SUMMARISING RUN PARAMETERS ========================== Input filename: SRR13207067_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: 23). 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 SRR13207067_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 808.604 s (16.864 µs/read; 3.56 M reads/minute). === Summary === Total reads processed: 47,948,800 Reads with adapters: 20,603,226 (43.0%) Reads written (passing filters): 47,948,800 (100.0%) Total basepairs processed: 6,053,610,438 bp Quality-trimmed: 2,087,826 bp (0.0%) Total written (filtered): 6,027,275,695 bp (99.6%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 20603226 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 45.3% 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 18375358 11987200.0 0 18375358 2 1443882 2996800.0 0 1443882 3 420748 749200.0 0 420748 4 272111 187300.0 0 272111 5 49381 46825.0 0 49381 6 12266 11706.2 0 12266 7 9063 2926.6 0 9063 8 6684 731.6 0 6684 9 1756 182.9 0 1408 348 10 11040 45.7 1 10119 921 11 126 11.4 1 15 111 12 46 2.9 1 9 37 13 10 0.7 1 3 7 14 6 0.7 1 1 5 15 7 0.7 1 3 4 16 2 0.7 1 2 17 4 0.7 1 3 1 18 1 0.7 1 1 19 3 0.7 1 2 1 20 3 0.7 1 3 21 2 0.7 1 2 22 2 0.7 1 1 1 23 5 0.7 1 2 3 24 7 0.7 1 3 4 25 5 0.7 1 2 3 26 2 0.7 1 0 2 27 5 0.7 1 2 3 28 4 0.7 1 3 1 29 3 0.7 1 2 1 30 3 0.7 1 3 31 3 0.7 1 2 1 32 8 0.7 1 3 5 33 4 0.7 1 2 2 34 7 0.7 1 6 1 35 2 0.7 1 1 1 36 7 0.7 1 3 4 37 7 0.7 1 4 3 38 3 0.7 1 1 2 39 7 0.7 1 4 3 40 5 0.7 1 3 2 41 4 0.7 1 2 2 42 2 0.7 1 1 1 43 3 0.7 1 2 1 44 7 0.7 1 4 3 45 7 0.7 1 5 2 46 3 0.7 1 2 1 47 2 0.7 1 1 1 48 9 0.7 1 6 3 49 7 0.7 1 6 1 50 3 0.7 1 1 2 51 5 0.7 1 4 1 52 2 0.7 1 2 53 5 0.7 1 2 3 54 3 0.7 1 3 55 2 0.7 1 1 1 56 3 0.7 1 3 57 7 0.7 1 4 3 58 3 0.7 1 0 3 59 4 0.7 1 1 3 60 9 0.7 1 7 2 61 7 0.7 1 5 2 62 3 0.7 1 3 63 5 0.7 1 3 2 64 8 0.7 1 6 2 65 2 0.7 1 2 66 6 0.7 1 1 5 67 3 0.7 1 2 1 68 5 0.7 1 4 1 69 6 0.7 1 5 1 70 8 0.7 1 6 2 71 3 0.7 1 2 1 72 2 0.7 1 2 73 5 0.7 1 4 1 75 3 0.7 1 3 76 3 0.7 1 2 1 77 3 0.7 1 3 78 2 0.7 1 0 2 79 5 0.7 1 4 1 80 4 0.7 1 4 81 7 0.7 1 4 3 82 1 0.7 1 1 83 3 0.7 1 0 3 84 2 0.7 1 1 1 85 6 0.7 1 3 3 86 4 0.7 1 3 1 87 4 0.7 1 4 88 11 0.7 1 8 3 89 3 0.7 1 3 90 6 0.7 1 5 1 91 3 0.7 1 3 92 3 0.7 1 3 93 9 0.7 1 9 94 5 0.7 1 4 1 95 3 0.7 1 2 1 96 5 0.7 1 5 97 3 0.7 1 3 98 10 0.7 1 6 4 99 5 0.7 1 4 1 100 11 0.7 1 9 2 101 5 0.7 1 4 1 102 4 0.7 1 4 103 2 0.7 1 2 104 6 0.7 1 6 105 8 0.7 1 7 1 106 6 0.7 1 4 2 107 5 0.7 1 5 108 5 0.7 1 2 3 109 5 0.7 1 5 110 8 0.7 1 8 111 7 0.7 1 7 112 6 0.7 1 5 1 113 10 0.7 1 8 2 114 8 0.7 1 6 2 115 5 0.7 1 5 116 5 0.7 1 5 117 5 0.7 1 1 4 118 9 0.7 1 8 1 119 10 0.7 1 8 2 120 15 0.7 1 13 2 121 11 0.7 1 10 1 122 12 0.7 1 11 1 123 9 0.7 1 6 3 124 11 0.7 1 11 125 14 0.7 1 11 3 126 15 0.7 1 12 3 127 8 0.7 1 7 1 128 16 0.7 1 11 5 129 21 0.7 1 21 130 13 0.7 1 13 131 20 0.7 1 18 2 132 18 0.7 1 17 1 133 20 0.7 1 16 4 134 10 0.7 1 6 4 135 29 0.7 1 8 21 RUN STATISTICS FOR INPUT FILE: SRR13207067_2.fastq.gz ============================================= 47948800 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 47948800 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 3982 (0.01%)