This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AGACCG -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 63.97 s (26 us/read; 2.29 M reads/minute). === Summary === Total reads processed: 2,442,494 Reads with adapters: 148,965 (6.1%) Reads that were too short: 47,003 (1.9%) Reads written (passing filters): 101,962 (4.2%) Total basepairs processed: 735,190,694 bp Total written (filtered): 26,353,696 bp (3.6%) === Adapter 1 === Sequence: AGACCG; Type: regular 5'; Length: 6; Trimmed: 148965 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 457 596.3 0 457 7 29313 596.3 0 29313 8 404 596.3 0 404 9 36425 596.3 0 36425 10 39 596.3 0 39 11 9 596.3 0 9 12 20 596.3 0 20 13 8 596.3 0 8 14 8 596.3 0 8 15 8 596.3 0 8 16 12 596.3 0 12 17 8 596.3 0 8 18 5 596.3 0 5 19 6 596.3 0 6 20 6 596.3 0 6 21 10 596.3 0 10 22 13 596.3 0 13 23 8 596.3 0 8 24 9 596.3 0 9 25 5 596.3 0 5 26 9 596.3 0 9 27 5 596.3 0 5 28 11 596.3 0 11 29 13 596.3 0 13 30 10 596.3 0 10 31 9 596.3 0 9 32 7 596.3 0 7 33 15 596.3 0 15 34 9 596.3 0 9 35 10 596.3 0 10 36 16 596.3 0 16 37 34 596.3 0 34 38 15 596.3 0 15 39 8 596.3 0 8 40 9 596.3 0 9 41 7 596.3 0 7 42 9 596.3 0 9 43 5 596.3 0 5 44 10 596.3 0 10 45 15 596.3 0 15 46 16 596.3 0 16 47 16 596.3 0 16 48 13 596.3 0 13 49 17 596.3 0 17 50 10 596.3 0 10 51 9 596.3 0 9 52 17 596.3 0 17 53 10 596.3 0 10 54 19 596.3 0 19 55 72 596.3 0 72 56 27 596.3 0 27 57 20 596.3 0 20 58 16 596.3 0 16 59 13 596.3 0 13 60 18 596.3 0 18 61 20 596.3 0 20 62 28 596.3 0 28 63 16 596.3 0 16 64 32 596.3 0 32 65 108 596.3 0 108 66 21 596.3 0 21 67 15 596.3 0 15 68 20 596.3 0 20 69 87 596.3 0 87 70 52 596.3 0 52 71 33 596.3 0 33 72 41 596.3 0 41 73 25 596.3 0 25 74 108 596.3 0 108 75 113 596.3 0 113 76 132 596.3 0 132 77 94 596.3 0 94 78 146 596.3 0 146 79 133 596.3 0 133 80 204 596.3 0 204 81 314 596.3 0 314 82 3429 596.3 0 3429 83 2495 596.3 0 2495 84 15886 596.3 0 15886 85 67 596.3 0 67 86 34 596.3 0 34 87 15 596.3 0 15 88 13 596.3 0 13 89 16 596.3 0 16 90 11 596.3 0 11 91 15 596.3 0 15 92 21 596.3 0 21 93 18 596.3 0 18 94 20 596.3 0 20 95 19 596.3 0 19 96 8 596.3 0 8 97 15 596.3 0 15 98 13 596.3 0 13 99 17 596.3 0 17 100 18 596.3 0 18 101 10 596.3 0 10 102 33 596.3 0 33 103 38 596.3 0 38 104 33 596.3 0 33 105 23 596.3 0 23 106 14 596.3 0 14 107 12 596.3 0 12 108 17 596.3 0 17 109 13 596.3 0 13 110 19 596.3 0 19 111 19 596.3 0 19 112 26 596.3 0 26 113 27 596.3 0 27 114 31 596.3 0 31 115 28 596.3 0 28 116 22 596.3 0 22 117 24 596.3 0 24 118 20 596.3 0 20 119 15 596.3 0 15 120 32 596.3 0 32 121 43 596.3 0 43 122 51 596.3 0 51 123 155 596.3 0 155 