This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AGCACT -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 74.19 s (26 us/read; 2.29 M reads/minute). === Summary === Total reads processed: 2,834,615 Reads with adapters: 222,937 (7.9%) Reads that were too short: 10,892 (0.4%) Reads written (passing filters): 212,045 (7.5%) Total basepairs processed: 853,219,115 bp Total written (filtered): 39,522,035 bp (4.6%) === Adapter 1 === Sequence: AGCACT; Type: regular 5'; Length: 6; Trimmed: 222937 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 75 692.0 0 75 7 4380 692.0 0 4380 8 4728 692.0 0 4728 9 16 692.0 0 16 10 16 692.0 0 16 11 18 692.0 0 18 12 76 692.0 0 76 13 40 692.0 0 40 14 73 692.0 0 73 15 40 692.0 0 40 16 14 692.0 0 14 17 23 692.0 0 23 18 17 692.0 0 17 19 21 692.0 0 21 20 27 692.0 0 27 21 30 692.0 0 30 22 19 692.0 0 19 23 19 692.0 0 19 24 16 692.0 0 16 25 71 692.0 0 71 26 61 692.0 0 61 27 69 692.0 0 69 28 30 692.0 0 30 29 31 692.0 0 31 30 97 692.0 0 97 31 26 692.0 0 26 32 32 692.0 0 32 33 27 692.0 0 27 34 41 692.0 0 41 35 48 692.0 0 48 36 45 692.0 0 45 37 79 692.0 0 79 38 31 692.0 0 31 39 36 692.0 0 36 40 35 692.0 0 35 41 26 692.0 0 26 42 29 692.0 0 29 43 50 692.0 0 50 44 45 692.0 0 45 45 26 692.0 0 26 46 27 692.0 0 27 47 30 692.0 0 30 48 46 692.0 0 46 49 49 692.0 0 49 50 24 692.0 0 24 51 85 692.0 0 85 52 28 692.0 0 28 53 37 692.0 0 37 54 48 692.0 0 48 55 44 692.0 0 44 56 38 692.0 0 38 57 44 692.0 0 44 58 40 692.0 0 40 59 37 692.0 0 37 60 53 692.0 0 53 61 50 692.0 0 50 62 65 692.0 0 65 63 77 692.0 0 77 64 37 692.0 0 37 65 136 692.0 0 136 66 77 692.0 0 77 67 107 692.0 0 107 68 44 692.0 0 44 69 40 692.0 0 40 70 36 692.0 0 36 71 57 692.0 0 57 72 65 692.0 0 65 73 36 692.0 0 36 74 46 692.0 0 46 75 25 692.0 0 25 76 37 692.0 0 37 77 43 692.0 0 43 78 108 692.0 0 108 79 80 692.0 0 80 80 212 692.0 0 212 81 103 692.0 0 103 82 90 692.0 0 90 83 56 692.0 0 56 84 82 692.0 0 82 85 51 692.0 0 51 86 76 692.0 0 76 87 134 692.0 0 134 88 204 692.0 0 204 89 323 692.0 0 323 90 808 692.0 0 808 91 1474 692.0 0 1474 92 362 692.0 0 362 93 368 692.0 0 368 94 814 692.0 0 814 95 312 692.0 0 312 96 273 692.0 0 273 97 521 692.0 0 521 98 653 692.0 0 653 99 464 692.0 0 464 100 523 692.0 0 523 101 834 692.0 0 834 102 1114 692.0 0 1114 103 1598 692.0 0 1598 104 31120 692.0 0 31120 105 30902 692.0 0 30902 106 65777 692.0 0 65777 107 284 692.0 0 284 108 46 692.0 0 46 109 39 692.0 0 39 110 85 692.0 0 85 111 54 692.0 0 54 112 92 692.0 0 92 113 65 692.0 0 65 114 86 692.0 0 86 115 503 692.0 0 503 116 91 692.0 0 91 117 1157 692.0 0 1157 118 57 692.0 0 57 119 77 692.0 0 77 120 35 692.0 0 35 121 86 692.0 0 86 122 