SUMMARISING RUN PARAMETERS ========================== Input filename: SRR13207065_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: 29). 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 SRR13207065_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 885.502 s (15.847 µs/read; 3.79 M reads/minute). === Summary === Total reads processed: 55,879,313 Reads with adapters: 24,638,835 (44.1%) Reads written (passing filters): 55,879,313 (100.0%) Total basepairs processed: 7,125,459,964 bp Quality-trimmed: 2,371,237 bp (0.0%) Total written (filtered): 7,094,372,672 bp (99.6%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 24638835 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 45.7% C: 10.3% G: 6.0% T: 38.0% none/other: 0.1% Overview of removed sequences length count expect max.err error counts 1 22154035 13969828.2 0 22154035 2 1596677 3492457.1 0 1596677 3 490802 873114.3 0 490802 4 304016 218278.6 0 304016 5 49336 54569.6 0 49336 6 12245 13642.4 0 12245 7 8821 3410.6 0 8821 8 6824 852.7 0 6824 9 2088 213.2 0 1647 441 10 12805 53.3 1 11775 1030 11 138 13.3 1 22 116 12 34 3.3 1 6 28 13 6 0.8 1 3 3 14 9 0.8 1 6 3 15 5 0.8 1 3 2 16 1 0.8 1 0 1 17 7 0.8 1 2 5 18 5 0.8 1 4 1 19 6 0.8 1 1 5 20 2 0.8 1 1 1 21 10 0.8 1 6 4 22 3 0.8 1 0 3 23 3 0.8 1 3 24 4 0.8 1 1 3 25 7 0.8 1 5 2 26 1 0.8 1 0 1 27 4 0.8 1 3 1 28 7 0.8 1 4 3 29 3 0.8 1 2 1 30 5 0.8 1 2 3 31 5 0.8 1 4 1 32 8 0.8 1 5 3 33 5 0.8 1 4 1 34 6 0.8 1 3 3 35 5 0.8 1 2 3 36 9 0.8 1 7 2 37 3 0.8 1 1 2 38 3 0.8 1 1 2 39 3 0.8 1 3 40 1 0.8 1 1 42 3 0.8 1 1 2 43 3 0.8 1 1 2 44 6 0.8 1 4 2 45 2 0.8 1 1 1 46 3 0.8 1 1 2 47 9 0.8 1 6 3 48 4 0.8 1 4 49 5 0.8 1 5 50 1 0.8 1 1 51 1 0.8 1 1 52 3 0.8 1 3 53 2 0.8 1 2 54 4 0.8 1 4 55 1 0.8 1 0 1 56 8 0.8 1 2 6 57 2 0.8 1 1 1 58 7 0.8 1 7 59 5 0.8 1 5 60 9 0.8 1 7 2 61 5 0.8 1 3 2 62 6 0.8 1 5 1 63 6 0.8 1 4 2 64 2 0.8 1 2 65 5 0.8 1 5 66 10 0.8 1 3 7 67 1 0.8 1 1 68 5 0.8 1 4 1 69 5 0.8 1 3 2 70 2 0.8 1 2 71 8 0.8 1 6 2 72 9 0.8 1 7 2 73 8 0.8 1 6 2 74 7 0.8 1 5 2 75 5 0.8 1 5 76 4 0.8 1 4 77 4 0.8 1 4 78 6 0.8 1 3 3 79 9 0.8 1 9 80 4 0.8 1 3 1 81 8 0.8 1 5 3 82 9 0.8 1 9 83 9 0.8 1 8 1 84 12 0.8 1 9 3 85 6 0.8 1 4 2 86 4 0.8 1 4 87 5 0.8 1 5 88 7 0.8 1 7 89 7 0.8 1 5 2 90 5 0.8 1 5 91 7 0.8 1 5 2 92 8 0.8 1 6 2 93 8 0.8 1 5 3 94 7 0.8 1 5 2 95 8 0.8 1 5 3 96 6 0.8 1 3 3 97 9 0.8 1 9 98 10 0.8 1 8 2 99 6 0.8 1 6 100 5 0.8 1 5 101 5 0.8 1 4 1 102 3 0.8 1 3 103 4 0.8 1 3 1 104 3 0.8 1 3 105 10 0.8 1 10 106 9 0.8 1 8 1 107 10 0.8 1 9 1 108 15 0.8 1 15 109 15 0.8 1 12 3 110 13 0.8 1 8 5 111 11 0.8 1 8 3 112 13 0.8 1 12 1 113 8 0.8 1 6 2 114 8 0.8 1 7 1 115 14 0.8 1 11 3 116 14 0.8 1 12 2 117 11 0.8 1 10 1 118 20 0.8 1 15 5 119 15 0.8 1 13 2 120 18 0.8 1 16 2 121 14 0.8 1 13 1 122 14 0.8 1 13 1 123 21 0.8 1 18 3 124 22 0.8 1 17 5 125 23 0.8 1 20 3 126 19 0.8 1 15 4 127 16 0.8 1 15 1 128 15 0.8 1 14 1 129 18 0.8 1 17 1 130 28 0.8 1 25 3 131 31 0.8 1 27 4 132 19 0.8 1 14 5 133 20 0.8 1 15 5 134 26 0.8 1 16 10 135 38 0.8 1 17 21 RUN STATISTICS FOR INPUT FILE: SRR13207065_2.fastq.gz ============================================= 55879313 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 55879313 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 4322 (0.01%)