This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TGGCGG -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 67.03 s (26 us/read; 2.28 M reads/minute). === Summary === Total reads processed: 2,546,118 Reads with adapters: 231,429 (9.1%) Reads that were too short: 35,772 (1.4%) Reads written (passing filters): 195,657 (7.7%) Total basepairs processed: 766,381,518 bp Total written (filtered): 54,381,025 bp (7.1%) === Adapter 1 === Sequence: TGGCGG; Type: regular 5'; Length: 6; Trimmed: 231429 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 6267 621.6 0 6267 7 40521 621.6 0 40521 8 5183 621.6 0 5183 9 115626 621.6 0 115626 10 184 621.6 0 184 11 88 621.6 0 88 12 69 621.6 0 69 13 87 621.6 0 87 14 93 621.6 0 93 15 74 621.6 0 74 16 70 621.6 0 70 17 118 621.6 0 118 18 173 621.6 0 173 19 172 621.6 0 172 20 82 621.6 0 82 21 93 621.6 0 93 22 69 621.6 0 69 23 81 621.6 0 81 24 72 621.6 0 72 25 78 621.6 0 78 26 67 621.6 0 67 27 86 621.6 0 86 28 57 621.6 0 57 29 81 621.6 0 81 30 69 621.6 0 69 31 81 621.6 0 81 32 75 621.6 0 75 33 81 621.6 0 81 34 84 621.6 0 84 35 62 621.6 0 62 36 59 621.6 0 59 37 83 621.6 0 83 38 78 621.6 0 78 39 104 621.6 0 104 40 105 621.6 0 105 41 79 621.6 0 79 42 112 621.6 0 112 43 93 621.6 0 93 44 97 621.6 0 97 45 84 621.6 0 84 46 112 621.6 0 112 47 595 621.6 0 595 48 441 621.6 0 441 49 604 621.6 0 604 50 164 621.6 0 164 51 73 621.6 0 73 52 87 621.6 0 87 53 80 621.6 0 80 54 65 621.6 0 65 55 93 621.6 0 93 56 93 621.6 0 93 57 86 621.6 0 86 58 86 621.6 0 86 59 173 621.6 0 173 60 166 621.6 0 166 61 199 621.6 0 199 62 105 621.6 0 105 63 90 621.6 0 90 64 77 621.6 0 77 65 86 621.6 0 86 66 66 621.6 0 66 67 71 621.6 0 71 68 73 621.6 0 73 69 103 621.6 0 103 70 95 621.6 0 95 71 96 621.6 0 96 72 132 621.6 0 132 73 69 621.6 0 69 74 83 621.6 0 83 75 70 621.6 0 70 76 122 621.6 0 122 77 294 621.6 0 294 78 261 621.6 0 261 79 156 621.6 0 156 80 78 621.6 0 78 81 87 621.6 0 87 82 102 621.6 0 102 83 106 621.6 0 106 84 537 621.6 0 537 85 294 621.6 0 294 86 421 621.6 0 421 87 62 621.6 0 62 88 64 621.6 0 64 89 90 621.6 0 90 90 51 621.6 0 51 91 95 621.6 0 95 92 83 621.6 0 83 93 71 621.6 0 71 94 82 621.6 0 82 95 75 621.6 0 75 96 47 621.6 0 47 97 96 621.6 0 96 98 53 621.6 0 53 99 60 621.6 0 60 100 61 621.6 0 61 101 75 621.6 0 75 102 57 621.6 0 57 103 53 621.6 0 53 104 59 621.6 0 59 105 60 621.6 0 60 106 75 621.6 0 75 107 69 621.6 0 69 108 67 621.6 0 67 109 66 621.6 0 66 110 62 621.6 0 62 111 100 621.6 0 100 112 251 621.6 0 251 113 258 621.6 0 258 114 279 621.6 0 279 115 147 621.6 0 147 116 76 621.6 0 76 117 207 621.6 0 207 118 113 621.6 0 113 119 88 621.6 0 88 120 64 621.6 0 64 121 63 621.6 0 63 122 71 621.6 0 71 123 94 621.6 0 94 124 103 621.6 0 103 125 227 621.6 0 227 126 87 621.6 0 87 127 154 621.6 0 154 128 191 621.6 0 191 129 183 621.6 0 183 130 208 621.6 0 208 131 167 621.6 0 167 132 342 621.6 0 342 133 351 621.6 0 351 134 527 621.6 0 527 135 279 621.6 0 279 136 176 621.6 0 176 137 160 621.6 0 160 138 150 621.6 