BamQC report ----------------------------------- >>>>>>> Input bam file = SRR9716914.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 = 534,352 number of mapped reads = 478,326 (89.52%) number of supplementary alignments = 1,222 (0.23%) number of secondary alignments = 0 number of mapped bases = 27,382,093 bp number of sequenced bases = 27,373,041 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 10,038 duplication rate = 1.68% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.2405 >>>>>>> ACTG content number of A's = 6,922,033 bp (25.29%) number of C's = 4,968,208 bp (18.15%) number of T's = 9,011,080 bp (32.92%) number of G's = 6,471,444 bp (23.64%) number of N's = 276 bp (0%) GC percentage = 41.79% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 138,656 number of insertions = 1,949 mapped reads with insertion percentage = 0.41% number of deletions = 5,732 mapped reads with deletion percentage = 1.19% homopolymer indels = 42.48% >>>>>>> Coverage mean coverageData = 0.0088X std coverageData = 0.1105X There is a 0.84% 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 2140265 0.008586799067593898 0.12241790017981567 chr2 243199373 2397691 0.009858952226821736 0.14178949179086103 chr3 198022430 1842149 0.009302728988832224 0.10018765616317023 chr4 191154276 1773615 0.00927844794850417 0.10417202088964113 chr5 180915260 1624460 0.00897912094314211 0.09824828193380401 chr6 171115067 1641667 0.009593935991621358 0.10894434463848662 chr7 159138663 1544439 0.009704989164072593 0.13656765802841062 chr8 146364022 1319207 0.009013191780149359 0.11456490422522297 chr9 141213431 1117813 0.00791576971173514 0.09958041342283452 chr10 135534747 1372297 0.010125056713316476 0.12244945632120115 chr11 135006516 1234521 0.009144158641942882 0.10786665994696465 chr12 133851895 1262769 0.009434076372247103 0.1008315730171083 chr13 115169878 881390 0.00765295592307565 0.09059095408370142 chr14 107349540 799784 0.007450278780887184 0.09000822826136246 chr15 102531392 765474 0.007465752537525288 0.08990109425610482 chr16 90354753 782903 0.008664768304994425 0.10194085459529138 chr17 81195210 757887 0.009334134365808032 0.10224129990230736 chr18 78077248 719107 0.00921019910947681 0.14075155656045354 chr19 59128983 560764 0.009483741670307437 0.11624071703240528 chr20 63025520 594059 0.009425689784074768 0.10167782991630128 chr21 48129895 360995 0.007500431904121129 0.09373193009133335 chr22 51304566 325629 0.006346978941406502 0.08239381312785196 chrMT 16571 5227 0.3154305714802969 0.587533905172616 chrX 155270560 1475770 0.009504506198728207 0.10493176206943104 chrY 59373566 82211 0.001384639757025879 0.050453098916294375