SUMMARISING RUN PARAMETERS ========================== Input filename: SRR18245601_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: 186959). 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 1 -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC SRR18245601_1.fastq.gz Processing single-end reads on 1 core ... Finished in 4201.270 s (48.078 µs/read; 1.25 M reads/minute). === Summary === Total reads processed: 87,384,726 Reads with adapters: 44,546,905 (51.0%) Reads written (passing filters): 87,384,726 (100.0%) Total basepairs processed: 13,107,708,900 bp Quality-trimmed: 13,952,355 bp (0.1%) Total written (filtered): 11,636,297,363 bp (88.8%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 44546905 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 20.6% C: 34.5% G: 7.9% T: 32.8% none/other: 4.2% Overview of removed sequences length count expect max.err error counts 1 20299586 21846181.5 0 20299586 2 3323083 5461545.4 0 3323083 3 1363279 1365386.3 0 1363279 4 720265 341346.6 0 720265 5 240972 85336.6 0 240972 6 210857 21334.2 0 210857 7 206203 5333.5 0 206203 8 227637 1333.4 0 227637 9 205036 333.3 0 204366 670 10 204868 83.3 1 195328 9540 11 224942 20.8 1 208293 16649 12 208730 5.2 1 197086 11644 13 195134 1.3 1 185620 9514 14 205726 1.3 1 191228 14498 15 196938 1.3 1 186039 10899 16 200754 1.3 1 185861 14893 17 204193 1.3 1 189636 14557 18 192442 1.3 1 182870 9572 19 168002 1.3 1 159512 8490 20 184309 1.3 1 174038 10271 21 178302 1.3 1 168319 9983 22 170748 1.3 1 162913 7835 23 174807 1.3 1 165011 9796 24 176694 1.3 1 163893 12801 25 168983 1.3 1 160143 8840 26 160587 1.3 1 151991 8596 27 163631 1.3 1 154911 8720 28 153686 1.3 1 146924 6762 29 161567 1.3 1 150728 10839 30 154668 1.3 1 147750 6918 31 138144 1.3 1 131279 6865 32 145610 1.3 1 138897 6713 33 147244 1.3 1 138300 8944 34 147060 1.3 1 138822 8238 35 138995 1.3 1 131330 7665 36 129605 1.3 1 124226 5379 37 138797 1.3 1 131528 7269 38 124468 1.3 1 118892 5576 39 135419 1.3 1 129449 5970 40 153107 1.3 1 144387 8720 41 108660 1.3 1 103559 5101 42 115026 1.3 1 110393 4633 43 121286 1.3 1 113346 7940 44 124680 1.3 1 116960 7720 45 167386 1.3 1 161576 5810 46 61602 1.3 1 57547 4055 47 95098 1.3 1 91885 3213 48 118812 1.3 1 113908 4904 49 97067 1.3 1 93139 3928 50 110086 1.3 1 104201 5885 51 114623 1.3 1 107639 6984 52 103964 1.3 1 99730 4234 53 93976 1.3 1 90624 3352 54 101956 1.3 1 97550 4406 55 110111 1.3 1 105806 4305 56 89426 1.3 1 85465 3961 57 110510 1.3 1 106530 3980 58 100321 1.3 1 96191 4130 59 89772 1.3 1 85389 4383 60 95460 1.3 1 92826 2634 61 73590 1.3 1 70378 3212 62 98555 1.3 1 94673 3882 63 109165 1.3 1 106301 2864 64 80945 1.3 1 78050 2895 65 69294 1.3 1 66362 2932 66 99945 1.3 1 96839 3106 67 105247 1.3 1 101488 3759 68 137728 1.3 1 132895 4833 69 118216 1.3 1 112748 5468 70 192591 1.3 1 184655 7936 71 12166 1.3 1 10778 1388 72 9008 1.3 1 8335 673 73 39930 1.3 1 38828 1102 74 63552 1.3 1 61859 1693 75 74566 1.3 1 72473 2093 76 78882 1.3 1 76590 2292 77 80450 1.3 1 77975 2475 78 81040 1.3 1 78437 2603 79 81575 1.3 1 78953 2622 80 82304 1.3 1 79686 2618 81 82121 1.3 1 79325 2796 82 82144 1.3 1 79342 2802 83 82729 1.3 1 80003 2726 84 82743 1.3 1 80100 2643 85 82901 1.3 1 80233 2668 86 82850 1.3 1 80268 2582 87 82368 1.3 1 79718 2650 88 82864 1.3 1 80350 2514 89 82945 1.3 1 80403 2542 90 83610 1.3 1 81069 2541 91 83995 1.3 1 81466 2529 92 84401 1.3 1 81779 2622 93 84916 1.3 1 82380 2536 94 84656 1.3 1 82168 2488 95 85946 1.3 1 83365 2581 96 85480 1.3 1 83000 2480 97 87504 1.3 1 84967 2537 98 86883 1.3 1 84538 2345 99 88862 1.3 1 86399 2463 100 87982 1.3 1 85587 2395 101 89200 1.3 1 86735 2465 102 90774 1.3 1 88258 2516 103 91443 1.3 1 88933 2510 104 92803 1.3 1 90374 2429 105 93167 1.3 1 90696 2471 106 93590 1.3 1 91112 2478 107 94666 1.3 1 92249 2417 108 95577 1.3 1 93152 2425 109 96199 1.3 1 93723 2476 110 97968 1.3 1 95565 2403 111 98948 1.3 1 96584 2364 112 100013 1.3 1 97537 2476 113 101448 1.3 1 98926 2522 114 104343 1.3 1 101787 2556 115 106721 1.3 1 104179 2542 116 111656 1.3 1 109059 2597 117 119182 1.3 1 116570 2612 118 130136 1.3 1 127395 2741 119 148785 1.3 1 145819 2966 120 168856 1.3 1 165497 3359 121 185943 1.3 1 182624 3319 122 188183 1.3 1 184937 3246 123 189084 1.3 1 185872 3212 124 183317 1.3 1 180208 3109 125 163025 1.3 1 157995 5030 126 141680 1.3 1 139127 2553 127 128134 1.3 1 125965 2169 128 118613 1.3 1 116692 1921 129 106808 1.3 1 105014 1794 130 98522 1.3 1 96869 1653 131 97938 1.3 1 96330 1608 132 92926 1.3 1 91380 1546 133 93578 1.3 1 91797 1781 134 85761 1.3 1 83875 1886 135 76483 1.3 1 74495 1988 136 68872 1.3 1 67361 1511 137 67171 1.3 1 66017 1154 138 76089 1.3 1 74826 1263 139 67492 1.3 1 66239 1253 140 68293 1.3 1 67026 1267 141 86725 1.3 1 85143 1582 142 70266 1.3 1 68878 1388 143 78475 1.3 1 76477 1998 144 99606 1.3 1 95764 3842 145 120991 1.3 1 113857 7134 146 62305 1.3 1 57104 5201 147 7335 1.3 1 5555 1780 148 153412 1.3 1 91598 61814 149 55116 1.3 1 44708 10408 150 1837738 1.3 1 1572127 265611 RUN STATISTICS FOR INPUT FILE: SRR18245601_1.fastq.gz ============================================= 87384726 sequences processed in total