0 150 139 190 621.6 0 190 140 224 621.6 0 224 141 2447 621.6 0 2447 142 488 621.6 0 488 143 1897 621.6 0 1897 144 99 621.6 0 99 145 70 621.6 0 70 146 97 621.6 0 97 147 88 621.6 0 88 148 103 621.6 0 103 149 100 621.6 0 100 150 81 621.6 0 81 151 108 621.6 0 108 152 343 621.6 0 343 153 413 621.6 0 413 154 377 621.6 0 377 155 177 621.6 0 177 156 76 621.6 0 76 157 59 621.6 0 59 158 76 621.6 0 76 159 87 621.6 0 87 160 53 621.6 0 53 161 51 621.6 0 51 162 82 621.6 0 82 163 69 621.6 0 69 164 72 621.6 0 72 165 78 621.6 0 78 166 76 621.6 0 76 167 64 621.6 0 64 168 74 621.6 0 74 169 90 621.6 0 90 170 62 621.6 0 62 171 74 621.6 0 74 172 87 621.6 0 87 173 121 621.6 0 121 174 75 621.6 0 75 175 84 621.6 0 84 176 82 621.6 0 82 177 57 621.6 0 57 178 60 621.6 0 60 179 82 621.6 0 82 180 74 621.6 0 74 181 76 621.6 0 76 182 88 621.6 0 88 183 82 621.6 0 82 184 105 621.6 0 105 185 93 621.6 0 93 186 100 621.6 0 100 187 141 621.6 0 141 188 97 621.6 0 97 189 110 621.6 0 110 190 120 621.6 0 120 191 116 621.6 0 116 192 117 621.6 0 117 193 139 621.6 0 139 194 75 621.6 0 75 195 109 621.6 0 109 196 87 621.6 0 87 197 87 621.6 0 87 198 82 621.6 0 82 199 101 621.6 0 101 200 85 621.6 0 85 201 103 621.6 0 103 202 152 621.6 0 152 203 181 621.6 0 181 204 76 621.6 0 76 205 91 621.6 0 91 206 82 621.6 0 82 207 84 621.6 0 84 208 65 621.6 0 65 209 72 621.6 0 72 210 72 621.6 0 72 211 99 621.6 0 99 212 199 621.6 0 199 213 207 621.6 0 207 214 221 621.6 0 221 215 186 621.6 0 186 216 120 621.6 0 120 217 192 621.6 0 192 218 237 621.6 0 237 219 224 621.6 0 224 220 203 621.6 0 203 221 101 621.6 0 101 222 89 621.6 0 89 223 60 621.6 0 60 224 65 621.6 0 65 225 127 621.6 0 127 226 140 621.6 0 140 227 119 621.6 0 119 228 191 621.6 0 191 229 152 621.6 0 152 230 227 621.6 0 227 231 179 621.6 0 179 232 217 621.6 0 217 233 111 621.6 0 111 234 184 621.6 0 184 235 851 621.6 0 851 236 635 621.6 0 635 237 1087 621.6 0 1087 238 601 621.6 0 601 239 591 621.6 0 591 240 254 621.6 0 254 241 150 621.6 0 150 242 103 621.6 0 103 243 183 621.6 0 183 244 161 621.6 0 161 245 365 621.6 0 365 246 304 621.6 0 304 247 358 621.6 0 358 248 253 621.6 0 253 249 168 621.6 0 168 250 191 621.6 0 191 251 168 621.6 0 168 252 886 621.6 0 886 253 463 621.6 0 463 254 537 621.6 0 537 255 437 621.6 0 437 256 921 621.6 0 921 257 796 621.6 0 796 258 417 621.6 0 417 259 139 621.6 0 139 260 226 621.6 0 226 261 208 621.6 0 208 262 152 621.6 0 152 263 117 621.6 0 117 264 114 621.6 0 114 265 102 621.6 0 102 266 125 621.6 0 125 267 82 621.6 0 82 268 115 621.6 0 115 269 98 621.6 0 98 270 98 621.6 0 98 271 144 621.6 0 144 272 348 621.6 0 348 273 507 621.6 0 507 274 353 621.6 0 353 275 367 621.6 0 367 276 102 621.6 0 102 277 85 621.6 0 85 278 118 621.6 0 118 279 128 621.6 0 128 280 185 621.6 0 185 281 141 621.6 0 141 282 212 621.6 0 212 283 361 621.6 0 361 284 472 621.6 0 472 285 576 621.6 0 576 286 474 621.6 0 474 287 562 621.6 0 562 288 313 621.6 0 313 289 209 621.6 0 209 290 241 621.6 0 241 291 246 621.6 0 246 292 