SUMMARISING RUN PARAMETERS ========================== Input filename: SRR13207073_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: 37). 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 SRR13207073_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 786.309 s (14.879 µs/read; 4.03 M reads/minute). === Summary === Total reads processed: 52,847,841 Reads with adapters: 22,781,010 (43.1%) Reads written (passing filters): 52,847,841 (100.0%) Total basepairs processed: 6,661,118,919 bp Quality-trimmed: 2,209,762 bp (0.0%) Total written (filtered): 6,632,042,202 bp (99.6%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 22781010 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 45.4% C: 10.2% G: 6.2% T: 38.1% none/other: 0.1% Overview of removed sequences length count expect max.err error counts 1 20322773 13211960.2 0 20322773 2 1590779 3302990.1 0 1590779 3 459662 825747.5 0 459662 4 302784 206436.9 0 302784 5 55915 51609.2 0 55915 6 14196 12902.3 0 14196 7 10464 3225.6 0 10464 8 7831 806.4 0 7831 9 2067 201.6 0 1683 384 10 13009 50.4 1 11893 1116 11 172 12.6 1 26 146 12 53 3.1 1 10 43 13 9 0.8 1 6 3 14 6 0.8 1 5 1 15 7 0.8 1 6 1 16 1 0.8 1 1 17 6 0.8 1 5 1 18 5 0.8 1 4 1 19 11 0.8 1 8 3 20 5 0.8 1 2 3 21 4 0.8 1 2 2 22 7 0.8 1 1 6 23 9 0.8 1 3 6 24 7 0.8 1 2 5 25 2 0.8 1 1 1 26 1 0.8 1 1 27 7 0.8 1 3 4 28 5 0.8 1 3 2 29 7 0.8 1 6 1 30 11 0.8 1 7 4 31 3 0.8 1 3 32 7 0.8 1 2 5 33 10 0.8 1 7 3 34 6 0.8 1 4 2 35 5 0.8 1 2 3 36 7 0.8 1 6 1 37 1 0.8 1 1 38 6 0.8 1 3 3 39 5 0.8 1 3 2 40 9 0.8 1 6 3 41 3 0.8 1 2 1 42 6 0.8 1 5 1 43 4 0.8 1 2 2 44 3 0.8 1 1 2 45 3 0.8 1 1 2 46 6 0.8 1 6 47 5 0.8 1 3 2 48 8 0.8 1 7 1 49 8 0.8 1 4 4 50 7 0.8 1 3 4 51 4 0.8 1 3 1 52 4 0.8 1 4 53 8 0.8 1 5 3 54 7 0.8 1 7 55 6 0.8 1 4 2 56 15 0.8 1 11 4 57 12 0.8 1 8 4 58 6 0.8 1 6 59 4 0.8 1 4 60 12 0.8 1 9 3 61 6 0.8 1 4 2 62 7 0.8 1 7 63 7 0.8 1 4 3 64 11 0.8 1 9 2 65 2 0.8 1 2 66 9 0.8 1 7 2 67 5 0.8 1 5 68 11 0.8 1 8 3 69 3 0.8 1 2 1 70 4 0.8 1 1 3 71 5 0.8 1 4 1 72 5 0.8 1 4 1 73 11 0.8 1 11 74 9 0.8 1 8 1 75 6 0.8 1 6 76 3 0.8 1 3 77 4 0.8 1 4 78 12 0.8 1 9 3 79 9 0.8 1 7 2 80 8 0.8 1 5 3 81 12 0.8 1 11 1 82 1 0.8 1 0 1 83 10 0.8 1 9 1 84 7 0.8 1 4 3 85 8 0.8 1 5 3 86 10 0.8 1 8 2 87 11 0.8 1 11 88 10 0.8 1 10 89 7 0.8 1 7 90 18 0.8 1 17 1 91 9 0.8 1 8 1 92 9 0.8 1 9 93 8 0.8 1 5 3 94 19 0.8 1 18 1 95 9 0.8 1 9 96 8 0.8 1 7 1 97 9 0.8 1 5 4 98 8 0.8 1 7 1 99 12 0.8 1 11 1 100 11 0.8 1 11 101 10 0.8 1 7 3 102 10 0.8 1 7 3 103 9 0.8 1 9 104 11 0.8 1 11 105 4 0.8 1 3 1 106 12 0.8 1 10 2 107 13 0.8 1 12 1 108 27 0.8 1 25 2 109 10 0.8 1 9 1 110 10 0.8 1 10 111 11 0.8 1 10 1 112 15 0.8 1 12 3 113 15 0.8 1 14 1 114 16 0.8 1 14 2 115 17 0.8 1 15 2 116 22 0.8 1 18 4 117 18 0.8 1 16 2 118 21 0.8 1 16 5 119 11 0.8 1 9 2 120 17 0.8 1 16 1 121 27 0.8 1 20 7 122 17 0.8 1 13 4 123 21 0.8 1 18 3 124 20 0.8 1 16 4 125 22 0.8 1 20 2 126 18 0.8 1 15 3 127 25 0.8 1 23 2 128 21 0.8 1 20 1 129 31 0.8 1 24 7 130 25 0.8 1 19 6 131 26 0.8 1 25 1 132 29 0.8 1 22 7 133 32 0.8 1 26 6 134 33 0.8 1 20 13 135 46 0.8 1 17 29 RUN STATISTICS FOR INPUT FILE: SRR13207073_2.fastq.gz ============================================= 52847841 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 52847841 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 4976 (0.01%)