BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524873.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 = 1,796,966 number of mapped reads = 1,653,054 (91.99%) number of supplementary alignments = 8,547 (0.48%) number of secondary alignments = 0 number of mapped bases = 96,520,518 bp number of sequenced bases = 96,492,892 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 50,122 duplication rate = 2.05% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.809 >>>>>>> ACTG content number of A's = 25,419,829 bp (26.34%) number of C's = 17,665,363 bp (18.31%) number of T's = 29,576,609 bp (30.65%) number of G's = 23,818,244 bp (24.68%) number of N's = 12,847 bp (0.01%) GC percentage = 42.99% >>>>>>> Mismatches and indels general error rate = 0.0049 number of mismatches = 461,783 number of insertions = 5,873 mapped reads with insertion percentage = 0.35% number of deletions = 17,721 mapped reads with deletion percentage = 1.06% homopolymer indels = 44.06% >>>>>>> Coverage mean coverageData = 0.0312X std coverageData = 0.3029X There is a 2.83% of reference with a coverageData >= 1X There is a 0.2% of reference with a coverageData >= 2X There is a 0.03% of reference with a coverageData >= 3X There is a 0.01% of reference with a coverageData >= 4X There is a 0.01% 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 8034556 0.03223484847405857 0.5891099674610815 chr2 243199373 6217659 0.02556609798496479 0.2996206487082534 chr3 198022430 6877563 0.034731232214451666 0.20004293385038832 chr4 191154276 5249234 0.02746071973822861 0.18969059817853012 chr5 180915260 5856938 0.03237393020356602 0.19519980939639783 chr6 171115067 6336184 0.03702879069088638 0.23055944536792228 chr7 159138663 4439018 0.02789402597909221 0.41773717607791616 chr8 146364022 10374935 0.07088446230317448 0.4172217812972783 chr9 141213431 3986012 0.028226861791921194 0.2535153936189365 chr10 135534747 4812180 0.035505138767108924 0.2803942017278299 chr11 135006516 4635837 0.0343378759585204 0.2751328724806789 chr12 133851895 3821753 0.028552102306807086 0.1853115672928822 chr13 115169878 2537614 0.02203366057225484 0.15772831332456225 chr14 107349540 2029441 0.018904980869037726 0.16539293085186255 chr15 102531392 2893720 0.02822277103191967 0.18036992543514668 chr16 90354753 2764844 0.03059987336803411 0.20455441806649682 chr17 81195210 2645294 0.03257943418090796 0.22088911737625602 chr18 78077248 2329543 0.029836387163645933 0.46755840699759754 chr19 59128983 1480329 0.025035590414264355 0.40689890230892245 chr20 63025520 2054276 0.0325943522560385 0.19540303024763186 chr21 48129895 1401918 0.029127800922898336 0.19391269556507235 chr22 51304566 592698 0.011552539007931574 0.11439969049603406 chrMT 16571 5609 0.3384828917989258 0.6258395825970448 chrX 155270560 4903622 0.031581144551806856 0.2194271509758053 chrY 59373566 239741 0.004037840678122652 0.10201060106618418