SUMMARISING RUN PARAMETERS ========================== Input filename: SRR18245600_1.fastq.gz Trimming mode: paired-end Trim Galore version: 0.6.10 Cutadapt version: 4.2 Number of cores used for trimming: 1 Quality Phred score cutoff: 20 Quality encoding type selected: ASCII+33 Using Illumina adapter for trimming (count: 85632). 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 1 -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC SRR18245600_1.fastq.gz Processing single-end reads on 1 core ... Finished in 4487.797 s (53.692 µs/read; 1.12 M reads/minute). === Summary === Total reads processed: 83,583,654 Reads with adapters: 36,980,603 (44.2%) Reads written (passing filters): 83,583,654 (100.0%) Total basepairs processed: 12,537,548,100 bp Quality-trimmed: 13,379,720 bp (0.1%) Total written (filtered): 12,127,961,068 bp (96.7%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 36980603 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 25.2% C: 25.9% G: 10.5% T: 38.2% none/other: 0.2% Overview of removed sequences length count expect max.err error counts 1 21303706 20895913.5 0 21303706 2 3583848 5223978.4 0 3583848 3 1498536 1305994.6 0 1498536 4 850301 326498.6 0 850301 5 304924 81624.7 0 304924 6 276908 20406.2 0 276908 7 267863 5101.5 0 267863 8 280976 1275.4 0 280976 9 264921 318.8 0 264155 766 10 251577 79.7 1 240980 10597 11 270332 19.9 1 252964 17368 12 261339 5.0 1 248137 13202 13 218699 1.2 1 208458 10241 14 239973 1.2 1 223958 16015 15 219246 1.2 1 207829 11417 16 230262 1.2 1 213669 16593 17 220986 1.2 1 206447 14539 18 202233 1.2 1 192334 9899 19 185518 1.2 1 175919 9599 20 193247 1.2 1 182604 10643 21 183705 1.2 1 173168 10537 22 172301 1.2 1 164505 7796 23 174962 1.2 1 165040 9922 24 174573 1.2 1 162249 12324 25 157046 1.2 1 148768 8278 26 158917 1.2 1 150326 8591 27 148474 1.2 1 140754 7720 28 134829 1.2 1 128797 6032 29 145314 1.2 1 135644 9670 30 133864 1.2 1 127851 6013 31 122576 1.2 1 116610 5966 32 123139 1.2 1 117569 5570 33 130015 1.2 1 122075 7940 34 109134 1.2 1 103673 5461 35 105894 1.2 1 101808 4086 36 109179 1.2 1 102773 6406 37 101498 1.2 1 97358 4140 38 103465 1.2 1 97437 6028 39 97189 1.2 1 92062 5127 40 93911 1.2 1 88809 5102 41 91604 1.2 1 87394 4210 42 85158 1.2 1 81631 3527 43 91237 1.2 1 85788 5449 44 79425 1.2 1 75187 4238 45 116030 1.2 1 111511 4519 46 37290 1.2 1 34943 2347 47 66299 1.2 1 63673 2626 48 74815 1.2 1 71569 3246 49 64387 1.2 1 61659 2728 50 67957 1.2 1 64346 3611 51 71586 1.2 1 67539 4047 52 59949 1.2 1 57544 2405 53 57008 1.2 1 54703 2305 54 61205 1.2 1 58162 3043 55 60045 1.2 1 57677 2368 56 53145 1.2 1 50706 2439 57 59252 1.2 1 56800 2452 58 52989 1.2 1 50649 2340 59 52505 1.2 1 49984 2521 60 48658 1.2 1 47046 1612 61 40277 1.2 1 38462 1815 62 49494 1.2 1 47555 1939 63 52535 1.2 1 50778 1757 64 39653 1.2 1 38154 1499 65 38199 1.2 1 36517 1682 66 51686 1.2 1 50059 1627 67 46508 1.2 1 44790 1718 68 63896 1.2 1 61517 2379 69 51113 1.2 1 48775 2338 70 76882 1.2 1 73507 3375 71 4667 1.2 1 4146 521 72 4396 1.2 1 4069 327 73 15358 1.2 1 14895 463 74 24901 1.2 1 24202 699 75 28843 1.2 1 27998 845 76 30331 1.2 1 29345 986 77 30733 1.2 1 29716 1017 78 30035 1.2 1 29009 1026 79 29147 1.2 1 28146 1001 80 29002 1.2 1 27943 1059 81 28626 1.2 1 27586 1040 82 27846 1.2 1 26844 1002 83 27430 1.2 1 26472 958 84 26973 1.2 1 26046 927 85 25991 1.2 1 25064 927 86 25803 1.2 1 24818 985 87 25424 1.2 1 24495 929 88 24185 1.2 1 23273 912 89 24115 1.2 1 23295 820 90 23351 1.2 1 22505 846 91 23133 1.2 1 22352 781 92 22241 1.2 1 21463 778 93 22055 1.2 1 21249 806 94 21700 1.2 1 20948 752 95 21496 1.2 1 20730 766 96 20702 1.2 1 19883 819 97 20456 1.2 1 19607 849 98 19787 1.2 1 19022 765 99 19545 1.2 1 18740 805 100 19344 1.2 1 18588 756 101 18943 1.2 1 18200 743 102 18677 1.2 1 17976 701 103 18265 1.2 1 17591 674 104 17983 1.2 1 17334 649 105 17764 1.2 1 17124 640 106 17411 1.2 1 16749 662 107 17156 1.2 1 16503 653 108 16672 1.2 1 16160 512 109 16681 1.2 1 16156 525 110 16263 1.2 1 15747 516 111 16021 1.2 1 15531 490 112 15935 1.2 1 15432 503 113 15628 1.2 1 15091 537 114 15634 1.2 1 15180 454 115 15225 1.2 1 14768 457 116 15254 1.2 1 14809 445 117 15333 1.2 1 14892 441 118 15344 1.2 1 14892 452 119 15892 1.2 1 15461 431 120 16087 1.2 1 15698 389 121 16417 1.2 1 16037 380 122 16133 1.2 1 15785 348 123 15652 1.2 1 15303 349 124 14940 1.2 1 14651 289 125 13622 1.2 1 13285 337 126 12285 1.2 1 12040 245 127 11320 1.2 1 11101 219 128 10369 1.2 1 10151 218 129 9477 1.2 1 9301 176 130 8493 1.2 1 8325 168 131 8182 1.2 1 8053 129 132 7533 1.2 1 7375 158 133 6937 1.2 1 6813 124 134 6278 1.2 1 6156 122 135 5555 1.2 1 5438 117 136 4792 1.2 1 4671 121 137 4592 1.2 1 4512 80 138 4869 1.2 1 4769 100 139 4396 1.2 1 4294 102 140 4543 1.2 1 4430 113 141 5430 1.2 1 5307 123 142 4686 1.2 1 4592 94 143 4338 1.2 1 4225 113 144 6456 1.2 1 6185 271 145 8324 1.2 1 7880 444 146 4165 1.2 1 3933 232 147 371 1.2 1 305 66 148 4966 1.2 1 3501 1465 149 1949 1.2 1 1636 313 150 57582 1.2 1 48542 9040 RUN STATISTICS FOR INPUT FILE: SRR18245600_1.fastq.gz ============================================= 83583654 sequences processed in total