SUMMARISING RUN PARAMETERS ========================== Input filename: SRR546472_1.fastq.gz Trimming mode: paired-end Trim Galore version: 0.6.10 Cutadapt version: 4.2 Number of cores used for trimming: 1 Quality Phred score cutoff: 20 Quality encoding type selected: ASCII+33 Using Illumina adapter for trimming (count: 13521). 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 1 -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC SRR546472_1.fastq.gz Processing single-end reads on 1 core ... Finished in 1957.882 s (28.639 µs/read; 2.10 M reads/minute). === Summary === Total reads processed: 68,365,315 Reads with adapters: 25,799,559 (37.7%) Reads written (passing filters): 68,365,315 (100.0%) Total basepairs processed: 6,152,878,350 bp Quality-trimmed: 98,708,045 bp (1.6%) Total written (filtered): 5,996,753,580 bp (97.5%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 25799559 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 37.8% C: 0.1% G: 14.1% T: 48.0% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 19502604 17091328.8 0 19502604 2 3378770 4272832.2 0 3378770 3 1172997 1068208.0 0 1172997 4 568668 267052.0 0 568668 5 50123 66763.0 0 50123 6 41112 16690.8 0 41112 7 39058 4172.7 0 39058 8 38212 1043.2 0 38212 9 43267 260.8 0 42483 784 10 41376 65.2 1 39472 1904 11 38685 16.3 1 37614 1071 12 34294 4.1 1 33425 869 13 33900 1.0 1 32961 939 14 34182 1.0 1 33074 1108 15 36191 1.0 1 35076 1115 16 34673 1.0 1 33384 1289 17 43506 1.0 1 42005 1501 18 35037 1.0 1 33886 1151 19 38227 1.0 1 36942 1285 20 32071 1.0 1 31119 952 21 31725 1.0 1 30794 931 22 33981 1.0 1 33042 939 23 29152 1.0 1 28307 845 24 29225 1.0 1 28361 864 25 26696 1.0 1 25861 835 26 33435 1.0 1 32371 1064 27 32915 1.0 1 32001 914 28 23343 1.0 1 22690 653 29 22327 1.0 1 21701 626 30 25062 1.0 1 24395 667 31 22396 1.0 1 21825 571 32 20494 1.0 1 19944 550 33 19651 1.0 1 19139 512 34 18717 1.0 1 18243 474 35 18634 1.0 1 18053 581 36 25631 1.0 1 24997 634 37 21191 1.0 1 20648 543 38 19794 1.0 1 19283 511 39 20975 1.0 1 20599 376 40 6381 1.0 1 6169 212 41 10343 1.0 1 10066 277 42 8598 1.0 1 8422 176 43 6769 1.0 1 6613 156 44 6344 1.0 1 6182 162 45 6824 1.0 1 6670 154 46 6817 1.0 1 6688 129 47 3994 1.0 1 3886 108 48 3960 1.0 1 3857 103 49 4066 1.0 1 3957 109 50 3555 1.0 1 3478 77 51 2849 1.0 1 2773 76 52 2764 1.0 1 2697 67 53 2563 1.0 1 2496 67 54 3289 1.0 1 3216 73 55 1897 1.0 1 1845 52 56 2113 1.0 1 2091 22 57 495 1.0 1 471 24 58 600 1.0 1 586 14 59 590 1.0 1 566 24 60 972 1.0 1 959 13 61 144 1.0 1 139 5 62 107 1.0 1 101 6 63 157 1.0 1 152 5 64 189 1.0 1 180 9 65 214 1.0 1 208 6 66 479 1.0 1 467 12 67 151 1.0 1 146 5 68 8 1.0 1 7 1 70 1 1.0 1 0 1 71 12 1.0 1 8 4 72 1 1.0 1 0 1 74 1 1.0 1 0 1 76 3 1.0 1 1 2 77 1 1.0 1 0 1 78 1 1.0 1 0 1 81 2 1.0 1 0 2 83 1 1.0 1 0 1 84 1 1.0 1 0 1 85 1 1.0 1 0 1 86 1 1.0 1 0 1 87 2 1.0 1 0 2 90 2 1.0 1 0 2 RUN STATISTICS FOR INPUT FILE: SRR546472_1.fastq.gz ============================================= 68365315 sequences processed in total