70 692.0 0 70 123 79 692.0 0 79 124 1091 692.0 0 1091 125 59 692.0 0 59 126 140 692.0 0 140 127 48 692.0 0 48 128 56 692.0 0 56 129 67 692.0 0 67 130 55 692.0 0 55 131 36 692.0 0 36 132 163 692.0 0 163 133 38 692.0 0 38 134 45 692.0 0 45 135 31 692.0 0 31 136 37 692.0 0 37 137 36 692.0 0 36 138 96 692.0 0 96 139 66 692.0 0 66 140 61 692.0 0 61 141 88 692.0 0 88 142 168 692.0 0 168 143 69 692.0 0 69 144 113 692.0 0 113 145 71 692.0 0 71 146 78 692.0 0 78 147 117 692.0 0 117 148 69 692.0 0 69 149 64 692.0 0 64 150 61 692.0 0 61 151 124 692.0 0 124 152 127 692.0 0 127 153 181 692.0 0 181 154 188 692.0 0 188 155 230 692.0 0 230 156 344 692.0 0 344 157 734 692.0 0 734 158 1234 692.0 0 1234 159 24629 692.0 0 24629 160 12032 692.0 0 12032 161 10528 692.0 0 10528 162 71 692.0 0 71 163 43 692.0 0 43 164 40 692.0 0 40 165 40 692.0 0 40 166 58 692.0 0 58 167 322 692.0 0 322 168 124 692.0 0 124 169 185 692.0 0 185 170 17 692.0 0 17 171 62 692.0 0 62 172 102 692.0 0 102 173 131 692.0 0 131 174 79 692.0 0 79 175 60 692.0 0 60 176 45 692.0 0 45 177 48 692.0 0 48 178 48 692.0 0 48 179 55 692.0 0 55 180 67 692.0 0 67 181 45 692.0 0 45 182 166 692.0 0 166 183 41 692.0 0 41 184 139 692.0 0 139 185 121 692.0 0 121 186 84 692.0 0 84 187 74 692.0 0 74 188 87 692.0 0 87 189 119 692.0 0 119 190 44 692.0 0 44 191 54 692.0 0 54 192 35 692.0 0 35 193 37 692.0 0 37 194 36 692.0 0 36 195 34 692.0 0 34 196 77 692.0 0 77 197 48 692.0 0 48 198 178 692.0 0 178 199 100 692.0 0 100 200 762 692.0 0 762 201 260 692.0 0 260 202 203 692.0 0 203 203 35 692.0 0 35 204 42 692.0 0 42 205 61 692.0 0 61 206 57 692.0 0 57 207 61 692.0 0 61 208 49 692.0 0 49 209 50 692.0 0 50 210 32 692.0 0 32 211 41 692.0 0 41 212 38 692.0 0 38 213 71 692.0 0 71 214 166 692.0 0 166 215 35 692.0 0 35 216 47 692.0 0 47 217 40 692.0 0 40 218 87 692.0 0 87 219 139 692.0 0 139 220 100 692.0 0 100 221 77 692.0 0 77 222 32 692.0 0 32 223 53 692.0 0 53 224 113 692.0 0 113 225 41 692.0 0 41 226 71 692.0 0 71 227 44 692.0 0 44 228 98 692.0 0 98 229 72 692.0 0 72 230 85 692.0 0 85 231 62 692.0 0 62 232 62 692.0 0 62 233 54 692.0 0 54 234 59 692.0 0 59 235 56 692.0 0 56 236 47 692.0 0 47 237 70 692.0 0 70 238 128 692.0 0 128 239 122 692.0 0 122 240 680 692.0 0 680 241 755 692.0 0 755 242 674 692.0 0 674 243 152 692.0 0 152 244 52 692.0 0 52 245 44 692.0 0 44 246 46 692.0 0 46 247 59 692.0 0 59 248 80 692.0 0 80 249 55 692.0 0 55 250 40 692.0 0 40 251 72 692.0 0 72 252 56 692.0 0 56 253 61 692.0 0 61 254 64 692.0 0 64 255 80 692.0 0 80 256 85 692.0 0 85 257 70 692.0 0 70 258 68 692.0 0 68 259 80 692.0 0 80 260 50 692.0 0 50 261 35 692.0 0 35 262 43 692.0 0 43 