SUMMARISING RUN PARAMETERS ========================== Input filename: SRR13207054_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: 22). 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 SRR13207054_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 967.440 s (16.285 µs/read; 3.68 M reads/minute). === Summary === Total reads processed: 59,408,352 Reads with adapters: 25,648,945 (43.2%) Reads written (passing filters): 59,408,352 (100.0%) Total basepairs processed: 7,515,911,423 bp Quality-trimmed: 2,005,465 bp (0.0%) Total written (filtered): 7,483,739,706 bp (99.6%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 25648945 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: 6.2% T: 38.1% none/other: 0.1% Overview of removed sequences length count expect max.err error counts 1 22912081 14852088.0 0 22912081 2 1772714 3713022.0 0 1772714 3 516812 928255.5 0 516812 4 333951 232063.9 0 333951 5 62195 58016.0 0 62195 6 15010 14504.0 0 15010 7 10651 3626.0 0 10651 8 7911 906.5 0 7911 9 2232 226.6 0 1710 522 10 13847 56.7 1 12684 1163 11 170 14.2 1 19 151 12 58 3.5 1 12 46 13 13 0.9 1 4 9 15 7 0.9 1 6 1 16 3 0.9 1 3 17 7 0.9 1 3 4 18 3 0.9 1 1 2 19 6 0.9 1 2 4 20 4 0.9 1 1 3 21 3 0.9 1 3 22 4 0.9 1 1 3 23 6 0.9 1 4 2 24 10 0.9 1 4 6 25 4 0.9 1 2 2 26 6 0.9 1 3 3 27 4 0.9 1 2 2 28 5 0.9 1 2 3 29 2 0.9 1 1 1 30 12 0.9 1 7 5 31 5 0.9 1 5 32 11 0.9 1 6 5 33 9 0.9 1 8 1 34 9 0.9 1 5 4 35 6 0.9 1 4 2 36 7 0.9 1 3 4 37 3 0.9 1 3 38 6 0.9 1 6 39 6 0.9 1 4 2 40 5 0.9 1 4 1 41 6 0.9 1 6 42 7 0.9 1 4 3 43 4 0.9 1 2 2 44 12 0.9 1 5 7 45 6 0.9 1 4 2 46 2 0.9 1 1 1 47 6 0.9 1 5 1 48 12 0.9 1 9 3 49 11 0.9 1 8 3 50 2 0.9 1 2 51 7 0.9 1 5 2 52 2 0.9 1 1 1 53 8 0.9 1 8 54 5 0.9 1 4 1 55 4 0.9 1 3 1 56 4 0.9 1 4 57 4 0.9 1 4 58 4 0.9 1 3 1 59 6 0.9 1 3 3 60 12 0.9 1 6 6 61 6 0.9 1 4 2 62 1 0.9 1 1 63 12 0.9 1 10 2 64 8 0.9 1 6 2 65 4 0.9 1 4 66 10 0.9 1 8 2 67 8 0.9 1 8 68 10 0.9 1 10 69 5 0.9 1 5 70 9 0.9 1 7 2 71 7 0.9 1 5 2 72 4 0.9 1 4 73 5 0.9 1 5 74 3 0.9 1 2 1 75 9 0.9 1 8 1 76 11 0.9 1 10 1 77 4 0.9 1 4 78 6 0.9 1 4 2 79 10 0.9 1 9 1 80 13 0.9 1 11 2 81 5 0.9 1 5 82 3 0.9 1 3 83 9 0.9 1 8 1 84 12 0.9 1 11 1 85 8 0.9 1 7 1 86 8 0.9 1 7 1 87 10 0.9 1 8 2 88 12 0.9 1 10 2 89 4 0.9 1 4 90 11 0.9 1 7 4 91 7 0.9 1 7 92 12 0.9 1 8 4 93 15 0.9 1 13 2 94 10 0.9 1 9 1 95 4 0.9 1 2 2 96 8 0.9 1 8 97 11 0.9 1 8 3 98 9 0.9 1 7 2 99 9 0.9 1 7 2 100 11 0.9 1 10 1 101 10 0.9 1 8 2 102 4 0.9 1 3 1 103 10 0.9 1 8 2 104 7 0.9 1 7 105 13 0.9 1 10 3 106 16 0.9 1 13 3 107 11 0.9 1 11 108 21 0.9 1 20 1 109 15 0.9 1 14 1 110 11 0.9 1 8 3 111 8 0.9 1 8 112 12 0.9 1 11 1 113 17 0.9 1 15 2 114 14 0.9 1 14 115 26 0.9 1 17 9 116 21 0.9 1 20 1 117 17 0.9 1 17 118 31 0.9 1 25 6 119 28 0.9 1 22 6 120 19 0.9 1 17 2 121 15 0.9 1 15 122 17 0.9 1 14 3 123 20 0.9 1 17 3 124 16 0.9 1 16 125 18 0.9 1 13 5 126 22 0.9 1 18 4 127 22 0.9 1 20 2 128 22 0.9 1 21 1 129 15 0.9 1 13 2 130 42 0.9 1 36 6 131 41 0.9 1 31 10 132 28 0.9 1 25 3 133 32 0.9 1 23 9 134 33 0.9 1 23 10 135 46 0.9 1 24 22 RUN STATISTICS FOR INPUT FILE: SRR13207054_2.fastq.gz ============================================= 59408352 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 59408352 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 5458 (0.01%)