This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g GAACTA -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 56.98 s (26 us/read; 2.31 M reads/minute). === Summary === Total reads processed: 2,192,295 Reads with adapters: 90,607 (4.1%) Reads that were too short: 18,753 (0.9%) Reads written (passing filters): 71,854 (3.3%) Total basepairs processed: 659,880,795 bp Total written (filtered): 16,868,493 bp (2.6%) === Adapter 1 === Sequence: GAACTA; Type: regular 5'; Length: 6; Trimmed: 90607 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1081 535.2 0 1081 7 21984 535.2 0 21984 8 18571 535.2 0 18571 9 39 535.2 0 39 10 70 535.2 0 70 11 336 535.2 0 336 12 135 535.2 0 135 13 314 535.2 0 314 14 228 535.2 0 228 15 574 535.2 0 574 16 48 535.2 0 48 17 18 535.2 0 18 18 23 535.2 0 23 19 28 535.2 0 28 20 13 535.2 0 13 21 22 535.2 0 22 22 26 535.2 0 26 23 37 535.2 0 37 24 53 535.2 0 53 25 130 535.2 0 130 26 174 535.2 0 174 27 101 535.2 0 101 28 23 535.2 0 23 29 23 535.2 0 23 30 29 535.2 0 29 31 39 535.2 0 39 32 17 535.2 0 17 33 33 535.2 0 33 34 27 535.2 0 27 35 33 535.2 0 33 36 18 535.2 0 18 37 21 535.2 0 21 38 23 535.2 0 23 39 23 535.2 0 23 40 21 535.2 0 21 41 33 535.2 0 33 42 34 535.2 0 34 43 29 535.2 0 29 44 52 535.2 0 52 45 21 535.2 0 21 46 17 535.2 0 17 47 28 535.2 0 28 48 32 535.2 0 32 49 26 535.2 0 26 50 37 535.2 0 37 51 19 535.2 0 19 52 15 535.2 0 15 53 35 535.2 0 35 54 39 535.2 0 39 55 26 535.2 0 26 56 46 535.2 0 46 57 55 535.2 0 55 58 35 535.2 0 35 59 27 535.2 0 27 60 80 535.2 0 80 61 107 535.2 0 107 62 103 535.2 0 103 63 24 535.2 0 24 64 24 535.2 0 24 65 26 535.2 0 26 66 34 535.2 0 34 67 31 535.2 0 31 68 26 535.2 0 26 69 27 535.2 0 27 70 23 535.2 0 23 71 37 535.2 0 37 72 37 535.2 0 37 73 26 535.2 0 26 74 19 535.2 0 19 75 32 535.2 0 32 76 49 535.2 0 49 77 40 535.2 0 40 78 54 535.2 0 54 79 70 535.2 0 70 80 54 535.2 0 54 81 54 535.2 0 54 82 140 535.2 0 140 83 151 535.2 0 151 84 459 535.2 0 459 85 23 535.2 0 23 86 32 535.2 0 32 87 28 535.2 0 28 88 34 535.2 0 34 89 58 535.2 0 58 90 28 535.2 0 28 91 26 535.2 0 26 92 23 535.2 0 23 93 29 535.2 0 29 94 22 535.2 0 22 95 46 535.2 0 46 96 40 535.2 0 40 97 44 535.2 0 44 98 45 535.2 0 45 99 36 535.2 0 36 100 25 535.2 0 25 101 38 535.2 0 38 102 79 535.2 0 79 103 63 535.2 0 63 104 86 535.2 0 86 105 61 535.2 0 61 106 46 535.2 0 46 107 112 535.2 0 112 108 89 535.2 0 89 109 36 535.2 0 36 110 48 535.2 0 48 111 86 535.2 0 86 112 108 535.2 0 108 113 63 535.2 0 63 114 44 535.2 0 44 115 48 535.2 0 48 116 46 535.2 0 46 117 36 535.2 0 36 118 48 535.2 0 48 119 68 535.2 0 68 120 80 535.2 0 80 121 56 535.2 0 56 122 115 535.2 0 115 123 166 535.2 0 166 124 107 535.2 0 107 125 93 535.2 0 93 126 45 535.2 0 45 127 52 535.2 0 52 128 60 535.2 0 60 129 46 535.2 0 46 