SUMMARISING RUN PARAMETERS ========================== Input filename: SRR13207064_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: 32). 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 SRR13207064_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 599.125 s (15.122 µs/read; 3.97 M reads/minute). === Summary === Total reads processed: 39,620,531 Reads with adapters: 17,150,562 (43.3%) Reads written (passing filters): 39,620,531 (100.0%) Total basepairs processed: 5,015,593,115 bp Quality-trimmed: 1,602,642 bp (0.0%) Total written (filtered): 4,993,811,589 bp (99.6%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 17150562 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 45.3% C: 10.2% G: 6.2% T: 38.2% none/other: 0.1% Overview of removed sequences length count expect max.err error counts 1 15315313 9905132.8 0 15315313 2 1190584 2476283.2 0 1190584 3 348180 619070.8 0 348180 4 222979 154767.7 0 222979 5 38963 38691.9 0 38963 6 9791 9673.0 0 9791 7 7052 2418.2 0 7052 8 5372 604.6 0 5372 9 1533 151.1 0 1257 276 10 9668 37.8 1 8907 761 11 121 9.4 1 16 105 12 32 2.4 1 6 26 13 4 0.6 1 1 3 14 6 0.6 1 1 5 15 8 0.6 1 7 1 16 3 0.6 1 2 1 17 3 0.6 1 2 1 18 3 0.6 1 2 1 19 9 0.6 1 3 6 20 4 0.6 1 3 1 21 5 0.6 1 3 2 22 2 0.6 1 0 2 23 3 0.6 1 1 2 24 9 0.6 1 5 4 25 1 0.6 1 0 1 26 3 0.6 1 1 2 27 1 0.6 1 1 28 6 0.6 1 4 2 29 7 0.6 1 4 3 30 6 0.6 1 5 1 31 9 0.6 1 6 3 32 9 0.6 1 6 3 33 6 0.6 1 6 34 3 0.6 1 2 1 35 12 0.6 1 11 1 36 6 0.6 1 4 2 37 4 0.6 1 4 38 5 0.6 1 5 39 3 0.6 1 2 1 40 10 0.6 1 7 3 41 4 0.6 1 3 1 42 4 0.6 1 3 1 43 7 0.6 1 6 1 44 10 0.6 1 6 4 45 11 0.6 1 5 6 46 9 0.6 1 8 1 47 7 0.6 1 4 3 48 3 0.6 1 1 2 49 5 0.6 1 1 4 50 8 0.6 1 4 4 51 4 0.6 1 4 52 3 0.6 1 3 53 7 0.6 1 6 1 54 5 0.6 1 2 3 55 6 0.6 1 4 2 56 4 0.6 1 2 2 57 7 0.6 1 4 3 58 5 0.6 1 4 1 59 4 0.6 1 3 1 60 3 0.6 1 3 62 5 0.6 1 2 3 63 1 0.6 1 1 64 2 0.6 1 1 1 65 6 0.6 1 4 2 66 2 0.6 1 1 1 67 4 0.6 1 3 1 68 4 0.6 1 4 69 2 0.6 1 2 70 2 0.6 1 2 71 4 0.6 1 3 1 72 2 0.6 1 1 1 73 6 0.6 1 5 1 74 8 0.6 1 6 2 75 6 0.6 1 5 1 76 9 0.6 1 6 3 77 5 0.6 1 4 1 78 4 0.6 1 3 1 79 7 0.6 1 2 5 80 4 0.6 1 3 1 81 5 0.6 1 3 2 82 7 0.6 1 4 3 83 12 0.6 1 10 2 84 3 0.6 1 3 85 6 0.6 1 6 86 7 0.6 1 6 1 87 8 0.6 1 6 2 88 7 0.6 1 5 2 89 6 0.6 1 6 90 7 0.6 1 6 1 91 7 0.6 1 6 1 92 5 0.6 1 5 93 10 0.6 1 10 94 7 0.6 1 6 1 95 5 0.6 1 4 1 96 10 0.6 1 6 4 97 6 0.6 1 4 2 98 10 0.6 1 9 1 99 9 0.6 1 7 2 100 10 0.6 1 9 1 101 3 0.6 1 2 1 102 10 0.6 1 8 2 103 4 0.6 1 3 1 104 8 0.6 1 7 1 105 9 0.6 1 9 106 7 0.6 1 7 107 11 0.6 1 9 2 108 6 0.6 1 6 109 9 0.6 1 7 2 110 12 0.6 1 4 8 111 13 0.6 1 10 3 112 3 0.6 1 2 1 113 7 0.6 1 6 1 114 10 0.6 1 7 3 115 16 0.6 1 15 1 116 10 0.6 1 8 2 117 9 0.6 1 8 1 118 11 0.6 1 9 2 119 14 0.6 1 12 2 120 8 0.6 1 8 121 15 0.6 1 14 1 122 17 0.6 1 17 123 15 0.6 1 10 5 124 13 0.6 1 11 2 125 11 0.6 1 9 2 126 12 0.6 1 9 3 127 17 0.6 1 14 3 128 24 0.6 1 21 3 129 24 0.6 1 21 3 130 17 0.6 1 12 5 131 21 0.6 1 20 1 132 25 0.6 1 21 4 133 20 0.6 1 16 4 134 23 0.6 1 16 7 135 44 0.6 1 16 28 RUN STATISTICS FOR INPUT FILE: SRR13207064_2.fastq.gz ============================================= 39620531 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 39620531 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 3409 (0.01%)