SUMMARISING RUN PARAMETERS ========================== Input filename: SRR13207062_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: 26). 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 SRR13207062_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 748.090 s (16.668 µs/read; 3.60 M reads/minute). === Summary === Total reads processed: 44,881,631 Reads with adapters: 19,396,540 (43.2%) Reads written (passing filters): 44,881,631 (100.0%) Total basepairs processed: 5,690,565,908 bp Quality-trimmed: 1,400,281 bp (0.0%) Total written (filtered): 5,666,348,897 bp (99.6%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 19396540 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 45.5% C: 10.1% G: 6.1% T: 38.2% none/other: 0.1% Overview of removed sequences length count expect max.err error counts 1 17327604 11220407.8 0 17327604 2 1345332 2805101.9 0 1345332 3 389691 701275.5 0 389691 4 250075 175318.9 0 250075 5 44626 43829.7 0 44626 6 11196 10957.4 0 11196 7 8027 2739.4 0 8027 8 5938 684.8 0 5938 9 1618 171.2 0 1293 325 10 11157 42.8 1 10293 864 11 122 10.7 1 19 103 12 35 2.7 1 6 29 13 12 0.7 1 5 7 14 4 0.7 1 1 3 15 2 0.7 1 2 16 1 0.7 1 0 1 17 4 0.7 1 3 1 18 2 0.7 1 1 1 19 4 0.7 1 2 2 20 4 0.7 1 2 2 21 3 0.7 1 3 22 4 0.7 1 1 3 23 5 0.7 1 2 3 24 4 0.7 1 3 1 25 4 0.7 1 3 1 26 4 0.7 1 3 1 27 3 0.7 1 3 28 5 0.7 1 2 3 29 2 0.7 1 1 1 30 2 0.7 1 2 31 11 0.7 1 6 5 32 6 0.7 1 3 3 33 8 0.7 1 5 3 34 3 0.7 1 3 35 3 0.7 1 1 2 36 2 0.7 1 2 37 9 0.7 1 6 3 38 7 0.7 1 6 1 39 4 0.7 1 3 1 40 3 0.7 1 3 41 3 0.7 1 1 2 42 1 0.7 1 1 43 3 0.7 1 1 2 44 5 0.7 1 3 2 45 5 0.7 1 5 46 3 0.7 1 3 47 5 0.7 1 5 48 1 0.7 1 1 49 4 0.7 1 4 50 6 0.7 1 4 2 51 7 0.7 1 7 52 3 0.7 1 2 1 53 14 0.7 1 11 3 54 2 0.7 1 2 55 7 0.7 1 5 2 56 7 0.7 1 4 3 57 1 0.7 1 0 1 59 4 0.7 1 4 60 8 0.7 1 5 3 61 2 0.7 1 0 2 62 3 0.7 1 3 63 14 0.7 1 12 2 64 6 0.7 1 6 65 7 0.7 1 7 66 5 0.7 1 5 67 5 0.7 1 2 3 68 6 0.7 1 6 69 14 0.7 1 8 6 70 3 0.7 1 1 2 71 2 0.7 1 2 72 7 0.7 1 6 1 73 1 0.7 1 1 74 6 0.7 1 4 2 75 6 0.7 1 5 1 76 6 0.7 1 3 3 77 6 0.7 1 6 78 8 0.7 1 8 79 6 0.7 1 5 1 80 5 0.7 1 5 81 6 0.7 1 5 1 82 9 0.7 1 7 2 83 10 0.7 1 9 1 84 4 0.7 1 3 1 85 8 0.7 1 7 1 86 3 0.7 1 2 1 87 6 0.7 1 6 88 5 0.7 1 3 2 89 7 0.7 1 7 90 8 0.7 1 7 1 91 4 0.7 1 4 92 9 0.7 1 8 1 93 9 0.7 1 8 1 94 14 0.7 1 12 2 95 12 0.7 1 11 1 96 8 0.7 1 7 1 97 16 0.7 1 16 98 11 0.7 1 8 3 99 14 0.7 1 14 100 13 0.7 1 12 1 101 4 0.7 1 3 1 102 9 0.7 1 8 1 103 12 0.7 1 9 3 104 10 0.7 1 9 1 105 9 0.7 1 7 2 106 8 0.7 1 7 1 107 15 0.7 1 15 108 16 0.7 1 16 109 7 0.7 1 6 1 110 10 0.7 1 9 1 111 12 0.7 1 8 4 112 9 0.7 1 9 113 4 0.7 1 4 114 17 0.7 1 14 3 115 17 0.7 1 13 4 116 12 0.7 1 9 3 117 15 0.7 1 8 7 118 11 0.7 1 10 1 119 22 0.7 1 18 4 120 23 0.7 1 15 8 121 21 0.7 1 16 5 122 14 0.7 1 12 2 123 16 0.7 1 15 1 124 19 0.7 1 17 2 125 21 0.7 1 20 1 126 21 0.7 1 18 3 127 19 0.7 1 14 5 128 28 0.7 1 22 6 129 28 0.7 1 26 2 130 23 0.7 1 22 1 131 19 0.7 1 12 7 132 27 0.7 1 20 7 133 37 0.7 1 30 7 134 28 0.7 1 20 8 135 48 0.7 1 19 29 RUN STATISTICS FOR INPUT FILE: SRR13207062_2.fastq.gz ============================================= 44881631 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 44881631 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 3835 (0.01%)