130 38 535.2 0 38 131 56 535.2 0 56 132 115 535.2 0 115 133 141 535.2 0 141 134 229 535.2 0 229 135 69 535.2 0 69 136 54 535.2 0 54 137 114 535.2 0 114 138 146 535.2 0 146 139 170 535.2 0 170 140 168 535.2 0 168 141 125 535.2 0 125 142 141 535.2 0 141 143 52 535.2 0 52 144 55 535.2 0 55 145 98 535.2 0 98 146 81 535.2 0 81 147 211 535.2 0 211 148 82 535.2 0 82 149 71 535.2 0 71 150 79 535.2 0 79 151 55 535.2 0 55 152 52 535.2 0 52 153 69 535.2 0 69 154 77 535.2 0 77 155 111 535.2 0 111 156 172 535.2 0 172 157 223 535.2 0 223 158 136 535.2 0 136 159 182 535.2 0 182 160 1101 535.2 0 1101 161 1334 535.2 0 1334 162 1670 535.2 0 1670 163 306 535.2 0 306 164 119 535.2 0 119 165 59 535.2 0 59 166 56 535.2 0 56 167 88 535.2 0 88 168 121 535.2 0 121 169 121 535.2 0 121 170 134 535.2 0 134 171 45 535.2 0 45 172 62 535.2 0 62 173 76 535.2 0 76 174 67 535.2 0 67 175 137 535.2 0 137 176 83 535.2 0 83 177 102 535.2 0 102 178 102 535.2 0 102 179 138 535.2 0 138 180 378 535.2 0 378 181 799 535.2 0 799 182 939 535.2 0 939 183 411 535.2 0 411 184 221 535.2 0 221 185 204 535.2 0 204 186 203 535.2 0 203 187 1816 535.2 0 1816 188 2318 535.2 0 2318 189 5361 535.2 0 5361 190 73 535.2 0 73 191 43 535.2 0 43 192 43 535.2 0 43 193 57 535.2 0 57 194 57 535.2 0 57 195 56 535.2 0 56 196 55 535.2 0 55 197 52 535.2 0 52 198 55 535.2 0 55 199 71 535.2 0 71 200 60 535.2 0 60 201 57 535.2 0 57 202 142 535.2 0 142 203 247 535.2 0 247 204 269 535.2 0 269 205 209 535.2 0 209 206 433 535.2 0 433 207 334 535.2 0 334 208 140 535.2 0 140 209 76 535.2 0 76 210 410 535.2 0 410 211 683 535.2 0 683 212 1087 535.2 0 1087 213 223 535.2 0 223 214 118 535.2 0 118 215 67 535.2 0 67 216 43 535.2 0 43 217 65 535.2 0 65 218 61 535.2 0 61 219 138 535.2 0 138 220 307 535.2 0 307 221 195 535.2 0 195 222 118 535.2 0 118 223 84 535.2 0 84 224 71 535.2 0 71 225 112 535.2 0 112 226 118 535.2 0 118 227 123 535.2 0 123 228 116 535.2 0 116 229 172 535.2 0 172 230 893 535.2 0 893 231 1415 535.2 0 1415 232 1075 535.2 0 1075 233 105 535.2 0 105 234 57 535.2 0 57 235 40 535.2 0 40 236 46 535.2 0 46 237 33 535.2 0 33 238 46 535.2 0 46 239 71 535.2 0 71 240 97 535.2 0 97 241 88 535.2 0 88 242 51 535.2 0 51 243 51 535.2 0 51 244 58 535.2 0 58 245 53 535.2 0 53 246 38 535.2 0 38 247 26 535.2 0 26 248 36 535.2 0 36 249 61 535.2 0 61 250 50 535.2 0 50 251 55 535.2 0 55 252 58 535.2 0 58 253 135 535.2 0 135 254 207 535.2 0 207 255 258 535.2 0 258 256 104 535.2 0 104 257 98 535.2 0 98 258 84 535.2 0 84 259 59 535.2 0 59 260 94 535.2 0 94 261 80 535.2 0 80 262 72 535.2 0 72 263 126 535.2 0 126 264 97 535.2 0 97 265 80 535.2 0 80 266 52 535.2 0 52 267 80 535.2 0 80 268 119 535.2 0 119 269 120 535.2 0 120 270 70 535.2 0 70 271 64 535.2 0 64 272 53 535.2 0 53 273 131 