BamQC report ----------------------------------- >>>>>>> Input bam file = SRR9717082.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 = 428,506 number of mapped reads = 380,076 (88.7%) number of supplementary alignments = 5,644 (1.32%) number of secondary alignments = 0 number of mapped bases = 29,568,652 bp number of sequenced bases = 29,555,722 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 8,881 duplication rate = 1.43% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.1446 >>>>>>> ACTG content number of A's = 7,424,465 bp (25.12%) number of C's = 5,600,799 bp (18.95%) number of T's = 9,345,450 bp (31.62%) number of G's = 7,183,165 bp (24.3%) number of N's = 1,843 bp (0.01%) GC percentage = 43.25% >>>>>>> Mismatches and indels general error rate = 0.0092 number of mismatches = 265,942 number of insertions = 2,823 mapped reads with insertion percentage = 0.73% number of deletions = 7,358 mapped reads with deletion percentage = 1.91% homopolymer indels = 42.22% >>>>>>> Coverage mean coverageData = 0.0096X std coverageData = 0.1389X There is a 0.9% of reference with a coverageData >= 1X There is a 0.04% 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 2327422 0.009337677838724422 0.18018020803232898 chr2 243199373 2454265 0.010091576181818529 0.19946251204775695 chr3 198022430 1936904 0.009781235388334544 0.1029788999351759 chr4 191154276 1938222 0.010139569150940678 0.10646950557209232 chr5 180915260 1798950 0.009943605641668922 0.10426009201909664 chr6 171115067 1691365 0.009884372134220068 0.1136057758384995 chr7 159138663 1645165 0.010337934031782082 0.16211574627738853 chr8 146364022 1515602 0.010355017437277039 0.1796669580294661 chr9 141213431 1265312 0.008960280839008862 0.14396530540641844 chr10 135534747 1418782 0.010468031493060595 0.13651857848176094 chr11 135006516 1354143 0.01003020476433893 0.1340363869858327 chr12 133851895 1345755 0.01005406012369119 0.10524058187815212 chr13 115169878 908549 0.007888772791788491 0.09201225056269849 chr14 107349540 914948 0.008523073317314634 0.10691841218371533 chr15 102531392 844561 0.008237096790805297 0.09528888362987603 chr16 90354753 859772 0.009515514917073593 0.10599149799954692 chr17 81195210 813278 0.010016329781030186 0.10678121275506694 chr18 78077248 814154 0.010427544782316098 0.24440486833002614 chr19 59128983 649093 0.010977577611980913 0.16147600782748067 chr20 63025520 595797 0.009453265915140407 0.10531938429863494 chr21 48129895 376150 0.007815308967534627 0.09460145685904829 chr22 51304566 325226 0.006339123890064678 0.08221712397495232 chrMT 16571 1747 0.10542514030535273 0.3410033917415016 chrX 155270560 1697003 0.010929328779389989 0.12328137033760951 chrY 59373566 76487 0.001288233218129428 0.04528376226741586