BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524693.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 = 2,180,359 number of mapped reads = 2,015,756 (92.45%) number of supplementary alignments = 9,267 (0.43%) number of secondary alignments = 0 number of mapped bases = 119,486,797 bp number of sequenced bases = 119,450,394 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 101,420 duplication rate = 3.76% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.9674 >>>>>>> ACTG content number of A's = 31,064,326 bp (26.01%) number of C's = 22,472,119 bp (18.81%) number of T's = 38,196,939 bp (31.98%) number of G's = 27,699,958 bp (23.19%) number of N's = 17,052 bp (0.01%) GC percentage = 42% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 600,205 number of insertions = 8,644 mapped reads with insertion percentage = 0.43% number of deletions = 22,985 mapped reads with deletion percentage = 1.13% homopolymer indels = 42.04% >>>>>>> Coverage mean coverageData = 0.0386X std coverageData = 0.3527X There is a 3.37% of reference with a coverageData >= 1X There is a 0.35% of reference with a coverageData >= 2X There is a 0.05% 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 9671775 0.038803413853881634 0.6448326131423479 chr2 243199373 10055305 0.041345933075246866 0.4858426404690448 chr3 198022430 7998937 0.04039409575975812 0.22391138187928775 chr4 191154276 7679914 0.04017652213021905 0.2642360892406271 chr5 180915260 7175677 0.03966319369631948 0.2241790166708748 chr6 171115067 6816587 0.03983627578511248 0.2558477493324859 chr7 159138663 6589135 0.041404991570150367 0.40863953443773793 chr8 146364022 6065619 0.04144200820062187 0.389481703395249 chr9 141213431 5005231 0.03544444012552885 0.28960081419526845 chr10 135534747 5747490 0.04240602596174101 0.3588798193858029 chr11 135006516 5519685 0.04088458219305504 0.3004229564341106 chr12 133851895 5308977 0.03966306939472168 0.22512441996504903 chr13 115169878 3751028 0.03256952308311033 0.20385790330067335 chr14 107349540 3632553 0.03383855207949657 0.2150409936305984 chr15 102531392 3430439 0.03345745076785849 0.2047658139167257 chr16 90354753 3484270 0.03856211083881774 0.24092305121978488 chr17 81195210 3270933 0.040284802514828154 0.24353029781640728 chr18 78077248 3147687 0.04031503518156788 0.5430778454535313 chr19 59128983 2482597 0.04198612717556803 0.491460045562203 chr20 63025520 2549152 0.04044634617850039 0.23103991827392367 chr21 48129895 1589658 0.033028495075669705 0.24548429976292954 chr22 51304566 1432078 0.027913266043416096 0.18862614002369618 chrMT 16571 34220 2.0650534065536177 1.6653849165426713 chrX 155270560 6651689 0.04283934443206748 0.25917545886229065 chrY 59373566 396161 0.0066723464108590005 0.23846014341690044