SUMMARISING RUN PARAMETERS ========================== Input filename: SRR13207057_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 SRR13207057_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 751.737 s (15.310 µs/read; 3.92 M reads/minute). === Summary === Total reads processed: 49,101,606 Reads with adapters: 20,297,822 (41.3%) Reads written (passing filters): 49,101,606 (100.0%) Total basepairs processed: 6,078,278,717 bp Quality-trimmed: 2,099,959 bp (0.0%) Total written (filtered): 6,051,789,039 bp (99.6%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 20297822 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 45.3% C: 10.1% G: 6.5% T: 38.0% none/other: 0.1% Overview of removed sequences length count expect max.err error counts 1 17869930 12275401.5 0 17869930 2 1574910 3068850.4 0 1574910 3 427072 767212.6 0 427072 4 296533 191803.1 0 296533 5 70445 47950.8 0 70445 6 17079 11987.7 0 17079 7 12905 2996.9 0 12905 8 9863 749.2 0 9863 9 2451 187.3 0 1954 497 10 15313 46.8 1 14170 1143 11 152 11.7 1 25 127 12 46 2.9 1 12 34 13 10 0.7 1 2 8 14 7 0.7 1 4 3 15 7 0.7 1 3 4 16 6 0.7 1 1 5 17 11 0.7 1 6 5 18 5 0.7 1 4 1 19 8 0.7 1 4 4 20 4 0.7 1 3 1 21 3 0.7 1 2 1 22 2 0.7 1 1 1 23 7 0.7 1 5 2 24 4 0.7 1 3 1 25 7 0.7 1 4 3 26 5 0.7 1 2 3 27 7 0.7 1 4 3 28 8 0.7 1 5 3 29 5 0.7 1 3 2 30 3 0.7 1 2 1 31 4 0.7 1 3 1 32 9 0.7 1 4 5 33 6 0.7 1 3 3 34 4 0.7 1 2 2 35 6 0.7 1 4 2 36 5 0.7 1 3 2 38 2 0.7 1 0 2 39 6 0.7 1 4 2 40 6 0.7 1 4 2 41 7 0.7 1 7 42 4 0.7 1 2 2 43 6 0.7 1 4 2 44 10 0.7 1 5 5 45 5 0.7 1 5 46 4 0.7 1 3 1 47 3 0.7 1 1 2 48 9 0.7 1 7 2 49 5 0.7 1 5 50 2 0.7 1 2 51 10 0.7 1 5 5 52 4 0.7 1 3 1 53 9 0.7 1 6 3 54 9 0.7 1 5 4 55 4 0.7 1 3 1 56 6 0.7 1 5 1 57 11 0.7 1 6 5 58 6 0.7 1 5 1 59 4 0.7 1 4 60 2 0.7 1 1 1 61 6 0.7 1 5 1 62 5 0.7 1 3 2 63 7 0.7 1 5 2 64 11 0.7 1 8 3 65 7 0.7 1 6 1 66 10 0.7 1 7 3 67 5 0.7 1 4 1 68 6 0.7 1 4 2 69 8 0.7 1 7 1 70 1 0.7 1 1 71 3 0.7 1 1 2 72 3 0.7 1 1 2 73 5 0.7 1 3 2 74 2 0.7 1 2 75 6 0.7 1 3 3 76 8 0.7 1 8 77 8 0.7 1 8 78 6 0.7 1 4 2 79 10 0.7 1 6 4 80 12 0.7 1 11 1 81 4 0.7 1 1 3 82 8 0.7 1 6 2 83 11 0.7 1 9 2 84 8 0.7 1 7 1 85 6 0.7 1 4 2 86 10 0.7 1 9 1 87 3 0.7 1 3 88 8 0.7 1 7 1 89 4 0.7 1 4 90 8 0.7 1 6 2 91 4 0.7 1 3 1 92 6 0.7 1 4 2 93 8 0.7 1 6 2 94 8 0.7 1 8 95 18 0.7 1 16 2 96 11 0.7 1 11 97 10 0.7 1 10 98 7 0.7 1 4 3 99 7 0.7 1 6 1 100 9 0.7 1 6 3 101 11 0.7 1 7 4 102 10 0.7 1 10 103 6 0.7 1 5 1 104 10 0.7 1 7 3 105 9 0.7 1 6 3 106 15 0.7 1 13 2 107 10 0.7 1 9 1 108 14 0.7 1 12 2 109 13 0.7 1 11 2 110 14 0.7 1 10 4 111 8 0.7 1 8 112 11 0.7 1 10 1 113 18 0.7 1 15 3 114 14 0.7 1 9 5 115 5 0.7 1 4 1 116 17 0.7 1 14 3 117 10 0.7 1 7 3 118 21 0.7 1 17 4 119 16 0.7 1 15 1 120 23 0.7 1 22 1 121 24 0.7 1 20 4 122 10 0.7 1 9 1 123 9 0.7 1 7 2 124 15 0.7 1 11 4 125 17 0.7 1 14 3 126 20 0.7 1 19 1 127 16 0.7 1 13 3 128 21 0.7 1 20 1 129 20 0.7 1 19 1 130 19 0.7 1 15 4 131 9 0.7 1 8 1 132 21 0.7 1 17 4 133 31 0.7 1 18 13 134 29 0.7 1 19 10 135 43 0.7 1 22 21 RUN STATISTICS FOR INPUT FILE: SRR13207057_2.fastq.gz ============================================= 49101606 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 49101606 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 6222 (0.01%)