124 150 596.3 0 150 125 63 596.3 0 63 126 27 596.3 0 27 127 35 596.3 0 35 128 115 596.3 0 115 129 15 596.3 0 15 130 20 596.3 0 20 131 12 596.3 0 12 132 12 596.3 0 12 133 34 596.3 0 34 134 34 596.3 0 34 135 32 596.3 0 32 136 68 596.3 0 68 137 43 596.3 0 43 138 73 596.3 0 73 139 66 596.3 0 66 140 312 596.3 0 312 141 46 596.3 0 46 142 31 596.3 0 31 143 27 596.3 0 27 144 32 596.3 0 32 145 26 596.3 0 26 146 35 596.3 0 35 147 33 596.3 0 33 148 35 596.3 0 35 149 83 596.3 0 83 150 37 596.3 0 37 151 32 596.3 0 32 152 35 596.3 0 35 153 24 596.3 0 24 154 26 596.3 0 26 155 49 596.3 0 49 156 32 596.3 0 32 157 38 596.3 0 38 158 33 596.3 0 33 159 34 596.3 0 34 160 32 596.3 0 32 161 37 596.3 0 37 162 53 596.3 0 53 163 69 596.3 0 69 164 45 596.3 0 45 165 67 596.3 0 67 166 139 596.3 0 139 167 1629 596.3 0 1629 168 924 596.3 0 924 169 2080 596.3 0 2080 170 55 596.3 0 55 171 133 596.3 0 133 172 95 596.3 0 95 173 267 596.3 0 267 174 41 596.3 0 41 175 26 596.3 0 26 176 45 596.3 0 45 177 46 596.3 0 46 178 32 596.3 0 32 179 43 596.3 0 43 180 57 596.3 0 57 181 135 596.3 0 135 182 160 596.3 0 160 183 79 596.3 0 79 184 72 596.3 0 72 185 85 596.3 0 85 186 89 596.3 0 89 187 87 596.3 0 87 188 65 596.3 0 65 189 92 596.3 0 92 190 86 596.3 0 86 191 79 596.3 0 79 192 56 596.3 0 56 193 60 596.3 0 60 194 53 596.3 0 53 195 58 596.3 0 58 196 57 596.3 0 57 197 67 596.3 0 67 198 84 596.3 0 84 199 92 596.3 0 92 200 442 596.3 0 442 201 381 596.3 0 381 202 315 596.3 0 315 203 195 596.3 0 195 204 52 596.3 0 52 205 61 596.3 0 61 206 72 596.3 0 72 207 89 596.3 0 89 208 52 596.3 0 52 209 52 596.3 0 52 210 82 596.3 0 82 211 156 596.3 0 156 212 79 596.3 0 79 213 99 596.3 0 99 214 90 596.3 0 90 215 248 596.3 0 248 216 279 596.3 0 279 217 90 596.3 0 90 218 90 596.3 0 90 219 111 596.3 0 111 220 103 596.3 0 103 221 109 596.3 0 109 222 92 596.3 0 92 223 130 596.3 0 130 224 182 596.3 0 182 225 223 596.3 0 223 226 319 596.3 0 319 227 1023 596.3 0 1023 228 15780 596.3 0 15780 229 4188 596.3 0 4188 230 8177 596.3 0 8177 231 274 596.3 0 274 232 73 596.3 0 73 233 67 596.3 0 67 234 62 596.3 0 62 235 57 596.3 0 57 236 58 596.3 0 58 237 67 596.3 0 67 238 61 596.3 0 61 239 78 596.3 0 78 240 83 596.3 0 83 241 62 596.3 0 62 242 64 596.3 0 64 243 80 596.3 0 80 244 148 596.3 0 148 245 125 596.3 0 125 246 91 596.3 0 91 247 107 596.3 0 107 248 123 596.3 0 123 249 99 596.3 0 99 250 92 596.3 0 92 251 101 596.3 0 101 252 67 596.3 0 67 253 74 596.3 0 74 254 109 596.3 0 109 255 199 596.3 0 199 256 703 596.3 0 703 257 692 596.3 0 692 258 664 596.3 0 664 259 135 596.3 0 135 260 114 596.3 0 114 261 391 596.3 0 391 