SUMMARISING RUN PARAMETERS ========================== Input filename: SRR18245604_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: 87149). 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 SRR18245604_1.fastq.gz Processing single-end reads on 1 core ... Finished in 4448.152 s (51.610 µs/read; 1.16 M reads/minute). === Summary === Total reads processed: 86,188,301 Reads with adapters: 37,982,474 (44.1%) Reads written (passing filters): 86,188,301 (100.0%) Total basepairs processed: 12,928,245,150 bp Quality-trimmed: 18,254,874 bp (0.1%) Total written (filtered): 12,515,870,514 bp (96.8%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 37982474 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 26.3% C: 24.5% G: 10.1% T: 39.0% none/other: 0.1% Overview of removed sequences length count expect max.err error counts 1 22449476 21547075.2 0 22449476 2 3667120 5386768.8 0 3667120 3 1518799 1346692.2 0 1518799 4 831134 336673.1 0 831134 5 292705 84168.3 0 292705 6 253638 21042.1 0 253638 7 248259 5260.5 0 248259 8 260174 1315.1 0 260174 9 245734 328.8 0 244926 808 10 236121 82.2 1 227128 8993 11 247876 20.5 1 233468 14408 12 232550 5.1 1 222354 10196 13 214304 1.3 1 205818 8486 14 220897 1.3 1 208611 12286 15 208123 1.3 1 199032 9091 16 210541 1.3 1 197853 12688 17 210321 1.3 1 198126 12195 18 193161 1.3 1 185538 7623 19 172447 1.3 1 164998 7449 20 184115 1.3 1 176122 7993 21 172536 1.3 1 164682 7854 22 165249 1.3 1 159186 6063 23 165130 1.3 1 157695 7435 24 164289 1.3 1 154668 9621 25 152244 1.3 1 146090 6154 26 145635 1.3 1 139520 6115 27 144619 1.3 1 138597 6022 28 133516 1.3 1 128801 4715 29 140034 1.3 1 132192 7842 30 132075 1.3 1 127328 4747 31 116790 1.3 1 112191 4599 32 119530 1.3 1 115335 4195 33 117123 1.3 1 111636 5487 34 112417 1.3 1 107971 4446 35 115489 1.3 1 109093 6396 36 104085 1.3 1 100308 3777 37 101274 1.3 1 97127 4147 38 109565 1.3 1 105911 3654 39 89407 1.3 1 85345 4062 40 92680 1.3 1 89444 3236 41 84547 1.3 1 80324 4223 42 84702 1.3 1 81918 2784 43 93356 1.3 1 88661 4695 44 85011 1.3 1 80952 4059 45 110004 1.3 1 107032 2972 46 46174 1.3 1 43842 2332 47 65246 1.3 1 63414 1832 48 75471 1.3 1 72858 2613 49 66914 1.3 1 64767 2147 50 69607 1.3 1 66652 2955 51 71181 1.3 1 67959 3222 52 66562 1.3 1 64225 2337 53 60248 1.3 1 58426 1822 54 61179 1.3 1 58984 2195 55 64211 1.3 1 62037 2174 56 56022 1.3 1 54147 1875 57 61035 1.3 1 59121 1914 58 60448 1.3 1 58444 2004 59 51646 1.3 1 49640 2006 60 53535 1.3 1 52218 1317 61 46327 1.3 1 44701 1626 62 53613 1.3 1 51839 1774 63 54443 1.3 1 53036 1407 64 49283 1.3 1 47793 1490 65 39229 1.3 1 37849 1380 66 50497 1.3 1 49059 1438 67 54252 1.3 1 52607 1645 68 70146 1.3 1 68013 2133 69 58232 1.3 1 56019 2213 70 95837 1.3 1 92631 3206 71 5628 1.3 1 5126 502 72 4707 1.3 1 4441 266 73 19667 1.3 1 19175 492 74 30599 1.3 1 29853 746 75 34566 1.3 1 33672 894 76 35743 1.3 1 34742 1001 77 35463 1.3 1 34472 991 78 35619 1.3 1 34597 1022 79 34835 1.3 1 33758 1077 80 34573 1.3 1 33517 1056 81 33851 1.3 1 32856 995 82 32729 1.3 1 31716 1013 83 32262 1.3 1 31268 994 84 31723 1.3 1 30660 1063 85 31341 1.3 1 30429 912 86 30820 1.3 1 29866 954 87 29504 1.3 1 28600 904 88 29483 1.3 1 28562 921 89 28647 1.3 1 27676 971 90 27741 1.3 1 26932 809 91 26875 1.3 1 25995 880 92 26850 1.3 1 26007 843 93 25759 1.3 1 24921 838 94 25497 1.3 1 24655 842 95 25163 1.3 1 24375 788 96 24054 1.3 1 23240 814 97 23808 1.3 1 23007 801 98 23085 1.3 1 22350 735 99 22356 1.3 1 21578 778 100 21839 1.3 1 21111 728 101 21536 1.3 1 20833 703 102 20807 1.3 1 20086 721 103 19963 1.3 1 19287 676 104 19703 1.3 1 19027 676 105 18946 1.3 1 18298 648 106 18680 1.3 1 18022 658 107 17725 1.3 1 17088 637 108 17237 1.3 1 16585 652 109 16813 1.3 1 16225 588 110 16436 1.3 1 15816 620 111 15680 1.3 1 15123 557 112 15000 1.3 1 14493 507 113 14625 1.3 1 14138 487 114 14460 1.3 1 13971 489 115 14267 1.3 1 13764 503 116 13659 1.3 1 13203 456 117 13491 1.3 1 13074 417 118 12775 1.3 1 12344 431 119 12715 1.3 1 12276 439 120 12526 1.3 1 12152 374 121 12121 1.3 1 11808 313 122 11802 1.3 1 11485 317 123 11083 1.3 1 10780 303 124 10299 1.3 1 10044 255 125 9533 1.3 1 9271 262 126 8525 1.3 1 8322 203 127 8124 1.3 1 7917 207 128 7308 1.3 1 7173 135 129 6495 1.3 1 6360 135 130 5887 1.3 1 5783 104 131 5617 1.3 1 5513 104 132 5037 1.3 1 4934 103 133 4422 1.3 1 4336 86 134 3884 1.3 1 3805 79 135 3358 1.3 1 3308 50 136 2905 1.3 1 2847 58 137 2798 1.3 1 2749 49 138 2832 1.3 1 2781 51 139 2816 1.3 1 2771 45 140 2869 1.3 1 2816 53 141 3670 1.3 1 3601 69 142 3002 1.3 1 2952 50 143 2662 1.3 1 2581 81 144 4086 1.3 1 3913 173 145 5246 1.3 1 5005 241 146 2479 1.3 1 2352 127 147 232 1.3 1 203 29 148 2076 1.3 1 1504 572 149 1082 1.3 1 922 160 150 28253 1.3 1 23729 4524 RUN STATISTICS FOR INPUT FILE: SRR18245604_1.fastq.gz ============================================= 86188301 sequences processed in total