BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524422.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 = 537,800 number of mapped reads = 494,007 (91.86%) number of supplementary alignments = 1,729 (0.32%) number of secondary alignments = 0 number of mapped bases = 28,740,215 bp number of sequenced bases = 28,730,699 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 10,658 duplication rate = 1.66% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.6478 >>>>>>> ACTG content number of A's = 7,176,577 bp (24.98%) number of C's = 5,040,921 bp (17.55%) number of T's = 9,093,028 bp (31.65%) number of G's = 7,419,542 bp (25.82%) number of N's = 631 bp (0%) GC percentage = 43.37% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 144,245 number of insertions = 1,761 mapped reads with insertion percentage = 0.36% number of deletions = 5,875 mapped reads with deletion percentage = 1.18% homopolymer indels = 46.06% >>>>>>> Coverage mean coverageData = 0.0093X std coverageData = 0.1195X There is a 0.88% of reference with a coverageData >= 1X There is a 0.03% 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 2330244 0.009348999776413796 0.16672725041473785 chr2 243199373 2412847 0.009921271466435894 0.1457462355738013 chr3 198022430 1932611 0.0097595560260522 0.10218165050707446 chr4 191154276 1865158 0.009757343853506056 0.10566477745475494 chr5 180915260 1719025 0.009501824224225198 0.10084190104059448 chr6 171115067 1650921 0.009648016559523657 0.10562905572385034 chr7 159138663 1636177 0.010281454984952337 0.16234443577236624 chr8 146364022 1449996 0.009906778866735433 0.13038330592066094 chr9 141213431 1189581 0.008423993323977802 0.10448268299478534 chr10 135534747 1388998 0.010248279727116767 0.12308913681963518 chr11 135006516 1307045 0.009681347528440775 0.10961800908708892 chr12 133851895 1293526 0.009663860194134719 0.10231843118309748 chr13 115169878 906809 0.007873664674716422 0.09150320281181515 chr14 107349540 864705 0.008055041502739555 0.09399735772465548 chr15 102531392 825449 0.008050695342164085 0.09354762994082347 chr16 90354753 832088 0.009209122623576869 0.10218621044823402 chr17 81195210 751080 0.009250299371108222 0.1008636008158009 chr18 78077248 770735 0.009871441677862417 0.14699848258324438 chr19 59128983 561425 0.00949492062124593 0.1322304436347783 chr20 63025520 593558 0.009417740623163442 0.10181426128493655 chr21 48129895 378219 0.00785829680284987 0.09544858493457352 chr22 51304566 335590 0.006541133200503051 0.0835768861148251 chrMT 16571 8116 0.48977128718846175 0.7880518138336408 chrX 155270560 1641166 0.0105697177880984 0.1099460747993879 chrY 59373566 95146 0.0016024976502169333 0.05627186260276336