This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g GCGAGA -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 57.93 s (26 us/read; 2.27 M reads/minute). === Summary === Total reads processed: 2,192,295 Reads with adapters: 81,499 (3.7%) Reads that were too short: 24,761 (1.1%) Reads written (passing filters): 56,738 (2.6%) Total basepairs processed: 659,880,795 bp Total written (filtered): 12,848,147 bp (1.9%) === Adapter 1 === Sequence: GCGAGA; Type: regular 5'; Length: 6; Trimmed: 81499 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 913 535.2 0 913 7 12074 535.2 0 12074 8 11369 535.2 0 11369 9 32 535.2 0 32 10 42 535.2 0 42 11 48 535.2 0 48 12 42 535.2 0 42 13 23 535.2 0 23 14 37 535.2 0 37 15 25 535.2 0 25 16 21 535.2 0 21 17 31 535.2 0 31 18 20 535.2 0 20 19 25 535.2 0 25 20 26 535.2 0 26 21 29 535.2 0 29 22 27 535.2 0 27 23 35 535.2 0 35 24 22 535.2 0 22 25 32 535.2 0 32 26 31 535.2 0 31 27 43 535.2 0 43 28 35 535.2 0 35 29 33 535.2 0 33 30 80 535.2 0 80 31 100 535.2 0 100 32 39 535.2 0 39 33 31 535.2 0 31 34 34 535.2 0 34 35 34 535.2 0 34 36 30 535.2 0 30 37 56 535.2 0 56 38 30 535.2 0 30 39 27 535.2 0 27 40 60 535.2 0 60 41 33 535.2 0 33 42 36 535.2 0 36 43 51 535.2 0 51 44 51 535.2 0 51 45 49 535.2 0 49 46 47 535.2 0 47 47 54 535.2 0 54 48 66 535.2 0 66 49 114 535.2 0 114 50 1271 535.2 0 1271 51 1251 535.2 0 1251 52 1792 535.2 0 1792 53 39 535.2 0 39 54 47 535.2 0 47 55 28 535.2 0 28 56 24 535.2 0 24 57 30 535.2 0 30 58 45 535.2 0 45 59 35 535.2 0 35 60 43 535.2 0 43 61 52 535.2 0 52 62 45 535.2 0 45 63 46 535.2 0 46 64 83 535.2 0 83 65 61 535.2 0 61 66 59 535.2 0 59 67 52 535.2 0 52 68 57 535.2 0 57 69 33 535.2 0 33 70 37 535.2 0 37 71 51 535.2 0 51 72 62 535.2 0 62 73 101 535.2 0 101 74 634 535.2 0 634 75 887 535.2 0 887 76 1960 535.2 0 1960 77 105 535.2 0 105 78 338 535.2 0 338 79 111 535.2 0 111 80 151 535.2 0 151 81 45 535.2 0 45 82 47 535.2 0 47 83 34 535.2 0 34 84 42 535.2 0 42 85 43 535.2 0 43 86 35 535.2 0 35 87 32 535.2 0 32 88 38 535.2 0 38 89 29 535.2 0 29 90 40 535.2 0 40 91 36 535.2 0 36 92 43 535.2 0 43 93 48 535.2 0 48 94 33 535.2 0 33 95 31 535.2 0 31 96 24 535.2 0 24 97 37 535.2 0 37 98 51 535.2 0 51 99 33 535.2 0 33 100 37 535.2 0 37 101 41 535.2 0 41 102 23 535.2 0 23 103 32 535.2 0 32 104 29 535.2 0 29 105 35 535.2 0 35 106 32 535.2 0 32 107 34 535.2 0 34 108 21 535.2 0 21 109 31 535.2 0 31 110 28 535.2 0 28 111 53 535.2 0 53 112 42 535.2 0 42 113 45 535.2 0 45 114 89 535.2 0 89 115 181 535.2 0 181 116 217 535.2 0 217 117 200 535.2 0 200 118 126 535.2 0 126 119 125 535.2 0 125 120 110 535.2 0 110 121 62 535.2 0 62 122 83 535.2 0 83 123 102 535.2 0 102 124 126 535.2 0 126 125 777 535.2 0 777 126 1246 535.2 0 1246 127 1293 535.2 0 1293 128 74 535.2 0 74 129 96 535.2 0 96 130 286 535.2 0 