SUMMARISING RUN PARAMETERS ========================== Input filename: ERR10683998_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: 249108). Second best hit was smallRNA (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 ERR10683998_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 1402.587 s (17.869 µs/read; 3.36 M reads/minute). === Summary === Total reads processed: 78,491,837 Reads with adapters: 47,119,572 (60.0%) Reads written (passing filters): 78,491,837 (100.0%) Total basepairs processed: 11,852,267,387 bp Quality-trimmed: 27,828,562 bp (0.2%) Total written (filtered): 10,907,316,942 bp (92.0%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 47119572 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 36.3% C: 1.5% G: 17.6% T: 44.5% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 15941998 19622959.2 0 15941998 2 3097260 4905739.8 0 3097260 3 1595705 1226435.0 0 1595705 4 976895 306608.7 0 976895 5 628424 76652.2 0 628424 6 567452 19163.0 0 567452 7 585423 4790.8 0 585423 8 614409 1197.7 0 614409 9 586071 299.4 0 583029 3042 10 572201 74.9 1 539855 32346 11 572108 18.7 1 531182 40926 12 572163 4.7 1 536291 35872 13 496549 1.2 1 466829 29720 14 521293 1.2 1 483344 37949 15 511121 1.2 1 480479 30642 16 523216 1.2 1 481666 41550 17 572255 1.2 1 527136 45119 18 595708 1.2 1 561431 34277 19 434370 1.2 1 409145 25225 20 492144 1.2 1 463405 28739 21 476900 1.2 1 445641 31259 22 434160 1.2 1 405394 28766 23 468216 1.2 1 438467 29749 24 407271 1.2 1 370659 36612 25 417951 1.2 1 392381 25570 26 385794 1.2 1 365263 20531 27 449823 1.2 1 421780 28043 28 471624 1.2 1 444966 26658 29 425233 1.2 1 394677 30556 30 482283 1.2 1 457621 24662 31 344560 1.2 1 326549 18011 32 418901 1.2 1 397319 21582 33 313489 1.2 1 293955 19534 34 382161 1.2 1 361569 20592 35 262607 1.2 1 250572 12035 36 337768 1.2 1 318450 19318 37 368174 1.2 1 346544 21630 38 291024 1.2 1 278178 12846 39 360180 1.2 1 340705 19475 40 376297 1.2 1 352870 23427 41 286180 1.2 1 272371 13809 42 287610 1.2 1 273425 14185 43 323088 1.2 1 302608 20480 44 244144 1.2 1 226966 17178 45 416158 1.2 1 399704 16454 46 95950 1.2 1 88369 7581 47 239320 1.2 1 227384 11936 48 359449 1.2 1 341337 18112 49 226677 1.2 1 215858 10819 50 239621 1.2 1 226621 13000 51 289581 1.2 1 273547 16034 52 229490 1.2 1 219184 10306 53 196180 1.2 1 187430 8750 54 255170 1.2 1 241311 13859 55 332132 1.2 1 319839 12293 56 126520 1.2 1 119132 7388 57 277801 1.2 1 268743 9058 58 180272 1.2 1 173246 7026 59 193291 1.2 1 185384 7907 60 167343 1.2 1 162353 4990 61 84750 1.2 1 79650 5100 62 227876 1.2 1 218061 9815 63 221224 1.2 1 214893 6331 64 86767 1.2 1 83077 3690 65 96397 1.2 1 91346 5051 66 192974 1.2 1 185933 7041 67 126590 1.2 1 121176 5414 68 175764 1.2 1 168726 7038 69 162939 1.2 1 155059 7880 70 248921 1.2 1 239796 9125 71 23944 1.2 1 22129 1815 72 43762 1.2 1 41387 2375 73 92862 1.2 1 88932 3930 74 106020 1.2 1 101529 4491 75 106326 1.2 1 101791 4535 76 102285 1.2 1 97829 4456 77 98859 1.2 1 94464 4395 78 96606 1.2 1 92396 4210 79 94991 1.2 1 90810 4181 80 94869 1.2 1 90855 4014 81 93534 1.2 1 89602 3932 82 88476 1.2 1 84567 3909 83 80353 1.2 1 76829 3524 84 74418 1.2 1 71277 3141 85 69973 1.2 1 66972 3001 86 65996 1.2 1 63367 2629 87 62435 1.2 1 59887 2548 88 59295 1.2 1 56897 2398 89 57132 1.2 1 54919 2213 90 55941 1.2 1 53581 2360 91 54155 1.2 1 52022 2133 92 51095 1.2 1 49030 2065 93 46837 1.2 1 44964 1873 94 43439 1.2 1 41761 1678 95 39232 1.2 1 37695 1537 96 36036 1.2 1 34592 1444 97 33561 1.2 1 32226 1335 98 30776 1.2 1 29574 1202 99 29061 1.2 1 27929 1132 100 27583 1.2 1 26480 1103 101 26057 1.2 1 25082 975 102 25117 1.2 1 24158 959 103 22395 1.2 1 21562 833 104 19615 1.2 1 18848 767 105 17291 1.2 1 16619 672 106 15383 1.2 1 14815 568 107 13697 1.2 1 13183 514 108 12132 1.2 1 11651 481 109 10945 1.2 1 10508 437 110 9709 1.2 1 9338 371 111 8560 1.2 1 8245 315 112 7995 1.2 1 7694 301 113 6658 1.2 1 6389 269 114 5447 1.2 1 5209 238 115 4502 1.2 1 4318 184 116 3706 1.2 1 3561 145 117 2978 1.2 1 2863 115 118 2482 1.2 1 2366 116 119 1987 1.2 1 1897 90 120 2015 1.2 1 1923 92 121 1271 1.2 1 1208 63 122 1020 1.2 1 979 41 123 732 1.2 1 685 47 124 519 1.2 1 488 31 125 391 1.2 1 340 51 126 347 1.2 1 317 30 127 193 1.2 1 162 31 128 141 1.2 1 125 16 129 139 1.2 1 116 23 130 123 1.2 1 110 13 131 116 1.2 1 96 20 132 67 1.2 1 51 16 133 101 1.2 1 81 20 134 60 1.2 1 41 19 135 72 1.2 1 53 19 136 43 1.2 1 30 13 137 85 1.2 1 54 31 138 42 1.2 1 23 19 139 70 1.2 1 49 21 140 55 1.2 1 30 25 141 63 1.2 1 41 22 142 40 1.2 1 17 23 143 49 1.2 1 22 27 144 38 1.2 1 15 23 145 57 1.2 1 24 33 146 53 1.2 1 20 33 147 45 1.2 1 21 24 148 55 1.2 1 12 43 149 52 1.2 1 31 21 150 55 1.2 1 11 44 151 13595 1.2 1 82 13513 RUN STATISTICS FOR INPUT FILE: ERR10683998_2.fastq.gz ============================================= 78491837 sequences processed in total