SUMMARISING RUN PARAMETERS ========================== Input filename: SRR13207061_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: 25). 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 SRR13207061_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 725.611 s (16.816 µs/read; 3.57 M reads/minute). === Summary === Total reads processed: 43,149,301 Reads with adapters: 18,631,147 (43.2%) Reads written (passing filters): 43,149,301 (100.0%) Total basepairs processed: 5,443,153,167 bp Quality-trimmed: 1,812,726 bp (0.0%) Total written (filtered): 5,419,360,965 bp (99.6%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 18631147 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 45.4% C: 10.3% G: 6.3% T: 38.0% none/other: 0.1% Overview of removed sequences length count expect max.err error counts 1 16618768 10787325.2 0 16618768 2 1296734 2696831.3 0 1296734 3 379833 674207.8 0 379833 4 245864 168552.0 0 245864 5 48781 42138.0 0 48781 6 11644 10534.5 0 11644 7 8534 2633.6 0 8534 8 6628 658.4 0 6628 9 1831 164.6 0 1474 357 10 11430 41.2 1 10505 925 11 149 10.3 1 20 129 12 42 2.6 1 11 31 13 14 0.6 1 3 11 14 3 0.6 1 1 2 15 7 0.6 1 3 4 16 1 0.6 1 1 17 4 0.6 1 1 3 19 3 0.6 1 3 20 1 0.6 1 0 1 21 4 0.6 1 3 1 22 3 0.6 1 1 2 23 6 0.6 1 2 4 24 6 0.6 1 2 4 25 3 0.6 1 1 2 26 7 0.6 1 4 3 27 2 0.6 1 0 2 28 4 0.6 1 3 1 29 3 0.6 1 1 2 30 3 0.6 1 3 31 3 0.6 1 2 1 32 4 0.6 1 2 2 33 2 0.6 1 2 34 2 0.6 1 1 1 35 6 0.6 1 3 3 36 4 0.6 1 2 2 37 2 0.6 1 2 38 1 0.6 1 1 39 5 0.6 1 4 1 40 5 0.6 1 4 1 41 5 0.6 1 4 1 42 7 0.6 1 5 2 43 7 0.6 1 5 2 44 7 0.6 1 2 5 45 3 0.6 1 2 1 46 2 0.6 1 2 47 9 0.6 1 5 4 48 5 0.6 1 3 2 49 5 0.6 1 3 2 50 2 0.6 1 2 51 3 0.6 1 1 2 52 8 0.6 1 6 2 53 5 0.6 1 4 1 54 5 0.6 1 3 2 55 3 0.6 1 3 56 6 0.6 1 5 1 57 10 0.6 1 9 1 58 5 0.6 1 3 2 59 6 0.6 1 6 60 9 0.6 1 7 2 61 3 0.6 1 3 62 1 0.6 1 1 63 3 0.6 1 3 64 4 0.6 1 2 2 65 4 0.6 1 2 2 66 7 0.6 1 4 3 67 2 0.6 1 2 68 4 0.6 1 4 69 6 0.6 1 4 2 70 4 0.6 1 4 72 1 0.6 1 0 1 73 4 0.6 1 3 1 74 1 0.6 1 1 75 6 0.6 1 6 76 7 0.6 1 7 77 5 0.6 1 5 78 5 0.6 1 3 2 79 7 0.6 1 7 80 3 0.6 1 3 81 10 0.6 1 4 6 83 5 0.6 1 5 84 10 0.6 1 8 2 85 5 0.6 1 5 86 6 0.6 1 2 4 87 5 0.6 1 5 88 10 0.6 1 9 1 89 3 0.6 1 2 1 90 4 0.6 1 3 1 91 6 0.6 1 4 2 92 2 0.6 1 2 93 8 0.6 1 8 94 4 0.6 1 3 1 95 4 0.6 1 3 1 96 3 0.6 1 3 97 7 0.6 1 3 4 98 17 0.6 1 13 4 99 13 0.6 1 10 3 100 6 0.6 1 6 101 8 0.6 1 6 2 102 9 0.6 1 6 3 103 4 0.6 1 4 104 6 0.6 1 5 1 105 5 0.6 1 3 2 106 13 0.6 1 11 2 107 7 0.6 1 7 108 6 0.6 1 5 1 109 9 0.6 1 8 1 110 3 0.6 1 3 111 7 0.6 1 5 2 112 12 0.6 1 11 1 113 10 0.6 1 9 1 114 12 0.6 1 8 4 115 8 0.6 1 8 116 14 0.6 1 12 2 117 18 0.6 1 18 118 18 0.6 1 16 2 119 16 0.6 1 15 1 120 15 0.6 1 11 4 121 13 0.6 1 13 122 13 0.6 1 10 3 123 11 0.6 1 10 1 124 13 0.6 1 11 2 125 14 0.6 1 12 2 126 15 0.6 1 10 5 127 16 0.6 1 11 5 128 14 0.6 1 13 1 129 24 0.6 1 22 2 130 18 0.6 1 14 4 131 22 0.6 1 18 4 132 31 0.6 1 23 8 133 25 0.6 1 16 9 134 24 0.6 1 17 7 135 31 0.6 1 10 21 RUN STATISTICS FOR INPUT FILE: SRR13207061_2.fastq.gz ============================================= 43149301 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 43149301 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 3857 (0.01%)