SUMMARISING RUN PARAMETERS ========================== Input filename: SRR10065369_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: 589). 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 SRR10065369_1.fastq.gz Processing single-end reads on 2 cores ... Finished in 1377.878 s (19.632 µs/read; 3.06 M reads/minute). === Summary === Total reads processed: 70,186,712 Reads with adapters: 28,435,113 (40.5%) Reads written (passing filters): 70,186,712 (100.0%) Total basepairs processed: 10,528,006,800 bp Quality-trimmed: 18,981,794 bp (0.2%) Total written (filtered): 10,470,932,003 bp (99.5%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 28435113 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: 46.3% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 22808764 17546678.0 0 22808764 2 3683996 4386669.5 0 3683996 3 1323879 1096667.4 0 1323879 4 535456 274166.8 0 535456 5 5060 68541.7 0 5060 6 4955 17135.4 0 4955 7 3846 4283.9 0 3846 8 3409 1071.0 0 3409 9 3905 267.7 0 3182 723 10 4321 66.9 1 3018 1303 11 3303 16.7 1 2909 394 12 3749 4.2 1 3497 252 13 2553 1.0 1 2447 106 14 2486 1.0 1 2363 123 15 2218 1.0 1 2146 72 16 2320 1.0 1 2203 117 17 2112 1.0 1 2034 78 18 2159 1.0 1 2065 94 19 1771 1.0 1 1704 67 20 1736 1.0 1 1687 49 21 1669 1.0 1 1609 60 22 1606 1.0 1 1537 69 23 1508 1.0 1 1439 69 24 1788 1.0 1 1698 90 25 1468 1.0 1 1419 49 26 1244 1.0 1 1186 58 27 1192 1.0 1 1145 47 28 1176 1.0 1 1127 49 29 1118 1.0 1 1075 43 30 1072 1.0 1 1028 44 31 1068 1.0 1 1028 40 32 934 1.0 1 895 39 33 957 1.0 1 899 58 34 875 1.0 1 843 32 35 898 1.0 1 854 44 36 831 1.0 1 796 35 37 727 1.0 1 704 23 38 706 1.0 1 677 29 39 696 1.0 1 658 38 40 776 1.0 1 726 50 41 538 1.0 1 513 25 42 608 1.0 1 585 23 43 641 1.0 1 609 32 44 473 1.0 1 458 15 45 682 1.0 1 659 23 46 234 1.0 1 221 13 47 389 1.0 1 372 17 48 439 1.0 1 420 19 49 346 1.0 1 339 7 50 393 1.0 1 376 17 51 316 1.0 1 299 17 52 351 1.0 1 334 17 53 267 1.0 1 261 6 54 306 1.0 1 288 18 55 333 1.0 1 312 21 56 211 1.0 1 200 11 57 240 1.0 1 230 10 58 231 1.0 1 224 7 59 196 1.0 1 187 9 60 203 1.0 1 194 9 61 207 1.0 1 195 12 62 183 1.0 1 174 9 63 196 1.0 1 180 16 64 167 1.0 1 155 12 65 127 1.0 1 115 12 66 145 1.0 1 130 15 67 147 1.0 1 137 10 68 136 1.0 1 125 11 69 162 1.0 1 145 17 70 162 1.0 1 141 21 71 228 1.0 1 179 49 72 717 1.0 1 686 31 73 180 1.0 1 171 9 74 47 1.0 1 43 4 75 34 1.0 1 32 2 76 25 1.0 1 20 5 77 25 1.0 1 22 3 78 30 1.0 1 26 4 79 24 1.0 1 21 3 80 22 1.0 1 21 1 81 22 1.0 1 17 5 82 18 1.0 1 14 4 83 19 1.0 1 15 4 84 18 1.0 1 14 4 85 22 1.0 1 15 7 86 18 1.0 1 16 2 87 16 1.0 1 11 5 88 10 1.0 1 6 4 89 8 1.0 1 8 90 10 1.0 1 7 3 91 8 1.0 1 5 3 92 10 1.0 1 7 3 93 11 1.0 1 10 1 94 4 1.0 1 4 95 11 1.0 1 9 2 96 10 1.0 1 7 3 97 9 1.0 1 6 3 98 6 1.0 1 4 2 99 5 1.0 1 3 2 100 6 1.0 1 5 1 101 10 1.0 1 5 5 102 7 1.0 1 5 2 103 4 1.0 1 3 1 104 4 1.0 1 3 1 105 11 1.0 1 8 3 106 9 1.0 1 6 3 107 8 1.0 1 1 7 108 11 1.0 1 4 7 109 7 1.0 1 4 3 110 6 1.0 1 3 3 111 6 1.0 1 4 2 112 7 1.0 1 6 1 113 8 1.0 1 2 6 114 4 1.0 1 1 3 115 2 1.0 1 1 1 116 8 1.0 1 4 4 117 7 1.0 1 6 1 118 6 1.0 1 2 4 119 9 1.0 1 6 3 120 5 1.0 1 2 3 121 1 1.0 1 1 122 6 1.0 1 3 3 123 2 1.0 1 2 124 4 1.0 1 3 1 125 3 1.0 1 0 3 126 2 1.0 1 1 1 127 3 1.0 1 1 2 128 4 1.0 1 4 129 1 1.0 1 0 1 130 4 1.0 1 3 1 131 1 1.0 1 1 133 1 1.0 1 1 137 2 1.0 1 1 1 138 1 1.0 1 1 139 2 1.0 1 0 2 142 2 1.0 1 2 146 1 1.0 1 1 148 2 1.0 1 1 1 149 4 1.0 1 0 4 150 19 1.0 1 2 17 RUN STATISTICS FOR INPUT FILE: SRR10065369_1.fastq.gz ============================================= 70186712 sequences processed in total