SUMMARISING RUN PARAMETERS ========================== Input filename: ERR12308507_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: 120118). 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 ERR12308507_1.fastq.gz Processing single-end reads on 2 cores ... Finished in 1778.642 s (21.995 µs/read; 2.73 M reads/minute). === Summary === Total reads processed: 80,866,589 Reads with adapters: 45,454,972 (56.2%) Reads written (passing filters): 80,866,589 (100.0%) Total basepairs processed: 12,210,854,939 bp Quality-trimmed: 56,107,150 bp (0.5%) Total written (filtered): 11,704,128,536 bp (95.9%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 45454972 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 49.7% C: 18.7% G: 1.2% T: 30.4% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 32088669 20216647.2 0 32088669 2 554869 5054161.8 0 554869 3 374493 1263540.5 0 374493 4 299358 315885.1 0 299358 5 309361 78971.3 0 309361 6 271107 19742.8 0 271107 7 268190 4935.7 0 268190 8 328861 1233.9 0 328861 9 169594 308.5 0 169210 384 10 276225 77.1 1 243646 32579 11 245735 19.3 1 219385 26350 12 261919 4.8 1 219145 42774 13 255757 1.2 1 212724 43033 14 294128 1.2 1 239923 54205 15 214373 1.2 1 179784 34589 16 242555 1.2 1 202207 40348 17 311987 1.2 1 262782 49205 18 159461 1.2 1 132878 26583 19 307903 1.2 1 255607 52296 20 241672 1.2 1 202906 38766 21 137320 1.2 1 115338 21982 22 221451 1.2 1 185246 36205 23 219723 1.2 1 183160 36563 24 297621 1.2 1 246404 51217 25 265681 1.2 1 223775 41906 26 159290 1.2 1 133383 25907 27 137050 1.2 1 115031 22019 28 231532 1.2 1 196824 34708 29 166958 1.2 1 142543 24415 30 238009 1.2 1 201258 36751 31 147399 1.2 1 124233 23166 32 240846 1.2 1 203174 37672 33 181775 1.2 1 154086 27689 34 171666 1.2 1 146902 24764 35 140873 1.2 1 121397 19476 36 178496 1.2 1 153380 25116 37 177959 1.2 1 152624 25335 38 148204 1.2 1 126948 21256 39 174898 1.2 1 150131 24767 40 145864 1.2 1 126648 19216 41 155782 1.2 1 134466 21316 42 173342 1.2 1 149031 24311 43 129942 1.2 1 111985 17957 44 147626 1.2 1 126779 20847 45 154963 1.2 1 132805 22158 46 137111 1.2 1 118607 18504 47 137238 1.2 1 119979 17259 48 124963 1.2 1 108803 16160 49 130226 1.2 1 112893 17333 50 121810 1.2 1 106689 15121 51 118141 1.2 1 103332 14809 52 119016 1.2 1 104212 14804 53 113657 1.2 1 99824 13833 54 129729 1.2 1 114190 15539 55 89057 1.2 1 78757 10300 56 108457 1.2 1 95104 13353 57 137219 1.2 1 120521 16698 58 74792 1.2 1 65494 9298 59 87350 1.2 1 77785 9565 60 101904 1.2 1 90467 11437 61 96442 1.2 1 85582 10860 62 73814 1.2 1 65676 8138 63 145290 1.2 1 129608 15682 64 69738 1.2 1 61834 7904 65 54623 1.2 1 48728 5895 66 53688 1.2 1 48063 5625 67 81319 1.2 1 73344 7975 68 72255 1.2 1 64876 7379 69 62160 1.2 1 55800 6360 70 68367 1.2 1 61880 6487 71 62211 1.2 1 56342 5869 72 61811 1.2 1 55891 5920 73 81024 1.2 1 73764 7260 74 58144 1.2 1 52885 5259 75 57388 1.2 1 52609 4779 76 32042 1.2 1 29187 2855 77 31676 1.2 1 28590 3086 78 34295 1.2 1 31263 3032 79 33073 1.2 1 30249 2824 80 32476 1.2 1 29654 2822 81 31470 1.2 1 28786 2684 82 29800 1.2 1 27220 2580 83 29275 1.2 1 26734 2541 84 27830 1.2 1 25539 2291 85 26679 1.2 1 24486 2193 86 24353 1.2 1 22369 1984 87 22256 1.2 1 20461 1795 88 21129 1.2 1 19536 1593 89 19958 1.2 1 18410 1548 90 18943 1.2 1 17580 1363 91 17128 1.2 1 15840 1288 92 16301 1.2 1 15157 1144 93 15262 1.2 1 14226 1036 94 13584 1.2 1 12563 1021 95 12501 1.2 1 11593 908 96 11861 1.2 1 11049 812 97 10657 1.2 1 9928 729 98 10287 1.2 1 9628 659 99 9734 1.2 1 9108 626 100 8966 1.2 1 8376 590 101 7580 1.2 1 7043 537 102 6654 1.2 1 6253 401 103 5818 1.2 1 5439 379 104 5387 1.2 1 5041 346 105 4777 1.2 1 4451 326 106 4244 1.2 1 3946 298 107 3885 1.2 1 3653 232 108 3474 1.2 1 3251 223 109 2993 1.2 1 2791 202 110 2629 1.2 1 2448 181 111 2426 1.2 1 2270 156 112 1927 1.2 1 1839 88 113 1672 1.2 1 1564 108 114 1470 1.2 1 1366 104 115 1144 1.2 1 1070 74 116 1007 1.2 1 937 70 117 919 1.2 1 851 68 118 753 1.2 1 687 66 119 622 1.2 1 563 59 120 648 1.2 1 603 45 121 494 1.2 1 441 53 122 398 1.2 1 359 39 123 303 1.2 1 268 35 124 301 1.2 1 265 36 125 254 1.2 1 216 38 126 217 1.2 1 183 34 127 162 1.2 1 145 17 128 156 1.2 1 129 27 129 171 1.2 1 142 29 130 144 1.2 1 119 25 131 106 1.2 1 90 16 132 97 1.2 1 85 12 133 114 1.2 1 99 15 134 71 1.2 1 59 12 135 72 1.2 1 62 10 136 44 1.2 1 37 7 137 65 1.2 1 54 11 138 62 1.2 1 50 12 139 84 1.2 1 73 11 140 57 1.2 1 49 8 141 74 1.2 1 63 11 142 57 1.2 1 40 17 143 48 1.2 1 33 15 144 55 1.2 1 46 9 145 58 1.2 1 43 15 146 35 1.2 1 23 12 147 45 1.2 1 28 17 148 49 1.2 1 28 21 149 48 1.2 1 34 14 150 37 1.2 1 22 15 151 98 1.2 1 41 57 RUN STATISTICS FOR INPUT FILE: ERR12308507_1.fastq.gz ============================================= 80866589 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 80866589 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 30474 (0.04%)