BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524508.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP215441/SRP215441.result/quality.files/genome_results.txt >>>>>>> Reference number of bases = 3,095,693,983 bp number of contigs = 25 >>>>>>> Globals number of windows = 424 number of reads = 807,491 number of mapped reads = 734,985 (91.02%) number of supplementary alignments = 1,609 (0.2%) number of secondary alignments = 0 number of mapped bases = 41,734,922 bp number of sequenced bases = 41,721,518 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 33,047 duplication rate = 3.65% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.6525 >>>>>>> ACTG content number of A's = 10,424,789 bp (24.99%) number of C's = 7,589,887 bp (18.19%) number of T's = 13,620,458 bp (32.65%) number of G's = 10,085,532 bp (24.17%) number of N's = 852 bp (0%) GC percentage = 42.37% >>>>>>> Mismatches and indels general error rate = 0.005 number of mismatches = 200,081 number of insertions = 3,036 mapped reads with insertion percentage = 0.41% number of deletions = 7,869 mapped reads with deletion percentage = 1.06% homopolymer indels = 43.37% >>>>>>> Coverage mean coverageData = 0.0135X std coverageData = 0.1578X There is a 1.21% of reference with a coverageData >= 1X There is a 0.11% of reference with a coverageData >= 2X There is a 0.01% of reference with a coverageData >= 3X There is a 0% of reference with a coverageData >= 4X There is a 0% of reference with a coverageData >= 5X There is a 0% of reference with a coverageData >= 6X There is a 0% of reference with a coverageData >= 7X There is a 0% of reference with a coverageData >= 8X There is a 0% of reference with a coverageData >= 9X There is a 0% of reference with a coverageData >= 10X There is a 0% of reference with a coverageData >= 11X There is a 0% of reference with a coverageData >= 12X There is a 0% of reference with a coverageData >= 13X There is a 0% of reference with a coverageData >= 14X There is a 0% of reference with a coverageData >= 15X There is a 0% of reference with a coverageData >= 16X There is a 0% of reference with a coverageData >= 17X There is a 0% of reference with a coverageData >= 18X There is a 0% of reference with a coverageData >= 19X There is a 0% of reference with a coverageData >= 20X There is a 0% of reference with a coverageData >= 21X There is a 0% of reference with a coverageData >= 22X There is a 0% of reference with a coverageData >= 23X There is a 0% of reference with a coverageData >= 24X There is a 0% of reference with a coverageData >= 25X There is a 0% of reference with a coverageData >= 26X There is a 0% of reference with a coverageData >= 27X There is a 0% of reference with a coverageData >= 28X There is a 0% of reference with a coverageData >= 29X There is a 0% of reference with a coverageData >= 30X There is a 0% of reference with a coverageData >= 31X There is a 0% of reference with a coverageData >= 32X There is a 0% of reference with a coverageData >= 33X There is a 0% of reference with a coverageData >= 34X There is a 0% of reference with a coverageData >= 35X There is a 0% of reference with a coverageData >= 36X There is a 0% of reference with a coverageData >= 37X There is a 0% of reference with a coverageData >= 38X There is a 0% of reference with a coverageData >= 39X There is a 0% of reference with a coverageData >= 40X There is a 0% of reference with a coverageData >= 41X There is a 0% of reference with a coverageData >= 42X There is a 0% of reference with a coverageData >= 43X There is a 0% of reference with a coverageData >= 44X There is a 0% of reference with a coverageData >= 45X There is a 0% of reference with a coverageData >= 46X There is a 0% of reference with a coverageData >= 47X There is a 0% of reference with a coverageData >= 48X There is a 0% of reference with a coverageData >= 49X There is a 0% of reference with a coverageData >= 50X There is a 0% of reference with a coverageData >= 51X >>>>>>> Coverage per contig chr1 249250621 4180963 0.01677413273124804 0.24554886072161303 chr2 243199373 3320272 0.01365246940829901 0.1874811505355867 chr3 198022430 2345218 0.011843193723054505 0.12007753802286004 chr4 191154276 2386573 0.012485062065783974 0.13080306107051712 chr5 180915260 2285193 0.01263128936718771 0.12335624015412572 chr6 171115067 1790474 0.010463567185465907 0.12916990848963178 chr7 159138663 2125041 0.013353392317993774 0.19218827427391763 chr8 146364022 3853603 0.026328895225358046 0.19350107113215573 chr9 141213431 1787751 0.012659921845536066 0.13757564165032202 chr10 135534747 2174242 0.01604195269571721 0.17074073471709503 chr11 135006516 1455756 0.010782857325197548 0.13908055373205752 chr12 133851895 1949292 0.014563051199237785 0.13258059544477716 chr13 115169878 943663 0.008193661540563583 0.0997123355404627 chr14 107349540 1003666 0.009349513747334176 0.10753513178943401 chr15 102531392 1101496 0.010743012247410042 0.11578740579034195 chr16 90354753 1310671 0.014505833467332925 0.1361646015864827 chr17 81195210 1480505 0.018233895817253258 0.15139539549995412 chr18 78077248 981034 0.012564915197830743 0.20507235342420324 chr19 59128983 875239 0.014802199456060322 0.19204678027294309 chr20 63025520 771979 0.012248673235857474 0.12373118687626068 chr21 48129895 580048 0.012051719622492425 0.12690663423882395 chr22 51304566 356284 0.0069444891123335885 0.0917849852049845 chrMT 16571 4930 0.29750769416450423 0.614888157314983 chrX 155270560 2523661 0.01625331292680338 0.14758501772951496 chrY 59373566 147368 0.0024820473137827028 0.08418724303103395