SUMMARISING RUN PARAMETERS ========================== Input filename: SRR13207050_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 SRR13207050_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 833.351 s (16.033 µs/read; 3.74 M reads/minute). === Summary === Total reads processed: 51,977,624 Reads with adapters: 22,212,667 (42.7%) Reads written (passing filters): 51,977,624 (100.0%) Total basepairs processed: 6,536,857,225 bp Quality-trimmed: 1,957,739 bp (0.0%) Total written (filtered): 6,508,713,820 bp (99.6%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 22212667 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: 38.1% none/other: 0.1% Overview of removed sequences length count expect max.err error counts 1 19795170 12994406.0 0 19795170 2 1568340 3248601.5 0 1568340 3 450861 812150.4 0 450861 4 297135 203037.6 0 297135 5 55089 50759.4 0 55089 6 13240 12689.8 0 13240 7 9989 3172.5 0 9989 8 7650 793.1 0 7650 9 2021 198.3 0 1637 384 10 12013 49.6 1 11024 989 11 161 12.4 1 25 136 12 52 3.1 1 9 43 13 3 0.8 1 1 2 14 5 0.8 1 2 3 15 6 0.8 1 3 3 16 1 0.8 1 1 17 7 0.8 1 5 2 18 1 0.8 1 0 1 19 9 0.8 1 3 6 20 8 0.8 1 4 4 21 4 0.8 1 3 1 22 12 0.8 1 7 5 23 3 0.8 1 1 2 24 6 0.8 1 5 1 25 7 0.8 1 4 3 26 6 0.8 1 4 2 27 3 0.8 1 2 1 28 10 0.8 1 8 2 29 5 0.8 1 2 3 30 9 0.8 1 8 1 31 5 0.8 1 5 32 5 0.8 1 4 1 33 5 0.8 1 2 3 34 3 0.8 1 2 1 35 5 0.8 1 2 3 36 1 0.8 1 1 37 1 0.8 1 0 1 38 3 0.8 1 3 39 1 0.8 1 0 1 40 7 0.8 1 7 41 1 0.8 1 1 42 6 0.8 1 3 3 43 2 0.8 1 1 1 44 5 0.8 1 2 3 45 7 0.8 1 5 2 46 8 0.8 1 6 2 47 6 0.8 1 2 4 48 7 0.8 1 4 3 49 6 0.8 1 3 3 50 4 0.8 1 2 2 51 2 0.8 1 2 52 2 0.8 1 1 1 53 8 0.8 1 6 2 54 9 0.8 1 9 55 3 0.8 1 1 2 56 3 0.8 1 2 1 57 6 0.8 1 5 1 58 8 0.8 1 5 3 59 2 0.8 1 2 60 4 0.8 1 3 1 61 1 0.8 1 1 62 4 0.8 1 2 2 63 10 0.8 1 7 3 64 11 0.8 1 9 2 65 3 0.8 1 1 2 66 1 0.8 1 1 67 4 0.8 1 4 68 6 0.8 1 6 69 7 0.8 1 3 4 70 8 0.8 1 8 71 6 0.8 1 6 72 1 0.8 1 1 73 4 0.8 1 3 1 74 4 0.8 1 4 75 6 0.8 1 6 76 5 0.8 1 5 77 5 0.8 1 5 78 3 0.8 1 2 1 79 2 0.8 1 1 1 80 5 0.8 1 4 1 81 8 0.8 1 7 1 82 2 0.8 1 2 83 8 0.8 1 4 4 84 5 0.8 1 3 2 85 5 0.8 1 4 1 86 7 0.8 1 5 2 87 2 0.8 1 2 88 6 0.8 1 6 89 6 0.8 1 5 1 90 5 0.8 1 3 2 91 4 0.8 1 4 92 10 0.8 1 7 3 93 5 0.8 1 5 94 5 0.8 1 1 4 95 6 0.8 1 6 96 8 0.8 1 6 2 97 9 0.8 1 7 2 98 8 0.8 1 6 2 99 8 0.8 1 8 100 4 0.8 1 3 1 101 8 0.8 1 8 102 7 0.8 1 6 1 103 8 0.8 1 6 2 104 8 0.8 1 5 3 105 7 0.8 1 6 1 106 15 0.8 1 15 107 9 0.8 1 8 1 108 7 0.8 1 6 1 109 9 0.8 1 7 2 110 11 0.8 1 9 2 111 14 0.8 1 11 3 112 9 0.8 1 6 3 113 9 0.8 1 6 3 114 14 0.8 1 13 1 115 8 0.8 1 5 3 116 6 0.8 1 6 117 11 0.8 1 9 2 118 14 0.8 1 11 3 119 16 0.8 1 15 1 120 9 0.8 1 6 3 121 19 0.8 1 14 5 122 15 0.8 1 14 1 123 14 0.8 1 11 3 124 12 0.8 1 8 4 125 12 0.8 1 10 2 126 11 0.8 1 10 1 127 20 0.8 1 17 3 128 15 0.8 1 13 2 129 20 0.8 1 17 3 130 19 0.8 1 18 1 131 18 0.8 1 15 3 132 19 0.8 1 14 5 133 21 0.8 1 14 7 134 27 0.8 1 18 9 135 48 0.8 1 19 29 RUN STATISTICS FOR INPUT FILE: SRR13207050_2.fastq.gz ============================================= 51977624 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 51977624 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 4698 (0.01%)