SUMMARISING RUN PARAMETERS ========================== Input filename: SRR13207053_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: 14). 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 SRR13207053_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 806.204 s (16.250 µs/read; 3.69 M reads/minute). === Summary === Total reads processed: 49,611,452 Reads with adapters: 21,264,708 (42.9%) Reads written (passing filters): 49,611,452 (100.0%) Total basepairs processed: 6,250,440,107 bp Quality-trimmed: 1,909,058 bp (0.0%) Total written (filtered): 6,223,480,605 bp (99.6%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 21264708 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 45.4% C: 10.2% G: 6.2% T: 38.1% none/other: 0.1% Overview of removed sequences length count expect max.err error counts 1 18951183 12402863.0 0 18951183 2 1500520 3100715.8 0 1500520 3 436592 775178.9 0 436592 4 282984 193794.7 0 282984 5 51132 48448.7 0 51132 6 12327 12112.2 0 12327 7 8936 3028.0 0 8936 8 6950 757.0 0 6950 9 1871 189.3 0 1439 432 10 11241 47.3 1 10289 952 11 133 11.8 1 19 114 12 32 3.0 1 6 26 13 5 0.7 1 1 4 14 2 0.7 1 2 15 4 0.7 1 2 2 16 5 0.7 1 3 2 17 6 0.7 1 2 4 19 5 0.7 1 3 2 21 1 0.7 1 1 22 6 0.7 1 4 2 23 4 0.7 1 0 4 24 3 0.7 1 1 2 25 4 0.7 1 1 3 26 3 0.7 1 2 1 27 5 0.7 1 3 2 28 7 0.7 1 3 4 29 4 0.7 1 2 2 31 3 0.7 1 2 1 32 6 0.7 1 4 2 33 3 0.7 1 1 2 34 5 0.7 1 4 1 35 6 0.7 1 4 2 36 3 0.7 1 3 37 2 0.7 1 1 1 38 3 0.7 1 1 2 39 2 0.7 1 2 40 1 0.7 1 0 1 41 1 0.7 1 1 42 3 0.7 1 3 43 7 0.7 1 5 2 44 4 0.7 1 3 1 45 6 0.7 1 4 2 46 4 0.7 1 2 2 47 2 0.7 1 0 2 49 2 0.7 1 2 50 2 0.7 1 2 52 1 0.7 1 0 1 53 6 0.7 1 3 3 54 3 0.7 1 2 1 55 1 0.7 1 1 56 4 0.7 1 1 3 57 6 0.7 1 6 58 8 0.7 1 5 3 59 2 0.7 1 2 60 3 0.7 1 0 3 61 3 0.7 1 3 62 4 0.7 1 3 1 63 2 0.7 1 1 1 64 2 0.7 1 1 1 65 5 0.7 1 5 66 4 0.7 1 2 2 67 5 0.7 1 4 1 68 6 0.7 1 6 69 1 0.7 1 0 1 70 3 0.7 1 3 71 4 0.7 1 3 1 72 2 0.7 1 2 73 3 0.7 1 3 74 2 0.7 1 2 75 5 0.7 1 5 76 3 0.7 1 3 77 7 0.7 1 4 3 78 3 0.7 1 3 79 3 0.7 1 3 80 5 0.7 1 3 2 81 5 0.7 1 4 1 82 4 0.7 1 3 1 83 2 0.7 1 2 84 1 0.7 1 1 85 3 0.7 1 2 1 86 4 0.7 1 4 87 4 0.7 1 4 88 7 0.7 1 5 2 89 7 0.7 1 5 2 90 8 0.7 1 6 2 91 4 0.7 1 3 1 92 5 0.7 1 5 93 5 0.7 1 4 1 94 4 0.7 1 3 1 95 3 0.7 1 3 96 7 0.7 1 7 97 9 0.7 1 5 4 98 5 0.7 1 3 2 99 11 0.7 1 8 3 100 11 0.7 1 10 1 101 9 0.7 1 4 5 102 15 0.7 1 12 3 103 1 0.7 1 1 104 4 0.7 1 3 1 105 5 0.7 1 4 1 106 7 0.7 1 6 1 107 3 0.7 1 3 108 10 0.7 1 9 1 109 16 0.7 1 12 4 110 12 0.7 1 11 1 111 9 0.7 1 8 1 112 11 0.7 1 11 113 10 0.7 1 7 3 114 9 0.7 1 6 3 115 7 0.7 1 5 2 116 9 0.7 1 8 1 117 9 0.7 1 7 2 118 11 0.7 1 10 1 119 20 0.7 1 17 3 120 7 0.7 1 6 1 121 12 0.7 1 11 1 122 13 0.7 1 12 1 123 12 0.7 1 9 3 124 13 0.7 1 12 1 125 20 0.7 1 16 4 126 14 0.7 1 12 2 127 11 0.7 1 11 128 16 0.7 1 15 1 129 17 0.7 1 15 2 130 17 0.7 1 14 3 131 21 0.7 1 18 3 132 15 0.7 1 11 4 133 23 0.7 1 18 5 134 33 0.7 1 19 14 135 42 0.7 1 19 23 RUN STATISTICS FOR INPUT FILE: SRR13207053_2.fastq.gz ============================================= 49611452 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 49611452 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 4568 (0.01%)