263 53 692.0 0 53 264 54 692.0 0 54 265 74 692.0 0 74 266 62 692.0 0 62 267 93 692.0 0 93 268 109 692.0 0 109 269 95 692.0 0 95 270 87 692.0 0 87 271 52 692.0 0 52 272 59 692.0 0 59 273 84 692.0 0 84 274 126 692.0 0 126 275 102 692.0 0 102 276 157 692.0 0 157 277 165 692.0 0 165 278 236 692.0 0 236 279 272 692.0 0 272 280 355 692.0 0 355 281 182 692.0 0 182 282 182 692.0 0 182 283 654 692.0 0 654 284 64 692.0 0 64 285 45 692.0 0 45 286 61 692.0 0 61 287 50 692.0 0 50 288 59 692.0 0 59 289 67 692.0 0 67 290 77 692.0 0 77 291 65 692.0 0 65 292 86 692.0 0 86 293 92 692.0 0 92 294 102 692.0 0 102 295 91 692.0 0 91 296 93 692.0 0 93 297 49 692.0 0 49 298 63 692.0 0 63 299 86 692.0 0 86 300 186 692.0 0 186 301 202 692.0 0 202 Finished in 8.64 s (41 us/read; 1.47 M reads/minute). === Summary === Total reads processed: 212,045 Reads with adapters: 9,663 (4.6%) Reads that were too short: 33 (0.0%) Reads written (passing filters): 9,630 (4.5%) Total basepairs processed: 39,522,035 bp Total written (filtered): 2,117,355 bp (5.4%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 9663 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 18 2 0.0 3 0 0 2 19 74 0.0 3 0 69 5 20 4721 0.0 4 4632 87 2 21 17 0.0 4 3 14 22 3 0.0 4 1 0 2 23 5 0.0 4 0 0 0 4 1 28 1 0.0 4 1 30 4772 0.0 4 0 0 0 0 4772 33 6 0.0 4 0 0 0 1 5 34 1 0.0 4 0 0 0 1 55 1 0.0 4 0 0 0 0 1 56 1 0.0 4 1 61 2 0.0 4 0 0 0 0 2 69 3 0.0 4 0 0 0 0 3 90 1 0.0 4 0 0 0 0 1 92 1 0.0 4 1 93 2 0.0 4 1 0 0 0 1 100 1 0.0 4 0 0 0 0 1 109 3 0.0 4 0 0 0 0 3 113 1 0.0 4 0 0 0 0 1 115 1 0.0 4 0 0 0 0 1 116 1 0.0 4 0 0 1 126 1 0.0 4 0 0 1 127 15 0.0 4 0 0 0 0 15 128 1 0.0 4 0 0 0 0 1 132 1 0.0 4 0 1 134 1 0.0 4 0 0 0 0 1 142 2 0.0 4 1 0 0 0 1 144 1 0.0 4 0 0 0 1 145 3 0.0 4 1 2 146 1 0.0 4 1 157 1 0.0 4 1 163 1 0.0 4 0 0 0 0 1 185 3 0.0 4 1 0 0 0 2 186 1 0.0 4 0 0 0 1 187 1 0.0 4 0 0 0 0 1 188 2 0.0 4 0 0 0 0 2 191 2 0.0 4 0 0 0 0 2 193 2 0.0 4 0 0 0 0 2 199 1 0.0 4 0 0 0 0 1 282 3 0.0 4 0 0 0 0 3 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 0.30 s (31 us/read; 1.93 M reads/minute). === Summary === Total reads processed: 9,630 Reads with adapters: 579 (6.0%) Reads written (passing filters): 9,630 (100.0%) Total basepairs processed: 2,117,355 bp Total written (filtered): 2,111,065 bp (99.7%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 579 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 9.8% C: 2.8% G: 86.2% 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 19 150.5 0 19 4 34 37.6 0 34 5 1 9.4 0 1 8 1 0.1 0 1 9 4 0.0 0 0 4 10 1 0.0 1 0 1 11 516 0.0 1 3 513 84 1 0.0 1 1 139 2 0.0 1 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.