BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524461.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 = 2,071,505 number of mapped reads = 1,921,854 (92.78%) number of supplementary alignments = 4,202 (0.2%) number of secondary alignments = 0 number of mapped bases = 112,409,281 bp number of sequenced bases = 112,375,539 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 95,293 duplication rate = 3.82% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.44 >>>>>>> ACTG content number of A's = 27,877,871 bp (24.81%) number of C's = 20,988,279 bp (18.68%) number of T's = 35,867,372 bp (31.92%) number of G's = 27,639,702 bp (24.6%) number of N's = 2,315 bp (0%) GC percentage = 43.27% >>>>>>> Mismatches and indels general error rate = 0.0047 number of mismatches = 512,356 number of insertions = 5,992 mapped reads with insertion percentage = 0.31% number of deletions = 19,703 mapped reads with deletion percentage = 1.02% homopolymer indels = 43.49% >>>>>>> Coverage mean coverageData = 0.0363X std coverageData = 0.316X There is a 3.13% of reference with a coverageData >= 1X There is a 0.36% of reference with a coverageData >= 2X There is a 0.06% of reference with a coverageData >= 3X There is a 0.02% 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 10975104 0.04403240383501392 0.5736049824615878 chr2 243199373 8801192 0.03618920514239977 0.3533717242748227 chr3 198022430 6097272 0.03079081495969926 0.20041265076536893 chr4 191154276 6284434 0.03287624075958416 0.23443406923017854 chr5 180915260 6155456 0.034023973433750146 0.20985740719215318 chr6 171115067 4948160 0.028917149651117514 0.24685895690156104 chr7 159138663 5547884 0.03486194929261156 0.4146139438306135 chr8 146364022 10349422 0.07071015034008836 0.3494862471477342 chr9 141213431 4816602 0.034108667751299095 0.27253891964985094 chr10 135534747 5917074 0.04365724753962908 0.32358570531754105 chr11 135006516 3874367 0.028697629675889125 0.30704331959423653 chr12 133851895 5354935 0.0400064190350088 0.2278219132111877 chr13 115169878 2533437 0.021997392408455968 0.16728436380348485 chr14 107349540 2667367 0.024847493524424977 0.18441655963266956 chr15 102531392 2965737 0.02892516079368161 0.2008778814318156 chr16 90354753 3542370 0.0392051317986559 0.2380971304513194 chr17 81195210 3875735 0.04773354240970619 0.2623759336994141 chr18 78077248 2733324 0.03500794495215815 0.4977371536439332 chr19 59128983 2316339 0.03917434196356802 0.3892568679763783 chr20 63025520 3252000 0.05159814627471539 0.2624744980348167 chr21 48129895 1483313 0.03081895358383807 0.21883040357931938 chr22 51304566 935091 0.01822627249200393 0.1524374257132927 chrMT 16571 6773 0.40872608774364855 0.6946739198429138 chrX 155270560 6624829 0.0426663560690449 0.2643116179953307 chrY 59373566 351064 0.005912799645552702 0.14651448053216384