This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CAGAGC -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 75.15 s (26 us/read; 2.28 M reads/minute). === Summary === Total reads processed: 2,852,348 Reads with adapters: 303,231 (10.6%) Reads that were too short: 34,772 (1.2%) Reads written (passing filters): 268,459 (9.4%) Total basepairs processed: 858,556,748 bp Total written (filtered): 76,800,490 bp (8.9%) === Adapter 1 === Sequence: CAGAGC; Type: regular 5'; Length: 6; Trimmed: 303231 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 9372 696.4 0 9372 7 115087 696.4 0 115087 8 2142 696.4 0 2142 9 124194 696.4 0 124194 10 125 696.4 0 125 11 78 696.4 0 78 12 45 696.4 0 45 13 7 696.4 0 7 14 10 696.4 0 10 15 9 696.4 0 9 16 6 696.4 0 6 17 20 696.4 0 20 18 4 696.4 0 4 19 8 696.4 0 8 20 8 696.4 0 8 21 3 696.4 0 3 22 13 696.4 0 13 23 12 696.4 0 12 24 26 696.4 0 26 25 14 696.4 0 14 26 14 696.4 0 14 27 51 696.4 0 51 28 60 696.4 0 60 29 271 696.4 0 271 30 11 696.4 0 11 31 6 696.4 0 6 32 23 696.4 0 23 33 3 696.4 0 3 34 13 696.4 0 13 35 22 696.4 0 22 36 44 696.4 0 44 37 35 696.4 0 35 38 24 696.4 0 24 39 18 696.4 0 18 40 11 696.4 0 11 41 11 696.4 0 11 42 40 696.4 0 40 43 2 696.4 0 2 44 13 696.4 0 13 45 23 696.4 0 23 46 19 696.4 0 19 47 13 696.4 0 13 48 24 696.4 0 24 49 12 696.4 0 12 50 15 696.4 0 15 51 43 696.4 0 43 52 33 696.4 0 33 53 35 696.4 0 35 54 28 696.4 0 28 55 30 696.4 0 30 56 7 696.4 0 7 57 15 696.4 0 15 58 16 696.4 0 16 59 19 696.4 0 19 60 39 696.4 0 39 61 133 696.4 0 133 62 1012 696.4 0 1012 63 404 696.4 0 404 64 411 696.4 0 411 65 45 696.4 0 45 66 62 696.4 0 62 67 37 696.4 0 37 68 27 696.4 0 27 69 35 696.4 0 35 70 27 696.4 0 27 71 22 696.4 0 22 72 56 696.4 0 56 73 120 696.4 0 120 74 104 696.4 0 104 75 59 696.4 0 59 76 81 696.4 0 81 77 104 696.4 0 104 78 1326 696.4 0 1326 79 1556 696.4 0 1556 80 1110 696.4 0 1110 81 82 696.4 0 82 82 235 696.4 0 235 83 204 696.4 0 204 84 24 696.4 0 24 85 44 696.4 0 44 86 49 696.4 0 49 87 39 696.4 0 39 88 16 696.4 0 16 89 11 696.4 0 11 90 35 696.4 0 35 91 17 696.4 0 17 92 46 696.4 0 46 93 64 696.4 0 64 94 24 696.4 0 24 95 15 696.4 0 15 96 26 696.4 0 26 97 9 696.4 0 9 98 13 696.4 0 13 99 10 696.4 0 10 100 12 696.4 0 12 101 19 696.4 0 19 102 19 696.4 0 19 103 14 696.4 0 14 104 14 696.4 0 14 105 13 696.4 0 13 106 10 696.4 0 10 107 15 696.4 0 15 108 16 696.4 0 16 109 57 696.4 0 57 110 42 696.4 0 42 111 42 696.4 0 42 112 20 696.4 0 20 113 25 696.4 0 25 114 28 696.4 0 28 115 123 696.4 0 123 116 127 696.4 0 127 117 158 696.4 0 158 118 55 696.4 0 55 119 22 696.4 0 22 120 46 696.4 0 46 121 51 696.4 0 51 122 56 696.4 0 56 123 100 696.4 0 100 124 51 696.4 0 51 125 132 696.4 0 132 126 78 696.4 0 78 127 81 696.4 0 81 128 37 696.4 0 37 129 61 696.4 0 61 130 62 696.4 0 62 131 77 696.4 0 77 132 182 696.4 0 182 133 24 696.4 0 24 134 22 696.4 0 22 135 39 696.4 0 39 136 37 696.4 0 37 137 53 696.4 0 53 138 28 696.4 0 28 139 30 696.4 0 30 140 43 696.4 0 43 141 43 696.4 0 43 142 75 696.4 0 75 143 65 696.4 0 65 144 259 696.4 0 259 145 175 696.4 0 175 146 179 696.4 0 179 147 49 696.4 0 49 