SUMMARISING RUN PARAMETERS ========================== Input filename: ERR12308513_2.fastq.gz Trimming mode: paired-end Trim Galore version: 0.6.10 Cutadapt version: 4.2 Python version: could not detect Number of cores used for trimming: 2 Quality Phred score cutoff: 20 Quality encoding type selected: ASCII+33 Using Illumina adapter for trimming (count: 211937). Second best hit was Nextera (count: 0) Adapter sequence: 'AGATCGGAAGAGC' (Illumina TruSeq, Sanger iPCR; auto-detected) Maximum trimming error rate: 0.1 (default) Minimum required adapter overlap (stringency): 1 bp Minimum required sequence length for both reads before a sequence pair gets removed: 20 bp Output file will be GZIP compressed This is cutadapt 4.2 with Python 3.10.8 Command line parameters: -j 2 -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC ERR12308513_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 1319.238 s (16.154 µs/read; 3.71 M reads/minute). === Summary === Total reads processed: 81,667,318 Reads with adapters: 51,116,760 (62.6%) Reads written (passing filters): 81,667,318 (100.0%) Total basepairs processed: 12,331,765,018 bp Quality-trimmed: 59,325,794 bp (0.5%) Total written (filtered): 11,462,044,092 bp (92.9%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 51116760 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 47.8% C: 20.0% G: 1.0% T: 31.2% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 28304403 20416829.5 0 28304403 2 657836 5104207.4 0 657836 3 513827 1276051.8 0 513827 4 445462 319013.0 0 445462 5 464742 79753.2 0 464742 6 408739 19938.3 0 408739 7 396667 4984.6 0 396667 8 490931 1246.1 0 490931 9 285061 311.5 0 284335 726 10 428994 77.9 1 384139 44855 11 387373 19.5 1 349321 38052 12 411206 4.9 1 338913 72293 13 400426 1.2 1 324499 75927 14 476276 1.2 1 380774 95502 15 329746 1.2 1 269309 60437 16 391925 1.2 1 317864 74061 17 470197 1.2 1 386255 83942 18 287698 1.2 1 234338 53360 19 418764 1.2 1 337647 81117 20 423138 1.2 1 345655 77483 21 290994 1.2 1 238049 52945 22 366756 1.2 1 299151 67605 23 364565 1.2 1 296621 67944 24 431824 1.2 1 349427 82397 25 440164 1.2 1 360523 79641 26 288929 1.2 1 235046 53883 27 282317 1.2 1 230345 51972 28 375375 1.2 1 312055 63320 29 297633 1.2 1 246586 51047 30 360834 1.2 1 298376 62458 31 299799 1.2 1 247601 52198 32 335830 1.2 1 277293 58537 33 315210 1.2 1 260691 54519 34 312553 1.2 1 258527 54026 35 357381 1.2 1 297146 60235 36 307638 1.2 1 259841 47797 37 300855 1.2 1 251531 49324 38 260637 1.2 1 217773 42864 39 291961 1.2 1 245201 46760 40 317558 1.2 1 268646 48912 41 228621 1.2 1 191524 37097 42 287667 1.2 1 243221 44446 43 251104 1.2 1 211012 40092 44 263490 1.2 1 221787 41703 45 278614 1.2 1 234146 44468 46 256769 1.2 1 216457 40312 47 240856 1.2 1 205684 35172 48 231947 1.2 1 196645 35302 49 241238 1.2 1 204491 36747 50 220864 1.2 1 189410 31454 51 218998 1.2 1 187069 31929 52 221036 1.2 1 189121 31915 53 211570 1.2 1 182169 29401 54 236290 1.2 1 204491 31799 55 171701 1.2 1 148044 23657 56 203326 1.2 1 174754 28572 57 257066 1.2 1 222218 34848 58 142314 1.2 1 121688 20626 59 162662 1.2 1 141331 21331 60 195331 1.2 1 170358 24973 61 180878 1.2 1 157077 23801 62 141300 1.2 1 122862 18438 63 284402 1.2 1 250728 33674 64 133980 1.2 1 116195 17785 65 106384 1.2 1 92759 13625 66 105343 1.2 1 92337 13006 67 160530 1.2 1 142174 18356 68 143039 1.2 1 126107 16932 69 123136 1.2 1 108854 14282 70 136326 1.2 1 121317 15009 71 125983 1.2 1 111882 14101 72 123928 1.2 1 110208 13720 73 166011 1.2 1 148639 17372 74 120763 1.2 1 108225 12538 75 124657 1.2 1 112660 11997 76 71260 1.2 1 64034 7226 77 65461 1.2 1 58681 6780 78 71436 1.2 1 64362 7074 79 69885 1.2 1 62942 6943 80 69358 1.2 1 62690 6668 81 66918 1.2 1 60487 6431 82 64836 1.2 1 58528 6308 83 64916 1.2 1 58898 6018 84 61678 1.2 1 56054 5624 85 61579 1.2 1 56081 5498 86 55932 1.2 1 51070 4862 87 51238 1.2 1 46862 4376 88 48183 1.2 1 44184 3999 89 46554 1.2 1 42764 3790 90 45490 1.2 1 41898 3592 91 41678 1.2 1 38477 3201 92 39986 1.2 1 36839 3147 93 37965 1.2 1 35093 2872 94 34079 1.2 1 31490 2589 95 32640 1.2 1 30247 2393 96 30662 1.2 1 28438 2224 97 28319 1.2 1 26298 2021 98 27758 1.2 1 25830 1928 99 27237 1.2 1 25413 1824 100 25600 1.2 1 23960 1640 101 21543 1.2 1 20188 1355 102 19158 1.2 1 17972 1186 103 17343 1.2 1 16278 1065 104 15424 1.2 1 14488 936 105 14686 1.2 1 13832 854 106 12948 1.2 1 12207 741 107 12201 1.2 1 11536 665 108 10813 1.2 1 10267 546 109 9654 1.2 1 9198 456 110 8622 1.2 1 8197 425 111 7779 1.2 1 7392 387 112 6353 1.2 1 6072 281 113 5385 1.2 1 5113 272 114 4511 1.2 1 4281 230 115 3653 1.2 1 3481 172 116 3051 1.2 1 2922 129 117 2571 1.2 1 2465 106 118 1987 1.2 1 1895 92 119 1538 1.2 1 1462 76 120 1420 1.2 1 1354 66 121 1057 1.2 1 987 70 122 756 1.2 1 714 42 123 522 1.2 1 488 34 124 376 1.2 1 346 30 125 330 1.2 1 305 25 126 232 1.2 1 205 27 127 205 1.2 1 185 20 128 168 1.2 1 151 17 129 150 1.2 1 129 21 130 117 1.2 1 98 19 131 120 1.2 1 101 19 132 96 1.2 1 84 12 133 108 1.2 1 87 21 134 62 1.2 1 51 11 135 103 1.2 1 92 11 136 58 1.2 1 51 7 137 69 1.2 1 66 3 138 39 1.2 1 35 4 139 60 1.2 1 53 7 140 47 1.2 1 33 14 141 59 1.2 1 49 10 142 36 1.2 1 26 10 143 36 1.2 1 25 11 144 48 1.2 1 34 14 145 31 1.2 1 24 7 146 16 1.2 1 9 7 147 35 1.2 1 22 13 148 33 1.2 1 21 12 149 30 1.2 1 18 12 150 23 1.2 1 11 12 151 102 1.2 1 16 86 RUN STATISTICS FOR INPUT FILE: ERR12308513_2.fastq.gz ============================================= 81667318 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 81667318 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 33179 (0.04%)