SUMMARISING RUN PARAMETERS ========================== Input filename: SRR10065368_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: 634). 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 SRR10065368_1.fastq.gz Processing single-end reads on 2 cores ... Finished in 1202.117 s (18.220 µs/read; 3.29 M reads/minute). === Summary === Total reads processed: 65,976,313 Reads with adapters: 26,706,155 (40.5%) Reads written (passing filters): 65,976,313 (100.0%) Total basepairs processed: 9,896,446,950 bp Quality-trimmed: 18,638,721 bp (0.2%) Total written (filtered): 9,842,012,761 bp (99.4%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 26706155 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 40.8% C: 0.1% G: 12.7% T: 46.4% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 21434316 16494078.2 0 21434316 2 3462836 4123519.6 0 3462836 3 1229628 1030879.9 0 1229628 4 497858 257720.0 0 497858 5 4717 64430.0 0 4717 6 4799 16107.5 0 4799 7 3968 4026.9 0 3968 8 3418 1006.7 0 3418 9 3769 251.7 0 3126 643 10 4448 62.9 1 3161 1287 11 3290 15.7 1 2869 421 12 3621 3.9 1 3298 323 13 2508 1.0 1 2394 114 14 2581 1.0 1 2425 156 15 2174 1.0 1 2064 110 16 2282 1.0 1 2160 122 17 1967 1.0 1 1874 93 18 2329 1.0 1 2190 139 19 1735 1.0 1 1628 107 20 1739 1.0 1 1672 67 21 1534 1.0 1 1465 69 22 1617 1.0 1 1538 79 23 1546 1.0 1 1461 85 24 1765 1.0 1 1648 117 25 1306 1.0 1 1254 52 26 1275 1.0 1 1238 37 27 1206 1.0 1 1152 54 28 1114 1.0 1 1050 64 29 1123 1.0 1 1073 50 30 1163 1.0 1 1115 48 31 1027 1.0 1 986 41 32 925 1.0 1 885 40 33 886 1.0 1 849 37 34 826 1.0 1 797 29 35 806 1.0 1 750 56 36 804 1.0 1 761 43 37 680 1.0 1 659 21 38 679 1.0 1 646 33 39 695 1.0 1 651 44 40 609 1.0 1 566 43 41 611 1.0 1 583 28 42 589 1.0 1 562 27 43 697 1.0 1 657 40 44 388 1.0 1 359 29 45 734 1.0 1 705 29 46 186 1.0 1 173 13 47 371 1.0 1 349 22 48 403 1.0 1 390 13 49 397 1.0 1 380 17 50 410 1.0 1 389 21 51 369 1.0 1 352 17 52 374 1.0 1 353 21 53 294 1.0 1 282 12 54 311 1.0 1 296 15 55 372 1.0 1 350 22 56 193 1.0 1 185 8 57 256 1.0 1 243 13 58 233 1.0 1 224 9 59 157 1.0 1 141 16 60 205 1.0 1 194 11 61 157 1.0 1 151 6 62 189 1.0 1 180 9 63 190 1.0 1 179 11 64 139 1.0 1 134 5 65 119 1.0 1 116 3 66 152 1.0 1 139 13 67 137 1.0 1 132 5 68 130 1.0 1 122 8 69 142 1.0 1 133 9 70 135 1.0 1 122 13 71 233 1.0 1 196 37 72 612 1.0 1 589 23 73 125 1.0 1 113 12 74 45 1.0 1 43 2 75 37 1.0 1 31 6 76 25 1.0 1 21 4 77 19 1.0 1 17 2 78 30 1.0 1 24 6 79 24 1.0 1 20 4 80 28 1.0 1 24 4 81 18 1.0 1 11 7 82 20 1.0 1 17 3 83 19 1.0 1 14 5 84 13 1.0 1 6 7 85 12 1.0 1 9 3 86 12 1.0 1 10 2 87 9 1.0 1 5 4 88 8 1.0 1 6 2 89 8 1.0 1 4 4 90 15 1.0 1 11 4 91 8 1.0 1 4 4 92 10 1.0 1 4 6 93 8 1.0 1 7 1 94 6 1.0 1 3 3 95 7 1.0 1 7 96 9 1.0 1 4 5 97 5 1.0 1 3 2 98 8 1.0 1 4 4 99 8 1.0 1 5 3 100 4 1.0 1 3 1 101 8 1.0 1 5 3 102 4 1.0 1 2 2 103 5 1.0 1 5 104 4 1.0 1 2 2 105 8 1.0 1 5 3 106 9 1.0 1 3 6 107 4 1.0 1 1 3 108 3 1.0 1 3 109 4 1.0 1 2 2 110 2 1.0 1 1 1 111 3 1.0 1 3 112 3 1.0 1 2 1 113 2 1.0 1 2 114 2 1.0 1 2 115 4 1.0 1 3 1 116 5 1.0 1 2 3 117 7 1.0 1 4 3 118 6 1.0 1 5 1 119 2 1.0 1 1 1 120 5 1.0 1 2 3 121 4 1.0 1 1 3 122 2 1.0 1 1 1 123 2 1.0 1 1 1 125 3 1.0 1 3 126 3 1.0 1 3 127 3 1.0 1 2 1 128 2 1.0 1 2 129 2 1.0 1 2 130 1 1.0 1 0 1 131 4 1.0 1 2 2 132 1 1.0 1 0 1 133 2 1.0 1 1 1 136 2 1.0 1 2 137 1 1.0 1 1 138 4 1.0 1 3 1 139 3 1.0 1 0 3 140 1 1.0 1 0 1 142 1 1.0 1 1 143 1 1.0 1 1 144 1 1.0 1 0 1 146 2 1.0 1 1 1 147 2 1.0 1 0 2 148 1 1.0 1 0 1 150 23 1.0 1 2 21 RUN STATISTICS FOR INPUT FILE: SRR10065368_1.fastq.gz ============================================= 65976313 sequences processed in total