This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g GAAGCT -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 140.29 s (48 us/read; 1.26 M reads/minute). === Summary === Total reads processed: 2,949,860 Reads with adapters: 733,293 (24.9%) Reads that were too short: 9,528 (0.3%) Reads written (passing filters): 723,765 (24.5%) Total basepairs processed: 887,907,860 bp Total written (filtered): 202,656,851 bp (22.8%) === Adapter 1 === Sequence: GAAGCT; Type: regular 5'; Length: 6; Trimmed: 733293 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 3360 720.2 0 3360 7 9969 720.2 0 9969 8 286265 720.2 0 286265 9 334583 720.2 0 334583 10 359 720.2 0 359 11 60 720.2 0 60 12 44 720.2 0 44 13 53 720.2 0 53 14 30 720.2 0 30 15 27 720.2 0 27 16 37 720.2 0 37 17 28 720.2 0 28 18 43 720.2 0 43 19 37 720.2 0 37 20 28 720.2 0 28 21 42 720.2 0 42 22 47 720.2 0 47 23 44 720.2 0 44 24 34 720.2 0 34 25 29 720.2 0 29 26 32 720.2 0 32 27 43 720.2 0 43 28 35 720.2 0 35 29 35 720.2 0 35 30 58 720.2 0 58 31 27 720.2 0 27 32 34 720.2 0 34 33 46 720.2 0 46 34 63 720.2 0 63 35 57 720.2 0 57 36 54 720.2 0 54 37 87 720.2 0 87 38 54 720.2 0 54 39 66 720.2 0 66 40 39 720.2 0 39 41 41 720.2 0 41 42 49 720.2 0 49 43 44 720.2 0 44 44 53 720.2 0 53 45 34 720.2 0 34 46 49 720.2 0 49 47 197 720.2 0 197 48 77 720.2 0 77 49 64 720.2 0 64 50 48 720.2 0 48 51 40 720.2 0 40 52 50 720.2 0 50 53 78 720.2 0 78 54 128 720.2 0 128 55 79 720.2 0 79 56 47 720.2 0 47 57 35 720.2 0 35 58 38 720.2 0 38 59 35 720.2 0 35 60 46 720.2 0 46 61 57 720.2 0 57 62 40 720.2 0 40 63 70 720.2 0 70 64 124 720.2 0 124 65 47 720.2 0 47 66 72 720.2 0 72 67 79 720.2 0 79 68 85 720.2 0 85 69 147 720.2 0 147 70 57 720.2 0 57 71 77 720.2 0 77 72 74 720.2 0 74 73 53 720.2 0 53 74 93 720.2 0 93 75 108 720.2 0 108 76 123 720.2 0 123 77 177 720.2 0 177 78 214 720.2 0 214 79 419 720.2 0 419 80 594 720.2 0 594 81 13568 720.2 0 13568 82 6155 720.2 0 6155 83 12256 720.2 0 12256 84 101 720.2 0 101 85 139 720.2 0 139 86 129 720.2 0 129 87 160 720.2 0 160 88 53 720.2 0 53 89 52 720.2 0 52 90 44 720.2 0 44 91 48 720.2 0 48 92 81 720.2 0 81 93 76 720.2 0 76 94 59 720.2 0 59 95 49 720.2 0 49 96 67 720.2 0 67 97 48 720.2 0 48 98 106 720.2 0 106 99 53 720.2 0 53 100 47 720.2 0 47 101 65 720.2 0 65 102 116 720.2 0 116 103 103 720.2 0 103 104 135 720.2 0 135 105 116 720.2 0 116 106 142 720.2 0 142 107 155 720.2 0 155 108 209 720.2 0 209 109 379 720.2 0 379 110 111 720.2 0 111 111 144 720.2 0 144 112 202 720.2 0 202 113 109 720.2 0 109 114 121 720.2 0 121 115 213 720.2 0 213 116 164 720.2 0 164 117 181 720.2 0 181 118 189 720.2 0 189 119 339 720.2 0 339 120 391 720.2 0 391 121 496 720.2 0 496 122 13245 720.2 0 13245 123 6133 720.2 0 6133 124 14316 720.2 0 14316 125 106 720.2 0 106 126 61 720.2 0 61 127 56 720.2 0 56 128 83 720.2 0 83 129 63 720.2 0 63 130 63 720.2 0 63 131 66 720.2 0 66 132 41 720.2 0 41 133 53 720.2 0 53 134 56 720.2 0 56 135 56 720.2 0 56 136 41 720.2 0 41 137 51 720.2 0 51 138 56 720.2 0 56 139 63 720.2 0 63 140 64 720.2 0 64 141 70 720.2 0 70 142 592 720.2 0 592 143 775 720.2 