SUMMARISING RUN PARAMETERS ========================== Input filename: ERR13913466_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: 40669). 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 ERR13913466_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 2026.476 s (19.953 µs/read; 3.01 M reads/minute). === Summary === Total reads processed: 101,561,248 Reads with adapters: 53,940,444 (53.1%) Reads written (passing filters): 101,561,248 (100.0%) Total basepairs processed: 15,234,187,200 bp Quality-trimmed: 58,496,509 bp (0.4%) Total written (filtered): 14,968,301,977 bp (98.3%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 53940444 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 52.2% C: 17.5% G: 0.3% T: 29.9% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 48323267 25390312.0 0 48323267 2 182506 6347578.0 0 182506 3 173323 1586894.5 0 173323 4 150067 396723.6 0 150067 5 146227 99180.9 0 146227 6 121385 24795.2 0 121385 7 132474 6198.8 0 132474 8 140571 1549.7 0 140571 9 105195 387.4 0 105159 36 10 126672 96.9 1 117687 8985 11 119929 24.2 1 109899 10030 12 115502 6.1 1 83056 32446 13 112179 1.5 1 79146 33033 14 122698 1.5 1 87465 35233 15 108283 1.5 1 76992 31291 16 116464 1.5 1 82429 34035 17 145520 1.5 1 103956 41564 18 85433 1.5 1 61105 24328 19 145627 1.5 1 105694 39933 20 92231 1.5 1 64887 27344 21 80369 1.5 1 57518 22851 22 96028 1.5 1 69584 26444 23 93112 1.5 1 67519 25593 24 126797 1.5 1 93191 33606 25 109374 1.5 1 78464 30910 26 72067 1.5 1 52558 19509 27 75040 1.5 1 54661 20379 28 103859 1.5 1 77774 26085 29 84810 1.5 1 62318 22492 30 102365 1.5 1 76365 26000 31 72467 1.5 1 53198 19269 32 100092 1.5 1 75522 24570 33 75136 1.5 1 55569 19567 34 66424 1.5 1 49573 16851 35 94074 1.5 1 72182 21892 36 67258 1.5 1 49634 17624 37 63956 1.5 1 48359 15597 38 73407 1.5 1 55751 17656 39 82708 1.5 1 63559 19149 40 60702 1.5 1 45684 15018 41 81098 1.5 1 62660 18438 42 57371 1.5 1 43060 14311 43 53384 1.5 1 40559 12825 44 58580 1.5 1 45371 13209 45 56092 1.5 1 43054 13038 46 56706 1.5 1 44029 12677 47 57726 1.5 1 44552 13174 48 59826 1.5 1 46587 13239 49 52296 1.5 1 41011 11285 50 50480 1.5 1 39217 11263 51 51557 1.5 1 40018 11539 52 44779 1.5 1 35214 9565 53 44275 1.5 1 34971 9304 54 42411 1.5 1 33411 9000 55 39316 1.5 1 31304 8012 56 43693 1.5 1 34874 8819 57 35334 1.5 1 27914 7420 58 39174 1.5 1 31346 7828 59 50199 1.5 1 40621 9578 60 28611 1.5 1 22611 6000 61 32300 1.5 1 25766 6534 62 35724 1.5 1 28987 6737 63 27986 1.5 1 22301 5685 64 25468 1.5 1 20525 4943 65 49189 1.5 1 40569 8620 66 18238 1.5 1 14391 3847 67 16820 1.5 1 13588 3232 68 18161 1.5 1 14820 3341 69 25140 1.5 1 20734 4406 70 23638 1.5 1 19189 4449 71 18232 1.5 1 15050 3182 72 19825 1.5 1 16385 3440 73 18147 1.5 1 14935 3212 74 15879 1.5 1 13000 2879 75 22742 1.5 1 18700 4042 76 12680 1.5 1 10547 2133 77 8511 1.5 1 7019 1492 78 4115 1.5 1 3385 730 79 6857 1.5 1 5747 1110 80 7735 1.5 1 6450 1285 81 7514 1.5 1 6277 1237 82 7044 1.5 1 5898 1146 83 5958 1.5 1 4948 1010 84 5308 1.5 1 4427 881 85 4664 1.5 1 3866 798 86 4046 1.5 1 3321 725 87 3622 1.5 1 2986 636 88 3159 1.5 1 2579 580 89 2873 1.5 1 2329 544 90 2472 1.5 1 2021 451 91 2115 1.5 1 1704 411 92 1757 1.5 1 1404 353 93 1446 1.5 1 1129 317 94 1323 1.5 1 1028 295 95 1093 1.5 1 829 264 96 896 1.5 1 674 222 97 755 1.5 1 551 204 98 704 1.5 1 513 191 99 560 1.5 1 381 179 100 587 1.5 1 404 183 101 510 1.5 1 334 176 102 442 1.5 1 297 145 103 403 1.5 1 245 158 104 381 1.5 1 233 148 105 298 1.5 1 179 119 106 249 1.5 1 147 102 107 260 1.5 1 149 111 108 267 1.5 1 158 109 109 228 1.5 1 132 96 110 205 1.5 1 113 92 111 202 1.5 1 120 82 112 192 1.5 1 106 86 113 178 1.5 1 92 86 114 195 1.5 1 114 81 115 184 1.5 1 101 83 116 200 1.5 1 117 83 117 149 1.5 1 75 74 118 160 1.5 1 77 83 119 144 1.5 1 85 59 120 149 1.5 1 80 69 121 133 1.5 1 77 56 122 163 1.5 1 97 66 123 134 1.5 1 75 59 124 149 1.5 1 94 55 125 115 1.5 1 66 49 126 116 1.5 1 64 52 127 92 1.5 1 60 32 128 73 1.5 1 40 33 129 86 1.5 1 59 27 130 99 1.5 1 70 29 131 60 1.5 1 36 24 132 46 1.5 1 30 16 133 30 1.5 1 21 9 134 48 1.5 1 32 16 135 42 1.5 1 31 11 136 28 1.5 1 20 8 137 34 1.5 1 22 12 138 20 1.5 1 16 4 139 21 1.5 1 8 13 140 28 1.5 1 20 8 141 13 1.5 1 9 4 142 12 1.5 1 8 4 143 13 1.5 1 7 6 144 26 1.5 1 15 11 145 8 1.5 1 6 2 146 21 1.5 1 12 9 147 12 1.5 1 9 3 148 9 1.5 1 5 4 149 8 1.5 1 3 5 150 20 1.5 1 10 10 RUN STATISTICS FOR INPUT FILE: ERR13913466_2.fastq.gz ============================================= 101561248 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 101561248 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 17618 (0.02%)