BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524322.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 = 961,166 number of mapped reads = 882,900 (91.86%) number of supplementary alignments = 3,295 (0.34%) number of secondary alignments = 0 number of mapped bases = 51,302,018 bp number of sequenced bases = 51,285,110 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 27,766 duplication rate = 2.38% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.5419 >>>>>>> ACTG content number of A's = 12,802,173 bp (24.96%) number of C's = 8,978,708 bp (17.51%) number of T's = 16,268,106 bp (31.72%) number of G's = 13,234,948 bp (25.81%) number of N's = 1,175 bp (0%) GC percentage = 43.31% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 262,225 number of insertions = 3,558 mapped reads with insertion percentage = 0.4% number of deletions = 10,584 mapped reads with deletion percentage = 1.19% homopolymer indels = 43.32% >>>>>>> Coverage mean coverageData = 0.0166X std coverageData = 0.1858X There is a 1.54% of reference with a coverageData >= 1X There is a 0.09% 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 4142133 0.01661834575730104 0.3113042883767067 chr2 243199373 4399910 0.018091781840243477 0.24584360977790695 chr3 198022430 3318160 0.016756485616301144 0.13694380933591702 chr4 191154276 3333128 0.017436847711426555 0.1461750555135692 chr5 180915260 3113102 0.017207514722638654 0.13867626241894784 chr6 171115067 2929447 0.01711974901660764 0.1449539075373853 chr7 159138663 2868472 0.018024984915199393 0.24546019203139127 chr8 146364022 2610658 0.01783674679286963 0.19759502693114828 chr9 141213431 2146893 0.015203178513522556 0.15488280900703724 chr10 135534747 2454503 0.018109769297758014 0.18308069523027232 chr11 135006516 2327817 0.017242256662633973 0.15819136815967105 chr12 133851895 2311049 0.017265717455849244 0.13962729748786443 chr13 115169878 1634275 0.014190125303423522 0.126482031494622 chr14 107349540 1568331 0.014609573548242499 0.12970543803830986 chr15 102531392 1436850 0.01401375687945405 0.12478304918339446 chr16 90354753 1475265 0.016327475323849316 0.14346011396727135 chr17 81195210 1367430 0.016841264404636676 0.14172224747157702 chr18 78077248 1375789 0.017620869526548885 0.24619030460676572 chr19 59128983 1045042 0.017673938345937727 0.23584205475363218 chr20 63025520 1081774 0.01716406306524722 0.14017605785980403 chr21 48129895 679987 0.014128162963995662 0.13180750679389075 chr22 51304566 592201 0.01154285176099141 0.11368318920967808 chrMT 16571 61642 3.7198720656568702 2.652627005530121 chrX 155270560 2859141 0.018413928564436167 0.15153322309812528 chrY 59373566 169019 0.0028467045418831675 0.08927958398852663