0 775 144 1123 720.2 0 1123 145 185 720.2 0 185 146 261 720.2 0 261 147 123 720.2 0 123 148 73 720.2 0 73 149 102 720.2 0 102 150 63 720.2 0 63 151 107 720.2 0 107 152 57 720.2 0 57 153 52 720.2 0 52 154 62 720.2 0 62 155 68 720.2 0 68 156 45 720.2 0 45 157 36 720.2 0 36 158 51 720.2 0 51 159 60 720.2 0 60 160 84 720.2 0 84 161 38 720.2 0 38 162 51 720.2 0 51 163 52 720.2 0 52 164 57 720.2 0 57 165 51 720.2 0 51 166 121 720.2 0 121 167 60 720.2 0 60 168 75 720.2 0 75 169 99 720.2 0 99 170 57 720.2 0 57 171 123 720.2 0 123 172 64 720.2 0 64 173 54 720.2 0 54 174 49 720.2 0 49 175 51 720.2 0 51 176 49 720.2 0 49 177 49 720.2 0 49 178 79 720.2 0 79 179 74 720.2 0 74 180 119 720.2 0 119 181 142 720.2 0 142 182 2545 720.2 0 2545 183 1246 720.2 0 1246 184 1705 720.2 0 1705 185 58 720.2 0 58 186 61 720.2 0 61 187 57 720.2 0 57 188 46 720.2 0 46 189 45 720.2 0 45 190 47 720.2 0 47 191 29 720.2 0 29 192 42 720.2 0 42 193 44 720.2 0 44 194 62 720.2 0 62 195 67 720.2 0 67 196 73 720.2 0 73 197 30 720.2 0 30 198 75 720.2 0 75 199 70 720.2 0 70 200 64 720.2 0 64 201 61 720.2 0 61 202 46 720.2 0 46 203 44 720.2 0 44 204 39 720.2 0 39 205 43 720.2 0 43 206 44 720.2 0 44 207 85 720.2 0 85 208 32 720.2 0 32 209 51 720.2 0 51 210 42 720.2 0 42 211 33 720.2 0 33 212 56 720.2 0 56 213 51 720.2 0 51 214 42 720.2 0 42 215 43 720.2 0 43 216 26 720.2 0 26 217 32 720.2 0 32 218 40 720.2 0 40 219 68 720.2 0 68 220 53 720.2 0 53 221 48 720.2 0 48 222 46 720.2 0 46 223 38 720.2 0 38 224 34 720.2 0 34 225 41 720.2 0 41 226 51 720.2 0 51 227 55 720.2 0 55 228 46 720.2 0 46 229 68 720.2 0 68 230 57 720.2 0 57 231 26 720.2 0 26 232 31 720.2 0 31 233 48 720.2 0 48 234 44 720.2 0 44 235 37 720.2 0 37 236 68 720.2 0 68 237 64 720.2 0 64 238 53 720.2 0 53 239 63 720.2 0 63 240 212 720.2 0 212 241 114 720.2 0 114 242 107 720.2 0 107 243 45 720.2 0 45 244 38 720.2 0 38 245 62 720.2 0 62 246 35 720.2 0 35 247 52 720.2 0 52 248 44 720.2 0 44 249 45 720.2 0 45 250 103 720.2 0 103 251 38 720.2 0 38 252 73 720.2 0 73 253 80 720.2 0 80 254 52 720.2 0 52 255 61 720.2 0 61 256 74 720.2 0 74 257 57 720.2 0 57 258 71 720.2 0 71 259 54 720.2 0 54 260 50 720.2 0 50 261 61 720.2 0 61 262 74 720.2 0 74 263 125 720.2 0 125 264 135 720.2 0 135 265 70 720.2 0 70 266 796 720.2 0 796 267 507 720.2 0 507 268 907 720.2 0 907 269 113 720.2 0 113 270 93 720.2 0 93 271 48 720.2 0 48 272 53 720.2 0 53 273 48 720.2 0 48 274 269 720.2 0 269 275 205 720.2 0 205 276 240 720.2 0 240 277 58 720.2 0 58 278 53 720.2 0 53 279 100 720.2 0 100 280 63 720.2 0 63 281 106 720.2 0 106 282 74 720.2 0 74 283 98 720.2 0 98 284 64 720.2 0 64 285 49 720.2 0 49 286 94 720.2 0 94 287 134 720.2 0 134 288 177 720.2 0 177 289 117 720.2 0 117 290 111 720.2 0 111 291 52 720.2 0 52 292 97 720.2 0 97 293 110 720.2 0 110 294 290 720.2 0 290 295 97 720.2 0 97 296 191 720.2 0 191 297 92 720.2 0 92 298 108 720.2 0 108 299 60 720.2 0 60 300 64 720.2 0 64 301 70 720.2 0 70 Finished in 50.91 s (70 us/read; 0.85 M reads/minute). === Summary === Total reads processed: 723,765 Reads with adapters: 348,553 (48.2%) Reads