BamQC report ----------------------------------- >>>>>>> Input bam file = SRR8751213.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP188831/SRP188831.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 = 5,255,322 number of mapped reads = 3,148,652 (59.91%) number of supplementary alignments = 190,663 (3.63%) number of secondary alignments = 0 number of mapped bases = 308,977,085 bp number of sequenced bases = 308,861,473 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 129,610 duplication rate = 1.94% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 50.8961 >>>>>>> ACTG content number of A's = 91,764,805 bp (29.71%) number of C's = 62,654,912 bp (20.29%) number of T's = 92,230,755 bp (29.86%) number of G's = 62,208,793 bp (20.14%) number of N's = 2,208 bp (0%) GC percentage = 40.43% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 1,322,860 number of insertions = 189,467 mapped reads with insertion percentage = 5.79% number of deletions = 49,693 mapped reads with deletion percentage = 1.54% homopolymer indels = 51.65% >>>>>>> Coverage mean coverageData = 0.0998X std coverageData = 1.3999X There is a 7.91% of reference with a coverageData >= 1X There is a 1.32% of reference with a coverageData >= 2X There is a 0.29% of reference with a coverageData >= 3X There is a 0.09% of reference with a coverageData >= 4X There is a 0.04% of reference with a coverageData >= 5X There is a 0.02% of reference with a coverageData >= 6X There is a 0.01% of reference with a coverageData >= 7X There is a 0.01% 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 0.01% of reference with a coverageData >= 12X There is a 0.01% of reference with a coverageData >= 13X There is a 0.01% 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 28649019 0.11494061232449246 4.019844335181986 chr2 243199373 23635816 0.0971869939812715 0.5995822938047437 chr3 198022430 19828104 0.10013059631679098 0.4536005088692991 chr4 191154276 17471401 0.09139947777051034 0.461417103287637 chr5 180915260 26543001 0.14671510297141324 0.5115483390053762 chr6 171115067 15379604 0.08987872470634044 0.5950701287015546 chr7 159138663 22380782 0.14063698650025733 0.9269270148397295 chr8 146364022 16535746 0.11297684891441423 1.0486975559953378 chr9 141213431 13229191 0.09368224329879783 0.6658805529738806 chr10 135534747 13654281 0.10074376720532043 1.7996636269602635 chr11 135006516 13517386 0.1001239525357428 0.5791651036978888 chr12 133851895 13150323 0.09824532555179738 0.4005767894484821 chr13 115169878 11959766 0.10384456602445997 0.379909911176748 chr14 107349540 7822068 0.07286540771390357 0.34395615749407105 chr15 102531392 9552124 0.09316292126415293 0.3585826985052922 chr16 90354753 8504539 0.09412386972050048 0.7141139871161211 chr17 81195210 8344518 0.10277106248016354 0.579224591412332 chr18 78077248 5579632 0.07146296959646939 1.6607718666678744 chr19 59128983 5781628 0.09777993306598898 2.7386679839462227 chr20 63025520 5515021 0.08750456957752986 0.37424642512085693 chr21 48129895 3344976 0.06949892577160204 0.380807348497456 chr22 51304566 2623726 0.051140204558011465 0.2694586966701787 chrMT 16571 312244 18.842797658560134 18.22519363299905 chrX 155270560 14444293 0.09302660465705798 0.4137446660334037 chrY 59373566 1217896 0.020512428039104136 1.0262991307077298