SUMMARISING RUN PARAMETERS ========================== Input filename: SRR13207063_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: 30). 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 SRR13207063_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 840.069 s (16.725 µs/read; 3.59 M reads/minute). === Summary === Total reads processed: 50,228,886 Reads with adapters: 21,636,567 (43.1%) Reads written (passing filters): 50,228,886 (100.0%) Total basepairs processed: 6,352,591,952 bp Quality-trimmed: 1,729,527 bp (0.0%) Total written (filtered): 6,325,433,799 bp (99.6%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 21636567 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 45.5% C: 10.1% G: 6.0% T: 38.2% none/other: 0.1% Overview of removed sequences length count expect max.err error counts 1 19340172 12557221.5 0 19340172 2 1494763 3139305.4 0 1494763 3 424673 784826.3 0 424673 4 279671 196206.6 0 279671 5 52568 49051.6 0 52568 6 13090 12262.9 0 13090 7 9143 3065.7 0 9143 8 6874 766.4 0 6874 9 1861 191.6 0 1473 388 10 12512 47.9 1 11560 952 11 148 12.0 1 21 127 12 37 3.0 1 14 23 13 13 0.7 1 5 8 14 7 0.7 1 3 4 15 1 0.7 1 1 16 2 0.7 1 0 2 17 2 0.7 1 0 2 18 2 0.7 1 2 19 10 0.7 1 4 6 20 4 0.7 1 2 2 21 2 0.7 1 2 22 4 0.7 1 3 1 23 7 0.7 1 5 2 24 5 0.7 1 4 1 25 4 0.7 1 2 2 26 1 0.7 1 1 27 1 0.7 1 1 28 3 0.7 1 1 2 29 3 0.7 1 1 2 30 7 0.7 1 5 2 31 3 0.7 1 2 1 32 2 0.7 1 0 2 33 2 0.7 1 2 34 9 0.7 1 5 4 36 3 0.7 1 2 1 37 3 0.7 1 2 1 38 3 0.7 1 2 1 40 11 0.7 1 10 1 41 4 0.7 1 3 1 42 5 0.7 1 4 1 43 2 0.7 1 0 2 44 6 0.7 1 3 3 45 7 0.7 1 6 1 46 1 0.7 1 1 47 5 0.7 1 2 3 48 2 0.7 1 1 1 49 4 0.7 1 2 2 50 3 0.7 1 2 1 51 5 0.7 1 5 52 4 0.7 1 3 1 53 5 0.7 1 2 3 54 6 0.7 1 5 1 55 5 0.7 1 4 1 56 3 0.7 1 2 1 57 4 0.7 1 3 1 58 5 0.7 1 4 1 59 2 0.7 1 1 1 60 5 0.7 1 3 2 61 5 0.7 1 4 1 62 5 0.7 1 4 1 63 6 0.7 1 3 3 64 3 0.7 1 3 65 6 0.7 1 3 3 66 4 0.7 1 3 1 67 1 0.7 1 1 68 5 0.7 1 5 69 4 0.7 1 4 70 7 0.7 1 6 1 71 8 0.7 1 8 72 5 0.7 1 3 2 73 6 0.7 1 3 3 74 9 0.7 1 7 2 75 1 0.7 1 1 76 2 0.7 1 2 77 3 0.7 1 2 1 78 3 0.7 1 3 79 9 0.7 1 5 4 80 11 0.7 1 10 1 81 3 0.7 1 3 82 5 0.7 1 5 83 3 0.7 1 3 84 14 0.7 1 11 3 85 4 0.7 1 4 86 10 0.7 1 8 2 87 5 0.7 1 4 1 88 7 0.7 1 5 2 89 8 0.7 1 8 90 11 0.7 1 7 4 91 6 0.7 1 6 92 7 0.7 1 5 2 93 7 0.7 1 7 94 5 0.7 1 5 95 10 0.7 1 8 2 96 12 0.7 1 9 3 97 9 0.7 1 7 2 98 9 0.7 1 5 4 99 11 0.7 1 10 1 100 10 0.7 1 9 1 101 7 0.7 1 6 1 102 9 0.7 1 7 2 103 13 0.7 1 11 2 104 3 0.7 1 3 105 7 0.7 1 7 106 5 0.7 1 5 107 10 0.7 1 8 2 108 11 0.7 1 8 3 109 16 0.7 1 15 1 110 12 0.7 1 12 111 8 0.7 1 6 2 112 21 0.7 1 19 2 113 11 0.7 1 9 2 114 16 0.7 1 15 1 115 8 0.7 1 8 116 18 0.7 1 17 1 117 10 0.7 1 6 4 118 20 0.7 1 15 5 119 18 0.7 1 15 3 120 11 0.7 1 10 1 121 20 0.7 1 20 122 19 0.7 1 14 5 123 15 0.7 1 14 1 124 32 0.7 1 22 10 125 16 0.7 1 16 126 23 0.7 1 21 2 127 21 0.7 1 15 6 128 15 0.7 1 10 5 129 23 0.7 1 18 5 130 24 0.7 1 19 5 131 26 0.7 1 23 3 132 29 0.7 1 24 5 133 31 0.7 1 24 7 134 33 0.7 1 22 11 135 38 0.7 1 13 25 RUN STATISTICS FOR INPUT FILE: SRR13207063_2.fastq.gz ============================================= 50228886 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 50228886 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 4271 (0.01%)