BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714060.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/ERP137498/ERP137498.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 = 552,246 number of mapped reads = 82,966 (15.02%) number of supplementary alignments = 1,777 (0.32%) number of secondary alignments = 0 number of mapped bases = 8,430,649 bp number of sequenced bases = 8,413,005 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 81,821 duplication rate = 34.02% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 13.2106 >>>>>>> ACTG content number of A's = 183,057 bp (2.18%) number of C's = 73,510 bp (0.87%) number of T's = 85,627 bp (1.02%) number of G's = 8,070,644 bp (95.93%) number of N's = 167 bp (0%) GC percentage = 96.8% >>>>>>> Mismatches and indels general error rate = 0.032 number of mismatches = 203,924 number of insertions = 9,179 mapped reads with insertion percentage = 7.91% number of deletions = 3,926 mapped reads with deletion percentage = 4.56% homopolymer indels = 64.3% >>>>>>> Coverage mean coverageData = 0.0027X std coverageData = 10.3927X There is a 0% of reference with a coverageData >= 1X There is a 0% 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 33373 1.3389334745127877E-4 0.16817940757106573 chr2 243199373 8105725 0.03332954727642328 37.07765072662517 chr3 198022430 10588 5.346869039027548E-5 0.022304625944824744 chr4 191154276 7747 4.0527474258540785E-5 0.011873667546351782 chr5 180915260 6383 3.5281711448774415E-5 0.008994359867796484 chr6 171115067 10141 5.926421429621975E-5 0.01856972427286017 chr7 159138663 16388 1.0297937466019807E-4 0.105083260600593 chr8 146364022 14818 1.0124072704151297E-4 0.039080490067957864 chr9 141213431 6798 4.813989683460067E-5 0.019554446063290157 chr10 135534747 20931 1.5443272270246686E-4 0.2247465926695082 chr11 135006516 9850 7.295944145392211E-5 0.044783116331120046 chr12 133851895 12588 9.404424195862151E-5 0.058900285897339234 chr13 115169878 1704 1.4795535339544251E-5 0.005387621770728703 chr14 107349540 13575 1.2645606119970332E-4 0.12508841703091386 chr15 102531392 6878 6.708189429438352E-5 0.02659091216967308 chr16 90354753 9365 1.0364701013570366E-4 0.023324531580313394 chr17 81195210 12915 1.5906110717614993E-4 0.1494240953797065 chr18 78077248 5593 7.163418464749167E-5 0.027413161106525252 chr19 59128983 4128 6.981347878078674E-5 0.020671197156599954 chr20 63025520 4785 7.592162666805446E-5 0.02026262446680148 chr21 48129895 1379 2.8651631174346008E-5 0.006678896595689843 chr22 51304566 2180 4.2491344727484877E-5 0.012338006071360248 chrMT 16571 453 0.02733691388570394 0.1792804360370268 chrX 155270560 107665 6.934025355482714E-4 0.10283532056129985 chrY 59373566 4699 7.914296405912356E-5 0.021818123794538097