BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525236.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 = 632,553 number of mapped reads = 583,113 (92.18%) number of supplementary alignments = 1,965 (0.31%) number of secondary alignments = 0 number of mapped bases = 33,844,419 bp number of sequenced bases = 33,833,697 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 12,374 duplication rate = 1.59% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.3012 >>>>>>> ACTG content number of A's = 8,439,280 bp (24.94%) number of C's = 6,128,053 bp (18.11%) number of T's = 11,108,796 bp (32.83%) number of G's = 8,156,942 bp (24.11%) number of N's = 626 bp (0%) GC percentage = 42.22% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 167,073 number of insertions = 2,707 mapped reads with insertion percentage = 0.46% number of deletions = 6,777 mapped reads with deletion percentage = 1.15% homopolymer indels = 42.68% >>>>>>> Coverage mean coverageData = 0.0109X std coverageData = 0.1363X There is a 1.04% of reference with a coverageData >= 1X There is a 0.04% of reference with a coverageData >= 2X There is a 0% 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 3691694 0.01481117272722863 0.2285725087589151 chr2 243199373 2890188 0.011884027349034326 0.1673852526138106 chr3 198022430 2738869 0.013831104890491447 0.12196187130450131 chr4 191154276 2054118 0.010745864769459827 0.11022592144134395 chr5 180915260 1622028 0.0089656781854665 0.09826683896606885 chr6 171115067 1761601 0.01029483277471995 0.11190747710773949 chr7 159138663 2050884 0.012887402478679868 0.180841031770832 chr8 146364022 1638399 0.011194000941023607 0.1341245507625618 chr9 141213431 1143057 0.00809453457723862 0.10400475171618612 chr10 135534747 1876639 0.01384618366535926 0.14791390397142612 chr11 135006516 1589043 0.011770120784392362 0.12242722033596258 chr12 133851895 1582006 0.011819078093739353 0.11333972833682658 chr13 115169878 1120533 0.00972939295811358 0.10269476293438651 chr14 107349540 1295044 0.01206380576945183 0.11507802863322894 chr15 102531392 936614 0.009134899875347444 0.1004293277755701 chr16 90354753 931875 0.010313513888970512 0.10957018878207098 chr17 81195210 676762 0.008334999071989592 0.09593638913641167 chr18 78077248 751958 0.009630949082631601 0.16411871878668782 chr19 59128983 598985 0.01013014209968739 0.1562754774338672 chr20 63025520 612826 0.009723458053182267 0.10264883116742914 chr21 48129895 447195 0.009291418566360886 0.10305196390619896 chr22 51304566 261222 0.00509159360201975 0.07353975181933461 chrMT 16571 515 0.031078389958360993 0.17352960449432553 chrX 155270560 1473611 0.009490601437902974 0.10623172252369525 chrY 59373566 98753 0.0016632485911322894 0.05671967813017646