BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524391.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 = 1,604,772 number of mapped reads = 1,482,283 (92.37%) number of supplementary alignments = 5,661 (0.35%) number of secondary alignments = 0 number of mapped bases = 87,240,233 bp number of sequenced bases = 87,216,083 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 49,911 duplication rate = 2.47% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.6589 >>>>>>> ACTG content number of A's = 21,826,170 bp (25.03%) number of C's = 17,171,903 bp (19.69%) number of T's = 26,934,910 bp (30.88%) number of G's = 21,271,521 bp (24.39%) number of N's = 11,579 bp (0.01%) GC percentage = 44.08% >>>>>>> Mismatches and indels general error rate = 0.0049 number of mismatches = 413,796 number of insertions = 4,993 mapped reads with insertion percentage = 0.33% number of deletions = 15,091 mapped reads with deletion percentage = 1.01% homopolymer indels = 43.69% >>>>>>> Coverage mean coverageData = 0.0282X std coverageData = 0.2819X There is a 2.55% of reference with a coverageData >= 1X There is a 0.19% of reference with a coverageData >= 2X There is a 0.02% of reference with a coverageData >= 3X There is a 0.01% 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 7287042 0.029235802786625756 0.5958866165328863 chr2 243199373 7063735 0.029045037875159326 0.3008913005444428 chr3 198022430 6083011 0.03071879786547413 0.18767670918525706 chr4 191154276 5804172 0.030363809387136075 0.2027008497488134 chr5 180915260 5383233 0.029755549642412695 0.18545187517888848 chr6 171115067 3381412 0.01976104184910847 0.16267978681289094 chr7 159138663 4987158 0.031338443505711744 0.3785665132473177 chr8 146364022 4572448 0.031240245639054656 0.24894701381636677 chr9 141213431 3277504 0.023209576998380558 0.21003450172262675 chr10 135534747 4286532 0.031626812274198585 0.2501876228142951 chr11 135006516 3597916 0.026649943325698443 0.22292891811273619 chr12 133851895 4069176 0.030400585662235115 0.19137574909959784 chr13 115169878 2841235 0.024669948855897895 0.1686934660787738 chr14 107349540 2425005 0.0225898033657154 0.1663903089781032 chr15 102531392 2697444 0.026308469507563107 0.1748693992452892 chr16 90354753 2627085 0.02907522750906087 0.19176829750060315 chr17 81195210 2363014 0.029102874418330836 0.20162205281382484 chr18 78077248 2394537 0.030668819167396884 0.36983165707844373 chr19 59128983 2442204 0.041302993491364466 0.43052971462322587 chr20 63025520 2417161 0.03835209927661049 0.21675038937679467 chr21 48129895 1202681 0.02498823236576768 0.18256979219826014 chr22 51304566 603753 0.011768016905162009 0.11588577132382503 chrMT 16571 103932 6.271920825538592 3.8849884049968857 chrX 155270560 5072531 0.03266898116423358 0.2121059645826748 chrY 59373566 256312 0.004316937945078118 0.12002393133257634