SUMMARISING RUN PARAMETERS ========================== Input filename: ERR10684020_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: 113393). 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 ERR10684020_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 2281.073 s (17.556 µs/read; 3.42 M reads/minute). === Summary === Total reads processed: 129,934,698 Reads with adapters: 74,962,650 (57.7%) Reads written (passing filters): 129,934,698 (100.0%) Total basepairs processed: 19,620,139,398 bp Quality-trimmed: 78,014,575 bp (0.4%) Total written (filtered): 18,785,588,498 bp (95.7%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 74962650 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 51.2% C: 17.2% G: 0.6% T: 31.0% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 56379515 32483674.5 0 56379515 2 455061 8120918.6 0 455061 3 401498 2030229.7 0 401498 4 329826 507557.4 0 329826 5 337848 126889.4 0 337848 6 292165 31722.3 0 292165 7 286472 7930.6 0 286472 8 365563 1982.6 0 365563 9 217548 495.7 0 216861 687 10 318435 123.9 1 290986 27449 11 269680 31.0 1 240645 29035 12 313863 7.7 1 269176 44687 13 296289 1.9 1 254953 41336 14 349290 1.9 1 300257 49033 15 245432 1.9 1 210330 35102 16 287699 1.9 1 247824 39875 17 368748 1.9 1 320689 48059 18 188453 1.9 1 161906 26547 19 394696 1.9 1 342214 52482 20 282212 1.9 1 245864 36348 21 167253 1.9 1 143791 23462 22 272015 1.9 1 235948 36067 23 276682 1.9 1 240403 36279 24 374188 1.9 1 326549 47639 25 318905 1.9 1 279507 39398 26 227817 1.9 1 198371 29446 27 173325 1.9 1 149747 23578 28 308962 1.9 1 274040 34922 29 196088 1.9 1 170659 25429 30 289554 1.9 1 256995 32559 31 214027 1.9 1 188251 25776 32 262916 1.9 1 233625 29291 33 227797 1.9 1 201317 26480 34 272182 1.9 1 239058 33124 35 245847 1.9 1 219320 26527 36 208619 1.9 1 183818 24801 37 249530 1.9 1 221344 28186 38 247475 1.9 1 220904 26571 39 272493 1.9 1 241676 30817 40 182046 1.9 1 160977 21069 41 197215 1.9 1 177073 20142 42 249208 1.9 1 224121 25087 43 179417 1.9 1 160109 19308 44 208558 1.9 1 187815 20743 45 229177 1.9 1 204940 24237 46 213070 1.9 1 191051 22019 47 207690 1.9 1 188557 19133 48 176459 1.9 1 158440 18019 49 205746 1.9 1 184636 21110 50 178260 1.9 1 162189 16071 51 178101 1.9 1 161056 17045 52 183145 1.9 1 165424 17721 53 180318 1.9 1 163530 16788 54 216012 1.9 1 197049 18963 55 132249 1.9 1 119329 12920 56 176797 1.9 1 160182 16615 57 245868 1.9 1 224398 21470 58 119653 1.9 1 107943 11710 59 128637 1.9 1 117060 11577 60 188865 1.9 1 172566 16299 61 162079 1.9 1 147902 14177 62 113112 1.9 1 102876 10236 63 294384 1.9 1 271949 22435 64 118920 1.9 1 108379 10541 65 94149 1.9 1 86220 7929 66 91260 1.9 1 83548 7712 67 152595 1.9 1 141399 11196 68 131444 1.9 1 120789 10655 69 121078 1.9 1 111713 9365 70 139371 1.9 1 128831 10540 71 130865 1.9 1 120711 10154 72 126420 1.9 1 116682 9738 73 167567 1.9 1 155491 12076 74 100998 1.9 1 93496 7502 75 99599 1.9 1 92705 6894 76 70604 1.9 1 65419 5185 77 71749 1.9 1 66382 5367 78 76774 1.9 1 71309 5465 79 75733 1.9 1 70414 5319 80 75267 1.9 1 70013 5254 81 74299 1.9 1 68999 5300 82 71941 1.9 1 66924 5017 83 74706 1.9 1 69506 5200 84 70096 1.9 1 65326 4770 85 70442 1.9 1 65730 4712 86 65005 1.9 1 60687 4318 87 61173 1.9 1 57149 4024 88 58373 1.9 1 54529 3844 89 56837 1.9 1 53190 3647 90 55653 1.9 1 52400 3253 91 51839 1.9 1 48657 3182 92 50137 1.9 1 47093 3044 93 48502 1.9 1 45677 2825 94 44576 1.9 1 41912 2664 95 43087 1.9 1 40658 2429 96 41318 1.9 1 38880 2438 97 38866 1.9 1 36610 2256 98 38477 1.9 1 36324 2153 99 36786 1.9 1 34704 2082 100 34916 1.9 1 33052 1864 101 30754 1.9 1 29133 1621 102 28230 1.9 1 26792 1438 103 26044 1.9 1 24690 1354 104 23582 1.9 1 22356 1226 105 22112 1.9 1 21023 1089 106 20916 1.9 1 19919 997 107 18897 1.9 1 17968 929 108 17312 1.9 1 16470 842 109 15294 1.9 1 14574 720 110 13582 1.9 1 12965 617 111 11657 1.9 1 11132 525 112 10928 1.9 1 10446 482 113 9029 1.9 1 8632 397 114 7872 1.9 1 7530 342 115 6774 1.9 1 6485 289 116 5712 1.9 1 5474 238 117 4560 1.9 1 4372 188 118 3775 1.9 1 3620 155 119 3092 1.9 1 2932 160 120 11581 1.9 1 11067 514 121 2549 1.9 1 2455 94 122 1319 1.9 1 1252 67 123 900 1.9 1 851 49 124 628 1.9 1 594 34 125 422 1.9 1 404 18 126 285 1.9 1 262 23 127 222 1.9 1 200 22 128 136 1.9 1 123 13 129 108 1.9 1 89 19 130 83 1.9 1 75 8 131 78 1.9 1 69 9 132 51 1.9 1 45 6 133 60 1.9 1 55 5 134 34 1.9 1 33 1 135 49 1.9 1 42 7 136 39 1.9 1 36 3 137 39 1.9 1 29 10 138 26 1.9 1 22 4 139 18 1.9 1 16 2 140 19 1.9 1 15 4 141 30 1.9 1 24 6 142 29 1.9 1 22 7 143 18 1.9 1 10 8 144 17 1.9 1 12 5 145 35 1.9 1 27 8 146 24 1.9 1 13 11 147 24 1.9 1 10 14 148 25 1.9 1 11 14 149 26 1.9 1 11 15 150 10 1.9 1 3 7 151 188 1.9 1 115 73 RUN STATISTICS FOR INPUT FILE: ERR10684020_2.fastq.gz ============================================= 129934698 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 129934698 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 81705 (0.06%)