239 621.6 0 239 293 302 621.6 0 302 294 241 621.6 0 241 295 263 621.6 0 263 296 458 621.6 0 458 297 550 621.6 0 550 298 2797 621.6 0 2797 299 3071 621.6 0 3071 300 3566 621.6 0 3566 301 960 621.6 0 960 Finished in 10.20 s (52 us/read; 1.15 M reads/minute). === Summary === Total reads processed: 195,657 Reads with adapters: 41,201 (21.1%) Reads that were too short: 40 (0.0%) Reads written (passing filters): 41,161 (21.0%) Total basepairs processed: 54,381,025 bp Total written (filtered): 11,219,543 bp (20.6%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 41201 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 2 0.0 3 0 0 0 0 2 17 15 0.0 3 0 0 0 7 8 18 35 0.0 3 0 0 19 11 5 19 750 0.0 3 0 472 111 111 56 20 38134 0.0 4 31711 4444 1354 450 175 21 175 0.0 4 39 93 13 17 13 22 1170 0.0 4 1036 95 24 6 9 23 323 0.0 4 3 2 0 164 154 24 3 0.0 4 0 0 0 0 3 25 5 0.0 4 0 0 0 3 2 28 2 0.0 4 1 0 0 0 1 30 1 0.0 4 1 33 1 0.0 4 1 36 1 0.0 4 1 39 1 0.0 4 0 0 0 0 1 42 1 0.0 4 0 0 0 0 1 44 1 0.0 4 0 0 0 0 1 46 1 0.0 4 0 0 0 0 1 53 1 0.0 4 0 0 0 0 1 63 1 0.0 4 0 0 0 0 1 64 1 0.0 4 0 0 0 0 1 65 1 0.0 4 0 0 0 0 1 82 1 0.0 4 0 0 0 0 1 87 1 0.0 4 0 0 0 0 1 88 1 0.0 4 0 0 0 1 89 4 0.0 4 0 0 0 0 4 90 1 0.0 4 0 0 0 0 1 91 1 0.0 4 0 0 1 96 1 0.0 4 0 0 0 0 1 113 1 0.0 4 0 0 0 0 1 116 1 0.0 4 0 0 0 1 117 1 0.0 4 0 0 0 0 1 119 1 0.0 4 0 0 0 0 1 124 1 0.0 4 0 0 0 0 1 126 3 0.0 4 0 0 0 0 3 127 510 0.0 4 0 0 0 0 510 128 1 0.0 4 0 0 0 0 1 129 4 0.0 4 0 0 0 0 4 130 4 0.0 4 0 0 0 0 4 136 1 0.0 4 0 0 0 0 1 166 1 0.0 4 0 0 0 0 1 169 5 0.0 4 0 0 0 0 5 170 1 0.0 4 0 0 0 0 1 172 1 0.0 4 0 0 0 0 1 174 1 0.0 4 0 0 0 0 1 187 1 0.0 4 0 0 0 0 1 195 1 0.0 4 0 0 0 0 1 197 1 0.0 4 0 0 0 0 1 207 1 0.0 4 0 0 0 0 1 211 1 0.0 4 0 0 0 0 1 214 1 0.0 4 0 0 0 0 1 215 1 0.0 4 0 0 0 0 1 216 2 0.0 4 0 0 0 0 2 225 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 1 233 1 0.0 4 0 0 0 0 1 235 3 0.0 4 0 0 0 0 3 237 1 0.0 4 0 0 0 0 1 245 1 0.0 4 0 0 0 0 1 262 1 0.0 4 0 0 0 0 1 264 1 0.0 4 0 0 0 0 1 271 1 0.0 4 0 0 0 0 1 275 1 0.0 4 0 0 0 0 1 279 1 0.0 4 0 0 0 0 1 282 3 0.0 4 0 0 0 0 3 283 2 0.0 4 0 0 0 0 2 285 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 1.46 s (35 us/read; 1.69 M reads/minute). === Summary === Total reads processed: 41,161 Reads with adapters: 4,401 (10.7%) Reads written (passing filters): 41,161 (100.0%) Total basepairs processed: 11,219,543 bp Total written (filtered): 11,168,544 bp (99.5%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 4401 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 4.8% C: 10.9% G: 82.1% T: 2.2% 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 3 258 643.1 0 258 4 39 160.8 0 39 5 2 40.2 0 2 8 1 0.6 0 1 9 121 0.2 0 14 107 10 239 0.0 1 19 220 11 2863 0.0 1 63 2800 12 820 0.0 1 14 806 13 24 0.0 1 1 23 14 1 0.0 1 0 1 15 2 0.0 1 0 2 78 1 0.0 1 1 149 1 0.0 1 1 150 1 0.0 1 1 151 1 0.0 1 0 1 152 20 0.0 1 11 9 153 3 0.0 1 1 2 208 1 0.0 1 1 210 2 0.0 1 1 1 228 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.