BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525094.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 = 931,289 number of mapped reads = 798,858 (85.78%) number of supplementary alignments = 22,850 (2.45%) number of secondary alignments = 0 number of mapped bases = 61,102,353 bp number of sequenced bases = 61,077,990 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 18,637 duplication rate = 1.41% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.386 >>>>>>> ACTG content number of A's = 15,967,574 bp (26.14%) number of C's = 11,931,150 bp (19.53%) number of T's = 18,510,951 bp (30.31%) number of G's = 14,666,166 bp (24.01%) number of N's = 2,149 bp (0%) GC percentage = 43.55% >>>>>>> Mismatches and indels general error rate = 0.0075 number of mismatches = 445,412 number of insertions = 5,652 mapped reads with insertion percentage = 0.7% number of deletions = 14,274 mapped reads with deletion percentage = 1.76% homopolymer indels = 42.81% >>>>>>> Coverage mean coverageData = 0.0197X std coverageData = 0.2318X There is a 1.82% of reference with a coverageData >= 1X There is a 0.1% of reference with a coverageData >= 2X There is a 0.01% of reference with a coverageData >= 3X There is a 0.01% 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 5880243 0.023591688463636767 0.39029973189727146 chr2 243199373 5106287 0.020996300019243883 0.3055734922894708 chr3 198022430 3882010 0.019603890326969527 0.14827955543648372 chr4 191154276 3758091 0.019659989191138993 0.15671705336954528 chr5 180915260 3496683 0.019327739406836107 0.1468475809686421 chr6 171115067 3331443 0.01946902197688997 0.15810614591023214 chr7 159138663 3286245 0.020650198625836138 0.29005666743545383 chr8 146364022 3017012 0.020613071154877118 0.2719517480563441 chr9 141213431 2475429 0.017529699423562622 0.21867725638001764 chr10 135534747 2796810 0.020635372566121364 0.23719969761235787 chr11 135006516 3376002 0.025006215255565886 0.282271128007142 chr12 133851895 2660936 0.019879703608230576 0.14895132202947048 chr13 115169878 2148977 0.018659193161600814 0.14345734005731361 chr14 107349540 1785730 0.016634724284798983 0.1496040138651264 chr15 102531392 1680236 0.016387527441351815 0.13376222711086475 chr16 90354753 1380353 0.01527703805465552 0.14244799702135116 chr17 81195210 1998374 0.024611969105074055 0.19076346221642376 chr18 78077248 1597870 0.02046524488158189 0.3699113364733257 chr19 59128983 1230647 0.020812923503182864 0.28448717413920127 chr20 63025520 1207287 0.01915552620589247 0.14886737039445921 chr21 48129895 776572 0.016134919887109665 0.14095214097172207 chr22 51304566 658265 0.012830534420659557 0.11836465570654679 chrMT 16571 2449 0.14778830486995354 0.4105502063466716 chrX 155270560 3419981 0.022025946193534693 0.19288064602704932 chrY 59373566 148421 0.0024997824789570497 0.07415107814540209