that were too short: 98 (0.0%) Reads written (passing filters): 348,455 (48.1%) Total basepairs processed: 202,656,851 bp Total written (filtered): 94,642,200 bp (46.7%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 348553 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 1 0.0 3 0 0 0 0 1 17 7 0.0 3 0 0 0 5 2 18 139 0.0 3 0 0 138 0 1 19 4324 0.0 3 0 4233 67 12 12 20 337201 0.0 4 331528 5464 184 19 6 21 607 0.0 4 82 500 21 4 22 4539 0.0 4 4422 80 31 5 1 23 172 0.0 4 4 3 2 146 17 24 14 0.0 4 0 0 0 0 14 25 2 0.0 4 0 0 0 1 1 26 1 0.0 4 1 27 1 0.0 4 1 35 2 0.0 4 0 0 0 0 2 36 1 0.0 4 1 37 1 0.0 4 1 42 1 0.0 4 1 47 1 0.0 4 1 59 1 0.0 4 1 76 1 0.0 4 1 92 2 0.0 4 0 0 0 0 2 93 4 0.0 4 0 0 0 0 4 99 3 0.0 4 0 0 0 0 3 114 1 0.0 4 1 126 25 0.0 4 0 0 0 0 25 127 1396 0.0 4 0 0 0 0 1396 128 4 0.0 4 0 0 0 0 4 130 1 0.0 4 0 0 0 0 1 136 2 0.0 4 0 0 0 0 2 139 1 0.0 4 1 149 3 0.0 4 0 0 0 0 3 150 6 0.0 4 0 0 0 0 6 152 1 0.0 4 0 0 0 0 1 153 4 0.0 4 0 0 0 1 3 155 1 0.0 4 0 0 0 0 1 171 1 0.0 4 1 178 1 0.0 4 0 0 0 0 1 179 1 0.0 4 0 0 0 0 1 188 1 0.0 4 1 190 2 0.0 4 1 0 0 0 1 195 1 0.0 4 1 202 1 0.0 4 0 0 0 0 1 208 1 0.0 4 0 0 0 0 1 212 1 0.0 4 0 0 0 0 1 220 1 0.0 4 0 0 0 0 1 221 1 0.0 4 0 0 0 0 1 227 1 0.0 4 0 0 0 0 1 228 30 0.0 4 0 0 0 2 28 229 14 0.0 4 0 0 0 1 13 230 1 0.0 4 0 0 0 0 1 233 3 0.0 4 0 0 0 0 3 234 2 0.0 4 0 0 0 0 2 235 3 0.0 4 0 0 0 0 3 236 1 0.0 4 0 0 0 0 1 237 2 0.0 4 0 0 0 0 2 239 1 0.0 4 0 0 0 0 1 242 1 0.0 4 0 0 0 0 1 245 1 0.0 4 1 254 1 0.0 4 0 0 0 0 1 255 1 0.0 4 0 0 0 0 1 258 1 0.0 4 0 0 0 0 1 259 1 0.0 4 0 0 0 0 1 265 2 0.0 4 0 0 0 0 2 275 2 0.0 4 0 0 1 0 1 282 1 0.0 4 0 0 0 0 1 289 1 0.0 4 0 0 0 0 1 293 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 19.16 s (55 us/read; 1.09 M reads/minute). === Summary === Total reads processed: 348,455 Reads with adapters: 37,040 (10.6%) Reads written (passing filters): 348,455 (100.0%) Total basepairs processed: 94,642,200 bp Total written (filtered): 94,272,266 bp (99.6%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 37040 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.1% C: 2.4% G: 95.3% T: 1.2% 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 3 177 5444.6 0 177 4 69 1361.2 0 69 5 6 340.3 0 6 6 37 85.1 0 37 7 12 21.3 0 12 8 16 5.3 0 16 9 15506 1.3 0 334 15172 10 17541 0.3 1 500 17041 11 3524 0.1 1 18 3506 12 28 0.0 1 0 28 13 15 0.0 1 0 15 14 1 0.0 1 0 1 16 1 0.0 1 1 17 1 0.0 1 1 19 2 0.0 1 1 1 20 3 0.0 1 3 21 1 0.0 1 1 22 1 0.0 1 1 24 1 0.0 1 1 25 1 0.0 1 0 1 27 1 0.0 1 1 34 1 0.0 1 1 35 2 0.0 1 2 36 3 0.0 1 3 38 1 0.0 1 1 39 1 0.0 1 1 50 1 0.0 1 1 55 1 0.0 1 1 56 1 0.0 1 1 57 1 0.0 1 1 59 1 0.0 1 0 1 62 1 0.0 1 1 64 1 0.0 1 0 1 75 1 0.0 1 1 76 1 0.0 1 1 77 1 0.0 1 1 83 1 0.0 1 1 86 1 0.0 1 1 88 1 0.0 1 1 105 1 0.0 1 1 109 1 0.0 1 1 111 1 0.0 1 1 112 1 0.0 1 1 114 2 0.0 1 2 122 1 0.0 1 1 138 2 0.0 1 2 147 1 0.0 1 1 150 4 0.0 1 0 4 155 2 0.0 1 2 160 1 0.0 1 1 169 35 0.0 1 33 2 189 2 0.0 1 1 1 190 1 0.0 1 1 191 1 0.0 1 0 1 195 1 0.0 1 1 207 1 0.0 1 1 208 14 0.0 1 9 5 210 1 0.0 1 1 228 1 0.0 1 1 257 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.