SUMMARISING RUN PARAMETERS ========================== Input filename: SRR18245588_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: 4018). 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 SRR18245588_1.fastq.gz Processing single-end reads on 1 core ... Finished in 4311.075 s (60.901 µs/read; 0.99 M reads/minute). === Summary === Total reads processed: 70,788,501 Reads with adapters: 27,201,520 (38.4%) Reads written (passing filters): 70,788,501 (100.0%) Total basepairs processed: 10,618,275,150 bp Quality-trimmed: 9,552,392 bp (0.1%) Total written (filtered): 10,550,324,444 bp (99.4%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 27201520 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 37.1% C: 1.1% G: 12.8% T: 48.7% none/other: 0.2% Overview of removed sequences length count expect max.err error counts 1 21932570 17697125.2 0 21932570 2 3161577 4424281.3 0 3161577 3 1218097 1106070.3 0 1218097 4 531939 276517.6 0 531939 5 9161 69129.4 0 9161 6 7881 17282.3 0 7881 7 6807 4320.6 0 6807 8 6832 1080.1 0 6832 9 7645 270.0 0 7068 577 10 6979 67.5 1 5647 1332 11 6934 16.9 1 6318 616 12 6163 4.2 1 5853 310 13 5255 1.1 1 5081 174 14 5861 1.1 1 5424 437 15 5023 1.1 1 4806 217 16 5606 1.1 1 5150 456 17 5319 1.1 1 5005 314 18 4900 1.1 1 4704 196 19 4544 1.1 1 4294 250 20 4485 1.1 1 4287 198 21 4486 1.1 1 4262 224 22 4030 1.1 1 3875 155 23 4171 1.1 1 3967 204 24 4621 1.1 1 4266 355 25 3668 1.1 1 3512 156 26 3726 1.1 1 3539 187 27 3842 1.1 1 3667 175 28 3129 1.1 1 3006 123 29 3675 1.1 1 3393 282 30 3225 1.1 1 3079 146 31 3181 1.1 1 3013 168 32 2966 1.1 1 2867 99 33 3088 1.1 1 2843 245 34 2894 1.1 1 2739 155 35 2831 1.1 1 2686 145 36 2568 1.1 1 2448 120 37 2601 1.1 1 2500 101 38 2481 1.1 1 2378 103 39 2724 1.1 1 2589 135 40 2270 1.1 1 2081 189 41 2327 1.1 1 2209 118 42 2109 1.1 1 2026 83 43 2348 1.1 1 2216 132 44 2485 1.1 1 2314 171 45 2893 1.1 1 2818 75 46 1116 1.1 1 1056 60 47 1482 1.1 1 1446 36 48 1926 1.1 1 1852 74 49 1910 1.1 1 1818 92 50 1811 1.1 1 1714 97 51 2206 1.1 1 2055 151 52 1690 1.1 1 1601 89 53 1420 1.1 1 1368 52 54 1623 1.1 1 1555 68 55 1752 1.1 1 1678 74 56 1603 1.1 1 1517 86 57 1568 1.1 1 1532 36 58 1582 1.1 1 1508 74 59 1727 1.1 1 1633 94 60 1173 1.1 1 1147 26 61 1254 1.1 1 1190 64 62 1509 1.1 1 1442 67 63 1289 1.1 1 1258 31 64 1334 1.1 1 1278 56 65 1306 1.1 1 1233 73 66 1421 1.1 1 1365 56 67 1346 1.1 1 1287 59 68 1805 1.1 1 1744 61 69 1755 1.1 1 1688 67 70 2784 1.1 1 2697 87 71 141 1.1 1 120 21 72 132 1.1 1 115 17 73 455 1.1 1 443 12 74 823 1.1 1 787 36 75 958 1.1 1 914 44 76 1057 1.1 1 1017 40 77 1068 1.1 1 1029 39 78 1072 1.1 1 1029 43 79 1022 1.1 1 976 46 80 1031 1.1 1 988 43 81 946 1.1 1 922 24 82 1016 1.1 1 966 50 83 1020 1.1 1 977 43 84 936 1.1 1 901 35 85 911 1.1 1 869 42 86 941 1.1 1 900 41 87 898 1.1 1 859 39 88 930 1.1 1 890 40 89 929 1.1 1 890 39 90 910 1.1 1 870 40 91 884 1.1 1 847 37 92 880 1.1 1 852 28 93 860 1.1 1 839 21 94 861 1.1 1 832 29 95 817 1.1 1 780 37 96 800 1.1 1 768 32 97 834 1.1 1 809 25 98 786 1.1 1 755 31 99 812 1.1 1 791 21 100 835 1.1 1 809 26 101 762 1.1 1 732 30 102 789 1.1 1 755 34 103 767 1.1 1 749 18 104 758 1.1 1 741 17 105 746 1.1 1 729 17 106 739 1.1 1 718 21 107 756 1.1 1 731 25 108 642 1.1 1 626 16 109 679 1.1 1 662 17 110 660 1.1 1 640 20 111 620 1.1 1 599 21 112 569 1.1 1 556 13 113 599 1.1 1 575 24 114 610 1.1 1 597 13 115 641 1.1 1 625 16 116 612 1.1 1 595 17 117 571 1.1 1 557 14 118 560 1.1 1 550 10 119 654 1.1 1 645 9 120 619 1.1 1 604 15 121 646 1.1 1 637 9 122 675 1.1 1 663 12 123 653 1.1 1 645 8 124 635 1.1 1 621 14 125 559 1.1 1 552 7 126 554 1.1 1 539 15 127 516 1.1 1 506 10 128 457 1.1 1 449 8 129 396 1.1 1 383 13 130 336 1.1 1 331 5 131 320 1.1 1 309 11 132 380 1.1 1 376 4 133 371 1.1 1 366 5 134 396 1.1 1 388 8 135 322 1.1 1 317 5 136 352 1.1 1 346 6 137 384 1.1 1 374 10 138 441 1.1 1 432 9 139 548 1.1 1 536 12 140 687 1.1 1 679 8 141 1192 1.1 1 1172 20 142 1452 1.1 1 1439 13 143 1824 1.1 1 1803 21 144 2639 1.1 1 2605 34 145 4877 1.1 1 4828 49 146 3100 1.1 1 3059 41 147 826 1.1 1 801 25 148 15039 1.1 1 14841 198 149 5653 1.1 1 5529 124 150 54063 1.1 1 52814 1249 RUN STATISTICS FOR INPUT FILE: SRR18245588_1.fastq.gz ============================================= 70788501 sequences processed in total