SUMMARISING RUN PARAMETERS ========================== Input filename: SRR10065365_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: 653). 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 SRR10065365_1.fastq.gz Processing single-end reads on 2 cores ... Finished in 1437.820 s (20.512 µs/read; 2.93 M reads/minute). === Summary === Total reads processed: 70,095,226 Reads with adapters: 29,087,037 (41.5%) Reads written (passing filters): 70,095,226 (100.0%) Total basepairs processed: 10,514,283,900 bp Quality-trimmed: 19,639,401 bp (0.2%) Total written (filtered): 10,455,714,868 bp (99.4%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 29087037 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 41.5% C: 0.1% G: 12.9% T: 45.5% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 23238695 17523806.5 0 23238695 2 3805268 4380951.6 0 3805268 3 1415154 1095237.9 0 1415154 4 547605 273809.5 0 547605 5 5168 68452.4 0 5168 6 5298 17113.1 0 5298 7 4093 4278.3 0 4093 8 3563 1069.6 0 3563 9 4316 267.4 0 3409 907 10 4723 66.8 1 3327 1396 11 3446 16.7 1 3036 410 12 3763 4.2 1 3456 307 13 2539 1.0 1 2426 113 14 2638 1.0 1 2493 145 15 2190 1.0 1 2094 96 16 2289 1.0 1 2161 128 17 1955 1.0 1 1853 102 18 2111 1.0 1 2013 98 19 1740 1.0 1 1682 58 20 1700 1.0 1 1635 65 21 1645 1.0 1 1580 65 22 1662 1.0 1 1582 80 23 1472 1.0 1 1401 71 24 1671 1.0 1 1568 103 25 1199 1.0 1 1150 49 26 1196 1.0 1 1146 50 27 1066 1.0 1 1022 44 28 1043 1.0 1 993 50 29 1010 1.0 1 960 50 30 927 1.0 1 862 65 31 933 1.0 1 885 48 32 801 1.0 1 773 28 33 775 1.0 1 745 30 34 742 1.0 1 710 32 35 757 1.0 1 700 57 36 611 1.0 1 577 34 37 581 1.0 1 559 22 38 620 1.0 1 585 35 39 593 1.0 1 564 29 40 581 1.0 1 540 41 41 474 1.0 1 448 26 42 470 1.0 1 444 26 43 495 1.0 1 470 25 44 379 1.0 1 362 17 45 503 1.0 1 481 22 46 193 1.0 1 173 20 47 278 1.0 1 255 23 48 297 1.0 1 273 24 49 286 1.0 1 265 21 50 314 1.0 1 289 25 51 272 1.0 1 262 10 52 240 1.0 1 219 21 53 233 1.0 1 220 13 54 240 1.0 1 223 17 55 248 1.0 1 220 28 56 196 1.0 1 184 12 57 197 1.0 1 177 20 58 169 1.0 1 152 17 59 137 1.0 1 123 14 60 108 1.0 1 100 8 61 134 1.0 1 121 13 62 138 1.0 1 120 18 63 157 1.0 1 142 15 64 134 1.0 1 124 10 65 93 1.0 1 87 6 66 137 1.0 1 114 23 67 97 1.0 1 83 14 68 129 1.0 1 111 18 69 143 1.0 1 130 13 70 152 1.0 1 136 16 71 272 1.0 1 223 49 72 577 1.0 1 548 29 73 153 1.0 1 137 16 74 71 1.0 1 60 11 75 47 1.0 1 43 4 76 29 1.0 1 23 6 77 23 1.0 1 17 6 78 34 1.0 1 25 9 79 22 1.0 1 19 3 80 24 1.0 1 17 7 81 20 1.0 1 14 6 82 32 1.0 1 21 11 83 22 1.0 1 20 2 84 27 1.0 1 18 9 85 24 1.0 1 15 9 86 22 1.0 1 15 7 87 25 1.0 1 19 6 88 18 1.0 1 12 6 89 7 1.0 1 4 3 90 16 1.0 1 13 3 91 10 1.0 1 5 5 92 16 1.0 1 12 4 93 14 1.0 1 10 4 94 13 1.0 1 9 4 95 16 1.0 1 11 5 96 12 1.0 1 9 3 97 12 1.0 1 7 5 98 11 1.0 1 6 5 99 4 1.0 1 4 100 12 1.0 1 7 5 101 12 1.0 1 7 5 102 15 1.0 1 10 5 103 14 1.0 1 9 5 104 8 1.0 1 7 1 105 9 1.0 1 6 3 106 4 1.0 1 2 2 107 10 1.0 1 7 3 108 11 1.0 1 4 7 109 12 1.0 1 9 3 110 13 1.0 1 8 5 111 6 1.0 1 3 3 112 9 1.0 1 5 4 113 7 1.0 1 1 6 114 9 1.0 1 4 5 115 4 1.0 1 4 116 7 1.0 1 6 1 117 6 1.0 1 6 118 3 1.0 1 1 2 119 6 1.0 1 6 120 9 1.0 1 2 7 121 4 1.0 1 4 122 4 1.0 1 3 1 123 5 1.0 1 2 3 124 2 1.0 1 1 1 125 5 1.0 1 3 2 126 4 1.0 1 3 1 127 4 1.0 1 3 1 128 4 1.0 1 1 3 129 1 1.0 1 1 130 6 1.0 1 3 3 131 3 1.0 1 3 133 2 1.0 1 2 134 1 1.0 1 1 136 2 1.0 1 1 1 137 2 1.0 1 1 1 140 1 1.0 1 0 1 141 2 1.0 1 1 1 142 2 1.0 1 0 2 143 1 1.0 1 0 1 144 2 1.0 1 0 2 145 3 1.0 1 0 3 147 2 1.0 1 0 2 148 4 1.0 1 0 4 149 4 1.0 1 1 3 150 26 1.0 1 3 23 RUN STATISTICS FOR INPUT FILE: SRR10065365_1.fastq.gz ============================================= 70095226 sequences processed in total