BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524721.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 = 201,866 number of mapped reads = 188,138 (93.2%) number of supplementary alignments = 684 (0.34%) number of secondary alignments = 0 number of mapped bases = 11,363,841 bp number of sequenced bases = 11,360,419 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 2,010 duplication rate = 0.84% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 46.3222 >>>>>>> ACTG content number of A's = 3,056,704 bp (26.91%) number of C's = 2,156,167 bp (18.98%) number of T's = 3,430,861 bp (30.2%) number of G's = 2,715,061 bp (23.9%) number of N's = 1,626 bp (0.01%) GC percentage = 42.88% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 55,916 number of insertions = 928 mapped reads with insertion percentage = 0.49% number of deletions = 2,109 mapped reads with deletion percentage = 1.11% homopolymer indels = 42.57% >>>>>>> Coverage mean coverageData = 0.0037X std coverageData = 0.0669X There is a 0.36% of reference with a coverageData >= 1X There is a 0.01% 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 913888 0.0036665425198679847 0.08367698682824101 chr2 243199373 948634 0.0039006432800301667 0.07246271017612713 chr3 198022430 753510 0.0038051749996199924 0.06260575681342392 chr4 191154276 745409 0.003899515174852798 0.06516136664331958 chr5 180915260 692586 0.0038282342794079393 0.06275932836277377 chr6 171115067 667511 0.003900948126327181 0.06495108709730874 chr7 159138663 640657 0.004025778449577649 0.07166080413311052 chr8 146364022 602583 0.004117015860632745 0.0746252025589702 chr9 141213431 468408 0.003317021594072026 0.06196549443730962 chr10 135534747 555797 0.004100771295201517 0.07274932357574944 chr11 135006516 510873 0.003784061800394879 0.06470228198650413 chr12 133851895 511202 0.0038191614694734056 0.06268278027130096 chr13 115169878 357931 0.00310785255846151 0.05644622005745358 chr14 107349540 332716 0.0030993705236184526 0.05650879874471426 chr15 102531392 327358 0.003192758760165862 0.0572098078266097 chr16 90354753 320319 0.0035451261761514636 0.060743472614031895 chr17 81195210 290855 0.0035821694407835144 0.061462649981691826 chr18 78077248 301289 0.003858857832694103 0.08216684696404214 chr19 59128983 228940 0.0038718744748239622 0.07516058428206225 chr20 63025520 229860 0.0036470940660227793 0.06166626623113657 chr21 48129895 152107 0.0031603434829849514 0.058636972851592806 chr22 51304566 131002 0.0025534179550412727 0.0513039860942145 chrMT 16571 3010 0.18164262868867298 0.4314904838288438 chrX 155270560 637931 0.004108512264011929 0.06567384965921695 chrY 59373566 39465 6.646897375171975E-4 0.03771423444635799