SUMMARISING RUN PARAMETERS ========================== Input filename: SRR13207052_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: 16). Second best hit was Nextera (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 SRR13207052_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 825.473 s (15.902 µs/read; 3.77 M reads/minute). === Summary === Total reads processed: 51,910,846 Reads with adapters: 21,601,645 (41.6%) Reads written (passing filters): 51,910,846 (100.0%) Total basepairs processed: 6,469,595,542 bp Quality-trimmed: 2,140,341 bp (0.0%) Total written (filtered): 6,441,680,818 bp (99.6%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 21601645 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 45.2% C: 10.1% G: 6.4% T: 38.2% none/other: 0.1% Overview of removed sequences length count expect max.err error counts 1 19110675 12977711.5 0 19110675 2 1612493 3244427.9 0 1612493 3 445905 811107.0 0 445905 4 308602 202776.7 0 308602 5 66386 50694.2 0 66386 6 16416 12673.5 0 16416 7 12511 3168.4 0 12511 8 9358 792.1 0 9358 9 2445 198.0 0 2039 406 10 15613 49.5 1 14455 1158 11 193 12.4 1 35 158 12 47 3.1 1 7 40 13 2 0.8 1 0 2 14 10 0.8 1 3 7 15 3 0.8 1 1 2 16 7 0.8 1 1 6 17 2 0.8 1 1 1 18 6 0.8 1 2 4 19 17 0.8 1 8 9 20 1 0.8 1 1 21 2 0.8 1 0 2 22 6 0.8 1 4 2 23 8 0.8 1 6 2 24 6 0.8 1 3 3 25 2 0.8 1 0 2 26 2 0.8 1 2 27 3 0.8 1 1 2 28 7 0.8 1 4 3 29 1 0.8 1 0 1 30 1 0.8 1 0 1 31 1 0.8 1 1 32 7 0.8 1 3 4 33 1 0.8 1 1 34 5 0.8 1 5 35 5 0.8 1 3 2 36 6 0.8 1 6 37 5 0.8 1 4 1 38 3 0.8 1 1 2 39 9 0.8 1 5 4 40 3 0.8 1 3 41 1 0.8 1 1 42 4 0.8 1 2 2 43 2 0.8 1 1 1 44 5 0.8 1 2 3 45 2 0.8 1 1 1 46 6 0.8 1 4 2 47 7 0.8 1 5 2 48 2 0.8 1 0 2 49 3 0.8 1 1 2 50 3 0.8 1 1 2 51 6 0.8 1 5 1 52 3 0.8 1 3 53 6 0.8 1 5 1 54 9 0.8 1 5 4 55 8 0.8 1 6 2 56 3 0.8 1 2 1 57 8 0.8 1 8 58 5 0.8 1 4 1 59 5 0.8 1 5 60 4 0.8 1 2 2 61 3 0.8 1 2 1 62 8 0.8 1 5 3 63 10 0.8 1 8 2 64 5 0.8 1 3 2 65 10 0.8 1 9 1 66 2 0.8 1 1 1 67 4 0.8 1 3 1 68 5 0.8 1 3 2 69 5 0.8 1 4 1 70 1 0.8 1 1 71 10 0.8 1 9 1 72 2 0.8 1 1 1 73 4 0.8 1 3 1 74 8 0.8 1 5 3 75 10 0.8 1 9 1 76 3 0.8 1 2 1 77 6 0.8 1 6 78 7 0.8 1 7 79 11 0.8 1 8 3 80 7 0.8 1 6 1 81 6 0.8 1 4 2 82 9 0.8 1 5 4 83 11 0.8 1 9 2 84 8 0.8 1 7 1 85 3 0.8 1 3 86 2 0.8 1 1 1 87 5 0.8 1 5 88 5 0.8 1 3 2 89 4 0.8 1 3 1 90 8 0.8 1 8 91 11 0.8 1 9 2 92 1 0.8 1 1 93 7 0.8 1 3 4 94 8 0.8 1 7 1 95 8 0.8 1 5 3 96 5 0.8 1 4 1 97 5 0.8 1 4 1 98 4 0.8 1 3 1 99 13 0.8 1 10 3 100 15 0.8 1 11 4 101 3 0.8 1 3 102 10 0.8 1 10 103 8 0.8 1 5 3 104 14 0.8 1 10 4 105 3 0.8 1 3 106 6 0.8 1 6 107 14 0.8 1 13 1 108 6 0.8 1 6 109 7 0.8 1 6 1 110 12 0.8 1 9 3 111 13 0.8 1 10 3 112 8 0.8 1 7 1 113 13 0.8 1 11 2 114 10 0.8 1 8 2 115 10 0.8 1 9 1 116 13 0.8 1 11 2 117 8 0.8 1 6 2 118 14 0.8 1 12 2 119 17 0.8 1 16 1 120 22 0.8 1 19 3 121 6 0.8 1 5 1 122 13 0.8 1 12 1 123 13 0.8 1 12 1 124 11 0.8 1 8 3 125 10 0.8 1 9 1 126 15 0.8 1 14 1 127 18 0.8 1 16 2 128 22 0.8 1 20 2 129 23 0.8 1 17 6 130 24 0.8 1 21 3 131 28 0.8 1 25 3 132 29 0.8 1 25 4 133 29 0.8 1 20 9 134 31 0.8 1 21 10 135 36 0.8 1 12 24 RUN STATISTICS FOR INPUT FILE: SRR13207052_2.fastq.gz ============================================= 51910846 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 51910846 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 5281 (0.01%)