BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10251081.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 = 15,704,596 number of mapped reads = 14,365,456 (91.47%) number of supplementary alignments = 186,562 (1.19%) number of secondary alignments = 0 number of mapped bases = 1,737,196,219 bp number of sequenced bases = 1,733,638,675 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 10,526,768 duplication rate = 37.27% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 51.1858 >>>>>>> ACTG content number of A's = 500,031,835 bp (28.84%) number of C's = 345,144,062 bp (19.91%) number of T's = 524,054,937 bp (30.23%) number of G's = 364,407,841 bp (21.02%) number of N's = 0 bp (0%) GC percentage = 40.93% >>>>>>> Mismatches and indels general error rate = 0.0132 number of mismatches = 13,732,269 number of insertions = 8,292,297 mapped reads with insertion percentage = 34.3% number of deletions = 3,030,229 mapped reads with deletion percentage = 17.24% homopolymer indels = 36% >>>>>>> Coverage mean coverageData = 0.5612X std coverageData = 5.5394X There is a 6.05% of reference with a coverageData >= 1X There is a 4.14% of reference with a coverageData >= 2X There is a 3.33% of reference with a coverageData >= 3X There is a 2.85% of reference with a coverageData >= 4X There is a 2.5% of reference with a coverageData >= 5X There is a 2.24% of reference with a coverageData >= 6X There is a 2.02% of reference with a coverageData >= 7X There is a 1.85% of reference with a coverageData >= 8X There is a 1.7% of reference with a coverageData >= 9X There is a 1.56% of reference with a coverageData >= 10X There is a 1.45% of reference with a coverageData >= 11X There is a 1.35% of reference with a coverageData >= 12X There is a 1.26% of reference with a coverageData >= 13X There is a 1.17% of reference with a coverageData >= 14X There is a 1.1% of reference with a coverageData >= 15X There is a 1.03% of reference with a coverageData >= 16X There is a 0.97% of reference with a coverageData >= 17X There is a 0.91% of reference with a coverageData >= 18X There is a 0.86% of reference with a coverageData >= 19X There is a 0.81% of reference with a coverageData >= 20X There is a 0.76% of reference with a coverageData >= 21X There is a 0.72% of reference with a coverageData >= 22X There is a 0.68% of reference with a coverageData >= 23X There is a 0.65% of reference with a coverageData >= 24X There is a 0.61% of reference with a coverageData >= 25X There is a 0.58% of reference with a coverageData >= 26X There is a 0.55% of reference with a coverageData >= 27X There is a 0.52% of reference with a coverageData >= 28X There is a 0.49% of reference with a coverageData >= 29X There is a 0.47% of reference with a coverageData >= 30X There is a 0.44% of reference with a coverageData >= 31X There is a 0.42% of reference with a coverageData >= 32X There is a 0.4% of reference with a coverageData >= 33X There is a 0.38% of reference with a coverageData >= 34X There is a 0.36% of reference with a coverageData >= 35X There is a 0.34% of reference with a coverageData >= 36X There is a 0.33% of reference with a coverageData >= 37X There is a 0.31% of reference with a coverageData >= 38X There is a 0.3% of reference with a coverageData >= 39X There is a 0.28% of reference with a coverageData >= 40X There is a 0.27% of reference with a coverageData >= 41X There is a 0.26% of reference with a coverageData >= 42X There is a 0.24% of reference with a coverageData >= 43X There is a 0.23% of reference with a coverageData >= 44X There is a 0.22% of reference with a coverageData >= 45X There is a 0.21% of reference with a coverageData >= 46X There is a 0.2% of reference with a coverageData >= 47X There is a 0.19% of reference with a coverageData >= 48X There is a 0.18% of reference with a coverageData >= 49X There is a 0.18% of reference with a coverageData >= 50X There is a 0.17% of reference with a coverageData >= 51X >>>>>>> Coverage per contig chr1 249250621 138478367 0.5555788244154465 5.613620120331557 chr2 243199373 138983363 0.5714791172590729 6.007344422939885 chr3 198022430 120720368 0.6096297676985379 4.757775324088629 chr4 191154276 116090582 0.6073135502341575 4.986605609247631 chr5 180915260 99840262 0.551862026453711 4.503146233304182 chr6 171115067 102880219 0.6012341332864627 5.448099943541524 chr7 159138663 89528081 0.5625790698015353 6.639394021346306 chr8 146364022 87406128 0.5971831520180554 5.290475231636141 chr9 141213431 71655703 0.5074283833525722 5.029192605983895 chr10 135534747 99775728 0.7361634577736733 6.712787045314077 chr11 135006516 77375254 0.5731223669233861 4.671473718905897 chr12 133851895 79382215 0.5930600758397929 4.5410116854618865 chr13 115169878 58082974 0.5043243511988439 4.406169233128436 chr14 107349540 51243638 0.4773531214013586 4.224852072340888 chr15 102531392 50684899 0.4943354226576774 4.20423069436663 chr16 90354753 49356518 0.5462525917147933 4.381315143452343 chr17 81195210 43952592 0.5413200113652025 4.337256792013282 chr18 78077248 46189062 0.5915815834082677 6.527389709122374 chr19 59128983 32364890 0.547360843327882 5.680935731783902 chr20 63025520 36129676 0.5732547069821875 4.421030246165839 chr21 48129895 23454856 0.48732406334981615 4.297333338404497 chr22 51304566 19496257 0.38001017297368817 3.4896891248729003 chrMT 16571 5362797 323.6254299680164 799.7361675392 chrX 155270560 95759424 0.6167262100426507 5.143015196403319 chrY 59373566 3002366 0.050567385492729204 1.9187593850062274