SUMMARISING RUN PARAMETERS ========================== Input filename: SRR13207056_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: 10). 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 SRR13207056_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 873.267 s (16.131 µs/read; 3.72 M reads/minute). === Summary === Total reads processed: 54,135,312 Reads with adapters: 23,601,218 (43.6%) Reads written (passing filters): 54,135,312 (100.0%) Total basepairs processed: 6,875,391,122 bp Quality-trimmed: 1,991,084 bp (0.0%) Total written (filtered): 6,845,788,389 bp (99.6%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 23601218 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 45.6% C: 10.2% G: 6.0% T: 38.1% none/other: 0.1% Overview of removed sequences length count expect max.err error counts 1 21164011 13533828.0 0 21164011 2 1571912 3383457.0 0 1571912 3 470038 845864.2 0 470038 4 299695 211466.1 0 299695 5 52176 52866.5 0 52176 6 12427 13216.6 0 12427 7 8880 3304.2 0 8880 8 6830 826.0 0 6830 9 1975 206.5 0 1582 393 10 12006 51.6 1 10968 1038 11 151 12.9 1 14 137 12 29 3.2 1 7 22 13 6 0.8 1 4 2 14 8 0.8 1 6 2 15 4 0.8 1 3 1 16 3 0.8 1 1 2 17 2 0.8 1 1 1 18 3 0.8 1 1 2 19 5 0.8 1 0 5 20 3 0.8 1 2 1 21 6 0.8 1 2 4 22 5 0.8 1 1 4 23 5 0.8 1 3 2 24 8 0.8 1 7 1 25 12 0.8 1 6 6 26 3 0.8 1 2 1 27 3 0.8 1 1 2 28 12 0.8 1 6 6 29 3 0.8 1 1 2 30 3 0.8 1 3 31 3 0.8 1 1 2 32 12 0.8 1 4 8 33 7 0.8 1 5 2 34 3 0.8 1 1 2 35 4 0.8 1 1 3 36 5 0.8 1 4 1 37 6 0.8 1 4 2 38 5 0.8 1 1 4 39 7 0.8 1 6 1 40 5 0.8 1 5 41 6 0.8 1 3 3 42 7 0.8 1 4 3 43 2 0.8 1 2 44 4 0.8 1 2 2 45 6 0.8 1 3 3 46 8 0.8 1 7 1 47 6 0.8 1 3 3 48 5 0.8 1 3 2 49 6 0.8 1 6 50 7 0.8 1 6 1 51 1 0.8 1 1 52 4 0.8 1 3 1 53 6 0.8 1 6 54 2 0.8 1 2 55 1 0.8 1 1 56 2 0.8 1 1 1 57 6 0.8 1 3 3 58 12 0.8 1 9 3 60 6 0.8 1 3 3 61 4 0.8 1 3 1 62 2 0.8 1 2 63 7 0.8 1 5 2 64 4 0.8 1 4 65 4 0.8 1 3 1 66 6 0.8 1 4 2 67 2 0.8 1 2 68 7 0.8 1 5 2 69 5 0.8 1 5 70 5 0.8 1 3 2 71 2 0.8 1 2 72 2 0.8 1 2 73 9 0.8 1 6 3 74 7 0.8 1 5 2 75 3 0.8 1 1 2 76 6 0.8 1 5 1 77 2 0.8 1 2 78 4 0.8 1 3 1 79 9 0.8 1 9 80 4 0.8 1 2 2 81 4 0.8 1 3 1 82 9 0.8 1 5 4 83 9 0.8 1 7 2 84 7 0.8 1 5 2 85 12 0.8 1 8 4 86 7 0.8 1 5 2 87 3 0.8 1 3 88 2 0.8 1 1 1 89 10 0.8 1 9 1 90 5 0.8 1 3 2 91 2 0.8 1 1 1 92 5 0.8 1 5 93 6 0.8 1 6 94 9 0.8 1 7 2 95 5 0.8 1 4 1 96 3 0.8 1 3 97 13 0.8 1 8 5 98 6 0.8 1 4 2 99 8 0.8 1 6 2 100 5 0.8 1 4 1 101 10 0.8 1 8 2 102 9 0.8 1 5 4 103 10 0.8 1 8 2 104 5 0.8 1 2 3 105 8 0.8 1 4 4 106 9 0.8 1 7 2 107 4 0.8 1 4 108 11 0.8 1 8 3 109 13 0.8 1 11 2 110 9 0.8 1 9 111 17 0.8 1 15 2 112 9 0.8 1 9 113 10 0.8 1 8 2 114 16 0.8 1 15 1 115 11 0.8 1 10 1 116 14 0.8 1 12 2 117 11 0.8 1 10 1 118 6 0.8 1 5 1 119 26 0.8 1 20 6 120 16 0.8 1 11 5 121 26 0.8 1 19 7 122 19 0.8 1 19 123 24 0.8 1 19 5 124 20 0.8 1 19 1 125 24 0.8 1 19 5 126 26 0.8 1 22 4 127 25 0.8 1 24 1 128 20 0.8 1 18 2 129 23 0.8 1 17 6 130 23 0.8 1 17 6 131 20 0.8 1 18 2 132 36 0.8 1 28 8 133 29 0.8 1 27 2 134 34 0.8 1 25 9 135 43 0.8 1 27 16 RUN STATISTICS FOR INPUT FILE: SRR13207056_2.fastq.gz ============================================= 54135312 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 54135312 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 4582 (0.01%)