SUMMARISING RUN PARAMETERS ========================== Input filename: SRR13207069_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: 14). 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 SRR13207069_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 797.727 s (15.008 µs/read; 4.00 M reads/minute). === Summary === Total reads processed: 53,154,280 Reads with adapters: 22,971,054 (43.2%) Reads written (passing filters): 53,154,280 (100.0%) Total basepairs processed: 6,721,606,596 bp Quality-trimmed: 2,105,426 bp (0.0%) Total written (filtered): 6,692,511,074 bp (99.6%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 22971054 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: 6.2% T: 38.0% none/other: 0.1% Overview of removed sequences length count expect max.err error counts 1 20528839 13288570.0 0 20528839 2 1576070 3322142.5 0 1576070 3 464029 830535.6 0 464029 4 301169 207633.9 0 301169 5 54394 51908.5 0 54394 6 13620 12977.1 0 13620 7 10129 3244.3 0 10129 8 7521 811.1 0 7521 9 2045 202.8 0 1651 394 10 12162 50.7 1 11158 1004 11 139 12.7 1 19 120 12 37 3.2 1 7 30 13 10 0.8 1 1 9 14 3 0.8 1 2 1 15 2 0.8 1 0 2 16 1 0.8 1 1 17 4 0.8 1 2 2 18 3 0.8 1 2 1 19 6 0.8 1 2 4 20 4 0.8 1 2 2 22 3 0.8 1 2 1 24 4 0.8 1 0 4 25 7 0.8 1 3 4 26 3 0.8 1 0 3 27 2 0.8 1 2 28 5 0.8 1 2 3 29 1 0.8 1 0 1 30 5 0.8 1 3 2 31 2 0.8 1 2 32 6 0.8 1 4 2 33 3 0.8 1 0 3 34 6 0.8 1 5 1 35 1 0.8 1 1 36 6 0.8 1 3 3 37 1 0.8 1 1 38 6 0.8 1 4 2 39 3 0.8 1 1 2 40 12 0.8 1 6 6 41 1 0.8 1 1 42 6 0.8 1 5 1 43 2 0.8 1 0 2 44 3 0.8 1 1 2 45 6 0.8 1 5 1 46 2 0.8 1 1 1 47 5 0.8 1 4 1 48 4 0.8 1 2 2 49 4 0.8 1 4 50 1 0.8 1 0 1 51 7 0.8 1 4 3 52 2 0.8 1 1 1 53 3 0.8 1 2 1 54 3 0.8 1 2 1 55 2 0.8 1 2 56 5 0.8 1 2 3 57 4 0.8 1 4 58 4 0.8 1 1 3 59 1 0.8 1 1 60 7 0.8 1 4 3 61 2 0.8 1 1 1 62 3 0.8 1 3 63 3 0.8 1 2 1 64 3 0.8 1 2 1 65 5 0.8 1 3 2 66 6 0.8 1 3 3 67 6 0.8 1 3 3 68 2 0.8 1 0 2 69 5 0.8 1 4 1 70 2 0.8 1 2 71 2 0.8 1 0 2 72 4 0.8 1 4 73 3 0.8 1 1 2 74 9 0.8 1 6 3 76 7 0.8 1 6 1 77 5 0.8 1 3 2 78 9 0.8 1 9 79 5 0.8 1 5 80 7 0.8 1 7 81 7 0.8 1 4 3 82 4 0.8 1 2 2 83 3 0.8 1 2 1 84 8 0.8 1 5 3 85 8 0.8 1 7 1 86 8 0.8 1 7 1 87 6 0.8 1 4 2 88 6 0.8 1 3 3 90 7 0.8 1 5 2 91 3 0.8 1 3 92 8 0.8 1 8 93 9 0.8 1 6 3 94 8 0.8 1 5 3 95 3 0.8 1 2 1 96 7 0.8 1 4 3 97 6 0.8 1 5 1 98 10 0.8 1 8 2 99 11 0.8 1 11 100 10 0.8 1 6 4 101 18 0.8 1 16 2 102 9 0.8 1 7 2 103 9 0.8 1 9 104 3 0.8 1 2 1 105 9 0.8 1 9 106 10 0.8 1 9 1 107 6 0.8 1 4 2 108 14 0.8 1 12 2 109 8 0.8 1 7 1 110 13 0.8 1 10 3 111 10 0.8 1 8 2 112 7 0.8 1 5 2 113 11 0.8 1 9 2 114 12 0.8 1 10 2 115 9 0.8 1 7 2 116 13 0.8 1 11 2 117 12 0.8 1 11 1 118 16 0.8 1 14 2 119 8 0.8 1 8 120 12 0.8 1 10 2 121 16 0.8 1 13 3 122 16 0.8 1 15 1 123 11 0.8 1 8 3 124 14 0.8 1 13 1 125 17 0.8 1 15 2 126 13 0.8 1 13 127 22 0.8 1 21 1 128 16 0.8 1 13 3 129 20 0.8 1 19 1 130 20 0.8 1 16 4 131 29 0.8 1 27 2 132 25 0.8 1 20 5 133 18 0.8 1 13 5 134 24 0.8 1 14 10 135 29 0.8 1 13 16 RUN STATISTICS FOR INPUT FILE: SRR13207069_2.fastq.gz ============================================= 53154280 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 53154280 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 4114 (0.01%)