SUMMARISING RUN PARAMETERS ========================== Input filename: ERR12308518_2.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: 66954). 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 ERR12308518_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 1728.517 s (19.046 µs/read; 3.15 M reads/minute). === Summary === Total reads processed: 90,755,093 Reads with adapters: 40,525,991 (44.7%) Reads written (passing filters): 90,755,093 (100.0%) Total basepairs processed: 13,704,019,043 bp Quality-trimmed: 45,704,154 bp (0.3%) Total written (filtered): 13,380,848,684 bp (97.6%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 40525991 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 36.2% C: 0.9% G: 15.4% T: 47.4% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 25498327 22688773.2 0 25498327 2 4229261 5672193.3 0 4229261 3 1812605 1418048.3 0 1812605 4 826133 354512.1 0 826133 5 256778 88628.0 0 256778 6 220186 22157.0 0 220186 7 215329 5539.3 0 215329 8 233298 1384.8 0 233298 9 205874 346.2 0 204568 1306 10 216875 86.6 1 199205 17670 11 228936 21.6 1 204751 24185 12 232633 5.4 1 210663 21970 13 195174 1.4 1 179630 15544 14 211132 1.4 1 188271 22861 15 207410 1.4 1 190569 16841 16 198019 1.4 1 176039 21980 17 215934 1.4 1 191643 24291 18 238667 1.4 1 220874 17793 19 120320 1.4 1 111234 9086 20 176577 1.4 1 163023 13554 21 186356 1.4 1 171201 15155 22 155396 1.4 1 143791 11605 23 181188 1.4 1 166452 14736 24 165244 1.4 1 146803 18441 25 164167 1.4 1 152837 11330 26 135075 1.4 1 126446 8629 27 160365 1.4 1 148027 12338 28 146886 1.4 1 137372 9514 29 146163 1.4 1 133113 13050 30 172495 1.4 1 161969 10526 31 86469 1.4 1 81201 5268 32 134910 1.4 1 126460 8450 33 119871 1.4 1 110551 9320 34 128465 1.4 1 118846 9619 35 123227 1.4 1 115463 7764 36 106911 1.4 1 100110 6801 37 106342 1.4 1 99662 6680 38 107100 1.4 1 100370 6730 39 103992 1.4 1 98306 5686 40 100012 1.4 1 92918 7094 41 98862 1.4 1 93130 5732 42 115273 1.4 1 107810 7463 43 95043 1.4 1 83898 11145 44 76106 1.4 1 70392 5714 45 135789 1.4 1 128778 7011 46 35032 1.4 1 31887 3145 47 85865 1.4 1 78987 6878 48 341176 1.4 1 326949 14227 49 66044 1.4 1 61943 4101 50 67131 1.4 1 63354 3777 51 102698 1.4 1 98463 4235 52 55308 1.4 1 53118 2190 53 27377 1.4 1 25745 1632 54 117482 1.4 1 114272 3210 55 31227 1.4 1 30074 1153 56 9857 1.4 1 9094 763 57 38284 1.4 1 37345 939 58 5477 1.4 1 5027 450 59 13562 1.4 1 12991 571 60 10440 1.4 1 10003 437 61 4933 1.4 1 4385 548 62 40630 1.4 1 39329 1301 63 29568 1.4 1 28910 658 64 5089 1.4 1 4761 328 65 8852 1.4 1 8274 578 66 32869 1.4 1 31886 983 67 13714 1.4 1 13075 639 68 25567 1.4 1 24397 1170 69 27364 1.4 1 26015 1349 70 49584 1.4 1 47808 1776 71 11404 1.4 1 10740 664 72 2526 1.4 1 2284 242 73 6353 1.4 1 6018 335 74 13009 1.4 1 12502 507 75 16404 1.4 1 15770 634 76 17092 1.4 1 16387 705 77 16501 1.4 1 15798 703 78 15725 1.4 1 15065 660 79 14934 1.4 1 14318 616 80 13966 1.4 1 13369 597 81 12960 1.4 1 12406 554 82 12037 1.4 1 11525 512 83 11394 1.4 1 10883 511 84 10568 1.4 1 10092 476 85 9881 1.4 1 9456 425 86 9052 1.4 1 8663 389 87 8693 1.4 1 8327 366 88 7824 1.4 1 7469 355 89 7341 1.4 1 7061 280 90 6437 1.4 1 6169 268 91 6200 1.4 1 5933 267 92 5647 1.4 1 5424 223 93 5155 1.4 1 4970 185 94 4786 1.4 1 4567 219 95 4251 1.4 1 4065 186 96 3847 1.4 1 3689 158 97 3682 1.4 1 3543 139 98 3275 1.4 1 3115 160 99 3208 1.4 1 3070 138 100 2665 1.4 1 2552 113 101 2591 1.4 1 2474 117 102 2074 1.4 1 1992 82 103 1996 1.4 1 1906 90 104 1734 1.4 1 1656 78 105 1638 1.4 1 1535 103 106 1373 1.4 1 1314 59 107 1165 1.4 1 1102 63 108 1107 1.4 1 1041 66 109 936 1.4 1 879 57 110 797 1.4 1 743 54 111 728 1.4 1 679 49 112 619 1.4 1 559 60 113 534 1.4 1 491 43 114 441 1.4 1 401 40 115 407 1.4 1 374 33 116 326 1.4 1 290 36 117 301 1.4 1 279 22 118 217 1.4 1 198 19 119 249 1.4 1 222 27 120 245 1.4 1 216 29 121 218 1.4 1 196 22 122 215 1.4 1 189 26 123 191 1.4 1 168 23 124 167 1.4 1 145 22 125 147 1.4 1 124 23 126 158 1.4 1 126 32 127 147 1.4 1 122 25 128 123 1.4 1 108 15 129 129 1.4 1 105 24 130 100 1.4 1 81 19 131 115 1.4 1 104 11 132 75 1.4 1 65 10 133 85 1.4 1 68 17 134 84 1.4 1 69 15 135 87 1.4 1 69 18 136 66 1.4 1 52 14 137 59 1.4 1 44 15 138 53 1.4 1 43 10 139 85 1.4 1 59 26 140 56 1.4 1 40 16 141 56 1.4 1 40 16 142 38 1.4 1 24 14 143 30 1.4 1 24 6 144 51 1.4 1 34 17 145 65 1.4 1 37 28 146 54 1.4 1 30 24 147 34 1.4 1 27 7 148 60 1.4 1 20 40 149 43 1.4 1 22 21 150 51 1.4 1 15 36 151 549 1.4 1 22 527 RUN STATISTICS FOR INPUT FILE: ERR12308518_2.fastq.gz ============================================= 90755093 sequences processed in total