SUMMARISING RUN PARAMETERS ========================== Input filename: ERR12308525_1.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: 78406). 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 ERR12308525_1.fastq.gz Processing single-end reads on 2 cores ... Finished in 1528.221 s (17.711 µs/read; 3.39 M reads/minute). === Summary === Total reads processed: 86,285,288 Reads with adapters: 38,830,848 (45.0%) Reads written (passing filters): 86,285,288 (100.0%) Total basepairs processed: 13,029,078,488 bp Quality-trimmed: 34,620,248 bp (0.3%) Total written (filtered): 12,678,310,969 bp (97.3%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 38830848 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 35.1% C: 1.3% G: 16.8% T: 46.8% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 23128289 21571322.0 0 23128289 2 4097260 5392830.5 0 4097260 3 1766032 1348207.6 0 1766032 4 801904 337051.9 0 801904 5 275907 84263.0 0 275907 6 233018 21065.7 0 233018 7 226538 5266.4 0 226538 8 247411 1316.6 0 247411 9 214307 329.2 0 212749 1558 10 227557 82.3 1 208374 19183 11 241254 20.6 1 213697 27557 12 246865 5.1 1 222465 24400 13 216693 1.3 1 197841 18852 14 219904 1.3 1 195092 24812 15 225199 1.3 1 205034 20165 16 210384 1.3 1 186447 23937 17 236532 1.3 1 208178 28354 18 259822 1.3 1 239892 19930 19 122972 1.3 1 113221 9751 20 189607 1.3 1 173824 15783 21 199051 1.3 1 181990 17061 22 164459 1.3 1 151338 13121 23 192344 1.3 1 175831 16513 24 178200 1.3 1 157326 20874 25 178419 1.3 1 164923 13496 26 149101 1.3 1 138784 10317 27 175929 1.3 1 161567 14362 28 159094 1.3 1 148109 10985 29 161537 1.3 1 146118 15419 30 179604 1.3 1 168131 11473 31 100113 1.3 1 93396 6717 32 145070 1.3 1 135522 9548 33 128535 1.3 1 118611 9924 34 137286 1.3 1 125987 11299 35 142659 1.3 1 131001 11658 36 117889 1.3 1 111444 6445 37 131526 1.3 1 122280 9246 38 121874 1.3 1 109054 12820 39 116265 1.3 1 108824 7441 40 107999 1.3 1 99939 8060 41 106774 1.3 1 99786 6988 42 101340 1.3 1 95336 6004 43 129292 1.3 1 118560 10732 44 73306 1.3 1 67881 5425 45 148164 1.3 1 141469 6695 46 32403 1.3 1 29372 3031 47 85438 1.3 1 80589 4849 48 107507 1.3 1 101132 6375 49 64397 1.3 1 60818 3579 50 80936 1.3 1 75287 5649 51 79494 1.3 1 73722 5772 52 71957 1.3 1 67989 3968 53 66638 1.3 1 63007 3631 54 78982 1.3 1 73323 5659 55 91807 1.3 1 87715 4092 56 34131 1.3 1 31739 2392 57 80613 1.3 1 77095 3518 58 65478 1.3 1 62881 2597 59 33685 1.3 1 31578 2107 60 56618 1.3 1 54904 1714 61 27366 1.3 1 25800 1566 62 52733 1.3 1 49991 2742 63 64669 1.3 1 62380 2289 64 34700 1.3 1 33403 1297 65 24133 1.3 1 22706 1427 66 43270 1.3 1 41356 1914 67 42351 1.3 1 40440 1911 68 45341 1.3 1 43180 2161 69 40358 1.3 1 38148 2210 70 69618 1.3 1 66807 2811 71 5170 1.3 1 4600 570 72 5463 1.3 1 5042 421 73 15588 1.3 1 14886 702 74 21398 1.3 1 20561 837 75 22803 1.3 1 21846 957 76 22456 1.3 1 21430 1026 77 22095 1.3 1 21027 1068 78 20720 1.3 1 19861 859 79 19501 1.3 1 18582 919 80 18192 1.3 1 17362 830 81 17342 1.3 1 16627 715 82 16309 1.3 1 15556 753 83 15159 1.3 1 14464 695 84 14308 1.3 1 13623 685 85 13516 1.3 1 12887 629 86 12752 1.3 1 12236 516 87 11737 1.3 1 11198 539 88 10916 1.3 1 10433 483 89 10244 1.3 1 9813 431 90 9685 1.3 1 9232 453 91 8795 1.3 1 8367 428 92 8406 1.3 1 8012 394 93 7779 1.3 1 7433 346 94 7071 1.3 1 6721 350 95 6639 1.3 1 6325 314 96 6160 1.3 1 5864 296 97 5711 1.3 1 5449 262 98 5305 1.3 1 5056 249 99 4874 1.3 1 4658 216 100 4733 1.3 1 4499 234 101 4144 1.3 1 3917 227 102 3826 1.3 1 3656 170 103 3411 1.3 1 3236 175 104 3210 1.3 1 3056 154 105 2818 1.3 1 2687 131 106 2546 1.3 1 2394 152 107 2315 1.3 1 2179 136 108 2098 1.3 1 1993 105 109 1893 1.3 1 1782 111 110 1794 1.3 1 1712 82 111 1448 1.3 1 1369 79 112 1329 1.3 1 1235 94 113 1171 1.3 1 1108 63 114 1103 1.3 1 1015 88 115 897 1.3 1 840 57 116 748 1.3 1 698 50 117 721 1.3 1 658 63 118 603 1.3 1 547 56 119 526 1.3 1 472 54 120 461 1.3 1 417 44 121 475 1.3 1 432 43 122 347 1.3 1 318 29 123 244 1.3 1 211 33 124 235 1.3 1 190 45 125 209 1.3 1 172 37 126 172 1.3 1 149 23 127 137 1.3 1 114 23 128 126 1.3 1 104 22 129 98 1.3 1 64 34 130 100 1.3 1 76 24 131 86 1.3 1 69 17 132 81 1.3 1 59 22 133 86 1.3 1 69 17 134 67 1.3 1 51 16 135 67 1.3 1 53 14 136 58 1.3 1 40 18 137 61 1.3 1 54 7 138 51 1.3 1 39 12 139 50 1.3 1 31 19 140 40 1.3 1 29 11 141 61 1.3 1 50 11 142 50 1.3 1 20 30 143 33 1.3 1 17 16 144 42 1.3 1 21 21 145 45 1.3 1 34 11 146 40 1.3 1 16 24 147 53 1.3 1 28 25 148 37 1.3 1 19 18 149 47 1.3 1 28 19 150 57 1.3 1 7 50 151 11796 1.3 1 43 11753 RUN STATISTICS FOR INPUT FILE: ERR12308525_1.fastq.gz ============================================= 86285288 sequences processed in total