SUMMARISING RUN PARAMETERS ========================== Input filename: SRR13207055_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: 18). 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 SRR13207055_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 559.827 s (15.112 µs/read; 3.97 M reads/minute). === Summary === Total reads processed: 37,045,803 Reads with adapters: 15,901,700 (42.9%) Reads written (passing filters): 37,045,803 (100.0%) Total basepairs processed: 4,677,677,552 bp Quality-trimmed: 1,158,321 bp (0.0%) Total written (filtered): 4,657,794,991 bp (99.6%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 15901700 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 45.4% C: 10.0% G: 6.2% T: 38.3% none/other: 0.1% Overview of removed sequences length count expect max.err error counts 1 14192161 9261450.8 0 14192161 2 1108291 2315362.7 0 1108291 3 317814 578840.7 0 317814 4 209516 144710.2 0 209516 5 40045 36177.5 0 40045 6 9813 9044.4 0 9813 7 7173 2261.1 0 7173 8 5447 565.3 0 5447 9 1388 141.3 0 1097 291 10 9275 35.3 1 8582 693 11 112 8.8 1 17 95 12 20 2.2 1 7 13 13 3 0.6 1 0 3 14 2 0.6 1 0 2 16 3 0.6 1 1 2 17 2 0.6 1 2 18 1 0.6 1 0 1 19 3 0.6 1 0 3 21 2 0.6 1 1 1 22 1 0.6 1 1 23 2 0.6 1 1 1 24 1 0.6 1 1 25 1 0.6 1 1 26 2 0.6 1 1 1 27 3 0.6 1 3 29 1 0.6 1 0 1 30 2 0.6 1 1 1 31 2 0.6 1 1 1 32 6 0.6 1 4 2 33 6 0.6 1 4 2 34 2 0.6 1 1 1 35 3 0.6 1 3 37 1 0.6 1 1 38 1 0.6 1 1 39 2 0.6 1 2 40 1 0.6 1 0 1 41 1 0.6 1 1 42 2 0.6 1 2 43 3 0.6 1 1 2 45 2 0.6 1 2 46 2 0.6 1 1 1 47 1 0.6 1 0 1 48 4 0.6 1 2 2 49 3 0.6 1 2 1 51 3 0.6 1 3 52 2 0.6 1 2 53 4 0.6 1 4 54 3 0.6 1 3 55 4 0.6 1 3 1 56 2 0.6 1 2 57 4 0.6 1 3 1 58 3 0.6 1 2 1 59 1 0.6 1 0 1 60 7 0.6 1 5 2 61 3 0.6 1 2 1 62 3 0.6 1 2 1 63 8 0.6 1 6 2 64 5 0.6 1 4 1 65 2 0.6 1 2 66 1 0.6 1 1 67 3 0.6 1 3 68 1 0.6 1 1 70 1 0.6 1 1 71 3 0.6 1 3 72 4 0.6 1 3 1 73 3 0.6 1 1 2 74 2 0.6 1 2 75 4 0.6 1 3 1 76 1 0.6 1 0 1 77 2 0.6 1 2 78 6 0.6 1 5 1 79 3 0.6 1 3 80 6 0.6 1 5 1 81 3 0.6 1 3 82 5 0.6 1 5 83 2 0.6 1 1 1 84 2 0.6 1 2 85 3 0.6 1 2 1 86 7 0.6 1 6 1 87 2 0.6 1 2 88 8 0.6 1 6 2 89 8 0.6 1 8 90 3 0.6 1 3 91 4 0.6 1 4 92 4 0.6 1 4 93 9 0.6 1 5 4 94 2 0.6 1 2 95 3 0.6 1 3 96 1 0.6 1 1 97 5 0.6 1 2 3 98 7 0.6 1 6 1 99 6 0.6 1 6 100 7 0.6 1 6 1 101 7 0.6 1 5 2 102 2 0.6 1 1 1 103 3 0.6 1 3 104 6 0.6 1 5 1 105 5 0.6 1 4 1 106 5 0.6 1 5 107 7 0.6 1 7 108 3 0.6 1 3 109 6 0.6 1 5 1 110 5 0.6 1 4 1 111 5 0.6 1 5 112 10 0.6 1 10 113 10 0.6 1 10 114 7 0.6 1 7 115 15 0.6 1 13 2 116 11 0.6 1 9 2 117 7 0.6 1 7 118 11 0.6 1 9 2 119 16 0.6 1 16 120 12 0.6 1 11 1 121 9 0.6 1 8 1 122 14 0.6 1 13 1 123 15 0.6 1 13 2 124 7 0.6 1 5 2 125 9 0.6 1 6 3 126 13 0.6 1 13 127 19 0.6 1 17 2 128 17 0.6 1 13 4 129 20 0.6 1 16 4 130 23 0.6 1 21 2 131 10 0.6 1 9 1 132 20 0.6 1 17 3 133 14 0.6 1 11 3 134 15 0.6 1 11 4 135 31 0.6 1 16 15 RUN STATISTICS FOR INPUT FILE: SRR13207055_2.fastq.gz ============================================= 37045803 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 37045803 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 3211 (0.01%)