BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525045.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 = 533,873 number of mapped reads = 489,901 (91.76%) number of supplementary alignments = 1,241 (0.23%) number of secondary alignments = 0 number of mapped bases = 28,409,189 bp number of sequenced bases = 28,400,115 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 19,497 duplication rate = 3.4% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 46.1356 >>>>>>> ACTG content number of A's = 7,076,240 bp (24.92%) number of C's = 5,419,801 bp (19.08%) number of T's = 9,102,709 bp (32.05%) number of G's = 6,798,933 bp (23.94%) number of N's = 2,432 bp (0.01%) GC percentage = 43.02% >>>>>>> Mismatches and indels general error rate = 0.005 number of mismatches = 137,843 number of insertions = 2,011 mapped reads with insertion percentage = 0.41% number of deletions = 5,584 mapped reads with deletion percentage = 1.13% homopolymer indels = 42.99% >>>>>>> Coverage mean coverageData = 0.0092X std coverageData = 0.1225X There is a 0.85% of reference with a coverageData >= 1X There is a 0.05% of reference with a coverageData >= 2X There is a 0.01% 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 2262410 0.009076847997100878 0.18766954240003295 chr2 243199373 2371515 0.009751320370385988 0.13527036328658415 chr3 198022430 1853407 0.009359581134318977 0.10223427999074543 chr4 191154276 1933484 0.010114782888769906 0.11408285923099587 chr5 180915260 1656708 0.009157370141136795 0.1014514301288794 chr6 171115067 1683414 0.009837906325338376 0.10930101940801062 chr7 159138663 1695864 0.010656517831873453 0.1523228626635346 chr8 146364022 1399498 0.009561762384474513 0.13211453674716617 chr9 141213431 1158988 0.008207349625263337 0.10489152070327887 chr10 135534747 1356496 0.010008474063112392 0.13177052470444583 chr11 135006516 1261095 0.009340993585820702 0.11181461701524206 chr12 133851895 1226400 0.009162365613127853 0.10379363131099428 chr13 115169878 890791 0.007734583169394345 0.09304453921658296 chr14 107349540 830464 0.0077360741368803256 0.0941982994779817 chr15 102531392 778508 0.007592874580304147 0.0920819924531131 chr16 90354753 796825 0.008818849850654785 0.10220799210580853 chr17 81195210 722297 0.008895808016261058 0.1015111223051861 chr18 78077248 736791 0.009436692748187026 0.1448525154279673 chr19 59128983 559009 0.00945406079451764 0.1407838390370202 chr20 63025520 576203 0.009142375977223194 0.1022503547319264 chr21 48129895 373850 0.007767521620398299 0.09906149389842674 chr22 51304566 328421 0.006401399048965739 0.08487638209399175 chrMT 16571 1926 0.11622714380544324 0.3398703122681186 chrX 155270560 1848102 0.011902462385657654 0.12048096036071866 chrY 59373566 106723 0.001797483412062533 0.07349559161724756