148 51 696.4 0 51 149 50 696.4 0 50 150 55 696.4 0 55 151 49 696.4 0 49 152 50 696.4 0 50 153 47 696.4 0 47 154 39 696.4 0 39 155 56 696.4 0 56 156 59 696.4 0 59 157 49 696.4 0 49 158 69 696.4 0 69 159 32 696.4 0 32 160 46 696.4 0 46 161 41 696.4 0 41 162 58 696.4 0 58 163 45 696.4 0 45 164 57 696.4 0 57 165 72 696.4 0 72 166 92 696.4 0 92 167 82 696.4 0 82 168 66 696.4 0 66 169 207 696.4 0 207 170 64 696.4 0 64 171 59 696.4 0 59 172 61 696.4 0 61 173 51 696.4 0 51 174 61 696.4 0 61 175 57 696.4 0 57 176 61 696.4 0 61 177 45 696.4 0 45 178 75 696.4 0 75 179 77 696.4 0 77 180 99 696.4 0 99 181 335 696.4 0 335 182 269 696.4 0 269 183 634 696.4 0 634 184 63 696.4 0 63 185 124 696.4 0 124 186 185 696.4 0 185 187 168 696.4 0 168 188 86 696.4 0 86 189 76 696.4 0 76 190 172 696.4 0 172 191 147 696.4 0 147 192 213 696.4 0 213 193 104 696.4 0 104 194 109 696.4 0 109 195 80 696.4 0 80 196 132 696.4 0 132 197 129 696.4 0 129 198 195 696.4 0 195 199 125 696.4 0 125 200 82 696.4 0 82 201 63 696.4 0 63 202 53 696.4 0 53 203 79 696.4 0 79 204 142 696.4 0 142 205 109 696.4 0 109 206 95 696.4 0 95 207 60 696.4 0 60 208 87 696.4 0 87 209 146 696.4 0 146 210 155 696.4 0 155 211 135 696.4 0 135 212 139 696.4 0 139 213 155 696.4 0 155 214 162 696.4 0 162 215 175 696.4 0 175 216 227 696.4 0 227 217 1079 696.4 0 1079 218 810 696.4 0 810 219 681 696.4 0 681 220 209 696.4 0 209 221 198 696.4 0 198 222 249 696.4 0 249 223 216 696.4 0 216 224 346 696.4 0 346 225 3352 696.4 0 3352 226 2528 696.4 0 2528 227 4738 696.4 0 4738 228 754 696.4 0 754 229 504 696.4 0 504 230 161 696.4 0 161 231 115 696.4 0 115 232 93 696.4 0 93 233 158 696.4 0 158 234 123 696.4 0 123 235 167 696.4 0 167 236 161 696.4 0 161 237 707 696.4 0 707 238 1010 696.4 0 1010 239 825 696.4 0 825 240 537 696.4 0 537 241 155 696.4 0 155 242 180 696.4 0 180 243 127 696.4 0 127 244 130 696.4 0 130 245 431 696.4 0 431 246 293 696.4 0 293 247 364 696.4 0 364 248 215 696.4 0 215 249 154 696.4 0 154 250 141 696.4 0 141 251 82 696.4 0 82 252 74 696.4 0 74 253 74 696.4 0 74 254 111 696.4 0 111 255 130 696.4 0 130 256 111 696.4 0 111 257 94 696.4 0 94 258 79 696.4 0 79 259 78 696.4 0 78 260 387 696.4 0 387 261 283 696.4 0 283 262 395 696.4 0 395 263 195 696.4 0 195 264 179 696.4 0 179 265 248 696.4 0 248 266 250 696.4 0 250 267 349 696.4 0 349 268 150 696.4 0 150 269 82 696.4 0 82 270 76 696.4 0 76 271 117 696.4 0 117 272 138 696.4 0 138 273 236 696.4 0 236 274 156 696.4 0 156 275 93 696.4 0 93 276 105 696.4 0 105 277 256 696.4 0 256 278 321 696.4 0 321 279 396 696.4 0 396 280 235 696.4 0 235 281 174 696.4 0 174 282 136 696.4 0 136 283 91 696.4 0 91 284 114 696.4 0 114 285 313 696.4 0 313 286 550 696.4 0 550 287 989 696.4 0 989 288 566 696.4 0 566 289 153 696.4 0 153 290 165 696.4 0 165 291 192 696.4 0 192 292 174 696.4 0 174 293 130 696.4 0 130 294 166 696.4 0 166 295 168 696.4 0 168 296 195 696.4 0 195 297 176 696.4 0 176 298 171 696.4 0 171 299 264 696.4 0 264 300 263 696.4 0 263 301 312 696.4 0 312 Finished in 13.17 s (49 us/read; 1.22 M reads/minute). === Summary === Total reads processed: 