SUMMARISING RUN PARAMETERS ========================== Input filename: SRR10065371_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: 524). 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 SRR10065371_1.fastq.gz Processing single-end reads on 2 cores ... Finished in 1827.552 s (20.066 µs/read; 2.99 M reads/minute). === Summary === Total reads processed: 91,076,777 Reads with adapters: 38,286,523 (42.0%) Reads written (passing filters): 91,076,777 (100.0%) Total basepairs processed: 13,661,516,550 bp Quality-trimmed: 25,447,311 bp (0.2%) Total written (filtered): 13,585,066,542 bp (99.4%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 38286523 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 42.4% C: 0.1% G: 12.5% T: 44.9% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 30777922 22769194.2 0 30777922 2 4853960 5692298.6 0 4853960 3 1852704 1423074.6 0 1852704 4 702296 355768.7 0 702296 5 6394 88942.2 0 6394 6 6226 22235.5 0 6226 7 4688 5558.9 0 4688 8 4144 1389.7 0 4144 9 4991 347.4 0 3958 1033 10 5566 86.9 1 3724 1842 11 4052 21.7 1 3545 507 12 4395 5.4 1 4064 331 13 2877 1.4 1 2751 126 14 3109 1.4 1 2957 152 15 2639 1.4 1 2526 113 16 2752 1.4 1 2617 135 17 2526 1.4 1 2410 116 18 2424 1.4 1 2292 132 19 2238 1.4 1 2133 105 20 1973 1.4 1 1898 75 21 1999 1.4 1 1898 101 22 1984 1.4 1 1885 99 23 1779 1.4 1 1682 97 24 1954 1.4 1 1841 113 25 1620 1.4 1 1536 84 26 1535 1.4 1 1473 62 27 1311 1.4 1 1255 56 28 1373 1.4 1 1303 70 29 1353 1.4 1 1288 65 30 1374 1.4 1 1309 65 31 1089 1.4 1 1039 50 32 1138 1.4 1 1085 53 33 1037 1.4 1 971 66 34 975 1.4 1 935 40 35 919 1.4 1 882 37 36 869 1.4 1 835 34 37 879 1.4 1 833 46 38 845 1.4 1 795 50 39 779 1.4 1 724 55 40 793 1.4 1 752 41 41 665 1.4 1 620 45 42 639 1.4 1 616 23 43 640 1.4 1 602 38 44 528 1.4 1 496 32 45 794 1.4 1 764 30 46 283 1.4 1 268 15 47 443 1.4 1 417 26 48 461 1.4 1 433 28 49 474 1.4 1 452 22 50 457 1.4 1 420 37 51 395 1.4 1 378 17 52 404 1.4 1 376 28 53 340 1.4 1 318 22 54 339 1.4 1 323 16 55 448 1.4 1 410 38 56 260 1.4 1 241 19 57 300 1.4 1 277 23 58 281 1.4 1 262 19 59 258 1.4 1 239 19 60 230 1.4 1 212 18 61 211 1.4 1 200 11 62 234 1.4 1 222 12 63 251 1.4 1 232 19 64 190 1.4 1 177 13 65 176 1.4 1 164 12 66 215 1.4 1 196 19 67 164 1.4 1 146 18 68 172 1.4 1 156 16 69 168 1.4 1 148 20 70 203 1.4 1 179 24 71 290 1.4 1 235 55 72 935 1.4 1 902 33 73 233 1.4 1 219 14 74 70 1.4 1 58 12 75 55 1.4 1 43 12 76 40 1.4 1 33 7 77 42 1.4 1 33 9 78 37 1.4 1 31 6 79 36 1.4 1 31 5 80 27 1.4 1 19 8 81 30 1.4 1 20 10 82 37 1.4 1 30 7 83 21 1.4 1 19 2 84 22 1.4 1 17 5 85 18 1.4 1 16 2 86 20 1.4 1 16 4 87 19 1.4 1 15 4 88 12 1.4 1 9 3 89 17 1.4 1 9 8 90 18 1.4 1 15 3 91 24 1.4 1 15 9 92 13 1.4 1 11 2 93 15 1.4 1 12 3 94 15 1.4 1 12 3 95 13 1.4 1 10 3 96 11 1.4 1 9 2 97 9 1.4 1 5 4 98 12 1.4 1 6 6 99 7 1.4 1 7 100 13 1.4 1 8 5 101 9 1.4 1 7 2 102 11 1.4 1 8 3 103 17 1.4 1 12 5 104 13 1.4 1 9 4 105 7 1.4 1 6 1 106 9 1.4 1 8 1 107 7 1.4 1 4 3 108 12 1.4 1 9 3 109 7 1.4 1 5 2 110 15 1.4 1 11 4 111 9 1.4 1 4 5 112 10 1.4 1 7 3 113 9 1.4 1 3 6 114 7 1.4 1 4 3 115 6 1.4 1 3 3 116 6 1.4 1 5 1 117 11 1.4 1 9 2 118 8 1.4 1 3 5 119 2 1.4 1 2 120 8 1.4 1 3 5 121 4 1.4 1 2 2 122 6 1.4 1 2 4 123 4 1.4 1 2 2 124 4 1.4 1 1 3 125 8 1.4 1 7 1 126 2 1.4 1 0 2 127 10 1.4 1 9 1 128 3 1.4 1 1 2 129 4 1.4 1 3 1 130 5 1.4 1 5 131 8 1.4 1 6 2 132 6 1.4 1 6 133 1 1.4 1 1 135 1 1.4 1 0 1 136 2 1.4 1 0 2 138 1 1.4 1 1 139 1 1.4 1 0 1 141 1 1.4 1 0 1 142 1 1.4 1 1 143 4 1.4 1 1 3 145 1 1.4 1 0 1 146 1 1.4 1 0 1 147 1 1.4 1 0 1 148 1 1.4 1 0 1 149 5 1.4 1 0 5 150 40 1.4 1 7 33 RUN STATISTICS FOR INPUT FILE: SRR10065371_1.fastq.gz ============================================= 91076777 sequences processed in total