SUMMARISING RUN PARAMETERS ========================== Input filename: SRR13207059_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: 25). Second best hit was smallRNA (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 SRR13207059_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 947.787 s (17.461 µs/read; 3.44 M reads/minute). === Summary === Total reads processed: 54,279,403 Reads with adapters: 23,389,569 (43.1%) Reads written (passing filters): 54,279,403 (100.0%) Total basepairs processed: 6,864,471,929 bp Quality-trimmed: 1,982,834 bp (0.0%) Total written (filtered): 6,834,977,157 bp (99.6%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 23389569 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 45.5% C: 10.2% G: 6.1% T: 38.1% none/other: 0.1% Overview of removed sequences length count expect max.err error counts 1 20894172 13569850.8 0 20894172 2 1616291 3392462.7 0 1616291 3 469462 848115.7 0 469462 4 305433 212028.9 0 305433 5 55463 53007.2 0 55463 6 13979 13251.8 0 13979 7 9891 3313.0 0 9891 8 7745 828.2 0 7745 9 2130 207.1 0 1675 455 10 13659 51.8 1 12616 1043 11 191 12.9 1 20 171 12 40 3.2 1 14 26 13 9 0.8 1 3 6 14 2 0.8 1 0 2 15 1 0.8 1 0 1 16 7 0.8 1 4 3 17 5 0.8 1 3 2 18 1 0.8 1 1 19 6 0.8 1 4 2 20 7 0.8 1 5 2 22 3 0.8 1 2 1 23 2 0.8 1 2 24 6 0.8 1 2 4 25 3 0.8 1 2 1 26 7 0.8 1 3 4 27 6 0.8 1 6 28 8 0.8 1 4 4 29 6 0.8 1 3 3 30 5 0.8 1 1 4 32 4 0.8 1 1 3 33 2 0.8 1 1 1 34 7 0.8 1 1 6 35 7 0.8 1 3 4 36 6 0.8 1 6 37 5 0.8 1 2 3 38 3 0.8 1 2 1 39 3 0.8 1 2 1 40 8 0.8 1 5 3 41 4 0.8 1 3 1 42 8 0.8 1 5 3 43 8 0.8 1 6 2 44 3 0.8 1 1 2 45 8 0.8 1 6 2 46 7 0.8 1 3 4 47 7 0.8 1 4 3 48 4 0.8 1 4 49 4 0.8 1 4 50 5 0.8 1 5 51 4 0.8 1 2 2 52 1 0.8 1 0 1 53 3 0.8 1 2 1 54 2 0.8 1 1 1 55 12 0.8 1 6 6 56 5 0.8 1 4 1 57 2 0.8 1 2 58 6 0.8 1 5 1 59 5 0.8 1 2 3 60 2 0.8 1 1 1 61 2 0.8 1 1 1 62 5 0.8 1 5 63 1 0.8 1 1 64 9 0.8 1 9 65 4 0.8 1 4 66 5 0.8 1 3 2 67 4 0.8 1 4 68 2 0.8 1 2 69 8 0.8 1 7 1 70 5 0.8 1 3 2 71 7 0.8 1 4 3 72 4 0.8 1 3 1 73 8 0.8 1 5 3 74 11 0.8 1 9 2 75 9 0.8 1 8 1 76 7 0.8 1 6 1 77 9 0.8 1 6 3 78 11 0.8 1 7 4 79 6 0.8 1 5 1 80 5 0.8 1 4 1 81 10 0.8 1 6 4 82 5 0.8 1 4 1 83 8 0.8 1 7 1 84 10 0.8 1 8 2 85 6 0.8 1 6 86 5 0.8 1 4 1 87 13 0.8 1 9 4 88 7 0.8 1 6 1 89 13 0.8 1 10 3 90 9 0.8 1 6 3 91 7 0.8 1 6 1 92 4 0.8 1 4 93 5 0.8 1 3 2 94 11 0.8 1 10 1 95 12 0.8 1 10 2 96 8 0.8 1 8 97 7 0.8 1 6 1 98 12 0.8 1 11 1 99 11 0.8 1 9 2 100 7 0.8 1 6 1 101 8 0.8 1 6 2 102 6 0.8 1 6 103 12 0.8 1 12 104 6 0.8 1 6 105 16 0.8 1 15 1 106 16 0.8 1 11 5 107 6 0.8 1 5 1 108 18 0.8 1 13 5 109 13 0.8 1 13 110 14 0.8 1 13 1 111 14 0.8 1 12 2 112 11 0.8 1 11 113 20 0.8 1 20 114 12 0.8 1 10 2 115 13 0.8 1 9 4 116 17 0.8 1 15 2 117 17 0.8 1 17 118 19 0.8 1 19 119 20 0.8 1 15 5 120 19 0.8 1 17 2 121 23 0.8 1 20 3 122 12 0.8 1 9 3 123 13 0.8 1 9 4 124 9 0.8 1 8 1 125 16 0.8 1 13 3 126 19 0.8 1 14 5 127 12 0.8 1 10 2 128 16 0.8 1 14 2 129 28 0.8 1 26 2 130 19 0.8 1 16 3 131 28 0.8 1 28 132 31 0.8 1 27 4 133 25 0.8 1 22 3 134 29 0.8 1 17 12 135 35 0.8 1 7 28 RUN STATISTICS FOR INPUT FILE: SRR13207059_2.fastq.gz ============================================= 54279403 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 54279403 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 4840 (0.01%)