268,459 Reads with adapters: 122,928 (45.8%) Reads that were too short: 135 (0.1%) Reads written (passing filters): 122,793 (45.7%) Total basepairs processed: 76,800,490 bp Total written (filtered): 33,551,981 bp (43.7%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 122928 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 6 0.0 3 0 0 0 3 3 18 29 0.0 3 0 0 13 5 11 19 593 0.0 3 0 450 79 47 17 20 120819 0.0 4 115914 4101 614 142 48 21 253 0.0 4 32 209 11 0 1 22 20 0.0 4 1 0 12 4 3 23 147 0.0 4 2 0 2 114 29 24 2 0.0 4 0 0 0 1 1 25 1 0.0 4 1 27 1 0.0 4 0 0 0 0 1 29 1 0.0 4 0 0 0 0 1 31 1 0.0 4 1 40 1 0.0 4 1 43 1 0.0 4 1 73 1 0.0 4 1 78 1 0.0 4 0 0 0 0 1 87 1 0.0 4 0 0 0 0 1 92 1 0.0 4 0 0 0 0 1 98 1 0.0 4 0 0 0 0 1 99 1 0.0 4 1 103 2 0.0 4 0 0 0 0 2 116 1 0.0 4 1 117 1 0.0 4 1 118 3 0.0 4 1 0 0 0 2 123 1 0.0 4 0 0 0 1 125 1 0.0 4 0 0 0 0 1 126 10 0.0 4 0 0 0 0 10 127 882 0.0 4 0 0 0 0 882 129 2 0.0 4 0 0 0 0 2 130 1 0.0 4 0 0 0 0 1 140 1 0.0 4 1 153 3 0.0 4 0 0 0 1 2 155 1 0.0 4 0 0 0 0 1 176 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 1 184 2 0.0 4 0 0 0 0 2 187 2 0.0 4 0 0 0 0 2 188 2 0.0 4 0 0 0 0 2 190 1 0.0 4 0 0 0 0 1 191 2 0.0 4 0 0 0 0 2 201 1 0.0 4 0 0 0 0 1 202 2 0.0 4 0 0 0 0 2 204 1 0.0 4 0 0 0 0 1 207 1 0.0 4 0 0 0 0 1 209 1 0.0 4 0 0 0 0 1 210 1 0.0 4 0 0 0 0 1 213 1 0.0 4 0 0 0 0 1 214 4 0.0 4 0 0 0 0 4 215 3 0.0 4 0 0 0 0 3 216 1 0.0 4 0 0 0 0 1 217 3 0.0 4 0 0 0 1 2 219 1 0.0 4 0 0 0 0 1 221 2 0.0 4 0 1 0 0 1 222 1 0.0 4 0 0 0 0 1 223 1 0.0 4 0 0 0 0 1 228 14 0.0 4 0 0 0 0 14 229 7 0.0 4 0 0 0 0 7 230 1 0.0 4 0 0 0 0 1 232 17 0.0 4 0 0 0 0 17 233 3 0.0 4 0 0 0 0 3 234 4 0.0 4 0 0 0 0 4 235 3 0.0 4 0 0 0 0 3 236 1 0.0 4 0 0 0 0 1 237 1 0.0 4 0 0 0 0 1 241 1 0.0 4 0 0 0 0 1 242 1 0.0 4 0 0 0 1 245 1 0.0 4 0 0 0 0 1 254 1 0.0 4 0 0 0 0 1 256 1 0.0 4 0 0 0 0 1 257 4 0.0 4 0 0 0 0 4 258 1 0.0 4 0 0 0 0 1 263 6 0.0 4 0 0 0 0 6 264 8 0.0 4 0 0 0 0 8 265 13 0.0 4 0 0 0 1 12 266 3 0.0 4 0 0 0 0 3 267 2 0.0 4 0 0 0 0 2 268 1 0.0 4 0 0 0 0 1 281 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 2 284 1 0.0 4 0 0 0 0 1 288 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 4.31 s (35 us/read; 1.71 M reads/minute). === Summary === Total reads processed: 122,793 Reads with adapters: 13,299 (10.8%) Reads written (passing filters): 122,793 (100.0%) Total basepairs processed: 33,551,981 bp Total written (filtered): 33,375,630 bp (99.5%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 13299 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 6.0% C: 10.0% G: 81.8% 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 3 419 1918.6 0 419 4 48 479.7 0 48 5 4 119.9 0 4 6 1 30.0 0 1 8 3 1.9 0 3 9 34 0.5 0 1 33 10 160 0.1 1 7 153 11 11215 0.0 1 563 10652 12 976 0.0 1 21 955 13 80 0.0 1 1 79 14 13 0.0 1 0 13 15 12 0.0 1 1 11 16 4 0.0 1 0 4 20 146 0.0 1 97 49 21 11 0.0 1 7 4 22 1 0.0 1 1 24 11 0.0 1 8 3 25 1 0.0 1 0 1 74 1 0.0 1 1 80 1 0.0 1 1 123 1 0.0 1 1 152 5 0.0 1 2 3 179 1 0.0 1 0 1 208 1 0.0 1 1 210 133 0.0 1 109 24 211 17 0.0 1 15 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.