SUMMARISING RUN PARAMETERS ========================== Input filename: SRR13207070_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: 17). 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 SRR13207070_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 797.930 s (14.692 µs/read; 4.08 M reads/minute). === Summary === Total reads processed: 54,311,933 Reads with adapters: 23,519,270 (43.3%) Reads written (passing filters): 54,311,933 (100.0%) Total basepairs processed: 6,895,076,635 bp Quality-trimmed: 1,433,956 bp (0.0%) Total written (filtered): 6,866,031,990 bp (99.6%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 23519270 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 45.3% C: 9.9% G: 6.2% T: 38.5% none/other: 0.1% Overview of removed sequences length count expect max.err error counts 1 20991923 13577983.2 0 20991923 2 1654391 3394495.8 0 1654391 3 474601 848624.0 0 474601 4 306931 212156.0 0 306931 5 48854 53039.0 0 48854 6 12498 13259.7 0 12498 7 8779 3314.9 0 8779 8 6824 828.7 0 6824 9 1898 207.2 0 1449 449 10 11483 51.8 1 10532 951 11 146 12.9 1 20 126 12 49 3.2 1 14 35 13 11 0.8 1 3 8 14 3 0.8 1 1 2 15 5 0.8 1 4 1 16 2 0.8 1 0 2 17 6 0.8 1 4 2 18 4 0.8 1 4 19 3 0.8 1 1 2 20 1 0.8 1 0 1 21 1 0.8 1 1 22 5 0.8 1 2 3 23 2 0.8 1 1 1 24 4 0.8 1 2 2 25 1 0.8 1 1 26 2 0.8 1 1 1 27 5 0.8 1 3 2 28 1 0.8 1 1 29 3 0.8 1 2 1 31 1 0.8 1 1 32 5 0.8 1 4 1 33 4 0.8 1 1 3 34 2 0.8 1 1 1 35 4 0.8 1 3 1 36 3 0.8 1 2 1 37 4 0.8 1 4 38 1 0.8 1 1 39 6 0.8 1 6 40 3 0.8 1 2 1 41 6 0.8 1 5 1 42 1 0.8 1 0 1 44 2 0.8 1 1 1 45 3 0.8 1 3 46 1 0.8 1 1 47 6 0.8 1 5 1 48 2 0.8 1 2 49 2 0.8 1 0 2 50 2 0.8 1 1 1 51 1 0.8 1 1 52 1 0.8 1 1 53 7 0.8 1 4 3 54 1 0.8 1 0 1 55 5 0.8 1 2 3 56 4 0.8 1 1 3 57 2 0.8 1 2 58 2 0.8 1 2 59 2 0.8 1 2 60 3 0.8 1 3 61 1 0.8 1 0 1 62 3 0.8 1 3 64 7 0.8 1 5 2 65 1 0.8 1 1 66 2 0.8 1 2 67 2 0.8 1 1 1 68 1 0.8 1 1 69 3 0.8 1 3 70 7 0.8 1 5 2 71 6 0.8 1 6 72 9 0.8 1 8 1 73 4 0.8 1 2 2 74 3 0.8 1 3 75 2 0.8 1 2 76 6 0.8 1 5 1 77 8 0.8 1 5 3 78 6 0.8 1 2 4 79 2 0.8 1 1 1 80 5 0.8 1 5 81 4 0.8 1 4 82 5 0.8 1 5 83 1 0.8 1 1 84 4 0.8 1 4 85 9 0.8 1 7 2 86 8 0.8 1 6 2 87 5 0.8 1 5 88 5 0.8 1 4 1 89 5 0.8 1 3 2 90 5 0.8 1 4 1 91 7 0.8 1 6 1 92 8 0.8 1 8 93 4 0.8 1 4 94 2 0.8 1 2 95 8 0.8 1 7 1 96 8 0.8 1 5 3 97 15 0.8 1 11 4 98 6 0.8 1 6 99 6 0.8 1 6 100 5 0.8 1 4 1 101 9 0.8 1 8 1 102 11 0.8 1 11 103 3 0.8 1 2 1 104 10 0.8 1 8 2 105 4 0.8 1 3 1 106 6 0.8 1 6 107 9 0.8 1 8 1 108 14 0.8 1 10 4 109 12 0.8 1 12 110 15 0.8 1 14 1 111 9 0.8 1 6 3 112 6 0.8 1 4 2 113 12 0.8 1 11 1 114 15 0.8 1 15 115 8 0.8 1 5 3 116 10 0.8 1 9 1 117 11 0.8 1 10 1 118 13 0.8 1 12 1 119 16 0.8 1 14 2 120 18 0.8 1 16 2 121 12 0.8 1 10 2 122 25 0.8 1 21 4 123 2 0.8 1 2 124 17 0.8 1 16 1 125 13 0.8 1 12 1 126 17 0.8 1 14 3 127 31 0.8 1 29 2 128 25 0.8 1 21 4 129 20 0.8 1 18 2 130 20 0.8 1 17 3 131 27 0.8 1 21 6 132 22 0.8 1 20 2 133 33 0.8 1 26 7 134 29 0.8 1 24 5 135 46 0.8 1 14 32 RUN STATISTICS FOR INPUT FILE: SRR13207070_2.fastq.gz ============================================= 54311933 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 54311933 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 4145 (0.01%)