SUMMARISING RUN PARAMETERS ========================== Input filename: ERR10684014_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: 72677). 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 2 -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC ERR10684014_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 2492.887 s (20.097 µs/read; 2.99 M reads/minute). === Summary === Total reads processed: 124,042,011 Reads with adapters: 68,785,571 (55.5%) Reads written (passing filters): 124,042,011 (100.0%) Total basepairs processed: 18,730,343,661 bp Quality-trimmed: 74,250,190 bp (0.4%) Total written (filtered): 18,184,272,587 bp (97.1%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 68785571 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 51.6% C: 17.5% G: 0.6% T: 30.4% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 56274869 31010502.8 0 56274869 2 400395 7752625.7 0 400395 3 336864 1938156.4 0 336864 4 277166 484539.1 0 277166 5 283015 121134.8 0 283015 6 247683 30283.7 0 247683 7 237467 7570.9 0 237467 8 298751 1892.7 0 298751 9 185729 473.2 0 184906 823 10 257418 118.3 1 237094 20324 11 220161 29.6 1 198995 21166 12 252566 7.4 1 218727 33839 13 234196 1.8 1 203191 31005 14 291983 1.8 1 253378 38605 15 176145 1.8 1 151997 24148 16 222614 1.8 1 192691 29923 17 283067 1.8 1 248038 35029 18 148887 1.8 1 129151 19736 19 232034 1.8 1 201350 30684 20 258124 1.8 1 226408 31716 21 153397 1.8 1 133501 19896 22 201951 1.8 1 176368 25583 23 204565 1.8 1 178634 25931 24 260250 1.8 1 228142 32108 25 228598 1.8 1 201675 26923 26 170858 1.8 1 149744 21114 27 133602 1.8 1 115934 17668 28 221782 1.8 1 198012 23770 29 137375 1.8 1 120257 17118 30 217930 1.8 1 194733 23197 31 133625 1.8 1 117520 16105 32 204808 1.8 1 182957 21851 33 134756 1.8 1 118819 15937 34 189092 1.8 1 169040 20052 35 137219 1.8 1 120876 16343 36 192235 1.8 1 172430 19805 37 160987 1.8 1 142991 17996 38 152372 1.8 1 134886 17486 39 149336 1.8 1 134193 15143 40 135043 1.8 1 122737 12306 41 101970 1.8 1 90913 11057 42 153738 1.8 1 138803 14935 43 119788 1.8 1 107195 12593 44 128062 1.8 1 115715 12347 45 139447 1.8 1 125221 14226 46 132579 1.8 1 119549 13030 47 120991 1.8 1 110355 10636 48 107363 1.8 1 96726 10637 49 122210 1.8 1 110088 12122 50 106918 1.8 1 97635 9283 51 104167 1.8 1 94460 9707 52 107060 1.8 1 97230 9830 53 104071 1.8 1 94536 9535 54 122991 1.8 1 112551 10440 55 75925 1.8 1 68756 7169 56 99996 1.8 1 90692 9304 57 136962 1.8 1 125293 11669 58 64100 1.8 1 58100 6000 59 71100 1.8 1 64972 6128 60 100943 1.8 1 92376 8567 61 87421 1.8 1 80102 7319 62 62970 1.8 1 57449 5521 63 152948 1.8 1 141608 11340 64 62524 1.8 1 57121 5403 65 50466 1.8 1 46204 4262 66 47708 1.8 1 43691 4017 67 78309 1.8 1 72819 5490 68 68785 1.8 1 63255 5530 69 61772 1.8 1 56877 4895 70 70165 1.8 1 65088 5077 71 66807 1.8 1 61842 4965 72 64780 1.8 1 59824 4956 73 84383 1.8 1 78390 5993 74 51001 1.8 1 47359 3642 75 48977 1.8 1 45752 3225 76 35846 1.8 1 33390 2456 77 35439 1.8 1 32884 2555 78 38145 1.8 1 35412 2733 79 37614 1.8 1 34988 2626 80 36887 1.8 1 34196 2691 81 36217 1.8 1 33758 2459 82 35545 1.8 1 33075 2470 83 36675 1.8 1 34093 2582 84 34712 1.8 1 32303 2409 85 34316 1.8 1 32081 2235 86 31588 1.8 1 29472 2116 87 30057 1.8 1 28139 1918 88 28318 1.8 1 26398 1920 89 27356 1.8 1 25625 1731 90 26638 1.8 1 24963 1675 91 25010 1.8 1 23437 1573 92 24147 1.8 1 22669 1478 93 23079 1.8 1 21735 1344 94 21503 1.8 1 20235 1268 95 20568 1.8 1 19339 1229 96 20055 1.8 1 18903 1152 97 19026 1.8 1 17883 1143 98 18748 1.8 1 17619 1129 99 17848 1.8 1 16891 957 100 17077 1.8 1 16116 961 101 15292 1.8 1 14455 837 102 13750 1.8 1 12994 756 103 12865 1.8 1 12185 680 104 11773 1.8 1 11183 590 105 11143 1.8 1 10606 537 106 10213 1.8 1 9731 482 107 9514 1.8 1 9002 512 108 8720 1.8 1 8247 473 109 7751 1.8 1 7363 388 110 6821 1.8 1 6489 332 111 6338 1.8 1 6015 323 112 5468 1.8 1 5209 259 113 4836 1.8 1 4605 231 114 4030 1.8 1 3847 183 115 3429 1.8 1 3280 149 116 2834 1.8 1 2721 113 117 2504 1.8 1 2376 128 118 2094 1.8 1 1991 103 119 1812 1.8 1 1730 82 120 7789 1.8 1 7375 414 121 1406 1.8 1 1324 82 122 850 1.8 1 805 45 123 629 1.8 1 592 37 124 433 1.8 1 395 38 125 333 1.8 1 300 33 126 298 1.8 1 276 22 127 195 1.8 1 177 18 128 138 1.8 1 120 18 129 133 1.8 1 112 21 130 126 1.8 1 108 18 131 104 1.8 1 88 16 132 66 1.8 1 59 7 133 98 1.8 1 95 3 134 59 1.8 1 53 6 135 84 1.8 1 71 13 136 61 1.8 1 45 16 137 64 1.8 1 54 10 138 44 1.8 1 35 9 139 71 1.8 1 68 3 140 47 1.8 1 40 7 141 56 1.8 1 46 10 142 35 1.8 1 29 6 143 45 1.8 1 28 17 144 31 1.8 1 18 13 145 46 1.8 1 29 17 146 38 1.8 1 25 13 147 35 1.8 1 19 16 148 36 1.8 1 24 12 149 52 1.8 1 39 13 150 19 1.8 1 7 12 151 237 1.8 1 171 66 RUN STATISTICS FOR INPUT FILE: ERR10684014_2.fastq.gz ============================================= 124042011 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 124042011 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 94302 (0.08%)