BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10251072.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP224945/SRP224945.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 = 4,172,811 number of mapped reads = 3,982,783 (95.45%) number of supplementary alignments = 28,607 (0.69%) number of secondary alignments = 0 number of mapped bases = 309,456,219 bp number of sequenced bases = 309,259,287 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 943,430 duplication rate = 20.91% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 48.1967 >>>>>>> ACTG content number of A's = 89,825,703 bp (29.05%) number of C's = 61,685,344 bp (19.95%) number of T's = 91,429,672 bp (29.56%) number of G's = 66,315,787 bp (21.44%) number of N's = 2,781 bp (0%) GC percentage = 41.39% >>>>>>> Mismatches and indels general error rate = 0.006 number of mismatches = 1,770,332 number of insertions = 37,418 mapped reads with insertion percentage = 0.92% number of deletions = 109,664 mapped reads with deletion percentage = 2.71% homopolymer indels = 45.02% >>>>>>> Coverage mean coverageData = 0.1X std coverageData = 1.081X There is a 6.34% of reference with a coverageData >= 1X There is a 2.11% of reference with a coverageData >= 2X There is a 0.78% of reference with a coverageData >= 3X There is a 0.3% of reference with a coverageData >= 4X There is a 0.13% of reference with a coverageData >= 5X There is a 0.06% of reference with a coverageData >= 6X There is a 0.03% of reference with a coverageData >= 7X There is a 0.02% of reference with a coverageData >= 8X There is a 0.01% of reference with a coverageData >= 9X There is a 0.01% of reference with a coverageData >= 10X There is a 0.01% 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 26192679 0.10508571210340134 2.2982459207161656 chr2 243199373 26595021 0.10935480906852503 1.4282479268073587 chr3 198022430 21052328 0.10631284546907135 0.4799336200976467 chr4 191154276 19180985 0.1003429554461026 0.5384202313681301 chr5 180915260 18711881 0.1034289810599725 0.4920764711410092 chr6 171115067 17214120 0.1005996742531153 0.597142641291703 chr7 159138663 17572652 0.11042352416898212 1.5799795654092519 chr8 146364022 15051828 0.10283830544093685 0.6614774199651418 chr9 141213431 13506941 0.09564912419697529 1.076797278183534 chr10 135534747 18202616 0.13430220960238337 1.0762363069557688 chr11 135006516 14259547 0.1056211760919747 0.6667992236694102 chr12 133851895 13938251 0.10413189144613903 0.4920146218227468 chr13 115169878 9183600 0.07973959996727617 0.4063833877503544 chr14 107349540 9378754 0.08736650385274124 0.7288527877400054 chr15 102531392 9465231 0.09231544422999738 0.44095708890643004 chr16 90354753 8762429 0.09697806378818832 0.8828617485108928 chr17 81195210 8545493 0.10524627006937971 0.5691808817849512 chr18 78077248 7516540 0.09627055502775918 1.236645035831527 chr19 59128983 6624066 0.112027396107929 2.1747170299797993 chr20 63025520 6372915 0.10111642077685357 0.521484297024762 chr21 48129895 3730362 0.0775061321035502 0.4298822059261905 chr22 51304566 3848502 0.07501285558092431 0.4258235812323197 chrMT 16571 111343 6.7191479089976465 5.585944425817293 chrX 155270560 13642134 0.08786040315691526 0.5227001919159258 chrY 59373566 796001 0.01340665642349998 0.9430746614738261