BamQC report ----------------------------------- >>>>>>> Input bam file = SRR9867847.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 = 2,347,145 number of mapped reads = 2,166,709 (92.31%) number of supplementary alignments = 9,305 (0.4%) number of secondary alignments = 0 number of mapped bases = 127,625,593 bp number of sequenced bases = 127,586,031 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 112,961 duplication rate = 3.89% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.7073 >>>>>>> ACTG content number of A's = 32,959,623 bp (25.83%) number of C's = 24,941,538 bp (19.55%) number of T's = 39,844,686 bp (31.23%) number of G's = 29,822,333 bp (23.37%) number of N's = 17,851 bp (0.01%) GC percentage = 42.92% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 643,889 number of insertions = 8,764 mapped reads with insertion percentage = 0.4% number of deletions = 24,777 mapped reads with deletion percentage = 1.14% homopolymer indels = 44.53% >>>>>>> Coverage mean coverageData = 0.0412X std coverageData = 0.3741X There is a 3.59% of reference with a coverageData >= 1X There is a 0.38% of reference with a coverageData >= 2X There is a 0.06% of reference with a coverageData >= 3X There is a 0.02% of reference with a coverageData >= 4X There is a 0.01% of reference with a coverageData >= 5X There is a 0.01% 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 10211363 0.04096825499985414 0.6848928393996931 chr2 243199373 10689198 0.043952407722695895 0.5323577763520958 chr3 198022430 8536964 0.04311109605108876 0.2327085070287524 chr4 191154276 8256617 0.043193472690090384 0.2763891613977629 chr5 180915260 7669924 0.04239511912925421 0.23209422338100982 chr6 171115067 7366130 0.043047816473110456 0.2763536223770087 chr7 159138663 7002128 0.04400016858253987 0.4373175253784575 chr8 146364022 6452464 0.04408504160947422 0.39689085957430315 chr9 141213431 5300429 0.03753487867595257 0.3102695988109612 chr10 135534747 6203617 0.04577141387957141 0.38240428025592593 chr11 135006516 5781411 0.042823199733559525 0.31899679043069296 chr12 133851895 5748248 0.04294483839769321 0.2362902671393978 chr13 115169878 3956181 0.034350830865688686 0.20959170200736812 chr14 107349540 3813225 0.03552157745622385 0.21921196203803925 chr15 102531392 3672336 0.03581669894816214 0.2152532605734772 chr16 90354753 3779845 0.04183338313148839 0.2545519932821053 chr17 81195210 3525127 0.04341545517278667 0.2537790788823945 chr18 78077248 3397677 0.04351686422144387 0.56844100358558 chr19 59128983 2697895 0.04562728569168863 0.5044337911837431 chr20 63025520 2769308 0.043939470868308586 0.2432775438697846 chr21 48129895 1677407 0.034851665477350406 0.2501538869287839 chr22 51304566 1572315 0.030646687470273114 0.19696745814027927 chrMT 16571 26993 1.6289300585359967 1.5837525996237893 chrX 155270560 7094377 0.04569041935573621 0.2711108335324297 chrY 59373566 424414 0.007148197903423891 0.27323693526418913