SUMMARISING RUN PARAMETERS ========================== Input filename: SRR13207071_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 SRR13207071_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 897.866 s (17.192 µs/read; 3.49 M reads/minute). === Summary === Total reads processed: 52,225,074 Reads with adapters: 22,305,466 (42.7%) Reads written (passing filters): 52,225,074 (100.0%) Total basepairs processed: 6,552,607,764 bp Quality-trimmed: 2,651,242 bp (0.0%) Total written (filtered): 6,523,511,397 bp (99.6%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 22305466 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 19847833 13056268.5 0 19847833 2 1569666 3264067.1 0 1569666 3 455047 816016.8 0 455047 4 309134 204004.2 0 309134 5 65255 51001.0 0 65255 6 16274 12750.3 0 16274 7 12211 3187.6 0 12211 8 9595 796.9 0 9595 9 2853 199.2 0 2440 413 10 16558 49.8 1 15111 1447 11 195 12.5 1 29 166 12 46 3.1 1 7 39 13 8 0.8 1 1 7 14 6 0.8 1 1 5 15 5 0.8 1 1 4 16 1 0.8 1 0 1 17 8 0.8 1 4 4 18 3 0.8 1 2 1 19 3 0.8 1 1 2 21 4 0.8 1 1 3 23 1 0.8 1 1 24 5 0.8 1 1 4 25 5 0.8 1 1 4 26 1 0.8 1 1 27 1 0.8 1 1 28 2 0.8 1 1 1 29 2 0.8 1 2 30 3 0.8 1 2 1 31 3 0.8 1 1 2 32 6 0.8 1 1 5 33 10 0.8 1 6 4 34 4 0.8 1 0 4 35 3 0.8 1 0 3 36 5 0.8 1 4 1 37 1 0.8 1 1 38 1 0.8 1 1 39 4 0.8 1 3 1 40 4 0.8 1 2 2 42 5 0.8 1 1 4 44 4 0.8 1 2 2 45 3 0.8 1 1 2 46 4 0.8 1 3 1 47 9 0.8 1 4 5 48 2 0.8 1 2 49 2 0.8 1 2 50 3 0.8 1 0 3 51 2 0.8 1 2 52 1 0.8 1 1 53 5 0.8 1 3 2 54 2 0.8 1 1 1 55 2 0.8 1 0 2 56 1 0.8 1 1 57 4 0.8 1 3 1 58 1 0.8 1 1 59 2 0.8 1 1 1 60 8 0.8 1 7 1 61 5 0.8 1 4 1 62 4 0.8 1 2 2 63 7 0.8 1 4 3 64 4 0.8 1 2 2 65 4 0.8 1 2 2 66 5 0.8 1 5 67 2 0.8 1 1 1 68 6 0.8 1 5 1 69 3 0.8 1 3 70 3 0.8 1 2 1 71 2 0.8 1 2 72 6 0.8 1 4 2 73 2 0.8 1 2 74 2 0.8 1 1 1 75 6 0.8 1 4 2 76 2 0.8 1 1 1 77 5 0.8 1 3 2 78 5 0.8 1 3 2 79 2 0.8 1 2 80 2 0.8 1 1 1 81 2 0.8 1 2 82 5 0.8 1 3 2 83 4 0.8 1 2 2 84 2 0.8 1 2 85 4 0.8 1 2 2 86 5 0.8 1 3 2 87 4 0.8 1 4 88 7 0.8 1 7 89 8 0.8 1 8 90 1 0.8 1 0 1 91 6 0.8 1 4 2 92 5 0.8 1 3 2 93 8 0.8 1 8 94 7 0.8 1 7 95 6 0.8 1 4 2 96 2 0.8 1 1 1 97 10 0.8 1 7 3 98 7 0.8 1 6 1 99 8 0.8 1 7 1 100 7 0.8 1 6 1 101 8 0.8 1 5 3 102 5 0.8 1 5 103 9 0.8 1 9 104 8 0.8 1 8 105 5 0.8 1 4 1 106 12 0.8 1 11 1 107 10 0.8 1 8 2 108 16 0.8 1 15 1 109 10 0.8 1 10 110 7 0.8 1 5 2 111 7 0.8 1 6 1 112 11 0.8 1 9 2 113 6 0.8 1 2 4 114 11 0.8 1 9 2 115 7 0.8 1 6 1 116 12 0.8 1 12 117 9 0.8 1 7 2 118 11 0.8 1 7 4 119 18 0.8 1 15 3 120 11 0.8 1 8 3 121 14 0.8 1 14 122 17 0.8 1 14 3 123 11 0.8 1 10 1 124 8 0.8 1 7 1 125 16 0.8 1 14 2 126 15 0.8 1 15 127 15 0.8 1 13 2 128 24 0.8 1 22 2 129 14 0.8 1 13 1 130 15 0.8 1 9 6 131 16 0.8 1 13 3 132 25 0.8 1 19 6 133 14 0.8 1 7 7 134 33 0.8 1 20 13 135 25 0.8 1 11 14 RUN STATISTICS FOR INPUT FILE: SRR13207071_2.fastq.gz ============================================= 52225074 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 52225074 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 5352 (0.01%)