SUMMARISING RUN PARAMETERS ========================== Input filename: SRR10065373_1.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: 452). Second best hit was Nextera (count: 2) 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 SRR10065373_1.fastq.gz Processing single-end reads on 2 cores ... Finished in 1706.502 s (20.107 µs/read; 2.98 M reads/minute). === Summary === Total reads processed: 84,868,974 Reads with adapters: 35,909,910 (42.3%) Reads written (passing filters): 84,868,974 (100.0%) Total basepairs processed: 12,730,346,100 bp Quality-trimmed: 24,091,685 bp (0.2%) Total written (filtered): 12,658,640,076 bp (99.4%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 35909910 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 42.3% C: 0.1% G: 12.8% T: 44.7% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 28712263 21217243.5 0 28712263 2 4675267 5304310.9 0 4675267 3 1780529 1326077.7 0 1780529 4 663373 331519.4 0 663373 5 5594 82879.9 0 5594 6 5663 20720.0 0 5663 7 4127 5180.0 0 4127 8 3533 1295.0 0 3533 9 4491 323.7 0 3418 1073 10 4929 80.9 1 3199 1730 11 3233 20.2 1 2775 458 12 3615 5.1 1 3290 325 13 2368 1.3 1 2279 89 14 2551 1.3 1 2401 150 15 2139 1.3 1 2053 86 16 2212 1.3 1 2114 98 17 1966 1.3 1 1855 111 18 1969 1.3 1 1860 109 19 1705 1.3 1 1631 74 20 1522 1.3 1 1470 52 21 1563 1.3 1 1483 80 22 1496 1.3 1 1416 80 23 1428 1.3 1 1361 67 24 1521 1.3 1 1429 92 25 1185 1.3 1 1126 59 26 1169 1.3 1 1121 48 27 1062 1.3 1 1023 39 28 983 1.3 1 929 54 29 969 1.3 1 922 47 30 905 1.3 1 859 46 31 841 1.3 1 794 47 32 731 1.3 1 699 32 33 797 1.3 1 749 48 34 698 1.3 1 669 29 35 593 1.3 1 559 34 36 616 1.3 1 574 42 37 596 1.3 1 559 37 38 483 1.3 1 449 34 39 553 1.3 1 512 41 40 489 1.3 1 460 29 41 553 1.3 1 510 43 42 394 1.3 1 362 32 43 454 1.3 1 424 30 44 342 1.3 1 321 21 45 525 1.3 1 509 16 46 194 1.3 1 174 20 47 238 1.3 1 225 13 48 311 1.3 1 287 24 49 203 1.3 1 194 9 50 267 1.3 1 246 21 51 233 1.3 1 212 21 52 284 1.3 1 263 21 53 225 1.3 1 197 28 54 192 1.3 1 176 16 55 263 1.3 1 239 24 56 139 1.3 1 125 14 57 169 1.3 1 156 13 58 185 1.3 1 166 19 59 110 1.3 1 103 7 60 145 1.3 1 140 5 61 95 1.3 1 85 10 62 155 1.3 1 138 17 63 125 1.3 1 119 6 64 124 1.3 1 110 14 65 84 1.3 1 78 6 66 107 1.3 1 93 14 67 102 1.3 1 86 16 68 112 1.3 1 98 14 69 105 1.3 1 90 15 70 111 1.3 1 93 18 71 230 1.3 1 171 59 72 538 1.3 1 511 27 73 131 1.3 1 121 10 74 55 1.3 1 47 8 75 38 1.3 1 31 7 76 26 1.3 1 19 7 77 23 1.3 1 17 6 78 22 1.3 1 15 7 79 17 1.3 1 10 7 80 19 1.3 1 15 4 81 19 1.3 1 13 6 82 21 1.3 1 15 6 83 16 1.3 1 11 5 84 20 1.3 1 16 4 85 16 1.3 1 11 5 86 13 1.3 1 7 6 87 16 1.3 1 8 8 88 12 1.3 1 9 3 89 13 1.3 1 8 5 90 13 1.3 1 8 5 91 16 1.3 1 9 7 92 4 1.3 1 3 1 93 12 1.3 1 8 4 94 4 1.3 1 3 1 95 7 1.3 1 4 3 96 16 1.3 1 9 7 97 13 1.3 1 10 3 98 10 1.3 1 7 3 99 7 1.3 1 5 2 100 11 1.3 1 6 5 101 10 1.3 1 6 4 102 15 1.3 1 11 4 103 12 1.3 1 6 6 104 7 1.3 1 5 2 105 13 1.3 1 8 5 106 8 1.3 1 3 5 107 4 1.3 1 2 2 108 11 1.3 1 6 5 109 11 1.3 1 9 2 110 8 1.3 1 5 3 111 10 1.3 1 5 5 112 5 1.3 1 2 3 113 8 1.3 1 4 4 114 7 1.3 1 4 3 115 6 1.3 1 3 3 116 4 1.3 1 2 2 117 6 1.3 1 5 1 118 3 1.3 1 2 1 119 8 1.3 1 5 3 120 11 1.3 1 7 4 121 4 1.3 1 1 3 122 2 1.3 1 0 2 123 1 1.3 1 1 124 2 1.3 1 1 1 125 5 1.3 1 2 3 126 6 1.3 1 5 1 127 6 1.3 1 1 5 128 4 1.3 1 3 1 129 10 1.3 1 3 7 130 1 1.3 1 0 1 131 3 1.3 1 2 1 132 2 1.3 1 1 1 133 1 1.3 1 0 1 137 2 1.3 1 1 1 139 1 1.3 1 1 140 1 1.3 1 0 1 141 1 1.3 1 1 142 2 1.3 1 0 2 144 2 1.3 1 0 2 146 2 1.3 1 0 2 147 3 1.3 1 0 3 149 2 1.3 1 0 2 150 49 1.3 1 5 44 RUN STATISTICS FOR INPUT FILE: SRR10065373_1.fastq.gz ============================================= 84868974 sequences processed in total