286 131 254 535.2 0 254 132 167 535.2 0 167 133 57 535.2 0 57 134 64 535.2 0 64 135 85 535.2 0 85 136 57 535.2 0 57 137 80 535.2 0 80 138 81 535.2 0 81 139 39 535.2 0 39 140 47 535.2 0 47 141 52 535.2 0 52 142 49 535.2 0 49 143 39 535.2 0 39 144 49 535.2 0 49 145 37 535.2 0 37 146 55 535.2 0 55 147 38 535.2 0 38 148 42 535.2 0 42 149 40 535.2 0 40 150 39 535.2 0 39 151 76 535.2 0 76 152 44 535.2 0 44 153 63 535.2 0 63 154 78 535.2 0 78 155 60 535.2 0 60 156 33 535.2 0 33 157 75 535.2 0 75 158 88 535.2 0 88 159 87 535.2 0 87 160 70 535.2 0 70 161 70 535.2 0 70 162 93 535.2 0 93 163 73 535.2 0 73 164 691 535.2 0 691 165 1560 535.2 0 1560 166 1824 535.2 0 1824 167 48 535.2 0 48 168 74 535.2 0 74 169 50 535.2 0 50 170 80 535.2 0 80 171 68 535.2 0 68 172 46 535.2 0 46 173 43 535.2 0 43 174 55 535.2 0 55 175 39 535.2 0 39 176 58 535.2 0 58 177 56 535.2 0 56 178 60 535.2 0 60 179 107 535.2 0 107 180 110 535.2 0 110 181 169 535.2 0 169 182 62 535.2 0 62 183 95 535.2 0 95 184 66 535.2 0 66 185 72 535.2 0 72 186 57 535.2 0 57 187 60 535.2 0 60 188 65 535.2 0 65 189 126 535.2 0 126 190 152 535.2 0 152 191 285 535.2 0 285 192 326 535.2 0 326 193 323 535.2 0 323 194 225 535.2 0 225 195 215 535.2 0 215 196 1250 535.2 0 1250 197 1581 535.2 0 1581 198 1594 535.2 0 1594 199 461 535.2 0 461 200 204 535.2 0 204 201 136 535.2 0 136 202 148 535.2 0 148 203 94 535.2 0 94 204 125 535.2 0 125 205 80 535.2 0 80 206 127 535.2 0 127 207 74 535.2 0 74 208 81 535.2 0 81 209 86 535.2 0 86 210 109 535.2 0 109 211 160 535.2 0 160 212 121 535.2 0 121 213 140 535.2 0 140 214 128 535.2 0 128 215 200 535.2 0 200 216 1133 535.2 0 1133 217 2114 535.2 0 2114 218 1412 535.2 0 1412 219 314 535.2 0 314 220 174 535.2 0 174 221 161 535.2 0 161 222 221 535.2 0 221 223 159 535.2 0 159 224 110 535.2 0 110 225 97 535.2 0 97 226 89 535.2 0 89 227 96 535.2 0 96 228 69 535.2 0 69 229 79 535.2 0 79 230 102 535.2 0 102 231 76 535.2 0 76 232 81 535.2 0 81 233 98 535.2 0 98 234 97 535.2 0 97 235 75 535.2 0 75 236 83 535.2 0 83 237 79 535.2 0 79 238 120 535.2 0 120 239 143 535.2 0 143 240 163 535.2 0 163 241 237 535.2 0 237 242 150 535.2 0 150 243 109 535.2 0 109 244 112 535.2 0 112 245 139 535.2 0 139 246 143 535.2 0 143 247 903 535.2 0 903 248 2170 535.2 0 2170 249 2227 535.2 0 2227 250 705 535.2 0 705 251 323 535.2 0 323 252 221 535.2 0 221 253 172 535.2 0 172 254 153 535.2 0 153 255 137 535.2 0 137 256 176 535.2 0 176 257 88 535.2 0 88 258 132 535.2 0 132 259 104 535.2 0 104 260 73 535.2 0 73 261 81 535.2 0 81 262 117 535.2 0 117 263 86 535.2 0 86 264 86 535.2 0 86 265 88 535.2 0 88 266 107 535.2 0 107 267 70 535.2 0 70 268 54 535.2 0 54 269 85 535.2 0 85 270 148 535.2 0 148 271 157 535.2 0 157 272 88 535.2 0 88 273 86 535.2 0 86 274 74 535.2 0 74 275 79 535.2 0 79 276 124 535.2 0 124 