535.2 0 131 274 159 535.2 0 159 275 294 535.2 0 294 276 364 535.2 0 364 277 396 535.2 0 396 278 264 535.2 0 264 279 476 535.2 0 476 280 413 535.2 0 413 281 164 535.2 0 164 282 119 535.2 0 119 283 165 535.2 0 165 284 195 535.2 0 195 285 155 535.2 0 155 286 93 535.2 0 93 287 112 535.2 0 112 288 230 535.2 0 230 289 504 535.2 0 504 290 226 535.2 0 226 291 250 535.2 0 250 292 62 535.2 0 62 293 95 535.2 0 95 294 105 535.2 0 105 295 142 535.2 0 142 296 94 535.2 0 94 297 104 535.2 0 104 298 70 535.2 0 70 299 79 535.2 0 79 300 305 535.2 0 305 301 271 535.2 0 271 Finished in 3.36 s (47 us/read; 1.28 M reads/minute). === Summary === Total reads processed: 71,854 Reads with adapters: 19,896 (27.7%) Reads that were too short: 35 (0.0%) Reads written (passing filters): 19,861 (27.6%) Total basepairs processed: 16,868,493 bp Total written (filtered): 5,381,997 bp (31.9%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 19896 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 4 0.0 3 0 0 0 2 2 18 15 0.0 3 0 0 10 4 1 19 272 0.0 3 0 206 29 30 7 20 19001 0.0 4 17390 1264 250 79 18 21 72 0.0 4 20 41 9 2 22 24 0.0 4 9 9 2 1 3 23 84 0.0 4 0 0 0 57 27 24 2 0.0 4 0 0 0 0 2 52 1 0.0 4 0 0 0 0 1 55 1 0.0 4 0 0 0 0 1 61 2 0.0 4 0 0 0 0 2 71 2 0.0 4 0 0 0 0 2 76 1 0.0 4 0 0 0 0 1 81 1 0.0 4 0 0 0 0 1 84 1 0.0 4 0 0 0 1 85 1 0.0 4 0 0 0 0 1 89 1 0.0 4 0 0 0 0 1 92 1 0.0 4 0 0 0 0 1 93 1 0.0 4 0 0 0 0 1 97 1 0.0 4 0 0 0 0 1 109 1 0.0 4 0 0 0 0 1 113 2 0.0 4 0 0 0 1 1 122 1 0.0 4 0 0 0 0 1 123 1 0.0 4 0 0 0 0 1 126 6 0.0 4 0 0 0 0 6 127 372 0.0 4 0 0 0 0 372 128 2 0.0 4 0 0 0 0 2 130 2 0.0 4 0 0 0 0 2 134 1 0.0 4 0 0 0 1 176 1 0.0 4 0 0 0 0 1 184 1 0.0 4 0 0 0 0 1 197 1 0.0 4 0 0 0 0 1 204 1 0.0 4 0 0 0 0 1 210 1 0.0 4 0 0 0 0 1 212 1 0.0 4 0 0 0 0 1 227 1 0.0 4 0 0 0 0 1 228 2 0.0 4 0 0 0 0 2 229 1 0.0 4 0 0 0 0 1 230 1 0.0 4 0 0 0 0 1 258 2 0.0 4 0 0 0 0 2 259 2 0.0 4 0 0 0 1 1 260 1 0.0 4 0 0 0 0 1 267 1 0.0 4 0 0 0 0 1 268 1 0.0 4 0 0 0 0 1 285 1 0.0 4 0 0 0 0 1 286 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 0.70 s (35 us/read; 1.70 M reads/minute). === Summary === Total reads processed: 19,861 Reads with adapters: 3,521 (17.7%) Reads written (passing filters): 19,861 (100.0%) Total basepairs processed: 5,381,997 bp Total written (filtered): 5,341,321 bp (99.2%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 3521 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 3.6% C: 10.6% G: 83.5% 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 52 310.3 0 52 4 15 77.6 0 15 7 1 1.2 0 1 8 3 0.3 0 3 9 6 0.1 0 2 4 10 266 0.0 1 23 243 11 3095 0.0 1 126 2969 12 53 0.0 1 1 52 13 8 0.0 1 0 8 14 5 0.0 1 0 5 151 11 0.0 1 7 4 153 1 0.0 1 0 1 209 4 0.0 1 4 210 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.