SUMMARISING RUN PARAMETERS ========================== Input filename: ERR12308528_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: 123417). 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 ERR12308528_1.fastq.gz Processing single-end reads on 2 cores ... Finished in 1022.890 s (15.660 µs/read; 3.83 M reads/minute). === Summary === Total reads processed: 65,320,260 Reads with adapters: 31,573,351 (48.3%) Reads written (passing filters): 65,320,260 (100.0%) Total basepairs processed: 9,863,359,260 bp Quality-trimmed: 40,177,704 bp (0.4%) Total written (filtered): 9,472,839,256 bp (96.0%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 31573351 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 35.3% C: 3.4% G: 17.4% T: 43.9% none/other: 0.1% Overview of removed sequences length count expect max.err error counts 1 16181175 16330065.0 0 16181175 2 2971256 4082516.2 0 2971256 3 1320825 1020629.1 0 1320825 4 615166 255157.3 0 615166 5 277082 63789.3 0 277082 6 240733 15947.3 0 240733 7 237898 3986.8 0 237898 8 261782 996.7 0 261782 9 219530 249.2 0 218252 1278 10 244130 62.3 1 224151 19979 11 251957 15.6 1 226567 25390 12 263195 3.9 1 238838 24357 13 227648 1.0 1 209225 18423 14 236759 1.0 1 212395 24364 15 244523 1.0 1 224183 20340 16 224754 1.0 1 201604 23150 17 253645 1.0 1 225969 27676 18 288158 1.0 1 266905 21253 19 141210 1.0 1 130760 10450 20 218474 1.0 1 201422 17052 21 224631 1.0 1 206874 17757 22 195171 1.0 1 180093 15078 23 225209 1.0 1 207731 17478 24 201027 1.0 1 180422 20605 25 207369 1.0 1 192739 14630 26 176227 1.0 1 164977 11250 27 204511 1.0 1 189061 15450 28 190033 1.0 1 177930 12103 29 188220 1.0 1 172770 15450 30 220197 1.0 1 206426 13771 31 124343 1.0 1 116686 7657 32 179976 1.0 1 168782 11194 33 159900 1.0 1 148748 11152 34 174869 1.0 1 161077 13792 35 178516 1.0 1 168017 10499 36 136816 1.0 1 128378 8438 37 177495 1.0 1 166865 10630 38 126667 1.0 1 116130 10537 39 140708 1.0 1 133084 7624 40 143197 1.0 1 132912 10285 41 144023 1.0 1 135158 8865 42 163903 1.0 1 153301 10602 43 139290 1.0 1 122686 16604 44 110153 1.0 1 101015 9138 45 211783 1.0 1 200889 10894 46 49264 1.0 1 43803 5461 47 130728 1.0 1 118326 12402 48 768298 1.0 1 740625 27673 49 299581 1.0 1 288570 11011 50 34485 1.0 1 31829 2656 51 64533 1.0 1 61297 3236 52 72895 1.0 1 69856 3039 53 15845 1.0 1 14326 1519 54 73545 1.0 1 71493 2052 55 21233 1.0 1 19962 1271 56 21990 1.0 1 20669 1321 57 21782 1.0 1 20972 810 58 9801 1.0 1 9015 786 59 9857 1.0 1 9110 747 60 7108 1.0 1 6465 643 61 8999 1.0 1 8032 967 62 46676 1.0 1 45096 1580 63 13065 1.0 1 12461 604 64 11117 1.0 1 10458 659 65 9861 1.0 1 8935 926 66 42610 1.0 1 41150 1460 67 10425 1.0 1 9618 807 68 25819 1.0 1 24686 1133 69 31304 1.0 1 29797 1507 70 50920 1.0 1 49067 1853 71 24326 1.0 1 23230 1096 72 6322 1.0 1 5754 568 73 6469 1.0 1 6062 407 74 13935 1.0 1 13312 623 75 21024 1.0 1 20148 876 76 24475 1.0 1 23501 974 77 24780 1.0 1 23700 1080 78 23787 1.0 1 22855 932 79 22551 1.0 1 21618 933 80 21236 1.0 1 20285 951 81 19965 1.0 1 19050 915 82 18301 1.0 1 17496 805 83 17116 1.0 1 16322 794 84 15960 1.0 1 15198 762 85 14904 1.0 1 14260 644 86 13641 1.0 1 13056 585 87 12873 1.0 1 12319 554 88 11699 1.0 1 11200 499 89 10838 1.0 1 10365 473 90 9957 1.0 1 9531 426 91 9274 1.0 1 8858 416 92 8734 1.0 1 8372 362 93 8041 1.0 1 7675 366 94 7444 1.0 1 7101 343 95 6704 1.0 1 6424 280 96 6288 1.0 1 6000 288 97 5705 1.0 1 5448 257 98 5278 1.0 1 5024 254 99 4805 1.0 1 4577 228 100 4399 1.0 1 4191 208 101 3969 1.0 1 3754 215 102 3572 1.0 1 3391 181 103 3309 1.0 1 3138 171 104 3009 1.0 1 2826 183 105 2724 1.0 1 2588 136 106 2551 1.0 1 2424 127 107 2275 1.0 1 2164 111 108 2015 1.0 1 1877 138 109 1843 1.0 1 1740 103 110 1569 1.0 1 1470 99 111 1424 1.0 1 1326 98 112 1250 1.0 1 1153 97 113 1194 1.0 1 1112 82 114 909 1.0 1 852 57 115 869 1.0 1 801 68 116 761 1.0 1 693 68 117 716 1.0 1 665 51 118 595 1.0 1 534 61 119 585 1.0 1 526 59 120 730 1.0 1 675 55 121 588 1.0 1 537 51 122 401 1.0 1 340 61 123 331 1.0 1 279 52 124 270 1.0 1 235 35 125 248 1.0 1 211 37 126 236 1.0 1 201 35 127 194 1.0 1 166 28 128 173 1.0 1 145 28 129 163 1.0 1 128 35 130 134 1.0 1 112 22 131 142 1.0 1 118 24 132 126 1.0 1 91 35 133 129 1.0 1 96 33 134 69 1.0 1 50 19 135 119 1.0 1 92 27 136 79 1.0 1 65 14 137 94 1.0 1 78 16 138 86 1.0 1 58 28 139 72 1.0 1 56 16 140 72 1.0 1 50 22 141 65 1.0 1 37 28 142 62 1.0 1 25 37 143 52 1.0 1 29 23 144 42 1.0 1 26 16 145 36 1.0 1 18 18 146 59 1.0 1 27 32 147 58 1.0 1 30 28 148 58 1.0 1 29 29 149 53 1.0 1 31 22 150 108 1.0 1 24 84 151 16457 1.0 1 79 16378 RUN STATISTICS FOR INPUT FILE: ERR12308528_1.fastq.gz ============================================= 65320260 sequences processed in total