SUMMARISING RUN PARAMETERS ========================== Input filename: SRR13207058_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: 28). 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 SRR13207058_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 1497.625 s (18.058 µs/read; 3.32 M reads/minute). === Summary === Total reads processed: 82,933,633 Reads with adapters: 36,117,516 (43.5%) Reads written (passing filters): 82,933,633 (100.0%) Total basepairs processed: 10,515,361,816 bp Quality-trimmed: 3,279,955 bp (0.0%) Total written (filtered): 10,469,702,797 bp (99.6%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 36117516 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 45.6% C: 10.2% G: 6.1% T: 38.0% none/other: 0.1% Overview of removed sequences length count expect max.err error counts 1 32338767 20733408.2 0 32338767 2 2433358 5183352.1 0 2433358 3 726050 1295838.0 0 726050 4 462161 323959.5 0 462161 5 84776 80989.9 0 84776 6 20704 20247.5 0 20704 7 15079 5061.9 0 15079 8 11270 1265.5 0 11270 9 3227 316.4 0 2607 620 10 19965 79.1 1 18231 1734 11 257 19.8 1 28 229 12 62 4.9 1 14 48 13 20 1.2 1 10 10 14 8 1.2 1 1 7 15 7 1.2 1 4 3 16 4 1.2 1 2 2 17 7 1.2 1 2 5 18 4 1.2 1 3 1 19 8 1.2 1 4 4 20 10 1.2 1 7 3 21 5 1.2 1 3 2 22 11 1.2 1 4 7 23 12 1.2 1 7 5 24 12 1.2 1 7 5 25 3 1.2 1 3 26 11 1.2 1 7 4 27 12 1.2 1 6 6 28 17 1.2 1 9 8 29 5 1.2 1 4 1 30 3 1.2 1 2 1 31 2 1.2 1 1 1 32 8 1.2 1 4 4 33 8 1.2 1 4 4 34 7 1.2 1 6 1 35 8 1.2 1 6 2 36 15 1.2 1 9 6 37 3 1.2 1 1 2 38 7 1.2 1 6 1 39 3 1.2 1 2 1 40 10 1.2 1 6 4 41 8 1.2 1 6 2 42 8 1.2 1 6 2 43 7 1.2 1 6 1 44 7 1.2 1 4 3 45 9 1.2 1 8 1 46 8 1.2 1 6 2 47 5 1.2 1 2 3 48 12 1.2 1 10 2 49 10 1.2 1 7 3 50 13 1.2 1 7 6 51 8 1.2 1 7 1 52 4 1.2 1 3 1 53 8 1.2 1 6 2 54 3 1.2 1 2 1 55 13 1.2 1 11 2 56 4 1.2 1 4 57 11 1.2 1 7 4 58 4 1.2 1 4 59 10 1.2 1 6 4 60 11 1.2 1 8 3 61 5 1.2 1 5 62 9 1.2 1 7 2 63 9 1.2 1 8 1 64 13 1.2 1 12 1 65 6 1.2 1 5 1 66 9 1.2 1 7 2 67 6 1.2 1 6 68 12 1.2 1 12 69 10 1.2 1 7 3 70 20 1.2 1 15 5 71 11 1.2 1 6 5 72 9 1.2 1 7 2 73 14 1.2 1 14 74 10 1.2 1 7 3 75 12 1.2 1 10 2 76 8 1.2 1 7 1 77 11 1.2 1 10 1 78 14 1.2 1 11 3 79 11 1.2 1 10 1 80 10 1.2 1 9 1 81 16 1.2 1 16 82 9 1.2 1 8 1 83 17 1.2 1 13 4 84 17 1.2 1 15 2 85 17 1.2 1 12 5 86 18 1.2 1 14 4 87 11 1.2 1 8 3 88 16 1.2 1 16 89 15 1.2 1 11 4 90 13 1.2 1 13 91 9 1.2 1 6 3 92 10 1.2 1 10 93 13 1.2 1 13 94 17 1.2 1 14 3 95 12 1.2 1 11 1 96 20 1.2 1 16 4 97 18 1.2 1 13 5 98 14 1.2 1 11 3 99 12 1.2 1 9 3 100 16 1.2 1 12 4 101 21 1.2 1 16 5 102 15 1.2 1 12 3 103 13 1.2 1 10 3 104 13 1.2 1 10 3 105 26 1.2 1 23 3 106 12 1.2 1 9 3 107 18 1.2 1 15 3 108 18 1.2 1 12 6 109 18 1.2 1 17 1 110 21 1.2 1 19 2 111 21 1.2 1 19 2 112 19 1.2 1 16 3 113 19 1.2 1 15 4 114 24 1.2 1 20 4 115 12 1.2 1 10 2 116 35 1.2 1 29 6 117 21 1.2 1 17 4 118 17 1.2 1 15 2 119 34 1.2 1 29 5 120 18 1.2 1 15 3 121 20 1.2 1 18 2 122 32 1.2 1 27 5 123 20 1.2 1 16 4 124 21 1.2 1 20 1 125 22 1.2 1 18 4 126 33 1.2 1 28 5 127 45 1.2 1 36 9 128 36 1.2 1 32 4 129 37 1.2 1 28 9 130 43 1.2 1 41 2 131 43 1.2 1 36 7 132 39 1.2 1 34 5 133 47 1.2 1 33 14 134 51 1.2 1 38 13 135 64 1.2 1 35 29 RUN STATISTICS FOR INPUT FILE: SRR13207058_2.fastq.gz ============================================= 82933633 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 82933633 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 7458 (0.01%)