262 1043 596.3 0 1043 263 1484 596.3 0 1484 264 479 596.3 0 479 265 250 596.3 0 250 266 140 596.3 0 140 267 131 596.3 0 131 268 1058 596.3 0 1058 269 749 596.3 0 749 270 533 596.3 0 533 271 108 596.3 0 108 272 74 596.3 0 74 273 66 596.3 0 66 274 89 596.3 0 89 275 105 596.3 0 105 276 116 596.3 0 116 277 106 596.3 0 106 278 102 596.3 0 102 279 60 596.3 0 60 280 85 596.3 0 85 281 104 596.3 0 104 282 135 596.3 0 135 283 138 596.3 0 138 284 75 596.3 0 75 285 85 596.3 0 85 286 116 596.3 0 116 287 295 596.3 0 295 288 124 596.3 0 124 289 127 596.3 0 127 290 73 596.3 0 73 291 66 596.3 0 66 292 85 596.3 0 85 293 136 596.3 0 136 294 218 596.3 0 218 295 90 596.3 0 90 296 74 596.3 0 74 297 62 596.3 0 62 298 62 596.3 0 62 299 87 596.3 0 87 300 167 596.3 0 167 301 248 596.3 0 248 Finished in 5.07 s (50 us/read; 1.21 M reads/minute). === Summary === Total reads processed: 101,962 Reads with adapters: 37,338 (36.6%) Reads that were too short: 18 (0.0%) Reads written (passing filters): 37,320 (36.6%) Total basepairs processed: 26,353,696 bp Total written (filtered): 10,148,785 bp (38.5%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 37338 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 2 0.0 3 0 0 0 2 18 17 0.0 3 0 0 15 1 1 19 346 0.0 3 0 332 9 4 1 20 36763 0.0 4 36055 680 28 21 76 0.0 4 16 58 2 22 12 0.0 4 3 1 8 23 66 0.0 4 40 0 0 25 1 24 3 0.0 4 0 0 0 1 2 30 1 0.0 4 1 32 1 0.0 4 1 42 3 0.0 4 0 0 0 0 3 58 1 0.0 4 0 0 0 0 1 69 2 0.0 4 0 0 0 0 2 73 1 0.0 4 0 0 0 0 1 123 2 0.0 4 0 0 0 0 2 126 1 0.0 4 0 0 0 0 1 127 24 0.0 4 0 0 0 0 24 128 1 0.0 4 1 139 3 0.0 4 0 0 0 0 3 151 1 0.0 4 0 0 0 0 1 153 1 0.0 4 0 0 0 0 1 214 1 0.0 4 0 0 0 0 1 217 1 0.0 4 0 0 0 0 1 227 1 0.0 4 0 0 0 0 1 228 5 0.0 4 0 0 0 0 5 229 1 0.0 4 0 0 0 0 1 234 1 0.0 4 0 0 0 0 1 294 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 1.33 s (36 us/read; 1.68 M reads/minute). === Summary === Total reads processed: 37,320 Reads with adapters: 4,624 (12.4%) Reads written (passing filters): 37,320 (100.0%) Total basepairs processed: 10,148,785 bp Total written (filtered): 10,095,627 bp (99.5%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 4624 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.4% C: 3.6% G: 93.1% T: 1.9% 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 10 583.1 0 10 4 8 145.8 0 8 6 3 9.1 0 3 7 1 2.3 0 1 9 1589 0.1 0 56 1533 10 2464 0.0 1 90 2374 11 501 0.0 1 6 495 12 2 0.0 1 0 2 13 5 0.0 1 0 5 35 5 0.0 1 3 2 149 1 0.0 1 1 157 1 0.0 1 1 208 2 0.0 1 2 223 19 0.0 1 17 2 224 1 0.0 1 1 264 11 0.0 1 10 1 268 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.