277 171 535.2 0 171 278 161 535.2 0 161 279 107 535.2 0 107 280 73 535.2 0 73 281 60 535.2 0 60 282 56 535.2 0 56 283 74 535.2 0 74 284 83 535.2 0 83 285 102 535.2 0 102 286 105 535.2 0 105 287 118 535.2 0 118 288 79 535.2 0 79 289 269 535.2 0 269 290 580 535.2 0 580 291 855 535.2 0 855 292 529 535.2 0 529 293 152 535.2 0 152 294 109 535.2 0 109 295 90 535.2 0 90 296 111 535.2 0 111 297 354 535.2 0 354 298 469 535.2 0 469 299 532 535.2 0 532 300 304 535.2 0 304 301 196 535.2 0 196 Finished in 2.62 s (46 us/read; 1.30 M reads/minute). === Summary === Total reads processed: 56,738 Reads with adapters: 11,804 (20.8%) Reads that were too short: 61 (0.1%) Reads written (passing filters): 11,743 (20.7%) Total basepairs processed: 12,848,147 bp Total written (filtered): 3,203,209 bp (24.9%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 11804 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 1 5 18 10 0.0 3 0 0 5 2 3 19 196 0.0 3 0 153 26 12 5 20 11420 0.0 4 10412 770 162 48 28 21 33 0.0 4 4 23 3 2 1 22 4 0.0 4 2 0 1 0 1 23 48 0.0 4 2 0 0 30 16 24 5 0.0 4 1 0 0 1 3 25 1 0.0 4 0 0 0 0 1 26 2 0.0 4 0 1 0 0 1 28 1 0.0 4 1 30 1 0.0 4 0 0 0 0 1 33 1 0.0 4 0 0 0 0 1 40 1 0.0 4 1 42 1 0.0 4 0 0 0 0 1 45 1 0.0 4 0 0 0 0 1 46 1 0.0 4 0 0 0 1 47 1 0.0 4 0 0 0 0 1 53 1 0.0 4 0 0 0 0 1 56 1 0.0 4 0 0 0 0 1 60 4 0.0 4 0 0 0 0 4 61 1 0.0 4 0 0 0 0 1 76 1 0.0 4 0 0 0 0 1 84 6 0.0 4 0 0 0 0 6 86 1 0.0 4 0 0 0 0 1 91 1 0.0 4 0 0 0 0 1 98 1 0.0 4 0 0 0 0 1 101 1 0.0 4 0 0 0 0 1 126 1 0.0 4 1 134 1 0.0 4 0 0 0 0 1 136 1 0.0 4 0 0 0 0 1 140 2 0.0 4 1 0 0 0 1 152 1 0.0 4 0 0 0 0 1 157 1 0.0 4 0 0 0 0 1 160 1 0.0 4 0 0 0 0 1 162 2 0.0 4 0 0 0 0 2 165 1 0.0 4 0 0 0 0 1 168 2 0.0 4 0 0 0 1 1 185 12 0.0 4 0 0 0 0 12 186 5 0.0 4 0 0 0 0 5 187 4 0.0 4 0 0 0 0 4 188 1 0.0 4 0 0 0 0 1 207 1 0.0 4 0 0 0 0 1 228 4 0.0 4 0 0 0 0 4 229 4 0.0 4 0 0 0 0 4 231 1 0.0 4 0 0 0 0 1 235 2 0.0 4 0 0 0 0 2 241 1 0.0 4 0 0 0 0 1 256 1 0.0 4 0 0 0 0 1 257 1 0.0 4 0 0 0 0 1 269 1 0.0 4 0 0 0 0 1 282 2 0.0 4 0 0 0 0 2 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 0.42 s (36 us/read; 1.68 M reads/minute). === Summary === Total reads processed: 11,743 Reads with adapters: 2,060 (17.5%) Reads written (passing filters): 11,743 (100.0%) Total basepairs processed: 3,203,209 bp Total written (filtered): 3,179,195 bp (99.3%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 2060 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 3.3% C: 9.3% G: 85.1% T: 2.3% 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 24 183.5 0 24 4 10 45.9 0 10 5 1 11.5 0 1 9 12 0.0 0 0 12 10 312 0.0 1 32 280 11 1648 0.0 1 62 1586 12 39 0.0 1 1 38 13 1 0.0 1 0 1 14 2 0.0 1 0 2 18 1 0.0 1 1 151 1 0.0 1 0 1 190 1 0.0 1 0 1 209 7 0.0 1 6 1 210 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.