.0 0 78 277 65 846.0 0 65 278 96 846.0 0 96 279 493 846.0 0 493 280 181 846.0 0 181 281 143 846.0 0 143 282 79 846.0 0 79 283 93 846.0 0 93 284 133 846.0 0 133 285 81 846.0 0 81 286 70 846.0 0 70 287 133 846.0 0 133 288 97 846.0 0 97 289 50 846.0 0 50 290 36 846.0 0 36 291 28 846.0 0 28 292 38 846.0 0 38 293 60 846.0 0 60 294 31 846.0 0 31 295 34 846.0 0 34 296 27 846.0 0 27 297 27 846.0 0 27 298 25 846.0 0 25 299 28 846.0 0 28 300 53 846.0 0 53 301 154 846.0 0 154 Finished in 2.65 s (41 us/read; 1.47 M reads/minute). === Summary === Total reads processed: 64,723 Reads with adapters: 8,750 (13.5%) Reads that were too short: 5 (0.0%) Reads written (passing filters): 8,745 (13.5%) Total basepairs processed: 13,261,676 bp Total written (filtered): 2,378,744 bp (17.9%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 8750 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 3 19 35 0.0 3 0 35 20 8672 0.0 4 8544 124 4 21 28 0.0 4 3 25 22 1 0.0 4 0 0 1 23 3 0.0 4 0 0 0 2 1 24 2 0.0 4 0 0 0 0 2 31 1 0.0 4 0 0 0 0 1 99 1 0.0 4 0 0 0 0 1 131 1 0.0 4 0 0 0 0 1 152 1 0.0 4 0 0 0 0 1 193 1 0.0 4 0 0 0 0 1 210 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 0.29 s (33 us/read; 1.81 M reads/minute). === Summary === Total reads processed: 8,745 Reads with adapters: 186 (2.1%) Reads written (passing filters): 8,745 (100.0%) Total basepairs processed: 2,378,744 bp Total written (filtered): 2,376,436 bp (99.9%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 186 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 3.2% C: 1.6% G: 95.2% T: 0.0% 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 4 4 34.2 0 4 5 1 8.5 0 1 9 13 0.0 0 0 13 10 147 0.0 1 4 143 11 18 0.0 1 0 18 70 1 0.0 1 1 169 1 0.0 1 1 263 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.